-- dump date 20140619_015752 -- class Genbank::misc_feature -- table misc_feature_note -- id note 269482000001 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 269482000002 trimer interface [polypeptide binding]; other site 269482000003 active site 269482000004 Methyltransferase domain; Region: Methyltransf_23; pfam13489 269482000005 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 269482000006 S-adenosylmethionine binding site [chemical binding]; other site 269482000007 Restriction alleviation protein Lar; Region: Lar_restr_allev; pfam14354 269482000008 Protein of unknown function (DUF2591); Region: DUF2591; pfam10765 269482000009 Protein of unknown function (DUF2591); Region: DUF2591; pfam10765 269482000010 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 269482000011 sequence-specific DNA binding site [nucleotide binding]; other site 269482000012 salt bridge; other site 269482000013 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 269482000014 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cl02788 269482000015 catalytic residues [active] 269482000016 catalytic nucleophile [active] 269482000017 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cl17393 269482000018 DEAD-like helicases superfamily; Region: DEXDc; smart00487 269482000019 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 269482000020 non-specific DNA binding site [nucleotide binding]; other site 269482000021 salt bridge; other site 269482000022 sequence-specific DNA binding site [nucleotide binding]; other site 269482000023 Protein of unknown function (DUF1367); Region: DUF1367; pfam07105 269482000024 Protein of unknown function (DUF1064); Region: DUF1064; pfam06356 269482000025 Protein of unknown function (DUF1364); Region: DUF1364; pfam07102 269482000026 Phage antirepressor protein KilAC domain; Region: ANT; cl01462 269482000027 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 269482000028 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 269482000029 non-specific DNA binding site [nucleotide binding]; other site 269482000030 salt bridge; other site 269482000031 sequence-specific DNA binding site [nucleotide binding]; other site 269482000032 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 269482000033 non-specific DNA binding site [nucleotide binding]; other site 269482000034 salt bridge; other site 269482000035 Predicted transcriptional regulator [Transcription]; Region: COG2932 269482000036 sequence-specific DNA binding site [nucleotide binding]; other site 269482000037 Peptidase S24 LexA-like proteins are involved in the SOS response leading to the repair of single-stranded DNA within the bacterial cell. This family includes: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC...; Region: S24_LexA-like; cd06529 269482000038 Catalytic site [active] 269482000039 ERF superfamily; Region: ERF; pfam04404 269482000040 YqaJ-like viral recombinase domain; Region: YqaJ; pfam09588 269482000041 Putative exonuclease, RdgC; Region: RdgC; pfam04381 269482000042 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 269482000043 KorB domain; Region: KorB; pfam08535 269482000044 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 269482000045 ParA-like protein; Provisional; Region: PHA02518 269482000046 P-loop; other site 269482000047 Magnesium ion binding site [ion binding]; other site 269482000048 Initiator Replication protein; Region: Rep_3; pfam01051 269482000049 Predicted chitinase [General function prediction only]; Region: COG3179 269482000050 catalytic residue [active] 269482000051 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 269482000052 N-acetyl-D-glucosamine binding site [chemical binding]; other site 269482000053 catalytic residue [active] 269482000054 Protein of unknown function (DUF497); Region: DUF497; pfam04365 269482000055 Domain of unknown function (DUF4415); Region: DUF4415; pfam14384 269482000056 Methyltransferase domain; Region: Methyltransf_26; pfam13659 269482000057 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl17251 269482000058 ATP binding site [chemical binding]; other site 269482000059 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 269482000060 MAEBL; Provisional; Region: PTZ00121 269482000061 Phage tail-collar fibre protein; Region: DUF3751; pfam12571 269482000062 sarcosine oxidase, beta subunit family, heterotetrameric form; Region: soxB; TIGR01373 269482000063 hydroxyglutarate oxidase; Provisional; Region: PRK11728 269482000064 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 269482000065 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 269482000066 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 269482000067 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 269482000068 Serine-glycine hydroxymethyltransferase (SHMT). This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). SHMT carries out interconversion of serine and glycine; it catalyzes the transfer of hydroxymethyl...; Region: SHMT; cd00378 269482000069 dimer interface [polypeptide binding]; other site 269482000070 active site 269482000071 glycine-pyridoxal phosphate binding site [chemical binding]; other site 269482000072 folate binding site [chemical binding]; other site 269482000073 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 269482000074 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 269482000075 Creatine amidinohydrolase. E.C.3.5.3.3. Hydrolyzes creatine to sarcosine and urea; Region: Creatinase; cd01090 269482000076 active site 269482000077 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 269482000078 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 269482000079 conserved cys residue [active] 269482000080 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 269482000081 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 269482000082 Transposase; Region: HTH_Tnp_1; pfam01527 269482000083 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 269482000084 HTH-like domain; Region: HTH_21; pfam13276 269482000085 Integrase core domain; Region: rve; pfam00665 269482000086 Integrase core domain; Region: rve_3; pfam13683 269482000087 IS2 transposase TnpB; Reviewed; Region: PRK09409 269482000088 HTH-like domain; Region: HTH_21; pfam13276 269482000089 Integrase core domain; Region: rve; pfam00665 269482000090 Integrase core domain; Region: rve_3; pfam13683 269482000091 Transposase; Region: HTH_Tnp_1; cl17663 269482000092 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 269482000093 Transposase domain (DUF772); Region: DUF772; pfam05598 269482000094 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 269482000095 DDE superfamily endonuclease; Region: DDE_4; cl17710 269482000096 AAA domain; Region: AAA_22; pfam13401 269482000097 Phage integrase protein; Region: DUF3701; pfam12482 269482000098 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 269482000099 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 269482000100 active site 269482000101 DNA binding site [nucleotide binding] 269482000102 Int/Topo IB signature motif; other site 269482000103 ParA-like protein; Provisional; Region: PHA02518 269482000104 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 269482000105 P-loop; other site 269482000106 Magnesium ion binding site [ion binding]; other site 269482000107 ParB-like nuclease domain; Region: ParB; smart00470 269482000108 Initiator Replication protein; Region: Rep_3; pfam01051 269482000109 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 269482000110 VirB8 protein; Region: VirB8; pfam04335 269482000111 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cl11423 269482000112 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 269482000113 VirB7 interaction site; other site 269482000114 Bacterial conjugation TrbI-like protein; Region: TrbI; pfam03743 269482000115 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 269482000116 VirB7 interaction site; other site 269482000117 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 269482000118 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 269482000119 N-acetyl-D-glucosamine binding site [chemical binding]; other site 269482000120 catalytic residue [active] 269482000121 Toxin co-regulated pilus biosynthesis protein Q; Region: TcpQ; pfam10671 269482000122 type IVB pilus formation outer membrane protein, R64 PilN family; Region: pilus_B_mal_scr; TIGR02520 269482000123 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 269482000124 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 269482000125 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 269482000126 Walker A motif; other site 269482000127 ATP binding site [chemical binding]; other site 269482000128 Walker B motif; other site 269482000129 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 269482000130 SCP_bacterial: SCP-like extracellular protein domain, as found in bacteria and archaea. The wider family of SCP containing proteins includes plant pathogenesis-related protein 1 (PR-1), CRISPs, mammalian cysteine-rich secretory proteins, and allergen 5...; Region: SCP_bacterial; cd05379 269482000131 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 269482000132 Nuclease-related domain; Region: NERD; pfam08378 269482000133 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 269482000134 SSB_OBF: A subfamily of OB folds similar to the OB fold of ssDNA-binding protein (SSB). SSBs bind with high affinity to ssDNA. They bind to and protect ssDNA intermediates during DNA metabolic pathways. All bacterial and eukaryotic SSBs studied to date...; Region: SSB_OBF; cd04496 269482000135 dimer interface [polypeptide binding]; other site 269482000136 ssDNA binding site [nucleotide binding]; other site 269482000137 tetramer (dimer of dimers) interface [polypeptide binding]; other site 269482000138 Toprim domain; Region: Toprim_3; pfam13362 269482000139 PRTRC system protein D; Region: PRTRC_D; TIGR03739 269482000140 Plasmid segregation protein ParM and similar proteins; Region: ParM_like; cd10227 269482000141 putative protofilament interface [polypeptide binding]; other site 269482000142 nucleotide binding site [chemical binding]; other site 269482000143 Phage integrase, N-terminal; Region: Integrase_l_N; pfam12834 269482000144 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 269482000145 active site 269482000146 catalytic residues [active] 269482000147 DNA binding site [nucleotide binding] 269482000148 Int/Topo IB signature motif; other site 269482000149 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 269482000150 Protein of unknown function (DUF1173); Region: DUF1173; pfam06666 269482000151 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 269482000152 ParB-like nuclease domain; Region: ParBc; pfam02195 269482000153 PRTRC system ParB family protein; Region: PRTRC_parB; TIGR03734 269482000154 PRTRC system protein E; Region: PRTRC_E; TIGR03741 269482000155 PRTRC system protein C; Region: PRTRC_C; TIGR03738 269482000156 PRTRC system protein F; Region: PRTRC_F; TIGR03742 269482000157 Alpha-helical domain 2; Region: alpha-hel2; pfam14456 269482000158 PRTRC system protein B; Region: PRTRC_B; TIGR03737 269482000159 Domain of unknown function (DUF2016); Region: DUF2016; pfam09436 269482000160 PRTRC system protein A; Region: PRTRC_A; TIGR03735 269482000161 Prokaryotic homologs of the JAB domain; Region: Prok-JAB; pfam14464 269482000162 PRTRC system ThiF family protein; Region: PRTRC_ThiF; TIGR03736 269482000163 Superfamily of activating enzymes (E1) of the ubiquitin-like proteins. This family includes classical ubiquitin-activating enzymes E1, ubiquitin-like (ubl) activating enzymes and other mechanistic homologes, like MoeB, Thif1 and others. The common...; Region: E1_enzyme_family; cl17196 269482000164 ATP binding site [chemical binding]; other site 269482000165 substrate interface [chemical binding]; other site 269482000166 Glycine zipper 2TM domain; Region: Rick_17kDa_Anti; cl10470 269482000167 Protein of unknown function (DUF3717); Region: DUF3717; pfam12512 269482000168 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 269482000169 Walker A motif; other site 269482000170 ATP binding site [chemical binding]; other site 269482000171 Walker B motif; other site 269482000172 arginine finger; other site 269482000173 Putative metallopeptidase domain; Region: DUF2201_N; pfam13203 269482000174 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cl00057 269482000175 metal ion-dependent adhesion site (MIDAS); other site 269482000176 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 269482000177 Type IV secretory pathway component VirB11, and related ATPases. The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to...; Region: VirB11-like_ATPase; cd01130 269482000178 Walker A motif; other site 269482000179 hexamer interface [polypeptide binding]; other site 269482000180 ATP binding site [chemical binding]; other site 269482000181 Walker B motif; other site 269482000182 Type IV secretory pathway, VirB3-like protein; Region: VirB3; cl01501 269482000183 type IV secretion/conjugal transfer ATPase, VirB4 family; Region: VirB4_CagE; TIGR00929 269482000184 CagE, TrbE, VirB family, component of type IV transporter system; Region: CagE_TrbE_VirB; pfam03135 269482000185 TraM recognition site of TraD and TraG; Region: TraG-D_C; cl17375 269482000186 conjugal transfer protein TrbJ; Provisional; Region: PRK13874; cl02193 269482000187 TrbL/VirB6 plasmid conjugal transfer protein; Region: TrbL; pfam04610 269482000188 integrating conjugative element relaxase, PFL_4751 family; Region: ICE_TraI_Pfluor; TIGR03760 269482000189 conjugative coupling factor TraD, SXT/TOL subfamily; Region: SXT_TraD; TIGR03743 269482000190 TraM recognition site of TraD and TraG; Region: TraG-D_C; cl17375 269482000191 Domain of unknown function (DUF4400); Region: DUF4400; pfam14348 269482000192 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 269482000193 Part of AAA domain; Region: AAA_19; pfam13245 269482000194 Family description; Region: UvrD_C_2; pfam13538 269482000195 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 269482000196 Domain of unknown function (DUF1768); Region: DUF1768; pfam08719 269482000197 DNA repair exonuclease [DNA replication, recombination, and repair]; Region: SbcD; COG0420 269482000198 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 269482000199 active site 269482000200 metal binding site [ion binding]; metal-binding site 269482000201 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: SbcC; COG0419 269482000202 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 269482000203 Walker A/P-loop; other site 269482000204 ATP binding site [chemical binding]; other site 269482000205 Catalytic domain of EDTA-resistant nuclease Nuc from Salmonella typhimurium and similar proteins; Region: PLDc_Nuc; cd09170 269482000206 PLD-like domain; Region: PLDc_2; pfam13091 269482000207 putative active site [active] 269482000208 catalytic site [active] 269482000209 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 269482000210 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 269482000211 Helix-turn-helix domain; Region: HTH_38; pfam13936 269482000212 Integrase core domain; Region: rve; pfam00665 269482000213 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 269482000214 active site 269482000215 Int/Topo IB signature motif; other site 269482000216 catalytic residues [active] 269482000217 DNA binding site [nucleotide binding] 269482000218 Protein of unknown function (DUF2471); Region: DUF2471; pfam10616 269482000219 H-NS histone family; Region: Histone_HNS; pfam00816 269482000220 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 269482000221 error-prone DNA polymerase; Validated; Region: dnaE2; PRK05672 269482000222 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III at DnaE2 gene; Region: PHP_PolIIIA_DnaE2; cd07434 269482000223 putative active site [active] 269482000224 putative PHP Thumb interface [polypeptide binding]; other site 269482000225 DnaE_OBF: A subfamily of OB folds corresponding to the C-terminal OB-fold nucleic acid binding domain of Thermus aquaticus and Escherichia coli type C replicative DNA polymerase III alpha subunit (DnaE). The DNA polymerase holoenzyme of E. coli contains...; Region: DnaE_OBF; cd04485 269482000226 generic binding surface II; other site 269482000227 generic binding surface I; other site 269482000228 DNA Polymerase Y-family; Region: PolY_like; cd03468 269482000229 DNA binding site [nucleotide binding] 269482000230 Uncharacterized conserved protein [Function unknown]; Region: COG4544 269482000231 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 269482000232 DNA-binding site [nucleotide binding]; DNA binding site 269482000233 H-NS histone family; Region: Histone_HNS; pfam00816 269482000234 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 269482000235 PemK-like protein; Region: PemK; pfam02452 269482000236 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 269482000237 Transposase; Region: HTH_Tnp_1; pfam01527 269482000238 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 269482000239 HTH-like domain; Region: HTH_21; pfam13276 269482000240 Integrase core domain; Region: rve; pfam00665 269482000241 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 269482000242 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 269482000243 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 269482000244 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 269482000245 transposase/IS protein; Provisional; Region: PRK09183 269482000246 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 269482000247 Walker A motif; other site 269482000248 ATP binding site [chemical binding]; other site 269482000249 Walker B motif; other site 269482000250 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 269482000251 Integrase core domain; Region: rve; pfam00665 269482000252 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 269482000253 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 269482000254 Integrase core domain; Region: rve; pfam00665 269482000255 Integrase core domain; Region: rve_3; pfam13683 269482000256 Response regulator receiver domain; Region: Response_reg; pfam00072 269482000257 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 269482000258 active site 269482000259 phosphorylation site [posttranslational modification] 269482000260 intermolecular recognition site; other site 269482000261 dimerization interface [polypeptide binding]; other site 269482000262 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 269482000263 DNA binding residues [nucleotide binding] 269482000264 dimerization interface [polypeptide binding]; other site 269482000265 Na binding site [ion binding]; other site 269482000266 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 269482000267 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 269482000268 dimer interface [polypeptide binding]; other site 269482000269 phosphorylation site [posttranslational modification] 269482000270 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 269482000271 ATP binding site [chemical binding]; other site 269482000272 Mg2+ binding site [ion binding]; other site 269482000273 G-X-G motif; other site 269482000274 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 269482000275 active site 269482000276 phosphorylation site [posttranslational modification] 269482000277 intermolecular recognition site; other site 269482000278 dimerization interface [polypeptide binding]; other site 269482000279 Periplasmic component (FmdD) of an active transport system for short-chain amides and urea (FmdDEF); Region: PBP1_FmdD_like; cd06355 269482000280 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 269482000281 putative ligand binding site [chemical binding]; other site 269482000282 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 269482000283 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 269482000284 TM-ABC transporter signature motif; other site 269482000285 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 269482000286 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 269482000287 TM-ABC transporter signature motif; other site 269482000288 urea ABC transporter, ATP-binding protein UrtD; Region: urea_trans_UrtD; TIGR03411 269482000289 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 269482000290 Walker A/P-loop; other site 269482000291 ATP binding site [chemical binding]; other site 269482000292 Q-loop/lid; other site 269482000293 ABC transporter signature motif; other site 269482000294 Walker B; other site 269482000295 D-loop; other site 269482000296 H-loop/switch region; other site 269482000297 urea ABC transporter, ATP-binding protein UrtE; Region: urea_trans_UrtE; TIGR03410 269482000298 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 269482000299 Walker A/P-loop; other site 269482000300 ATP binding site [chemical binding]; other site 269482000301 Q-loop/lid; other site 269482000302 ABC transporter signature motif; other site 269482000303 Walker B; other site 269482000304 D-loop; other site 269482000305 H-loop/switch region; other site 269482000306 Acetamidase/Formamidase family; Region: FmdA_AmdA; pfam03069 269482000307 putative regulatory protein, FmdB family; Region: CxxC_CxxC_SSSS; TIGR02605 269482000308 acylamide amidohydrolase; Provisional; Region: amiE; PRK13286 269482000309 aliphatic amidases (class 2 nitrilases); Region: aliphatic_amidase; cd07565 269482000310 multimer interface [polypeptide binding]; other site 269482000311 active site 269482000312 catalytic triad [active] 269482000313 dimer interface [polypeptide binding]; other site 269482000314 Domain of unknown function (DUF4158); Region: DUF4158; pfam13700 269482000315 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; pfam01526 269482000316 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 269482000317 catalytic site [active] 269482000318 Outer membrane efflux protein; Region: OEP; pfam02321 269482000319 Outer membrane efflux protein; Region: OEP; pfam02321 269482000320 HlyD family secretion protein; Region: HlyD_2; pfam12700 269482000321 HlyD family secretion protein; Region: HlyD_3; pfam13437 269482000322 Copper binding periplasmic protein CusF; Region: CusF_Ec; pfam11604 269482000323 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 269482000324 Copper binding periplasmic protein CusF; Region: CusF_Ec; pfam11604 269482000325 Thiol:disulfide interchange protein [Posttranslational modification, protein turnover, chaperones / Energy production and conversion]; Region: COG4232 269482000326 Disulphide bond corrector protein DsbC; Region: DsbC; pfam11412 269482000327 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 269482000328 DsbD gamma family; DsbD gamma is the C-terminal periplasmic domain of the bacterial protein DsbD. It contains a CXXC motif in a TRX fold and shuttles the reducing potential from the membrane domain (DsbD beta) to the N-terminal periplasmic domain (DsbD...; Region: DsbDgamma; cd02953 269482000329 DsbD alpha interface [polypeptide binding]; other site 269482000330 catalytic residues [active] 269482000331 Protein of unknown function with PCYCGC motif; Region: PCYCGC; pfam13798 269482000332 Nitrogen regulatory protein P-II; Region: P-II; cl00412 269482000333 Nitrogen regulatory protein P-II; Region: P-II; smart00938 269482000334 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 269482000335 Helix-Turn-Helix DNA binding domain of CueR-like transcription regulators; Region: HTH_CueR; cd01108 269482000336 DNA binding residues [nucleotide binding] 269482000337 dimer interface [polypeptide binding]; other site 269482000338 copper binding site [ion binding]; other site 269482000339 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cl17257 269482000340 DNA binding residues [nucleotide binding] 269482000341 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 269482000342 Integrase core domain; Region: rve; pfam00665 269482000343 Integrase core domain; Region: rve_3; cl15866 269482000344 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 269482000345 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 269482000346 IstB-like ATP binding N-terminal; Region: IstB_IS21_ATP; pfam08483 269482000347 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 269482000348 Walker A motif; other site 269482000349 ATP binding site [chemical binding]; other site 269482000350 Walker B motif; other site 269482000351 arginine finger; other site 269482000352 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cd00371 269482000353 metal-binding site [ion binding] 269482000354 YHS domain; Region: YHS; pfam04945 269482000355 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 269482000356 HTH domain; Region: HTH_11; cl17392 269482000357 Integrase core domain; Region: rve; pfam00665 269482000358 Transposase; Region: DEDD_Tnp_IS110; pfam01548 269482000359 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 269482000360 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 269482000361 copper-(or silver)-translocating P-type ATPase; Region: ATPase-IB1_Cu; TIGR01511 269482000362 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 269482000363 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 269482000364 motif II; other site 269482000365 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 269482000366 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 269482000367 Presynaptic Site I dimer interface [polypeptide binding]; other site 269482000368 catalytic residues [active] 269482000369 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 269482000370 Synaptic Flat tetramer interface [polypeptide binding]; other site 269482000371 Synaptic Site I dimer interface [polypeptide binding]; other site 269482000372 DNA binding site [nucleotide binding] 269482000373 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 269482000374 DNA-binding interface [nucleotide binding]; DNA binding site 269482000375 putative transposase OrfB; Reviewed; Region: PHA02517 269482000376 Integrase core domain; Region: rve; pfam00665 269482000377 Integrase core domain; Region: rve_3; pfam13683 269482000378 Transposase; Region: HTH_Tnp_1; pfam01527 269482000379 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 269482000380 Integrase core domain; Region: rve; pfam00665 269482000381 Mu transposase, C-terminal; Region: Mu-transpos_C; pfam09299 269482000382 Bacterial TniB protein; Region: TniB; pfam05621 269482000383 Phage integrase protein; Region: DUF3701; pfam12482 269482000384 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 269482000385 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 269482000386 INT_SG1, DNA breaking-rejoining enzymes, integrase/recombinases subgroup 1, C-terminal catalytic domain. The CD contains mainly predicted integrase/recombinase and site-specific XerD recombinases. The members of this CD are found predominantly in...; Region: INT_SG1_C; cd01183 269482000387 Int/Topo IB signature motif; other site 269482000388 Domain of unknown function (DUF4158); Region: DUF4158; pfam13700 269482000389 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; pfam01526 269482000390 Phage integrase protein; Region: DUF3701; pfam12482 269482000391 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 269482000392 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 269482000393 INT_SG1, DNA breaking-rejoining enzymes, integrase/recombinases subgroup 1, C-terminal catalytic domain. The CD contains mainly predicted integrase/recombinase and site-specific XerD recombinases. The members of this CD are found predominantly in...; Region: INT_SG1_C; cd01183 269482000394 Int/Topo IB signature motif; other site 269482000395 Domain of unknown function (DUF4158); Region: DUF4158; pfam13700 269482000396 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; pfam01526 269482000397 Transposase zinc-binding domain; Region: Zn_Tnp_IS91; pfam14319 269482000398 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 269482000399 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 269482000400 active site 269482000401 DNA binding site [nucleotide binding] 269482000402 Int/Topo IB signature motif; other site 269482000403 Transcriptional regulator [Transcription]; Region: LysR; COG0583 269482000404 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 269482000405 C-terminal substrate binding domain of LysR-type transcriptional regulator CysL, which activates the transcription of the cysJI operon encoding sulfite reductase, contains the type 2 periplasmic binding fold; Region: PBP2_CysL_like; cd08420 269482000406 putative dimerization interface [polypeptide binding]; other site 269482000407 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 269482000408 Helix-turn-helix domain; Region: HTH_38; pfam13936 269482000409 Integrase core domain; Region: rve; pfam00665 269482000410 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 269482000411 Thermostable Phosphite Dehydrogenase; Region: PTDH; cd12157 269482000412 homodimer interface [polypeptide binding]; other site 269482000413 ligand binding site [chemical binding]; other site 269482000414 NAD binding site [chemical binding]; other site 269482000415 catalytic site [active] 269482000416 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 269482000417 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 269482000418 cell division ATP-binding protein FtsE; Region: FtsE; TIGR02673 269482000419 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 269482000420 Walker A/P-loop; other site 269482000421 ATP binding site [chemical binding]; other site 269482000422 Q-loop/lid; other site 269482000423 ABC transporter signature motif; other site 269482000424 Walker B; other site 269482000425 D-loop; other site 269482000426 H-loop/switch region; other site 269482000427 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 269482000428 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 269482000429 substrate binding pocket [chemical binding]; other site 269482000430 membrane-bound complex binding site; other site 269482000431 hinge residues; other site 269482000432 Transposase domain (DUF772); Region: DUF772; pfam05598 269482000433 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 269482000434 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 269482000435 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 269482000436 Transposase; Region: HTH_Tnp_1; cl17663 269482000437 Domain of unknown function (DUF4158); Region: DUF4158; pfam13700 269482000438 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; pfam01526 269482000439 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 269482000440 PAP2_like proteins, BcrC_like subfamily. Several members of this family have been annotated as bacitracin transport permeases, as it was suspected that they form the permease component of an ABC transporter system. It was shown, however, that BcrC from...; Region: PAP2_BcrC_like; cd03385 269482000441 active site 269482000442 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 269482000443 Uncharacterized membrane-anchored protein conserved in bacteria [Function unknown]; Region: COG4705 269482000444 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 269482000445 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 269482000446 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 269482000447 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 269482000448 Uncharacterized membrane-anchored protein conserved in bacteria [Function unknown]; Region: COG4705 269482000449 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 269482000450 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 269482000451 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 269482000452 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 269482000453 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 269482000454 active site 269482000455 phosphorylation site [posttranslational modification] 269482000456 intermolecular recognition site; other site 269482000457 dimerization interface [polypeptide binding]; other site 269482000458 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 269482000459 DNA binding site [nucleotide binding] 269482000460 sensor protein QseC; Provisional; Region: PRK10337 269482000461 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 269482000462 dimer interface [polypeptide binding]; other site 269482000463 phosphorylation site [posttranslational modification] 269482000464 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 269482000465 ATP binding site [chemical binding]; other site 269482000466 Mg2+ binding site [ion binding]; other site 269482000467 G-X-G motif; other site 269482000468 Predicted membrane protein [Function unknown]; Region: COG2510 269482000469 putative transposase OrfB; Reviewed; Region: PHA02517 269482000470 Integrase core domain; Region: rve; pfam00665 269482000471 Integrase core domain; Region: rve_3; pfam13683 269482000472 Transposase; Region: HTH_Tnp_1; pfam01527 269482000473 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 269482000474 Predicted membrane protein [Function unknown]; Region: COG2510 269482000475 multiple promoter invertase; Provisional; Region: mpi; PRK13413 269482000476 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 269482000477 catalytic residues [active] 269482000478 catalytic nucleophile [active] 269482000479 Presynaptic Site I dimer interface [polypeptide binding]; other site 269482000480 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 269482000481 Synaptic Flat tetramer interface [polypeptide binding]; other site 269482000482 Synaptic Site I dimer interface [polypeptide binding]; other site 269482000483 DNA binding site [nucleotide binding] 269482000484 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 269482000485 DNA-binding interface [nucleotide binding]; DNA binding site 269482000486 Transposase; Region: DEDD_Tnp_IS110; pfam01548 269482000487 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 269482000488 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 269482000489 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 269482000490 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 269482000491 DNA-binding interface [nucleotide binding]; DNA binding site 269482000492 Integrase core domain; Region: rve; pfam00665 269482000493 TniQ; Region: TniQ; pfam06527 269482000494 Bacterial TniB protein; Region: TniB; pfam05621 269482000495 Integrase core domain; Region: rve; pfam00665 269482000496 Mu transposase, C-terminal; Region: Mu-transpos_C; pfam09299 269482000497 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 269482000498 active site 269482000499 NTP binding site [chemical binding]; other site 269482000500 metal binding triad [ion binding]; metal-binding site 269482000501 antibiotic binding site [chemical binding]; other site 269482000502 Uncharacterized conserved protein [Function unknown]; Region: COG2361 269482000503 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 269482000504 multiple promoter invertase; Provisional; Region: mpi; PRK13413 269482000505 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 269482000506 catalytic residues [active] 269482000507 catalytic nucleophile [active] 269482000508 Presynaptic Site I dimer interface [polypeptide binding]; other site 269482000509 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 269482000510 Synaptic Flat tetramer interface [polypeptide binding]; other site 269482000511 Synaptic Site I dimer interface [polypeptide binding]; other site 269482000512 DNA binding site [nucleotide binding] 269482000513 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 269482000514 DNA-binding interface [nucleotide binding]; DNA binding site 269482000515 RES domain; Region: RES; pfam08808 269482000516 putative toxin-antitoxin system antitoxin component, TIGR02293 family; Region: TAS_TIGR02293 269482000517 Protein of unknown function (DUF2384); Region: DUF2384; pfam09722 269482000518 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 269482000519 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 269482000520 active site 269482000521 DNA binding site [nucleotide binding] 269482000522 Int/Topo IB signature motif; other site 269482000523 Methyltransferase domain; Region: Methyltransf_23; pfam13489 269482000524 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 269482000525 S-adenosylmethionine binding site [chemical binding]; other site 269482000526 High potential iron-sulfur protein; Region: HIPIP; pfam01355 269482000527 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 269482000528 Helix-Turn-Helix DNA binding domain of CueR-like transcription regulators; Region: HTH_CueR; cd01108 269482000529 DNA binding residues [nucleotide binding] 269482000530 dimer interface [polypeptide binding]; other site 269482000531 copper binding site [ion binding]; other site 269482000532 Copper chaperone [Inorganic ion transport and metabolism]; Region: CopZ; COG2608 269482000533 metal-binding site [ion binding] 269482000534 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 269482000535 Multicopper oxidase; Region: Cu-oxidase; pfam00394 269482000536 Putative multicopper oxidases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: SufI; COG2132 269482000537 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 269482000538 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cl01709 269482000539 S-adenosylmethionine synthetase (AdoMet synthetase); Region: AdoMet_Synthase; pfam01941 269482000540 Protein of unknown function (DUF3141); Region: DUF3141; pfam11339 269482000541 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 269482000542 Uncharacterized conserved protein [Function unknown]; Region: COG3391 269482000543 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 269482000544 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 269482000545 Creatinine amidohydrolase; Region: Creatininase; pfam02633 269482000546 YHS domain; Region: YHS; pfam04945 269482000547 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 269482000548 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 269482000549 Soluble P-type ATPase [General function prediction only]; Region: COG4087 269482000550 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 269482000551 ABC1 family; Region: ABC1; pfam03109 269482000552 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cd05120 269482000553 active site 269482000554 ATP binding site [chemical binding]; other site 269482000555 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 269482000556 PHB de-polymerase C-terminus; Region: PHB_depo_C; pfam06850 269482000557 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 269482000558 Major Facilitator Superfamily; Region: MFS_1; pfam07690 269482000559 FtsH Extracellular; Region: FtsH_ext; pfam06480 269482000560 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 269482000561 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 269482000562 Walker A motif; other site 269482000563 ATP binding site [chemical binding]; other site 269482000564 Walker B motif; other site 269482000565 arginine finger; other site 269482000566 Peptidase family M41; Region: Peptidase_M41; pfam01434 269482000567 Putative protein-S-isoprenylcysteine methyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: STE14; COG2020 269482000568 Protein of unknown function (DUF2933); Region: DUF2933; pfam11666 269482000569 Repair protein; Region: Repair_PSII; cl01535 269482000570 Beta-propeller domains of methanol dehydrogenase type [General function prediction only]; Region: COG1512 269482000571 Repair protein; Region: Repair_PSII; pfam04536 269482000572 Uncharacterized conserved protein [Function unknown]; Region: LemA; COG1704 269482000573 Ribosomal protein L24e/L24 is a ribosomal protein found in eukaryotes (L24) and in archaea (L24e, distinct from archaeal L24). L24e/L24 is located on the surface of the large subunit, adjacent to proteins L14 and L3, and near the translation factor...; Region: Ribosomal_L24e_L24; cl00909 269482000574 polyphosphate kinase 2, PA0141 family; Region: PPK2_P_aer; TIGR03707 269482000575 Protein of unknown function (DUF1289); Region: DUF1289; pfam06945 269482000576 Domain of unknown function (DUF4158); Region: DUF4158; pfam13700 269482000577 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; pfam01526 269482000578 Transposase; Region: DEDD_Tnp_IS110; pfam01548 269482000579 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 269482000580 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 269482000581 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 269482000582 Integrase core domain; Region: rve; pfam00665 269482000583 N-terminal domain of molybdenum-binding protein [General function prediction only]; Region: ModE; COG2005 269482000584 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 269482000585 tungstate ABC transporter binding protein WtpA; Region: tungstate_WtpA; TIGR03730 269482000586 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 269482000587 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 269482000588 dimer interface [polypeptide binding]; other site 269482000589 conserved gate region; other site 269482000590 putative PBP binding loops; other site 269482000591 ABC-ATPase subunit interface; other site 269482000592 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 269482000593 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 269482000594 Walker A/P-loop; other site 269482000595 ATP binding site [chemical binding]; other site 269482000596 Q-loop/lid; other site 269482000597 ABC transporter signature motif; other site 269482000598 Walker B; other site 269482000599 D-loop; other site 269482000600 H-loop/switch region; other site 269482000601 selenium-dependent molybdenum hydroxylase system protein, YqeB family; Region: matur_yqeB; TIGR03309 269482000602 Dihydroneopterin aldolase [Coenzyme metabolism]; Region: FolB; COG1539 269482000603 active site 269482000604 Sarcosine oxidase gamma subunit [Amino acid transport and metabolism]; Region: COG4583 269482000605 sarcosine oxidase, alpha subunit family, heterotetrameric form; Region: soxA; TIGR01372 269482000606 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_4; pfam13510 269482000607 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 269482000608 Sarcosine oxidase, gamma subunit family; Region: SoxG; cl01893 269482000609 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 269482000610 Sarcosine oxidase delta subunit [Amino acid transport and metabolism]; Region: SoxD; COG4311 269482000611 Methyltransferase domain; Region: Methyltransf_26; pfam13659 269482000612 DNA methylase [Transcription / DNA replication, recombination, and repair]; Region: COG4646 269482000613 DEAD-like helicases superfamily; Region: DEXDc; smart00487 269482000614 DNA methylase [Transcription / DNA replication, recombination, and repair]; Region: COG4646 269482000615 helicase superfamily c-terminal domain; Region: HELICc; smart00490 269482000616 H-NS histone family; Region: Histone_HNS; pfam00816 269482000617 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 269482000618 Protein of unknown function (DUF1673); Region: DUF1673; pfam07895 269482000619 Predicted transcriptional regulator [Transcription]; Region: COG3905 269482000620 conjugal transfer/type IV secretion protein DotA/TraY; Region: DotA_TraY; TIGR04346 269482000621 AAA-like domain; Region: AAA_10; pfam12846 269482000622 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 269482000623 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 269482000624 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 269482000625 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 269482000626 Protein of unknown function (DUF3625); Region: DUF3625; pfam12293 269482000627 Macrophage killing protein with similarity to conjugation protein; Region: IcmL; pfam11393 269482000628 Domain of unknown function (DUF4158); Region: DUF4158; pfam13700 269482000629 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; pfam01526 269482000630 Phage integrase protein; Region: DUF3701; pfam12482 269482000631 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 269482000632 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 269482000633 INT_SG1, DNA breaking-rejoining enzymes, integrase/recombinases subgroup 1, C-terminal catalytic domain. The CD contains mainly predicted integrase/recombinase and site-specific XerD recombinases. The members of this CD are found predominantly in...; Region: INT_SG1_C; cd01183 269482000634 Int/Topo IB signature motif; other site 269482000635 WGR domain; Region: WGR; cl01581 269482000636 Replication initiator protein A; Region: RPA; pfam10134 269482000637 Transposase; Region: DEDD_Tnp_IS110; pfam01548 269482000638 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 269482000639 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 269482000640 CobQ/CobB/MinD/ParA nucleotide binding domain; Region: CbiA; pfam01656 269482000641 Magnesium ion binding site [ion binding]; other site 269482000642 Domain of unknown function (DUF4158); Region: DUF4158; pfam13700 269482000643 Phenol hydroxylase subunit; Region: Phenol_hyd_sub; pfam06099 269482000644 Aromatic and Alkene Monooxygenase Hydroxylase, subunit B, ferritin-like diiron-binding domain; Region: AAMH_B; cd01058 269482000645 dimerization interface [polypeptide binding]; other site 269482000646 MmoB/DmpM family; Region: MmoB_DmpM; pfam02406 269482000647 Aromatic and Alkene Monooxygenase Hydroxylase, subunit A, ferritin-like diiron-binding domain; Region: AAMH_A; cd01057 269482000648 dimerization interface [polypeptide binding]; other site 269482000649 putative path to active site cavity [active] 269482000650 diiron center [ion binding]; other site 269482000651 Phenol hydroxylase conserved region; Region: Phenol_monoox; pfam04663 269482000652 CDP-6-deoxy-delta-3,4-glucoseen reductase; Validated; Region: PRK07609 269482000653 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 269482000654 catalytic loop [active] 269482000655 iron binding site [ion binding]; other site 269482000656 Phenol 2-monooxygenase (phenol hydroxylase) is a flavoprotein monooxygenase, able to use molecular oxygen as a substrate in the microbial degredation of phenol. This protein is encoded by a single gene and uses a tightly bound FAD cofactor in the NAD(P)H...; Region: phenol_2-monooxygenase_like; cd06211 269482000657 FAD binding pocket [chemical binding]; other site 269482000658 FAD binding motif [chemical binding]; other site 269482000659 phosphate binding motif [ion binding]; other site 269482000660 beta-alpha-beta structure motif; other site 269482000661 NAD binding pocket [chemical binding]; other site 269482000662 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 269482000663 catalytic loop [active] 269482000664 iron binding site [ion binding]; other site 269482000665 N-terminal domain of catechol 2,3-dioxygenase; Region: 2_3_CTD_N; cd07265 269482000666 catechol 2,3 dioxygenase; Region: catechol_2_3; TIGR03211 269482000667 tetramer interface [polypeptide binding]; other site 269482000668 C-terminal domain of catechol 2,3-dioxygenase; Region: 2_3_CTD_C; cd07243 269482000669 tetramer interface [polypeptide binding]; other site 269482000670 active site 269482000671 Fe binding site [ion binding]; other site 269482000672 Domain of unknown function (DUF336); Region: DUF336; pfam03928 269482000673 2-hydroxymuconic semialdehyde dehydrogenase; Region: OH_muco_semi_DH; TIGR03216 269482000674 Human aldehyde dehydrogenase family 8 member A1-like; Region: ALDH_F8_HMSADH; cd07093 269482000675 NAD binding site [chemical binding]; other site 269482000676 catalytic residues [active] 269482000677 2-oxopent-4-enoate hydratase; Region: catechol_dmpE; TIGR03220 269482000678 acetaldehyde dehydrogenase; Validated; Region: PRK08300 269482000679 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 269482000680 Prokaryotic acetaldehyde dehydrogenase, dimerisation; Region: AcetDehyd-dimer; pfam09290 269482000681 4-hyroxy-2-oxovalerate/4-hydroxy-2-oxopentanoic acid aldolase,; Validated; Region: PRK08195 269482000682 4-hydroxy-2-oxovalerate aldolase, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_HOA; cd07943 269482000683 active site 269482000684 catalytic residues [active] 269482000685 metal binding site [ion binding]; metal-binding site 269482000686 DmpG-like communication domain; Region: DmpG_comm; pfam07836 269482000687 4-oxalocrotonate decarboxylase; Region: catechol_dmpH; TIGR03218 269482000688 4-Oxalocrotonate Tautomerase: Catalyzes the isomerization of unsaturated ketones. The structure is a homohexamer that is arranged as a trimer of dimers. The hexamer contains six active sites, each formed by residues from three monomers, two from one...; Region: 4Oxalocrotonate_Tautomerase; cd00491 269482000689 active site 1 [active] 269482000690 dimer interface [polypeptide binding]; other site 269482000691 hexamer interface [polypeptide binding]; other site 269482000692 active site 2 [active] 269482000693 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 269482000694 dinuclear metal binding motif [ion binding]; other site 269482000695 Transposase domain (DUF772); Region: DUF772; pfam05598 269482000696 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 269482000697 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 269482000698 2-hydroxy-6-oxo-6-phenylhexa-2,4-dienoate hydrolase; Region: biphenyl_bphD; TIGR03343 269482000699 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 269482000700 Activator of aromatic catabolism; Region: XylR_N; pfam06505 269482000701 V4R domain; Region: V4R; pfam02830 269482000702 Transcriptional regulators containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]; Region: PspF; COG1221 269482000703 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 269482000704 Walker A motif; other site 269482000705 ATP binding site [chemical binding]; other site 269482000706 Walker B motif; other site 269482000707 arginine finger; other site 269482000708 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 269482000709 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 269482000710 DNA-binding interface [nucleotide binding]; DNA binding site 269482000711 Transposase, Mutator family; Region: Transposase_mut; pfam00872 269482000712 MULE transposase domain; Region: MULE; pfam10551 269482000713 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cl17257 269482000714 DNA binding residues [nucleotide binding] 269482000715 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 269482000716 Integrase core domain; Region: rve; pfam00665 269482000717 Integrase core domain; Region: rve_3; cl15866 269482000718 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 269482000719 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 269482000720 IstB-like ATP binding N-terminal; Region: IstB_IS21_ATP; pfam08483 269482000721 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 269482000722 Walker A motif; other site 269482000723 ATP binding site [chemical binding]; other site 269482000724 Walker B motif; other site 269482000725 arginine finger; other site 269482000726 Domain of unknown function (DUF4158); Region: DUF4158; pfam13700 269482000727 Transposase; Region: DEDD_Tnp_IS110; pfam01548 269482000728 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 269482000729 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 269482000730 Transposase; Region: DEDD_Tnp_IS110; pfam01548 269482000731 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 269482000732 Plasmid replication region DNA-binding N-term; Region: KfrA_N; pfam11740 269482000733 H-NS histone family; Region: Histone_HNS; pfam00816 269482000734 conjugal transfer relaxosome component TraJ; Provisional; Region: PRK13877 269482000735 Relaxase/Mobilisation nuclease domain; Region: Relaxase; pfam03432 269482000736 Myo-inositol-1-phosphate synthase; Region: NAD_binding_5; cl00554 269482000737 plasmid transfer ATPase TraJ; Region: plasmid_TraJ; TIGR02525 269482000738 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 269482000739 Walker A motif; other site 269482000740 ATP binding site [chemical binding]; other site 269482000741 Walker B motif; other site 269482000742 Catalytic domain of EDTA-resistant nuclease Nuc from Salmonella typhimurium and similar proteins; Region: PLDc_Nuc; cd09170 269482000743 PLD-like domain; Region: PLDc_2; pfam13091 269482000744 putative active site [active] 269482000745 catalytic site [active] 269482000746 AAA-like domain; Region: AAA_10; pfam12846 269482000747 TraM recognition site of TraD and TraG; Region: TraG-D_C; cl17375 269482000748 DNA primase, catalytic core; Region: dnaG; TIGR01391 269482000749 CHC2 zinc finger; Region: zf-CHC2; cl17510 269482000750 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 269482000751 TOPRIM_DnaG_primases: The topoisomerase-primase (TORPIM) nucleotidyl transferase/hydrolase domain found in the active site regions of proteins similar to Escherichia coli DnaG. Primases synthesize RNA primers for the initiation of DNA replication. DnaG...; Region: TOPRIM_DnaG_primases; cd03364 269482000752 active site 269482000753 metal binding site [ion binding]; metal-binding site 269482000754 interdomain interaction site; other site 269482000755 DsbA family, DsbC and DsbG subfamily; V-shaped homodimeric proteins containing a redox active CXXC motif imbedded in a TRX fold. They function as protein disulfide isomerases and chaperones in the bacterial periplasm to correct non-native disulfide bonds...; Region: DsbA_DsbC_DsbG; cd03020 269482000756 dimer interface [polypeptide binding]; other site 269482000757 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 269482000758 catalytic residues [active] 269482000759 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 269482000760 N-acetyl-D-glucosamine binding site [chemical binding]; other site 269482000761 catalytic residue [active] 269482000762 DNA topoisomerase III; Validated; Region: PRK08173 269482000763 TOPRIM_TopoIA_TopoIII: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to topoisomerase III. Type IA DNA topoisomerases remove (relax) negative supercoils in the DNA by: cleaving...; Region: TOPRIM_TopoIA_TopoIII; cd03362 269482000764 active site 269482000765 putative interdomain interaction site [polypeptide binding]; other site 269482000766 putative metal-binding site [ion binding]; other site 269482000767 putative nucleotide binding site [chemical binding]; other site 269482000768 Bacterial DNA topoisomeraes I ATP-binding domain; Region: TOP1Bc; smart00436 269482000769 domain I; other site 269482000770 phosphate binding site [ion binding]; other site 269482000771 DNA Topoisomerase, subtype IA; DNA-binding, ATP-binding and catalytic domain of bacterial DNA topoisomerases I and III, and eukaryotic DNA topoisomerase III and eubacterial and archael reverse gyrases. Topoisomerases clevage single or double stranded DNA...; Region: TOP1Ac; cd00186 269482000772 domain II; other site 269482000773 domain III; other site 269482000774 nucleotide binding site [chemical binding]; other site 269482000775 DNA binding groove [nucleotide binding] 269482000776 catalytic site [active] 269482000777 domain IV; other site 269482000778 C-terminal repeat of topoisomerase; Region: Toprim_Crpt; pfam13342 269482000779 C-terminal repeat of topoisomerase; Region: Toprim_Crpt; pfam13342 269482000780 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cl00075 269482000781 Uncharacterized protein family (UPF0257); Region: UPF0257; cl14672 269482000782 Plasmid stabilisation system protein; Region: Plasmid_stabil; pfam05016 269482000783 Zeta toxin; Region: Zeta_toxin; pfam06414 269482000784 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 269482000785 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 269482000786 DNA binding residues [nucleotide binding] 269482000787 dimerization interface [polypeptide binding]; other site 269482000788 SSB_OBF: A subfamily of OB folds similar to the OB fold of ssDNA-binding protein (SSB). SSBs bind with high affinity to ssDNA. They bind to and protect ssDNA intermediates during DNA metabolic pathways. All bacterial and eukaryotic SSBs studied to date...; Region: SSB_OBF; cd04496 269482000789 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 269482000790 dimer interface [polypeptide binding]; other site 269482000791 ssDNA binding site [nucleotide binding]; other site 269482000792 tetramer (dimer of dimers) interface [polypeptide binding]; other site 269482000793 Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]; Region: HepA; COG0553 269482000794 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 269482000795 ATP binding site [chemical binding]; other site 269482000796 putative Mg++ binding site [ion binding]; other site 269482000797 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 269482000798 nucleotide binding region [chemical binding]; other site 269482000799 ATP-binding site [chemical binding]; other site 269482000800 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 269482000801 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 269482000802 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 269482000803 DNA primase, catalytic core; Region: dnaG; TIGR01391 269482000804 CHC2 zinc finger; Region: zf-CHC2; pfam01807 269482000805 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 269482000806 TOPRIM_DnaG_primases: The topoisomerase-primase (TORPIM) nucleotidyl transferase/hydrolase domain found in the active site regions of proteins similar to Escherichia coli DnaG. Primases synthesize RNA primers for the initiation of DNA replication. DnaG...; Region: TOPRIM_DnaG_primases; cd03364 269482000807 active site 269482000808 metal binding site [ion binding]; metal-binding site 269482000809 interdomain interaction site; other site 269482000810 DNA topoisomerase III; Validated; Region: PRK08173 269482000811 TOPRIM_TopoIA_TopoIII: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to topoisomerase III. Type IA DNA topoisomerases remove (relax) negative supercoils in the DNA by: cleaving...; Region: TOPRIM_TopoIA_TopoIII; cd03362 269482000812 active site 269482000813 putative interdomain interaction site [polypeptide binding]; other site 269482000814 putative metal-binding site [ion binding]; other site 269482000815 putative nucleotide binding site [chemical binding]; other site 269482000816 DNA Topoisomerase, subtype IA; DNA-binding, ATP-binding and catalytic domain of bacterial DNA topoisomerases I and III, and eukaryotic DNA topoisomerase III and eubacterial and archael reverse gyrases. Topoisomerases clevage single or double stranded DNA...; Region: TOP1Ac; cd00186 269482000817 domain I; other site 269482000818 DNA binding groove [nucleotide binding] 269482000819 phosphate binding site [ion binding]; other site 269482000820 domain II; other site 269482000821 domain III; other site 269482000822 nucleotide binding site [chemical binding]; other site 269482000823 catalytic site [active] 269482000824 domain IV; other site 269482000825 C-terminal repeat of topoisomerase; Region: Toprim_Crpt; pfam13342 269482000826 C-terminal repeat of topoisomerase; Region: Toprim_Crpt; pfam13342 269482000827 replicative DNA helicase; Region: DnaB; TIGR00665 269482000828 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 269482000829 DnaB helicase C terminal domain. The hexameric helicase DnaB unwinds the DNA duplex at the chromosome replication fork. Although the mechanism by which DnaB both couples ATP hydrolysis to translocation along DNA and denatures the duplex is unknown, a...; Region: DnaB_C; cd00984 269482000830 Walker A motif; other site 269482000831 ATP binding site [chemical binding]; other site 269482000832 Walker B motif; other site 269482000833 DNA binding loops [nucleotide binding] 269482000834 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 269482000835 Acetyltransferase (GNAT) domain; Region: Acetyltransf_7; pfam13508 269482000836 Predicted protein tyrosine phosphatase [General function prediction only]; Region: COG5350 269482000837 lipid-transfer protein; Provisional; Region: PRK07937 269482000838 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 269482000839 Peptidase family M23; Region: Peptidase_M23; pfam01551 269482000840 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 269482000841 S-adenosylmethionine binding site [chemical binding]; other site 269482000842 P-loop containing NTP hydrolase pore-1; Region: AAA_34; pfam13872 269482000843 Helicase_C-like; Region: Helicase_C_4; pfam13871 269482000844 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 269482000845 non-specific DNA binding site [nucleotide binding]; other site 269482000846 salt bridge; other site 269482000847 sequence-specific DNA binding site [nucleotide binding]; other site 269482000848 HNH endonuclease; Region: HNH_2; pfam13391 269482000849 aspartate carbamoyltransferase; Provisional; Region: PRK11891 269482000850 TOPRIM_TopoIA: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in the type IA family of DNA topoisomerases (TopoIA). This subgroup contains proteins similar to the Type I DNA topoisomerases: E. coli...; Region: TOPRIM_TopoIA; cd01028 269482000851 Topoisomerase IA [DNA replication, recombination, and repair]; Region: TopA; COG0550 269482000852 active site 269482000853 interdomain interaction site; other site 269482000854 putative metal-binding site [ion binding]; other site 269482000855 nucleotide binding site [chemical binding]; other site 269482000856 DNA Topoisomerase, subtype IA; DNA-binding, ATP-binding and catalytic domain of bacterial DNA topoisomerases I and III, and eukaryotic DNA topoisomerase III and eubacterial and archael reverse gyrases. Topoisomerases clevage single or double stranded DNA...; Region: TOP1Ac; cl11986 269482000857 disulfide isomerase/thiol-disulfide oxidase; Provisional; Region: dsbG; PRK11657 269482000858 DsbA family, DsbC and DsbG subfamily; V-shaped homodimeric proteins containing a redox active CXXC motif imbedded in a TRX fold. They function as protein disulfide isomerases and chaperones in the bacterial periplasm to correct non-native disulfide bonds...; Region: DsbA_DsbC_DsbG; cd03020 269482000859 dimerization domain [polypeptide binding]; other site 269482000860 dimer interface [polypeptide binding]; other site 269482000861 catalytic residues [active] 269482000862 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 269482000863 N-acetyl-D-glucosamine binding site [chemical binding]; other site 269482000864 catalytic residue [active] 269482000865 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl17200 269482000866 non-specific DNA binding site [nucleotide binding]; other site 269482000867 salt bridge; other site 269482000868 sequence-specific DNA binding site [nucleotide binding]; other site 269482000869 Hedgehog/Intein domain, found in Hedgehog proteins as well as proteins which contain inteins and undergo protein splicing (e.g. DnaB, RIR1-2, GyrA and Pol). In protein splicing an intervening polypeptide sequence - the intein - is excised from a protein; Region: Hint; cl17442 269482000870 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 269482000871 Helix-turn-helix domain; Region: HTH_38; pfam13936 269482000872 Integrase core domain; Region: rve; pfam00665 269482000873 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 269482000874 AAA-like domain; Region: AAA_10; pfam12846 269482000875 HNH nucleases; Region: HNHc; smart00507 269482000876 active site 269482000877 DNA polymerase III subunits gamma and tau; Validated; Region: PRK07764 269482000878 Bacterial conjugation TrbI-like protein; Region: TrbI; cl04242 269482000879 Protein of unknown function (DUF3625); Region: DUF3625; pfam12293 269482000880 Macrophage killing protein with similarity to conjugation protein; Region: IcmL; pfam11393 269482000881 plasmid partitioning protein RepA; Region: partition_RepA; TIGR03453 269482000882 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 269482000883 P-loop; other site 269482000884 Magnesium ion binding site [ion binding]; other site 269482000885 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 269482000886 Magnesium ion binding site [ion binding]; other site 269482000887 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 269482000888 ParB-like nuclease domain; Region: ParB; smart00470 269482000889 Helix-turn-helix domain; Region: HTH_36; pfam13730 269482000890 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3108 269482000891 Peptidase M15; Region: Peptidase_M15_3; cl01194 269482000892 TrfA protein; Region: TrfA; pfam07042 269482000893 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 269482000894 active site 269482000895 catalytic residues [active] 269482000896 DNA binding site [nucleotide binding] 269482000897 Int/Topo IB signature motif; other site 269482000898 Dot/Icm secretion system ATPase DotB; Region: dot_icm_DotB; TIGR02524 269482000899 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 269482000900 Walker A motif; other site 269482000901 ATP binding site [chemical binding]; other site 269482000902 Walker B motif; other site 269482000903 Plasmid segregation protein ParM and similar proteins; Region: ParM_like; cd10227 269482000904 Mg binding site [ion binding]; other site 269482000905 nucleotide binding site [chemical binding]; other site 269482000906 putative protofilament interface [polypeptide binding]; other site 269482000907 Toxin co-regulated pilus biosynthesis protein Q; Region: TcpQ; pfam10671 269482000908 type IVB pilus formation outer membrane protein, R64 PilN family; Region: pilus_B_mal_scr; TIGR02520 269482000909 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 269482000910 Pilin accessory protein (PilO); Region: PAP_PilO; pfam06864 269482000911 Type IV pilus biogenesis; Region: Pilus_PilP; pfam11356 269482000912 Type II/IV secretion system protein; Region: T2SE; pfam00437 269482000913 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 269482000914 Walker A motif; other site 269482000915 ATP binding site [chemical binding]; other site 269482000916 Walker B motif; other site 269482000917 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 269482000918 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 269482000919 PilS N terminal; Region: PilS; pfam08805 269482000920 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 269482000921 Walker A motif; other site 269482000922 ATP binding site [chemical binding]; other site 269482000923 Walker B motif; other site 269482000924 Bacterial shufflon protein, N-terminal constant region; Region: Shufflon_N; pfam04917 269482000925 FinO bacterial conjugation repressor domain; the basic protein FinO is part of the the two component FinOP system which is responsible for repressing bacterial conjugation; the FinOP system represses the transfer (tra) operon of the F-plasmid which...; Region: FinO_conjug_rep; cl15270 269482000926 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 269482000927 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 269482000928 non-specific DNA binding site [nucleotide binding]; other site 269482000929 salt bridge; other site 269482000930 sequence-specific DNA binding site [nucleotide binding]; other site 269482000931 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 269482000932 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 269482000933 sequence-specific DNA binding site [nucleotide binding]; other site 269482000934 salt bridge; other site 269482000935 cell division control protein 6; Reviewed; Region: cdc6; PRK00411 269482000936 PilM; Region: PilM; pfam07419 269482000937 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 269482000938 N-acetyl-D-glucosamine binding site [chemical binding]; other site 269482000939 Domain of unknown function DUF87; Region: DUF87; pfam01935 269482000940 AAA-like domain; Region: AAA_10; pfam12846 269482000941 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 269482000942 GDSL-like Lipase/Acylhydrolase family; Region: Lipase_GDSL_2; pfam13472 269482000943 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 269482000944 non-specific DNA binding site [nucleotide binding]; other site 269482000945 salt bridge; other site 269482000946 sequence-specific DNA binding site [nucleotide binding]; other site 269482000947 HipA N-terminal domain; Region: Couple_hipA; cl11853 269482000948 HipA-like N-terminal domain; Region: HipA_N; pfam07805 269482000949 HipA-like C-terminal domain; Region: HipA_C; pfam07804 269482000950 H-NS histone family; Region: Histone_HNS; pfam00816 269482000951 conjugal transfer/type IV secretion protein DotA/TraY; Region: DotA_TraY; TIGR04346 269482000952 H-NS histone family; Region: Histone_HNS; pfam00816 269482000953 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 269482000954 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 269482000955 S-adenosylmethionine binding site [chemical binding]; other site 269482000956 DNA/RNA non-specific endonuclease; prokaryotic and eukaryotic double- and single-stranded DNA and RNA endonucleases also present in phosphodiesterases. They exists as monomers and homodimers; Region: NUC; cd00091 269482000957 DNA/RNA non-specific endonuclease; Region: Endonuclease_NS; smart00892 269482000958 active site 269482000959 substrate binding site [chemical binding]; other site 269482000960 Mg2+ binding site [ion binding]; other site 269482000961 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 269482000962 DNA methylase; Region: N6_N4_Mtase; cl17433 269482000963 DNA methylase; Region: N6_N4_Mtase; pfam01555 269482000964 Protein of unknown function (DUF1250); Region: DUF1250; pfam06855 269482000965 toxin ChpB; Provisional; Region: PRK09812 269482000966 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 269482000967 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 269482000968 Helix-turn-helix domain; Region: HTH_38; pfam13936 269482000969 Integrase core domain; Region: rve; pfam00665 269482000970 zinc-finger of acetyl-transferase ESCO; Region: zf-C2H2_3; pfam13878 269482000971 site-specific tyrosine recombinase XerS; Reviewed; Region: xerS; PRK05084 269482000972 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 269482000973 active site 269482000974 DNA binding site [nucleotide binding] 269482000975 Int/Topo IB signature motif; other site 269482000976 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 269482000977 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 269482000978 Phage integrase, N-terminal SAM-like domain; Region: Phage_integr_N; cl12235 269482000979 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 269482000980 active site 269482000981 DNA binding site [nucleotide binding] 269482000982 Int/Topo IB signature motif; other site 269482000983 Domain of unknown function (DUF4158); Region: DUF4158; pfam13700 269482000984 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; pfam01526 269482000985 High-affinity nickel-transport protein; Region: NicO; cl00964 269482000986 High-affinity nickel-transport protein; Region: NicO; cl00964 269482000987 Alcaligenes xylosoxidans NreA and related domains; this domain family was previously known as part of DUF156; Region: NreA-like_DUF156; cd10154 269482000988 putative homodimer interface [polypeptide binding]; other site 269482000989 putative homotetramer interface [polypeptide binding]; other site 269482000990 putative metal binding site [ion binding]; other site 269482000991 putative homodimer-homodimer interface [polypeptide binding]; other site 269482000992 putative allosteric switch controlling residues; other site 269482000993 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 269482000994 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 269482000995 ABC transporter signature motif; other site 269482000996 Walker B; other site 269482000997 D-loop; other site 269482000998 H-loop/switch region; other site 269482000999 Phage integrase protein; Region: DUF3701; pfam12482 269482001000 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 269482001001 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 269482001002 INT_SG1, DNA breaking-rejoining enzymes, integrase/recombinases subgroup 1, C-terminal catalytic domain. The CD contains mainly predicted integrase/recombinase and site-specific XerD recombinases. The members of this CD are found predominantly in...; Region: INT_SG1_C; cd01183 269482001003 Int/Topo IB signature motif; other site 269482001004 Domain of unknown function (DUF4158); Region: DUF4158; pfam13700 269482001005 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; pfam01526 269482001006 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 269482001007 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 269482001008 dimer interface [polypeptide binding]; other site 269482001009 conserved gate region; other site 269482001010 putative PBP binding loops; other site 269482001011 ABC-ATPase subunit interface; other site 269482001012 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 269482001013 Walker A/P-loop; other site 269482001014 ATP binding site [chemical binding]; other site 269482001015 Q-loop/lid; other site 269482001016 tungstate ABC transporter binding protein WtpA; Region: tungstate_WtpA; TIGR03730 269482001017 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 269482001018 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 269482001019 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 269482001020 active site 269482001021 metal binding site [ion binding]; metal-binding site 269482001022 cytochrome c-type biogenesis protein CcsB; Region: cytochr_II_ccsB; TIGR03144 269482001023 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cl00125 269482001024 active site residue [active] 269482001025 Chromate resistance exported protein; Region: Chrome_Resist; pfam09828 269482001026 Chromate transport protein ChrA [Inorganic ion transport and metabolism]; Region: ChrA; COG2059 269482001027 chromate transporter, chromate ion transporter (CHR) family; Region: 2A51; TIGR00937 269482001028 Chromate transporter; Region: Chromate_transp; pfam02417 269482001029 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 269482001030 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 269482001031 Chromate transport protein ChrA [Inorganic ion transport and metabolism]; Region: ChrA; COG2059 269482001032 Chromate transporter; Region: Chromate_transp; pfam02417 269482001033 Protein of unknown function (DUF2874); Region: DUF2874; pfam11396 269482001034 Chromate resistance exported protein; Region: Chrome_Resist; pfam09828 269482001035 Domain of Unknown Function (DUF1259); Region: DUF1529; pfam07485 269482001036 Domain of Unknown Function (DUF1259); Region: DUF1529; pfam07485 269482001037 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 269482001038 Laminin G domain; Laminin G-like domains are usually Ca++ mediated receptors that can have binding sites for steroids, beta1 integrins, heparin, sulfatides, fibulin-1, and alpha-dystroglycans. Proteins that contain LamG domains serve a variety of...; Region: LamG; cl17353 269482001039 Protein of unknown function (DUF3396); Region: DUF3396; pfam11876 269482001040 This model contains proteins with the VRR-NUC domain; Region: VRR_NUC; smart00990 269482001041 Uncharacterized protein conserved in bacteria [Function unknown]; Region: VgrG; COG3501 269482001042 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 269482001043 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 269482001044 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 269482001045 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; pfam10106 269482001046 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 269482001047 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 269482001048 DNA-directed RNA polymerase, subunit M/Transcription elongation factor TFIIS [Transcription]; Region: RPB9; COG1594 269482001049 Flagellin N-methylase; Region: FliB; cl00497 269482001050 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl17200 269482001051 non-specific DNA binding site [nucleotide binding]; other site 269482001052 salt bridge; other site 269482001053 sequence-specific DNA binding site [nucleotide binding]; other site 269482001054 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 269482001055 Type II secretory pathway, prepilin signal peptidase PulO and related peptidases [Cell motility and secretion / Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: PulO; COG1989 269482001056 Protein of unknown function (DUF3625); Region: DUF3625; pfam12293 269482001057 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 269482001058 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 269482001059 Walker A motif; other site 269482001060 ATP binding site [chemical binding]; other site 269482001061 Walker B motif; other site 269482001062 arginine finger; other site 269482001063 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 269482001064 ATP binding site [chemical binding]; other site 269482001065 putative Mg++ binding site [ion binding]; other site 269482001066 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 269482001067 nucleotide binding region [chemical binding]; other site 269482001068 ATP-binding site [chemical binding]; other site 269482001069 replication factor A; Reviewed; Region: PRK07217 269482001070 SmpA / OmlA family; Region: SmpA_OmlA; cl17115 269482001071 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 269482001072 quinolinate synthetase A; Region: PLN02673 269482001073 Transposase domain (DUF772); Region: DUF772; pfam05598 269482001074 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 269482001075 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 269482001076 Transposase domain (DUF772); Region: DUF772; pfam05598 269482001077 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 269482001078 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 269482001079 Sex factor F TraW protein N terminal; Region: TraW_N; cl10149 269482001080 TraU protein; Region: TraU; pfam06834 269482001081 Type-F conjugative transfer system pilin assembly protein; Region: TrbC_Ftype; pfam09673 269482001082 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 269482001083 SSB_OBF: A subfamily of OB folds similar to the OB fold of ssDNA-binding protein (SSB). SSBs bind with high affinity to ssDNA. They bind to and protect ssDNA intermediates during DNA metabolic pathways. All bacterial and eukaryotic SSBs studied to date...; Region: SSB_OBF; cd04496 269482001084 dimer interface [polypeptide binding]; other site 269482001085 ssDNA binding site [nucleotide binding]; other site 269482001086 tetramer (dimer of dimers) interface [polypeptide binding]; other site 269482001087 Laminin G domain; Laminin G-like domains are usually Ca++ mediated receptors that can have binding sites for steroids, beta1 integrins, heparin, sulfatides, fibulin-1, and alpha-dystroglycans. Proteins that contain LamG domains serve a variety of...; Region: LamG; cl17353 269482001088 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 269482001089 Domain of Unknown Function (DUF1259); Region: DUF1529; pfam07485 269482001090 Domain of Unknown Function (DUF1259); Region: DUF1529; pfam07485 269482001091 Chromate resistance exported protein; Region: Chrome_Resist; pfam09828 269482001092 Protein of unknown function (DUF2874); Region: DUF2874; pfam11396 269482001093 Chromate transport protein ChrA [Inorganic ion transport and metabolism]; Region: ChrA; COG2059 269482001094 Chromate transporter; Region: Chromate_transp; pfam02417 269482001095 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 269482001096 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 269482001097 Chromate transport protein ChrA [Inorganic ion transport and metabolism]; Region: ChrA; COG2059 269482001098 chromate transporter, chromate ion transporter (CHR) family; Region: 2A51; TIGR00937 269482001099 Chromate transporter; Region: Chromate_transp; pfam02417 269482001100 Chromate resistance exported protein; Region: Chrome_Resist; pfam09828 269482001101 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cl00125 269482001102 active site residue [active] 269482001103 cytochrome c-type biogenesis protein CcsB; Region: cytochr_II_ccsB; TIGR03144 269482001104 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 269482001105 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 269482001106 active site 269482001107 metal binding site [ion binding]; metal-binding site 269482001108 tungstate ABC transporter binding protein WtpA; Region: tungstate_WtpA; TIGR03730 269482001109 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 269482001110 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 269482001111 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 269482001112 dimer interface [polypeptide binding]; other site 269482001113 conserved gate region; other site 269482001114 putative PBP binding loops; other site 269482001115 ABC-ATPase subunit interface; other site 269482001116 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 269482001117 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 269482001118 Walker A/P-loop; other site 269482001119 ATP binding site [chemical binding]; other site 269482001120 Q-loop/lid; other site 269482001121 ABC transporter signature motif; other site 269482001122 Walker B; other site 269482001123 D-loop; other site 269482001124 H-loop/switch region; other site 269482001125 Alcaligenes xylosoxidans NreA and related domains; this domain family was previously known as part of DUF156; Region: NreA-like_DUF156; cd10154 269482001126 putative homodimer interface [polypeptide binding]; other site 269482001127 putative homotetramer interface [polypeptide binding]; other site 269482001128 putative metal binding site [ion binding]; other site 269482001129 putative homodimer-homodimer interface [polypeptide binding]; other site 269482001130 putative allosteric switch controlling residues; other site 269482001131 High-affinity nickel-transport protein; Region: NicO; cl00964 269482001132 High-affinity nickel-transport protein; Region: NicO; cl00964 269482001133 Domain of unknown function (DUF4158); Region: DUF4158; pfam13700 269482001134 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; pfam01526 269482001135 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 269482001136 Phage integrase, N-terminal SAM-like domain; Region: Phage_integr_N; cl12235 269482001137 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 269482001138 active site 269482001139 DNA binding site [nucleotide binding] 269482001140 Int/Topo IB signature motif; other site 269482001141 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 269482001142 recombination associated protein; Reviewed; Region: rdgC; PRK00321 269482001143 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 269482001144 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 269482001145 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 269482001146 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 269482001147 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 269482001148 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 269482001149 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 269482001150 Transposase; Region: HTH_Tnp_1; pfam01527 269482001151 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 269482001152 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 269482001153 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 269482001154 trimer interface [polypeptide binding]; other site 269482001155 eyelet of channel; other site 269482001156 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 269482001157 aminotransferase; Provisional; Region: PRK06105 269482001158 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 269482001159 inhibitor-cofactor binding pocket; inhibition site 269482001160 pyridoxal 5'-phosphate binding site [chemical binding]; other site 269482001161 catalytic residue [active] 269482001162 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 269482001163 Helix-turn-helix domain; Region: HTH_38; pfam13936 269482001164 Integrase core domain; Region: rve; pfam00665 269482001165 histidine ABC transporter substrate-binding protein HisJ; Provisional; Region: PRK15437 269482001166 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 269482001167 substrate binding pocket [chemical binding]; other site 269482001168 membrane-bound complex binding site; other site 269482001169 hinge residues; other site 269482001170 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 269482001171 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 269482001172 dimer interface [polypeptide binding]; other site 269482001173 conserved gate region; other site 269482001174 putative PBP binding loops; other site 269482001175 ABC-ATPase subunit interface; other site 269482001176 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 269482001177 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 269482001178 dimer interface [polypeptide binding]; other site 269482001179 conserved gate region; other site 269482001180 putative PBP binding loops; other site 269482001181 ABC-ATPase subunit interface; other site 269482001182 ABC-type histidine transport system, ATPase component [Amino acid transport and metabolism]; Region: HisP; COG4598 269482001183 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 269482001184 Walker A/P-loop; other site 269482001185 ATP binding site [chemical binding]; other site 269482001186 Q-loop/lid; other site 269482001187 ABC transporter signature motif; other site 269482001188 Walker B; other site 269482001189 D-loop; other site 269482001190 H-loop/switch region; other site 269482001191 Concanavalin A-like lectin/glucanases superfamily; Region: Laminin_G_3; pfam13385 269482001192 Transcriptional regulators [Transcription]; Region: GntR; COG1802 269482001193 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 269482001194 DNA-binding site [nucleotide binding]; DNA binding site 269482001195 Transcriptional regulators [Transcription]; Region: GntR; COG1802 269482001196 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl17414 269482001197 DNA-binding site [nucleotide binding]; DNA binding site 269482001198 FCD domain; Region: FCD; pfam07729 269482001199 D-amino acid dehydrogenase small subunit; Provisional; Region: PRK12409 269482001200 hydroxyglutarate oxidase; Provisional; Region: PRK11728 269482001201 alanine racemase; Reviewed; Region: PRK13340 269482001202 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 269482001203 active site 269482001204 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 269482001205 substrate binding site [chemical binding]; other site 269482001206 catalytic residues [active] 269482001207 dimer interface [polypeptide binding]; other site 269482001208 ornithine cyclodeaminase; Validated; Region: PRK07340 269482001209 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 269482001210 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 269482001211 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 269482001212 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 269482001213 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 269482001214 dimerization interface [polypeptide binding]; other site 269482001215 Domain of unknown function (DUF1338); Region: DUF1338; pfam07063 269482001216 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 269482001217 FAD binding domain; Region: FAD_binding_4; pfam01565 269482001218 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 269482001219 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 269482001220 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 269482001221 non-specific DNA binding site [nucleotide binding]; other site 269482001222 salt bridge; other site 269482001223 sequence-specific DNA binding site [nucleotide binding]; other site 269482001224 Cupin domain; Region: Cupin_2; pfam07883 269482001225 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 269482001226 Type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine); Region: PBP1_ABC_LIVBP_like; cd06342 269482001227 dimerization interface [polypeptide binding]; other site 269482001228 ligand binding site [chemical binding]; other site 269482001229 NAD+-dependent alpha-aminoadipic semialdehyde dehydrogenase, ALDH family members 7A1 and 7B; Region: ALDH_F7_AASADH; cd07130 269482001230 aldehyde dehydrogenase family 7 member; Region: PLN02315 269482001231 tetrameric interface [polypeptide binding]; other site 269482001232 NAD binding site [chemical binding]; other site 269482001233 catalytic residues [active] 269482001234 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 269482001235 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 269482001236 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 269482001237 pyridoxal 5'-phosphate binding site [chemical binding]; other site 269482001238 homodimer interface [polypeptide binding]; other site 269482001239 catalytic residue [active] 269482001240 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_beta; cd01714 269482001241 Ligand binding site [chemical binding]; other site 269482001242 Electron transfer flavoprotein domain; Region: ETF; pfam01012 269482001243 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 269482001244 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_alpha; cd01715 269482001245 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 269482001246 Protein of unknown function (DUF3422); Region: DUF3422; pfam11902 269482001247 gamma-aminobutyrate permease; Region: GABAperm; TIGR01773 269482001248 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 269482001249 Type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine); Region: PBP1_ABC_LIVBP_like; cd06342 269482001250 dimerization interface [polypeptide binding]; other site 269482001251 ligand binding site [chemical binding]; other site 269482001252 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 269482001253 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 269482001254 putative DNA binding site [nucleotide binding]; other site 269482001255 putative Zn2+ binding site [ion binding]; other site 269482001256 AsnC family; Region: AsnC_trans_reg; pfam01037 269482001257 diaminopropionate ammonia-lyase; Provisional; Region: PRK08206 269482001258 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 269482001259 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 269482001260 catalytic residue [active] 269482001261 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 269482001262 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 269482001263 metal binding site [ion binding]; metal-binding site 269482001264 putative dimer interface [polypeptide binding]; other site 269482001265 allantoate amidohydrolase; Reviewed; Region: PRK12890 269482001266 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 269482001267 active site 269482001268 metal binding site [ion binding]; metal-binding site 269482001269 dimer interface [polypeptide binding]; other site 269482001270 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 269482001271 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 269482001272 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 269482001273 dimerization interface [polypeptide binding]; other site 269482001274 substrate binding pocket [chemical binding]; other site 269482001275 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 269482001276 classical (c) SDRs; Region: SDR_c; cd05233 269482001277 NAD(P) binding site [chemical binding]; other site 269482001278 active site 269482001279 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 269482001280 Transcriptional activator [Transcription]; Region: ChrR; COG3806 269482001281 ChrR Cupin-like domain; Region: Cupin_7; pfam12973 269482001282 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 269482001283 Monoamine oxidase [Amino acid transport and metabolism]; Region: COG1231 269482001284 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 269482001285 Major Facilitator Superfamily; Region: MFS_1; pfam07690 269482001286 putative substrate translocation pore; other site 269482001287 Bifunctional PLP-dependent enzyme with beta-cystathionase and maltose regulon repressor activities [Amino acid transport and metabolism]; Region: MalY; COG1168 269482001288 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 269482001289 pyridoxal 5'-phosphate binding site [chemical binding]; other site 269482001290 homodimer interface [polypeptide binding]; other site 269482001291 catalytic residue [active] 269482001292 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 269482001293 Cupin domain; Region: Cupin_2; pfam07883 269482001294 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 269482001295 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 269482001296 StaR_like; a well-conserved protein found in bacteria, plants, and animals. A family member from Streptomyces toyocaensis, StaR is part of a gene cluster involved in the biosynthesis of glycopeptide antibiotics (GPAs), specifically A47934. It has been...; Region: StaR_like; cd05804 269482001297 DNA-binding transcriptional regulator MetR; Provisional; Region: PRK15421 269482001298 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 269482001299 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 269482001300 dimerization interface [polypeptide binding]; other site 269482001301 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 269482001302 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD_like; cd08296 269482001303 putative NAD(P) binding site [chemical binding]; other site 269482001304 putative substrate binding site [chemical binding]; other site 269482001305 catalytic Zn binding site [ion binding]; other site 269482001306 structural Zn binding site [ion binding]; other site 269482001307 Restriction endonuclease; Region: Mrr_cat; pfam04471 269482001308 RES domain; Region: RES; smart00953 269482001309 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 269482001310 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 269482001311 CRISPR/Cas system-associated protein Cas3'' Region: Cas3''_I; cl17503 269482001312 DNA topoisomerase III; Provisional; Region: PRK07726 269482001313 TOPRIM_TopoIA_TopoIII: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to topoisomerase III. Type IA DNA topoisomerases remove (relax) negative supercoils in the DNA by: cleaving...; Region: TOPRIM_TopoIA_TopoIII; cd03362 269482001314 active site 269482001315 putative interdomain interaction site [polypeptide binding]; other site 269482001316 putative metal-binding site [ion binding]; other site 269482001317 putative nucleotide binding site [chemical binding]; other site 269482001318 Bacterial DNA topoisomeraes I ATP-binding domain; Region: TOP1Bc; smart00436 269482001319 domain I; other site 269482001320 phosphate binding site [ion binding]; other site 269482001321 DNA Topoisomerase, subtype IA; DNA-binding, ATP-binding and catalytic domain of bacterial DNA topoisomerases I and III, and eukaryotic DNA topoisomerase III and eubacterial and archael reverse gyrases. Topoisomerases clevage single or double stranded DNA...; Region: TOP1Ac; cd00186 269482001322 domain II; other site 269482001323 domain III; other site 269482001324 nucleotide binding site [chemical binding]; other site 269482001325 DNA binding groove [nucleotide binding] 269482001326 catalytic site [active] 269482001327 domain IV; other site 269482001328 C-terminal repeat of topoisomerase; Region: Toprim_Crpt; pfam13342 269482001329 Zn-finger domain associated with topoisomerase type I [DNA replication, recombination, and repair]; Region: TopA; COG0551 269482001330 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 269482001331 Protein of unknown function (DUF3150); Region: DUF3150; pfam11348 269482001332 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 269482001333 Integrase core domain; Region: rve; pfam00665 269482001334 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 269482001335 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 269482001336 Walker A motif; other site 269482001337 ATP binding site [chemical binding]; other site 269482001338 MoxR-like ATPases [General function prediction only]; Region: COG0714 269482001339 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 269482001340 Walker A motif; other site 269482001341 ATP binding site [chemical binding]; other site 269482001342 Walker B motif; other site 269482001343 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cd00198 269482001344 metal ion-dependent adhesion site (MIDAS); other site 269482001345 ATP-dependent DNA helicase RecG; Region: recG; TIGR00643 269482001346 Replication protein A, class 2b aminoacyl-tRNA synthetases, and related proteins with oligonucleotide/oligosaccharide (OB) fold; Region: RPA_2b-aaRSs_OBF_like; cl09930 269482001347 generic binding surface I; other site 269482001348 generic binding surface II; other site 269482001349 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 269482001350 ATP binding site [chemical binding]; other site 269482001351 putative Mg++ binding site [ion binding]; other site 269482001352 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 269482001353 nucleotide binding region [chemical binding]; other site 269482001354 ATP-binding site [chemical binding]; other site 269482001355 conjugal transfer mating pair stabilization protein TraN; Reviewed; Region: PRK12355 269482001356 conjugal transfer mating pair stabilization protein TraN; Reviewed; Region: PRK12355 269482001357 conjugal transfer mating pair stabilization protein TraN; Reviewed; Region: PRK12355 269482001358 conjugal transfer mating pair stabilization protein TraN; Provisional; Region: PRK14876 269482001359 Predicted membrane-bound metal-dependent hydrolase (DUF457); Region: DUF457; pfam04307 269482001360 ribonucleoside-diphosphate reductase, adenosylcobalamin-dependent; Region: NrdJ_Z; TIGR02504 269482001361 Class II ribonucleotide reductase, dimeric form; Region: RNR_II_dimer; cd02888 269482001362 active site 269482001363 dimer interface [polypeptide binding]; other site 269482001364 effector binding site; other site 269482001365 Protein of unknown function (DUF1173); Region: DUF1173; pfam06666 269482001366 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 269482001367 Sel1-like repeats; Region: SEL1; smart00671 269482001368 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 269482001369 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 269482001370 N-acetyl-D-glucosamine binding site [chemical binding]; other site 269482001371 catalytic residue [active] 269482001372 Type II/IV secretion system protein; Region: T2SE; pfam00437 269482001373 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 269482001374 Walker A motif; other site 269482001375 ATP binding site [chemical binding]; other site 269482001376 Walker B motif; other site 269482001377 DsbA family, DsbA subfamily; DsbA is a monomeric thiol disulfide oxidoreductase protein containing a redox active CXXC motif imbedded in a TRX fold. It is involved in the oxidative protein folding pathway in prokaryotes, and is the strongest thiol...; Region: DsbA_DsbA; cd03019 269482001378 catalytic residues [active] 269482001379 hinge region; other site 269482001380 alpha helical domain; other site 269482001381 TraG-like protein, N-terminal region; Region: TraG_N; pfam07916 269482001382 Protein-interacting Bro1-like domain of mammalian Alix and related domains; Region: BRO1_Alix_like; cl14649 269482001383 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 269482001384 Conjugative relaxosome accessory transposon protein; Region: TraH; pfam06122 269482001385 conjugal transfer protein TrbB; Provisional; Region: PRK13728; cl17283 269482001386 F plasmid transfer operon protein; Region: TraF; pfam13728 269482001387 Signal peptidase, peptidase S26; Region: Peptidase_S26; pfam10502 269482001388 conjugal transfer pilin processing protease TraF; Provisional; Region: PRK13838 269482001389 type-IV secretion system protein TraC; Region: TraC-F-type; TIGR02746 269482001390 F pilus assembly Type-IV secretion system for plasmid transfer; Region: TraC_F_IV; pfam11130 269482001391 Domain of unknown function DUF87; Region: DUF87; pfam01935 269482001392 TraM recognition site of TraD and TraG; Region: TraG-D_C; cl17375 269482001393 Type IV conjugative transfer system lipoprotein (TraV); Region: TraV; pfam09676 269482001394 GET complex subunit GET2; Region: GET2; pfam08690 269482001395 Bacterial conjugation TrbI-like protein; Region: TrbI; pfam03743 269482001396 TraK protein; Region: TraK; pfam06586 269482001397 conjugal transfer protein TraK; Provisional; Region: PRK13736; cl05878 269482001398 TraE protein; Region: TraE; cl05060 269482001399 TraL protein; Region: TraL; cl06278 269482001400 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 269482001401 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 269482001402 ligand binding site [chemical binding]; other site 269482001403 TraM recognition site of TraD and TraG; Region: TraG-D_C; cl17375 269482001404 AAA-like domain; Region: AAA_10; pfam12846 269482001405 TraM recognition site of TraD and TraG; Region: TraG-D_C; cl17375 269482001406 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3108 269482001407 Peptidase M15; Region: Peptidase_M15_3; cl01194 269482001408 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 269482001409 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes...; Region: TOP4c; cd00187 269482001410 CAP-like domain; other site 269482001411 active site 269482001412 primary dimer interface [polypeptide binding]; other site 269482001413 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 269482001414 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 269482001415 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 269482001416 ATP binding site [chemical binding]; other site 269482001417 Mg2+ binding site [ion binding]; other site 269482001418 G-X-G motif; other site 269482001419 TopoIIA_Trans_DNA_gyrase: Transducer domain, having a ribosomal S5 domain 2-like fold, of the type found in proteins of the type IIA family of DNA topoisomerases similar to the B subunits of E. coli DNA gyrase and E. coli Topoisomerase IV which are; Region: TopoII_Trans_DNA_gyrase; cd00822 269482001420 anchoring element; other site 269482001421 dimer interface [polypeptide binding]; other site 269482001422 ATP binding site [chemical binding]; other site 269482001423 Topoisomerase-primase domain. This is a nucleotidyl transferase/hydrolase domain found in type IA, type IIA and type IIB topoisomerases, bacterial DnaG-type primases, small primase-like proteins from bacteria and archaea, OLD family nucleases from...; Region: TOPRIM; cl00718 269482001424 active site 269482001425 metal binding site [ion binding]; metal-binding site 269482001426 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 269482001427 TOPRIM_primases: The topoisomerase-primase (TORPIM) nucleotidyl transferase/hydrolase domain found in the active site regions of bacterial DnaG-type primases and their homologs. Primases synthesize RNA primers for the initiation of DNA replication. DnaG...; Region: TOPRIM_primases; cd01029 269482001428 active site 269482001429 metal binding site [ion binding]; metal-binding site 269482001430 interdomain interaction site; other site 269482001431 Protein of unknown function (DUF1376); Region: DUF1376; pfam07120 269482001432 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 269482001433 replicative DNA helicase; Region: DnaB; TIGR00665 269482001434 DnaB helicase C terminal domain. The hexameric helicase DnaB unwinds the DNA duplex at the chromosome replication fork. Although the mechanism by which DnaB both couples ATP hydrolysis to translocation along DNA and denatures the duplex is unknown, a...; Region: DnaB_C; cd00984 269482001435 Walker A motif; other site 269482001436 ATP binding site [chemical binding]; other site 269482001437 Walker B motif; other site 269482001438 DNA binding loops [nucleotide binding] 269482001439 Transposase domain (DUF772); Region: DUF772; pfam05598 269482001440 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 269482001441 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 269482001442 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 269482001443 Helix-turn-helix domain; Region: HTH_38; pfam13936 269482001444 Integrase core domain; Region: rve; pfam00665 269482001445 Transposase; Region: HTH_Tnp_1; pfam01527 269482001446 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 269482001447 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 269482001448 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 269482001449 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 269482001450 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 269482001451 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 269482001452 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 269482001453 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 269482001454 Glutamine amidotransferase class-I; Region: GATase; pfam00117 269482001455 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 269482001456 catalytic triad [active] 269482001457 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 269482001458 Uncharacterized aldehyde dehydrogenase of Synechococcus sp. PCC 7335 (EDX86601); Region: ALDH_EDX86601; cd07102 269482001459 NAD(P) binding site [chemical binding]; other site 269482001460 catalytic residues [active] 269482001461 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 269482001462 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 269482001463 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 269482001464 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 269482001465 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 269482001466 putative active site [active] 269482001467 Solute carrier 5 family, sodium/glucose transporters and related proteins; solute-binding domain; Region: SLC5sbd; cd10322 269482001468 Na binding site [ion binding]; other site 269482001469 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 269482001470 Histone deacetylases and histone-like deacetylases, classII; Region: HDAC_classII_1; cd09996 269482001471 active site 269482001472 Zn binding site [ion binding]; other site 269482001473 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 269482001474 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 269482001475 DNA binding residues [nucleotide binding] 269482001476 dimerization interface [polypeptide binding]; other site 269482001477 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 269482001478 Helix-turn-helix domain; Region: HTH_38; pfam13936 269482001479 Integrase core domain; Region: rve; pfam00665 269482001480 Domain of unknown function (DUF336); Region: DUF336; cl01249 269482001481 Malate synthase G (MSG), monomeric enzyme present in some bacteria. In general, malate synthase catalyzes the Claisen condensation of glyoxylate and acetyl-CoA to malyl-CoA , which hydrolyzes to malate and CoA. This reaction is part of the glyoxylate...; Region: malate_synt_G; cd00728 269482001482 active site 269482001483 Phage integrase protein; Region: DUF3701; pfam12482 269482001484 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 269482001485 Phage integrase, N-terminal SAM-like domain; Region: Phage_integr_N2; pfam13495 269482001486 INT_SG1, DNA breaking-rejoining enzymes, integrase/recombinases subgroup 1, C-terminal catalytic domain. The CD contains mainly predicted integrase/recombinase and site-specific XerD recombinases. The members of this CD are found predominantly in...; Region: INT_SG1_C; cd01183 269482001487 Int/Topo IB signature motif; other site 269482001488 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 269482001489 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 269482001490 Magnesium ion binding site [ion binding]; other site 269482001491 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 269482001492 ParB-like nuclease domain; Region: ParB; smart00470 269482001493 KorB domain; Region: KorB; pfam08535 269482001494 PAS fold; Region: PAS; pfam00989 269482001495 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 269482001496 putative active site [active] 269482001497 heme pocket [chemical binding]; other site 269482001498 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 269482001499 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 269482001500 metal binding site [ion binding]; metal-binding site 269482001501 I-site; other site 269482001502 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 269482001503 PAS domain S-box; Region: sensory_box; TIGR00229 269482001504 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 269482001505 putative active site [active] 269482001506 heme pocket [chemical binding]; other site 269482001507 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 269482001508 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 269482001509 metal binding site [ion binding]; metal-binding site 269482001510 active site 269482001511 I-site; other site 269482001512 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 269482001513 HDOD domain; Region: HDOD; pfam08668 269482001514 PIN domain of bacteriophage T3, T4 RNase H, T5-5'nuclease, and homologs; Region: PIN_T4-like; cd09860 269482001515 active site 269482001516 metal binding site 1 [ion binding]; metal-binding site 269482001517 5' ssDNA interaction site; other site 269482001518 3' ssDNA interaction site; other site 269482001519 metal binding site 2 [ion binding]; metal-binding site 269482001520 H3TH domain of bacteriophage T3, T4 RNase H, T5-5' nucleases, and homologs; Region: H3TH_T4-like; cd09899 269482001521 DNA binding site [nucleotide binding] 269482001522 metal binding site [ion binding]; metal-binding site 269482001523 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 269482001524 ExoVII_LU_OBF: A subfamily of OB folds corresponding to the N-terminal OB-fold domain of Escherichia coli exodeoxyribonuclease VII (ExoVII) large subunit. E. coli ExoVII is composed of two non-identical subunits. E. coli ExoVII is a...; Region: ExoVII_LU_OBF; cd04489 269482001525 generic binding surface II; other site 269482001526 generic binding surface I; other site 269482001527 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 269482001528 Helix-turn-helix domain; Region: HTH_38; pfam13936 269482001529 Integrase core domain; Region: rve; pfam00665 269482001530 This domain is found in phosphoadenosine phosphosulphate (PAPS) reductase enzymes or PAPS sulphotransferase. PAPS reductase is part of the adenine nucleotide alpha hydrolases superfamily also including N type ATP PPases and ATP sulphurylases. A highly...; Region: PAPS_reductase; cd01713 269482001531 Transposase domain (DUF772); Region: DUF772; pfam05598 269482001532 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 269482001533 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 269482001534 Protein of unknown function (DUF2591); Region: DUF2591; cl11584 269482001535 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 269482001536 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 269482001537 cofactor binding site; other site 269482001538 DNA binding site [nucleotide binding] 269482001539 substrate interaction site [chemical binding]; other site 269482001540 YqaJ-like viral recombinase domain; Region: YqaJ; pfam09588 269482001541 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 269482001542 Helix-turn-helix domain; Region: HTH_38; pfam13936 269482001543 Integrase core domain; Region: rve; pfam00665 269482001544 Protein of unknown function (DUF4238); Region: DUF4238; pfam14022 269482001545 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_4; pfam14281 269482001546 RDD family; Region: RDD; pfam06271 269482001547 DNA/RNA non-specific endonuclease; prokaryotic and eukaryotic double- and single-stranded DNA and RNA endonucleases also present in phosphodiesterases. They exists as monomers and homodimers; Region: NUC; cd00091 269482001548 DNA/RNA non-specific endonuclease; Region: Endonuclease_NS; smart00892 269482001549 active site 269482001550 substrate binding site [chemical binding]; other site 269482001551 Mg2+ binding site [ion binding]; other site 269482001552 VRR-NUC domain; Region: VRR_NUC; pfam08774 269482001553 Plasmid segregation protein ParM and similar proteins; Region: ParM_like; cd10227 269482001554 Mg binding site [ion binding]; other site 269482001555 nucleotide binding site [chemical binding]; other site 269482001556 putative protofilament interface [polypeptide binding]; other site 269482001557 UvrD/REP helicase N-terminal domain; Region: UvrD-helicase; pfam00580 269482001558 AAA domain; Region: AAA_30; pfam13604 269482001559 Family description; Region: UvrD_C_2; pfam13538 269482001560 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; cl00500 269482001561 Nuclease-related domain; Region: NERD; pfam08378 269482001562 Peptidases of the G1 family, including scytalidoglutamic peptidase and aspergillopepsin; Region: Peptidase_G1; cd13426 269482001563 polypeptide substrate binding site [polypeptide binding]; other site 269482001564 active site 269482001565 Uncharacterized conserved protein [Function unknown]; Region: COG4544 269482001566 Adenylation domain of Mycobacterium tuberculosis LigD and LigC-like ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_LigD_LigC; cd07906 269482001567 active site 269482001568 DNA binding site [nucleotide binding] 269482001569 DNA ligase D; Region: NHEJ_ligase_prk; TIGR02776 269482001570 The Oligonucleotide/oligosaccharide binding (OB)-fold domain of ATP-dependent DNA ligase LigD is a DNA-binding module that is part of the catalytic core unit; Region: OBF_DNA_ligase_LigD; cd07971 269482001571 DNA binding site [nucleotide binding] 269482001572 PaeLigD_Pol_like: Polymerase (Pol) domain of bacterial LigD proteins similar to Pseudomonas aeruginosa (Pae) LigD. The LigD Pol domain belongs to the archaeal/eukaryal primase (AEP) superfamily. In prokaryotes, LigD along with Ku is required for...; Region: PaeLigD_Pol_like; cd04862 269482001573 nucleotide binding site [chemical binding]; other site 269482001574 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 269482001575 Helix-turn-helix domain; Region: HTH_17; pfam12728 269482001576 TPR repeat; Region: TPR_11; pfam13414 269482001577 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 269482001578 binding surface 269482001579 TPR motif; other site 269482001580 TPR repeat; Region: TPR_11; pfam13414 269482001581 Ku protein, prokaryotic; Region: Ku_bact; TIGR02772 269482001582 Ku-core domain, Ku-like subfamily; composed of prokaryotic homologs of the eukaryotic DNA binding protein Ku. The alignment includes the core domain shared by the prokaryotic YkoV-like proteins and the eukaryotic Ku70 and Ku80. The prokaryotic Ku...; Region: KU_like; cd00789 269482001583 putative DNA binding site [nucleotide binding]; other site 269482001584 putative homodimer interface [polypeptide binding]; other site 269482001585 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 269482001586 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 269482001587 ATP binding site [chemical binding]; other site 269482001588 putative Mg++ binding site [ion binding]; other site 269482001589 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 269482001590 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 269482001591 nucleotide binding region [chemical binding]; other site 269482001592 ATP-binding site [chemical binding]; other site 269482001593 Protein of unknown function (DUF3426); Region: DUF3426; pfam11906 269482001594 Domain of unknown function (DUF3436); Region: DUF3436; pfam11918 269482001595 Mrr N-terminal domain; Region: Mrr_N; pfam14338 269482001596 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 269482001597 DNA methylase; Region: N6_N4_Mtase; pfam01555 269482001598 SET (Su(var)3-9, Enhancer-of-zeste, Trithorax) domain; Region: SET; smart00317 269482001599 Domain of unknown function (DUF1817); Region: DUF1817; cl02292 269482001600 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; pfam08843 269482001601 Domain of unknown function (DUF4095); Region: DUF4095; pfam13338 269482001602 Protein of unknwon function (DUF2893); Region: DUF2893; pfam11459 269482001603 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 269482001604 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 269482001605 hypothetical protein; Provisional; Region: PRK09945 269482001606 hypothetical protein; Provisional; Region: PRK09945 269482001607 hypothetical protein; Provisional; Region: PRK09945 269482001608 Autotransporter beta-domain; Region: Autotransporter; smart00869 269482001609 Disulphide bond corrector protein DsbC; Region: DsbC; pfam11412 269482001610 Protein of unknown function (DUF2726); Region: DUF2726; pfam10881 269482001611 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 269482001612 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 269482001613 non-specific DNA binding site [nucleotide binding]; other site 269482001614 salt bridge; other site 269482001615 sequence-specific DNA binding site [nucleotide binding]; other site 269482001616 Citrate synthase (CS), citryl-CoA lyase (CCL), the C-terminal portion of the single-subunit type ATP-citrate lyase (ACL) and the C-terminal portion of the large subunit of the two-subunit type ACL. CS catalyzes the condensation of acetyl coenzyme A; Region: CS_ACL-C_CCL; cl00416 269482001617 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 269482001618 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 269482001619 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 269482001620 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 269482001621 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 269482001622 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 269482001623 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 269482001624 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 269482001625 Transposase; Region: HTH_Tnp_1; pfam01527 269482001626 Protein of unknown function DUF91; Region: DUF91; cl00709 269482001627 Protein of unknown function (DUF4031); Region: DUF4031; pfam13223 269482001628 Transglutaminase-like superfamily; Region: Transglut_core3; pfam13471 269482001629 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 269482001630 Domain of unknown function (DUF3846); Region: DUF3846; pfam12957 269482001631 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl17254 269482001632 Toxic anion resistance protein (TelA); Region: TelA; pfam05816 269482001633 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cl00057 269482001634 hypothetical protein; Provisional; Region: PRK14013 269482001635 Uncharacterized proteins involved in stress response, homologs of TerZ and putative cAMP-binding protein CABP1 [Signal transduction mechanisms]; Region: TerZ; COG2310 269482001636 Uncharacterized proteins involved in stress response, similar to tellurium resistance terD; Region: TerD_like; cd06974 269482001637 putative metal binding site [ion binding]; other site 269482001638 Phage protein Gp37/Gp68; Region: Gp37_Gp68; pfam07505 269482001639 Protein of unknown function (DUF2807); Region: DUF2807; pfam10988 269482001640 signal peptidase I; Provisional; Region: PRK10861 269482001641 The S26 Type I signal peptidase (SPase; LepB; leader peptidase B; leader peptidase I; EC 3.4.21.89) family members are essential membrane-bound serine proteases that function to cleave the amino-terminal signal peptide extension from proteins that are...; Region: S26_SPase_I; cd06530 269482001642 Catalytic site [active] 269482001643 The S26 Type I signal peptidase (SPase; LepB; leader peptidase B; leader peptidase I; EC 3.4.21.89) family members are essential membrane-bound serine proteases that function to cleave the amino-terminal signal peptide extension from proteins that are...; Region: S26_SPase_I; cd06530 269482001644 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 269482001645 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 269482001646 cofactor binding site; other site 269482001647 DNA binding site [nucleotide binding] 269482001648 substrate interaction site [chemical binding]; other site 269482001649 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 269482001650 Helix-turn-helix domain; Region: HTH_38; pfam13936 269482001651 Integrase core domain; Region: rve; pfam00665 269482001652 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 269482001653 catalytic motif [active] 269482001654 Catalytic residue [active] 269482001655 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 269482001656 HD domain; Region: HD_4; pfam13328 269482001657 chemotaxis regulatory protein CheY; Provisional; Region: PRK10610 269482001658 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 269482001659 active site 269482001660 phosphorylation site [posttranslational modification] 269482001661 intermolecular recognition site; other site 269482001662 dimerization interface [polypeptide binding]; other site 269482001663 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 269482001664 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl17200 269482001665 non-specific DNA binding site [nucleotide binding]; other site 269482001666 salt bridge; other site 269482001667 sequence-specific DNA binding site [nucleotide binding]; other site 269482001668 ParB-like nuclease domain; Region: ParBc; cl02129 269482001669 KorB domain; Region: KorB; pfam08535 269482001670 Glutaredoxin-like domain protein; Region: GlrX_arch; TIGR02187 269482001671 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 269482001672 active site 269482001673 metal binding site [ion binding]; metal-binding site 269482001674 Flagellin N-methylase; Region: FliB; pfam03692 269482001675 Superfamily of nucleases including Short Patch Repair (Vsr) Endonucleases, archaeal Holliday junction resolvases, MutH methy-directed DNA mismatch-repair endonucleases, and catalytic domains of many restriction endonucleases, such as EcoRI, BamHI, and...; Region: Restriction_endonuclease_like; cl00277 269482001676 Site-2 protease (S2P) class of zinc metalloproteases (MEROPS family M50) cleaves transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of this family use proteolytic...; Region: S2P-M50; cl10020 269482001677 active site 269482001678 putative substrate binding region [chemical binding]; other site 269482001679 Predicted integral membrane proteins containing uncharacterized repeats [Function unknown]; Region: COG5563 269482001680 Autotransporter beta-domain; Region: Autotransporter; pfam03797 269482001681 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 269482001682 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 269482001683 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 269482001684 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 269482001685 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 269482001686 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 269482001687 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 269482001688 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 269482001689 Transposase; Region: HTH_Tnp_1; pfam01527 269482001690 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 269482001691 H-NS histone family; Region: Histone_HNS; pfam00816 269482001692 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 269482001693 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 269482001694 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 269482001695 putative active site [active] 269482001696 putative NTP binding site [chemical binding]; other site 269482001697 putative nucleic acid binding site [nucleotide binding]; other site 269482001698 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 269482001699 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases, ATP sulphurylases Universal Stress Response protein and electron transfer flavoprotein (ETF). The domain forms a apha/beta/apha fold which binds to Adenosine nucleotide; Region: AANH_like; cl00292 269482001700 Ligand Binding Site [chemical binding]; other site 269482001701 AAA-like domain; Region: AAA_10; pfam12846 269482001702 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 269482001703 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 269482001704 active site 269482001705 Int/Topo IB signature motif; other site 269482001706 DNA binding site [nucleotide binding] 269482001707 SprT-like family; Region: SprT-like; pfam10263 269482001708 SprT homologues; Region: SprT; cl01182 269482001709 SprT homologues; Region: SprT; cl01182 269482001710 DsbA family, DsbC and DsbG subfamily; V-shaped homodimeric proteins containing a redox active CXXC motif imbedded in a TRX fold. They function as protein disulfide isomerases and chaperones in the bacterial periplasm to correct non-native disulfide bonds...; Region: DsbA_DsbC_DsbG; cd03020 269482001711 dimerization domain [polypeptide binding]; other site 269482001712 dimer interface [polypeptide binding]; other site 269482001713 catalytic residues [active] 269482001714 dihydroxyacetone kinase; Provisional; Region: PRK14479 269482001715 dihydroxyacetone kinase subunit DhaK; Provisional; Region: PRK14481; cl10557 269482001716 DAK2 domain; Region: Dak2; pfam02734 269482001717 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 269482001718 metabolite-proton symporter; Region: 2A0106; TIGR00883 269482001719 putative substrate translocation pore; other site 269482001720 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 269482001721 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 269482001722 dimer interface [polypeptide binding]; other site 269482001723 putative CheW interface [polypeptide binding]; other site 269482001724 hypothetical protein; Provisional; Region: PRK07482 269482001725 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 269482001726 inhibitor-cofactor binding pocket; inhibition site 269482001727 pyridoxal 5'-phosphate binding site [chemical binding]; other site 269482001728 catalytic residue [active] 269482001729 succinic semialdehyde dehydrogenase; Region: PLN02278 269482001730 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 269482001731 tetramerization interface [polypeptide binding]; other site 269482001732 NAD(P) binding site [chemical binding]; other site 269482001733 catalytic residues [active] 269482001734 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 269482001735 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 269482001736 putative DNA binding site [nucleotide binding]; other site 269482001737 putative Zn2+ binding site [ion binding]; other site 269482001738 AsnC family; Region: AsnC_trans_reg; pfam01037 269482001739 ectoine utilization protein EutE; Region: ectoine_eutE; TIGR02994 269482001740 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like; uncharacterized subgroup; Region: M14_ASTE_ASPA_like_2; cd06252 269482001741 putative active site [active] 269482001742 Zn binding site [ion binding]; other site 269482001743 ectoine utilization protein EutD; Region: ectoine_eutD; TIGR02993 269482001744 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 269482001745 A family including aminopeptidase P, aminopeptidase M, and prolidase. Also known as metallopeptidase family M24. This family of enzymes is able to cleave amido-, imido- and amidino-containing bonds. Members exibit relatively narrow substrate specificity...; Region: APP_MetAP; cd01066 269482001746 active site 269482001747 ectoine utilization protein EutC; Validated; Region: PRK08291 269482001748 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 269482001749 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 269482001750 Threonine dehydratase: The first step in amino acid degradation is the removal of nitrogen. Although the nitrogen atoms of most amino acids are transferred to alpha-ketoglutarate before removal, the alpha-amino group of threonine can be directly...; Region: Thr-dehyd; cd01562 269482001751 tetramer interface [polypeptide binding]; other site 269482001752 pyridoxal 5'-phosphate binding site [chemical binding]; other site 269482001753 catalytic residue [active] 269482001754 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 269482001755 DNA-binding site [nucleotide binding]; DNA binding site 269482001756 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 269482001757 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 269482001758 pyridoxal 5'-phosphate binding site [chemical binding]; other site 269482001759 homodimer interface [polypeptide binding]; other site 269482001760 catalytic residue [active] 269482001761 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 269482001762 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 269482001763 Fusaric acid resistance protein family; Region: FUSC; pfam04632 269482001764 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 269482001765 Protein of unknown function (DUF1656); Region: DUF1656; pfam07869 269482001766 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 269482001767 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 269482001768 HlyD family secretion protein; Region: HlyD_3; pfam13437 269482001769 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 269482001770 TOBE domain; Region: TOBE; cl01440 269482001771 TOBE domain; Region: TOBE; cl01440 269482001772 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 269482001773 EamA-like transporter family; Region: EamA; pfam00892 269482001774 ProQ/FINO family; Region: ProQ; pfam04352 269482001775 Activator of osmoprotectant transporter ProP [Signal transduction mechanisms]; Region: ProQ; COG3109 269482001776 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 269482001777 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 269482001778 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 269482001779 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 269482001780 AefR-like transcriptional repressor, C-terminal region; Region: TetR_C_7; pfam14246 269482001781 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 269482001782 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 269482001783 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 269482001784 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 269482001785 P-loop; other site 269482001786 Magnesium ion binding site [ion binding]; other site 269482001787 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 269482001788 ParB-like nuclease domain; Region: ParB; smart00470 269482001789 Initiator Replication protein; Region: Rep_3; pfam01051 269482001790 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 269482001791 Helix-turn-helix domain; Region: HTH_38; pfam13936 269482001792 Integrase core domain; Region: rve; pfam00665 269482001793 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 269482001794 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 269482001795 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 269482001796 dimerization interface [polypeptide binding]; other site 269482001797 substrate binding pocket [chemical binding]; other site 269482001798 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 269482001799 Adenylosuccinate synthetase (AdSS) catalyzes the first step in the de novo biosynthesis of AMP. IMP and L-aspartate are conjugated in a two-step reaction accompanied by the hydrolysis of GTP to GDP in the presence of Mg2+. In the first step, the...; Region: AdSS; cd03108 269482001800 GDP-binding site [chemical binding]; other site 269482001801 ACT binding site; other site 269482001802 IMP binding site; other site 269482001803 transcriptional regulator; Provisional; Region: PRK10632 269482001804 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 269482001805 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 269482001806 putative effector binding pocket; other site 269482001807 dimerization interface [polypeptide binding]; other site 269482001808 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 269482001809 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 269482001810 putative toxin-antitoxin system antitoxin component, TIGR02293 family; Region: TAS_TIGR02293 269482001811 Protein of unknown function (DUF2384); Region: DUF2384; pfam09722 269482001812 RES domain; Region: RES; pfam08808 269482001813 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 269482001814 active site 269482001815 Int/Topo IB signature motif; other site 269482001816 catalytic residues [active] 269482001817 DNA binding site [nucleotide binding] 269482001818 DNA repair exonuclease [DNA replication, recombination, and repair]; Region: SbcD; COG0420 269482001819 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 269482001820 active site 269482001821 metal binding site [ion binding]; metal-binding site 269482001822 DNA binding site [nucleotide binding] 269482001823 P-loop containing region of AAA domain; Region: AAA_29; cl17516 269482001824 AAA domain; Region: AAA_23; pfam13476 269482001825 AAA domain; Region: AAA_27; pfam13514 269482001826 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 269482001827 HD domain; Region: HD_4; pfam13328 269482001828 Protein of unknown function (DUF429); Region: DUF429; pfam04250 269482001829 SnoaL-like domain; Region: SnoaL_3; pfam13474 269482001830 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 269482001831 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 269482001832 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 269482001833 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 269482001834 Uncharacterized subfamily of medium-chain acyl-CoA synthetase (MACS); Region: MACS_like_2; cd05973 269482001835 active site 269482001836 acyl-activating enzyme (AAE) consensus motif; other site 269482001837 putative CoA binding site [chemical binding]; other site 269482001838 AMP binding site [chemical binding]; other site 269482001839 17hydroxysteroid dehydrogenase type 10 (HSD10)-like, classical (c) SDRs; Region: HSD10-like_SDR_c; cd05371 269482001840 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK08217 269482001841 NAD binding site [chemical binding]; other site 269482001842 homodimer interface [polypeptide binding]; other site 269482001843 homotetramer interface [polypeptide binding]; other site 269482001844 active site 269482001845 acetyl-CoA acetyltransferase; Provisional; Region: PRK06954 269482001846 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 269482001847 dimer interface [polypeptide binding]; other site 269482001848 active site 269482001849 pyrimidine utilization regulatory protein R; Region: RutR; TIGR03613 269482001850 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 269482001851 YcdC-like protein, C-terminal region; Region: TetR_C_3; pfam08362 269482001852 allantoate amidohydrolase; Reviewed; Region: PRK09290 269482001853 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 269482001854 active site 269482001855 metal binding site [ion binding]; metal-binding site 269482001856 dimer interface [polypeptide binding]; other site 269482001857 dihydropyrimidine dehydrogenase subunit A; Provisional; Region: PRK11749 269482001858 dihydropyrimidine dehydrogenase subunit B; Validated; Region: PRK08318 269482001859 Dihydropyrimidine dehydrogenase (DHPD) FMN-binding domain. DHPD catalyzes the first step in pyrimidine degradation: the NADPH-dependent reduction of uracil and thymine to the corresponding 5,6-dihydropyrimidines. DHPD contains two FAD, two FMN, and...; Region: DHPD_FMN; cd02940 269482001860 homodimer interface [polypeptide binding]; other site 269482001861 active site 269482001862 FMN binding site [chemical binding]; other site 269482001863 substrate binding site [chemical binding]; other site 269482001864 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 269482001865 uncharacterized nucleobase-cation-symport-1 (NCS1) transporter subfamily, YbbW-like; solute-binding domain; Region: SLC-NCS1sbd_YbbW-like; cd11485 269482001866 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 269482001867 Na binding site [ion binding]; other site 269482001868 putative substrate binding site [chemical binding]; other site 269482001869 phenylhydantoinase; Validated; Region: PRK08323 269482001870 D-hydantoinases (D-HYD) also called dihydropyrimidases (DHPase) and related proteins; DHPases are a family of enzymes that catalyze the reversible hydrolytic ring opening of the amide bond in five- or six-membered cyclic diamides, like dihydropyrimidine...; Region: D-HYD; cd01314 269482001871 tetramer interface [polypeptide binding]; other site 269482001872 active site 269482001873 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 269482001874 Rieske non-heme iron oxygenase (RO) family, N-terminal Rieske domain of the oxygenase alpha subunit; The RO family comprise a large class of aromatic ring-hydroxylating dioxygenases found predominantly in microorganisms. These enzymes enable...; Region: Rieske_RO_Alpha_N; cd03469 269482001875 [2Fe-2S] cluster binding site [ion binding]; other site 269482001876 methionine sulfoxide reductase A; Provisional; Region: PRK13014 269482001877 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 269482001878 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 269482001879 TlpA-like family, DipZ-like subfamily; composed uncharacterized proteins containing a TlpA-like TRX domain. Some members show domain architectures similar to that of E. coli DipZ protein (also known as DsbD). The only eukaryotic members of the TlpA...; Region: TlpA_like_DipZ_like; cd03012 269482001880 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 269482001881 catalytic residues [active] 269482001882 methionine sulfoxide reductase B; Provisional; Region: PRK00222 269482001883 SelR domain; Region: SelR; pfam01641 269482001884 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 269482001885 active site 269482001886 DNA binding site [nucleotide binding] 269482001887 Int/Topo IB signature motif; other site 269482001888 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cd00591 269482001889 IHF dimer interface [polypeptide binding]; other site 269482001890 IHF - DNA interface [nucleotide binding]; other site 269482001891 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 269482001892 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 269482001893 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 269482001894 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 269482001895 Predicted transcriptional regulator containing an HTH domain and an uncharacterized domain shared with the mammalian protein Schlafen [Transcription]; Region: COG2865 269482001896 ATP-dependent DNA helicase recG C-terminal; Region: HATPase_c_4; pfam13749 269482001897 Helix-turn-helix domain; Region: HTH_28; pfam13518 269482001898 putative transposase OrfB; Reviewed; Region: PHA02517 269482001899 HTH-like domain; Region: HTH_21; pfam13276 269482001900 Integrase core domain; Region: rve; pfam00665 269482001901 Integrase core domain; Region: rve_2; pfam13333 269482001902 Transposase domain (DUF772); Region: DUF772; pfam05598 269482001903 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 269482001904 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 269482001905 BON domain; Region: BON; pfam04972 269482001906 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 269482001907 dinuclear metal binding motif [ion binding]; other site 269482001908 Nodulin-21 and CCC1-related protein family; Region: Nodulin-21_like_2; cd02433 269482001909 Domain of unknown function (DUF3331); Region: DUF3331; pfam11811 269482001910 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 269482001911 DNA-binding interface [nucleotide binding]; DNA binding site 269482001912 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 269482001913 Transposase; Region: HTH_Tnp_1; pfam01527 269482001914 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 269482001915 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 269482001916 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 269482001917 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 269482001918 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 269482001919 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 269482001920 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 269482001921 Transposase; Region: DEDD_Tnp_IS110; pfam01548 269482001922 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 269482001923 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 269482001924 Integrase core domain; Region: rve; pfam00665 269482001925 Integrase core domain; Region: rve_3; pfam13683 269482001926 H-NS histone family; Region: Histone_HNS; pfam00816 269482001927 Seripauperin and TIP1 family; Region: SRP1_TIP1; pfam00660 269482001928 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 269482001929 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 269482001930 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 269482001931 active site 269482001932 phosphorylation site [posttranslational modification] 269482001933 intermolecular recognition site; other site 269482001934 dimerization interface [polypeptide binding]; other site 269482001935 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 269482001936 DNA binding residues [nucleotide binding] 269482001937 dimerization interface [polypeptide binding]; other site 269482001938 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 269482001939 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 269482001940 metal binding site [ion binding]; metal-binding site 269482001941 active site 269482001942 I-site; other site 269482001943 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 269482001944 Integrase core domain; Region: rve; pfam00665 269482001945 Transposase; Region: DEDD_Tnp_IS110; pfam01548 269482001946 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 269482001947 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 269482001948 Predicted signal transduction protein containing EAL and modified HD-GYP domains [Signal transduction mechanisms]; Region: COG3434 269482001949 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 269482001950 methyl-accepting chemotaxis protein II; Provisional; Region: PRK15048 269482001951 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 269482001952 dimerization interface [polypeptide binding]; other site 269482001953 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 269482001954 dimer interface [polypeptide binding]; other site 269482001955 putative CheW interface [polypeptide binding]; other site 269482001956 Domain of unknown function (DUF2703); Region: DUF2703; pfam10865 269482001957 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 269482001958 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 269482001959 insertion element IS2 transposase InsD; Provisional; Region: PRK14702 269482001960 HTH-like domain; Region: HTH_21; pfam13276 269482001961 Integrase core domain; Region: rve; pfam00665 269482001962 Integrase core domain; Region: rve_3; pfam13683 269482001963 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 269482001964 Transposase; Region: HTH_Tnp_1; cl17663 269482001965 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 269482001966 PemK-like protein; Region: PemK; pfam02452 269482001967 Predicted nuclease of restriction endonuclease-like fold [General function prediction only]; Region: COG4804 269482001968 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 269482001969 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 269482001970 substrate binding pocket [chemical binding]; other site 269482001971 membrane-bound complex binding site; other site 269482001972 hinge residues; other site 269482001973 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 269482001974 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 269482001975 dimer interface [polypeptide binding]; other site 269482001976 conserved gate region; other site 269482001977 putative PBP binding loops; other site 269482001978 ABC-ATPase subunit interface; other site 269482001979 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 269482001980 dimer interface [polypeptide binding]; other site 269482001981 conserved gate region; other site 269482001982 putative PBP binding loops; other site 269482001983 ABC-ATPase subunit interface; other site 269482001984 ABC-type histidine transport system, ATPase component [Amino acid transport and metabolism]; Region: HisP; COG4598 269482001985 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 269482001986 Walker A/P-loop; other site 269482001987 ATP binding site [chemical binding]; other site 269482001988 Q-loop/lid; other site 269482001989 ABC transporter signature motif; other site 269482001990 Walker B; other site 269482001991 D-loop; other site 269482001992 H-loop/switch region; other site 269482001993 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 269482001994 active sites [active] 269482001995 tetramer interface [polypeptide binding]; other site 269482001996 histidine utilization repressor, proteobacterial; Region: his_ut_repres; TIGR02018 269482001997 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 269482001998 DNA-binding site [nucleotide binding]; DNA binding site 269482001999 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 269482002000 ABC transporter periplasmic binding protein, urea carboxylase region; Region: ABC_peri_uca; TIGR03427 269482002001 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 269482002002 urea carboxylase-associated protein 1; Region: urea_degr_1; TIGR03424 269482002003 urea carboxylase-associated protein 2; Region: urea_degr_2; TIGR03425 269482002004 urea carboxylase-associated protein 1; Region: urea_degr_1; TIGR03424 269482002005 Domain of unknown function (DUF1989); Region: DUF1989; pfam09347 269482002006 urea carboxylase; Region: urea_carbox; TIGR02712 269482002007 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 269482002008 ATP-grasp domain; Region: ATP-grasp_4; cl17255 269482002009 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 269482002010 Allophanate hydrolase subunit 2; Region: AHS2; smart00797 269482002011 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; cl00896 269482002012 The biotinyl-domain or biotin carboxyl carrier protein (BCCP) domain is present in all biotin-dependent enzymes, such as acetyl-CoA carboxylase, pyruvate carboxylase, propionyl-CoA carboxylase, methylcrotonyl-CoA carboxylase, geranyl-CoA carboxylase; Region: biotinyl_domain; cd06850 269482002013 carboxyltransferase (CT) interaction site; other site 269482002014 biotinylation site [posttranslational modification]; other site 269482002015 allophanate hydrolase; Provisional; Region: PRK08186 269482002016 Amidase; Region: Amidase; cl11426 269482002017 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 269482002018 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 269482002019 dimer interface [polypeptide binding]; other site 269482002020 conserved gate region; other site 269482002021 putative PBP binding loops; other site 269482002022 ABC-ATPase subunit interface; other site 269482002023 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 269482002024 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 269482002025 Walker A/P-loop; other site 269482002026 ATP binding site [chemical binding]; other site 269482002027 Q-loop/lid; other site 269482002028 ABC transporter signature motif; other site 269482002029 Walker B; other site 269482002030 D-loop; other site 269482002031 H-loop/switch region; other site 269482002032 hypothetical protein; Validated; Region: PRK07586 269482002033 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 269482002034 PYR/PP interface [polypeptide binding]; other site 269482002035 dimer interface [polypeptide binding]; other site 269482002036 TPP binding site [chemical binding]; other site 269482002037 Thiamine pyrophosphate (TPP) family, BFDC subfamily, TPP-binding module; composed of proteins similar to Pseudomonas putida benzoylformate decarboxylase (BFDC). P. putida BFDC plays a role in the mandelate pathway, catalyzing the conversion of...; Region: TPP_BFDC; cd02002 269482002038 TPP-binding site [chemical binding]; other site 269482002039 dimer interface [polypeptide binding]; other site 269482002040 3-ketoacyl-(acyl-carrier-protein) reductase; Reviewed; Region: PRK12826 269482002041 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269482002042 NAD(P) binding site [chemical binding]; other site 269482002043 active site 269482002044 Uncharacterized protein related to plant photosystem II stability/assembly factor [General function prediction only]; Region: COG4447 269482002045 VPS10 domain; Region: VPS10; smart00602 269482002046 The single-domain 2,3-dihydroxybiphenyl 1,2-dioxygenases (BphC, EC 1.13.11.39) from Rhodococcus globerulus P6, BphC2-RGP6 and BphC3-RGP6, and similar proteins; Region: BphC2-C3-RGP6_C_like; cd08348 269482002047 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 269482002048 putative active site [active] 269482002049 putative metal binding site [ion binding]; other site 269482002050 Amino acid synthesis; Region: AA_synth; pfam06684 269482002051 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 269482002052 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 269482002053 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 269482002054 catalytic site [active] 269482002055 3-(3-hydroxyphenyl)propionate hydroxylase; Validated; Region: mhpA; PRK06183 269482002056 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 269482002057 NIPSNAP; Region: NIPSNAP; pfam07978 269482002058 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 269482002059 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 269482002060 tetramerization interface [polypeptide binding]; other site 269482002061 NAD(P) binding site [chemical binding]; other site 269482002062 catalytic residues [active] 269482002063 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 269482002064 Transcriptional regulator [Transcription]; Region: IclR; COG1414 269482002065 Bacterial transcriptional regulator; Region: IclR; pfam01614 269482002066 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 269482002067 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 269482002068 trimer interface [polypeptide binding]; other site 269482002069 eyelet of channel; other site 269482002070 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 269482002071 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 269482002072 trimer interface [polypeptide binding]; other site 269482002073 eyelet of channel; other site 269482002074 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 269482002075 hypothetical protein; Provisional; Region: PRK07481 269482002076 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 269482002077 inhibitor-cofactor binding pocket; inhibition site 269482002078 pyridoxal 5'-phosphate binding site [chemical binding]; other site 269482002079 catalytic residue [active] 269482002080 gamma-aminobutyraldehyde dehydrogenase; Provisional; Region: PRK13473 269482002081 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 269482002082 NAD(P) binding site [chemical binding]; other site 269482002083 catalytic residues [active] 269482002084 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 269482002085 Helix-turn-helix domain; Region: HTH_18; pfam12833 269482002086 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 269482002087 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 269482002088 putative substrate translocation pore; other site 269482002089 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 269482002090 Fumarylacetoacetate (FAA) hydrolase family protein [General function prediction only]; Region: COG3970 269482002091 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 269482002092 dihydroxy-acid dehydratase; Provisional; Region: PRK13017 269482002093 Transcriptional regulators [Transcription]; Region: PurR; COG1609 269482002094 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 269482002095 DNA binding site [nucleotide binding] 269482002096 domain linker motif; other site 269482002097 Ligand-binding domain of DNA transcription repressor GntR specific for gluconate, a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_GntR; cd01575 269482002098 putative dimerization interface [polypeptide binding]; other site 269482002099 putative ligand binding site [chemical binding]; other site 269482002100 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 269482002101 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 269482002102 putative substrate translocation pore; other site 269482002103 citrate-proton symporter; Provisional; Region: PRK15075 269482002104 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 269482002105 putative substrate translocation pore; other site 269482002106 tricarballylate utilization protein B; Provisional; Region: PRK15033 269482002107 tricarballylate dehydrogenase; Validated; Region: PRK08274 269482002108 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 269482002109 The C-teminal substrate binding domain of LysR-like nitrogen assimilation control (NAC) protein, contains the type 2 periplasmic binding fold; Region: PBP2_Nac; cd08433 269482002110 putative dimerization interface [polypeptide binding]; other site 269482002111 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 269482002112 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 269482002113 Mannose-6-phosphate isomerase; Region: MannoseP_isomer; pfam01050 269482002114 Undecaprenyl-phosphate glucose phosphotransferase; Region: WcaJ_sugtrans; TIGR03023 269482002115 Bacterial sugar transferase; Region: Bac_transf; pfam02397 269482002116 Low molecular weight phosphatase family; Region: LMWPc; cl00105 269482002117 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 269482002118 active site 269482002119 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 269482002120 polysaccharide export protein EpsE; Region: EpsE; TIGR03028 269482002121 SLBB domain; Region: SLBB; pfam10531 269482002122 Chain length determinant protein; Region: Wzz; pfam02706 269482002123 tyrosine kinase; Provisional; Region: PRK11519 269482002124 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 269482002125 ArsA ATPase functionas as an efflux pump located on the inner membrane of the cell. This ATP-driven oxyanion pump catalyzes the extrusion of arsenite, antimonite and arsenate. Maintenance of a low intracellular concentration of oxyanion produces...; Region: ArsA; cd02035 269482002126 Nucleotide binding site [chemical binding]; other site 269482002127 DTAP/Switch II; other site 269482002128 Switch I; other site 269482002129 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 269482002130 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 269482002131 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 269482002132 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 269482002133 active site 269482002134 This family is most closely related to the GT1 family of glycosyltransferases. mtfB (mannosyltransferase B) in E. coli has been shown to direct the growth of the O9-specific polysaccharide chain. It transfers two mannoses into the position 3 of the...; Region: GT1_mtfB_like; cd03809 269482002135 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 269482002136 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 269482002137 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 269482002138 Probable Catalytic site; other site 269482002139 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 269482002140 Glycosyl transferases group 1; Region: Glyco_trans_1_4; pfam13692 269482002141 Polysaccharide pyruvyl transferase family protein [Cell wall/membrane/envelope biogenesis]; Region: WcaK; COG2327 269482002142 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; pfam04230 269482002143 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; pfam04230 269482002144 H-NS histone family; Region: Histone_HNS; pfam00816 269482002145 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 269482002146 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 269482002147 putative DNA binding site [nucleotide binding]; other site 269482002148 dimerization interface [polypeptide binding]; other site 269482002149 Transcriptional regulator [Transcription]; Region: IclR; COG1414 269482002150 putative Zn2+ binding site [ion binding]; other site 269482002151 Protein of unknown function (DUF2384); Region: DUF2384; cl17718 269482002152 RES domain; Region: RES; cl02411 269482002153 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 269482002154 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 269482002155 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 269482002156 Uncharacterized paraquat-inducible protein A [Function unknown]; Region: PqiA; COG2995 269482002157 Paraquat-inducible protein A; Region: PqiA; pfam04403 269482002158 Paraquat-inducible protein A; Region: PqiA; pfam04403 269482002159 mce related protein; Region: MCE; pfam02470 269482002160 mce related protein; Region: MCE; pfam02470 269482002161 Protein of unknown function (DUF330); Region: DUF330; pfam03886 269482002162 uncharacterized peroxidase-related enzyme; Region: peroxid_rel; TIGR01926 269482002163 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 269482002164 Cupin; Region: Cupin_6; pfam12852 269482002165 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 269482002166 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 269482002167 Gram-negative bacterial tonB protein; Region: TonB; cl10048 269482002168 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 269482002169 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 269482002170 active site 269482002171 phosphorylation site [posttranslational modification] 269482002172 intermolecular recognition site; other site 269482002173 dimerization interface [polypeptide binding]; other site 269482002174 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 269482002175 DNA binding site [nucleotide binding] 269482002176 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 269482002177 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 269482002178 dimer interface [polypeptide binding]; other site 269482002179 phosphorylation site [posttranslational modification] 269482002180 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 269482002181 ATP binding site [chemical binding]; other site 269482002182 Mg2+ binding site [ion binding]; other site 269482002183 G-X-G motif; other site 269482002184 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 269482002185 Helix-turn-helix domain; Region: HTH_18; pfam12833 269482002186 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 269482002187 Long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07059 269482002188 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 269482002189 acyl-activating enzyme (AAE) consensus motif; other site 269482002190 putative AMP binding site [chemical binding]; other site 269482002191 putative active site [active] 269482002192 putative CoA binding site [chemical binding]; other site 269482002193 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 269482002194 Helix-turn-helix domain; Region: HTH_18; pfam12833 269482002195 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 269482002196 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; cl00566 269482002197 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 269482002198 NAD(P) transhydrogenase subunit alpha; Provisional; Region: pntA; PRK09424 269482002199 Rubrum transdehydrogenase NAD-binding and catalytic domains; Region: Rubrum_tdh; cd05304 269482002200 ligand binding site [chemical binding]; other site 269482002201 homodimer interface [polypeptide binding]; other site 269482002202 NAD(P) binding site [chemical binding]; other site 269482002203 trimer interface B [polypeptide binding]; other site 269482002204 trimer interface A [polypeptide binding]; other site 269482002205 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 269482002206 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 269482002207 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 269482002208 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 269482002209 active site 269482002210 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 269482002211 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 269482002212 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 269482002213 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 269482002214 beta-ketothiolase; Provisional; Region: PRK09051 269482002215 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 269482002216 dimer interface [polypeptide binding]; other site 269482002217 active site 269482002218 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK05808 269482002219 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 269482002220 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 269482002221 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 269482002222 active site 269482002223 catalytic residues [active] 269482002224 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 269482002225 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 269482002226 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 269482002227 short chain dehydrogenase; Provisional; Region: PRK06180 269482002228 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 269482002229 NADP binding site [chemical binding]; other site 269482002230 active site 269482002231 steroid binding site; other site 269482002232 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 269482002233 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 269482002234 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 269482002235 Protein of unknown function (DUF3142); Region: DUF3142; pfam11340 269482002236 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 269482002237 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 269482002238 Ligand Binding Site [chemical binding]; other site 269482002239 Protein of unknown function (DUF2964); Region: DUF2964; pfam11177 269482002240 Nitrate reductase alpha subunit [Energy production and conversion]; Region: NarG; COG5013 269482002241 Respiratory nitrate reductase A (NarGHI), alpha chain (NarG) and related proteins. Under anaerobic conditions in the presence of nitrate, E. coli synthesizes the cytoplasmic membrane-bound quinol-nitrate oxidoreductase (NarGHI), which reduces nitrate to...; Region: MopB_Nitrate-R-NarG-like; cd02750 269482002242 [4Fe-4S] binding site [ion binding]; other site 269482002243 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 269482002244 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 269482002245 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 269482002246 Respiratory nitrate reductase A (NarGHI), alpha chain (NarG) and related proteins. Under anaerobic conditions in the presence of nitrate, E. coli synthesizes the cytoplasmic membrane-bound quinol-nitrate oxidoreductase (NarGHI), which reduces nitrate to...; Region: MopB_CT_Nitrate-R-NarG-like; cd02776 269482002247 molybdopterin cofactor binding site; other site 269482002248 Nitrate reductase beta subunit [Energy production and conversion]; Region: NarY; COG1140 269482002249 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; cl17344 269482002250 4Fe-4S binding domain; Region: Fer4; cl02805 269482002251 Nitrate reductase delta subunit [Energy production and conversion]; Region: NarJ; COG2180 269482002252 Nitrate reductase gamma subunit; Region: Nitrate_red_gam; pfam02665 269482002253 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 269482002254 Nitrate/nitrite transporter [Inorganic ion transport and metabolism]; Region: NarK; COG2223 269482002255 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 269482002256 putative substrate translocation pore; other site 269482002257 TfoX N-terminal domain; Region: TfoX_N; pfam04993 269482002258 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 269482002259 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 269482002260 DNA binding site [nucleotide binding] 269482002261 Predicted ATPase [General function prediction only]; Region: COG3903 269482002262 AAA domain; Region: AAA_14; pfam13173 269482002263 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 269482002264 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 269482002265 active site 269482002266 phosphorylation site [posttranslational modification] 269482002267 intermolecular recognition site; other site 269482002268 dimerization interface [polypeptide binding]; other site 269482002269 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 269482002270 DNA binding site [nucleotide binding] 269482002271 Serine/threonine protein kinase [General function prediction only / Signal transduction mechanisms / Transcription / DNA replication, recombination, and repair]; Region: SPS1; COG0515 269482002272 Catalytic domain of Protein Kinases; Region: PKc; cd00180 269482002273 active site 269482002274 ATP binding site [chemical binding]; other site 269482002275 substrate binding site [chemical binding]; other site 269482002276 activation loop (A-loop); other site 269482002277 AAA ATPase domain; Region: AAA_16; pfam13191 269482002278 Predicted ATPase [General function prediction only]; Region: COG3899 269482002279 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 269482002280 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 269482002281 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 269482002282 Histidine kinase; Region: HisKA_2; pfam07568 269482002283 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 269482002284 ATP binding site [chemical binding]; other site 269482002285 Mg2+ binding site [ion binding]; other site 269482002286 G-X-G motif; other site 269482002287 Response regulator receiver domain; Region: Response_reg; pfam00072 269482002288 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 269482002289 active site 269482002290 phosphorylation site [posttranslational modification] 269482002291 intermolecular recognition site; other site 269482002292 dimerization interface [polypeptide binding]; other site 269482002293 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 269482002294 PAS domain; Region: PAS_9; pfam13426 269482002295 putative active site [active] 269482002296 heme pocket [chemical binding]; other site 269482002297 PAS fold; Region: PAS_3; pfam08447 269482002298 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 269482002299 putative active site [active] 269482002300 heme pocket [chemical binding]; other site 269482002301 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 269482002302 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 269482002303 putative active site [active] 269482002304 heme pocket [chemical binding]; other site 269482002305 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 269482002306 dimer interface [polypeptide binding]; other site 269482002307 phosphorylation site [posttranslational modification] 269482002308 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 269482002309 ATP binding site [chemical binding]; other site 269482002310 Mg2+ binding site [ion binding]; other site 269482002311 G-X-G motif; other site 269482002312 Response regulator receiver domain; Region: Response_reg; pfam00072 269482002313 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 269482002314 active site 269482002315 phosphorylation site [posttranslational modification] 269482002316 intermolecular recognition site; other site 269482002317 dimerization interface [polypeptide binding]; other site 269482002318 Response regulator receiver domain; Region: Response_reg; pfam00072 269482002319 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 269482002320 active site 269482002321 phosphorylation site [posttranslational modification] 269482002322 intermolecular recognition site; other site 269482002323 dimerization interface [polypeptide binding]; other site 269482002324 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 269482002325 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 269482002326 ATP binding site [chemical binding]; other site 269482002327 Mg2+ binding site [ion binding]; other site 269482002328 G-X-G motif; other site 269482002329 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 269482002330 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 269482002331 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 269482002332 dimer interface [polypeptide binding]; other site 269482002333 putative CheW interface [polypeptide binding]; other site 269482002334 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cl00256 269482002335 bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase; Validated; Region: PRK09238 269482002336 Aconitase B swivel domain. Aconitate hydratase B is involved in energy metabolism as part of the TCA cycle. It catalyses the formation of cis-aconitate from citrate. This is the aconitase swivel domain, which undergoes swivelling conformational change in...; Region: AcnB_Swivel; cd01576 269482002337 substrate binding site [chemical binding]; other site 269482002338 Aconitate hydratase B catalyses the formation of cis-aconitate from citrate as part of the TCA cycle; Region: AcnB; cd01581 269482002339 substrate binding site [chemical binding]; other site 269482002340 ligand binding site [chemical binding]; other site 269482002341 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11074 269482002342 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 269482002343 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 269482002344 dimerization interface [polypeptide binding]; other site 269482002345 FOG: CBS domain [General function prediction only]; Region: COG0517 269482002346 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with a PAS domain, a GGDEF (DiGuanylate-Cyclase (DGC) domain, and a DUF1 domain downstream. PAS domains have been found to bind ligands, and to act...; Region: CBS_pair_PAS_GGDEF_DUF1_assoc; cd04611 269482002347 FOG: CBS domain [General function prediction only]; Region: COG0517 269482002348 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with a PAS domain, a GGDEF (DiGuanylate-Cyclase (DGC) domain, and a DUF1 domain downstream. PAS domains have been found to bind ligands, and to act...; Region: CBS_pair_PAS_GGDEF_DUF1_assoc; cd04611 269482002349 FOG: CBS domain [General function prediction only]; Region: COG0517 269482002350 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 269482002351 PAS domain; Region: PAS_9; pfam13426 269482002352 putative active site [active] 269482002353 heme pocket [chemical binding]; other site 269482002354 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 269482002355 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 269482002356 metal binding site [ion binding]; metal-binding site 269482002357 active site 269482002358 I-site; other site 269482002359 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 269482002360 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 269482002361 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 269482002362 active site 269482002363 HIGH motif; other site 269482002364 dimer interface [polypeptide binding]; other site 269482002365 KMSKS motif; other site 269482002366 flavin-dependent oxidoreductase, MSMEG_0569 family; Region: MSMEG_0569_nitr; TIGR04046 269482002367 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 269482002368 YjgF, YER057c, and UK114 belong to a large family of proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no...; Region: YjgF_YER057c_UK114_family; cd00448 269482002369 homotrimer interaction site [polypeptide binding]; other site 269482002370 putative active site [active] 269482002371 Family of unknown function (DUF1028); Region: DUF1028; pfam06267 269482002372 acetylornithine deacetylase; Provisional; Region: PRK07522 269482002373 M20 Peptidase acetylornithine deacetylase; Region: M20_ArgE; cd03894 269482002374 metal binding site [ion binding]; metal-binding site 269482002375 putative dimer interface [polypeptide binding]; other site 269482002376 Transcriptional regulator [Transcription]; Region: LysR; COG0583 269482002377 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 269482002378 The C-terminal substrate-binding domain of putative LysR-type transcriptional regulator PAO1-like, a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_PAO1_like; cd08412 269482002379 putative substrate binding pocket [chemical binding]; other site 269482002380 dimerization interface [polypeptide binding]; other site 269482002381 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 269482002382 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 269482002383 Encapsulating protein for peroxidase; Region: Linocin_M18; pfam04454 269482002384 Dyp-type peroxidase family; Region: Dyp_perox; pfam04261 269482002385 Protein of unknown function (DUF1232); Region: DUF1232; cl01318 269482002386 Glutathione-dependent formaldehyde dehydrogenase related proteins, child 1; Region: FDH_like_1; cd08283 269482002387 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 269482002388 NAD binding site [chemical binding]; other site 269482002389 catalytic Zn binding site [ion binding]; other site 269482002390 structural Zn binding site [ion binding]; other site 269482002391 Cysteine-rich 4 helical bundle widely conserved in bacteria; Region: DUF326; cd08026 269482002392 dimerization interface [polypeptide binding]; other site 269482002393 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 269482002394 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 269482002395 putative active site [active] 269482002396 heme pocket [chemical binding]; other site 269482002397 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 269482002398 dimer interface [polypeptide binding]; other site 269482002399 phosphorylation site [posttranslational modification] 269482002400 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 269482002401 ATP binding site [chemical binding]; other site 269482002402 Mg2+ binding site [ion binding]; other site 269482002403 G-X-G motif; other site 269482002404 Response regulator receiver domain; Region: Response_reg; pfam00072 269482002405 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 269482002406 active site 269482002407 phosphorylation site [posttranslational modification] 269482002408 intermolecular recognition site; other site 269482002409 dimerization interface [polypeptide binding]; other site 269482002410 BON domain; Region: BON; pfam04972 269482002411 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 269482002412 ABC-type transport system involved in Fe-S cluster assembly, permease and ATPase components [Posttranslational modification, protein turnover, chaperones]; Region: ATM1; COG5265 269482002413 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 269482002414 Walker A/P-loop; other site 269482002415 ATP binding site [chemical binding]; other site 269482002416 Q-loop/lid; other site 269482002417 ABC transporter signature motif; other site 269482002418 Walker B; other site 269482002419 D-loop; other site 269482002420 H-loop/switch region; other site 269482002421 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 269482002422 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 269482002423 active site 269482002424 phosphorylation site [posttranslational modification] 269482002425 intermolecular recognition site; other site 269482002426 short chain dehydrogenase; Provisional; Region: PRK07326 269482002427 classical (c) SDRs; Region: SDR_c; cd05233 269482002428 NAD(P) binding site [chemical binding]; other site 269482002429 active site 269482002430 histidinol-phosphate phosphatase family domain; Region: Histidinol-ppas; TIGR01656 269482002431 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 269482002432 active site 269482002433 motif I; other site 269482002434 motif II; other site 269482002435 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 269482002436 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 269482002437 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 269482002438 putative active site [active] 269482002439 Predicted carbamoyl transferase, NodU family [Posttranslational modification, protein turnover, chaperones]; Region: COG2192 269482002440 Carbamoyltransferase; Region: CmcH_NodU; pfam02543 269482002441 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 269482002442 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 269482002443 active site 269482002444 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 269482002445 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 269482002446 putative active site [active] 269482002447 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 269482002448 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 269482002449 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 269482002450 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 269482002451 Walker A motif; other site 269482002452 ATP binding site [chemical binding]; other site 269482002453 Walker B motif; other site 269482002454 arginine finger; other site 269482002455 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 269482002456 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 269482002457 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 269482002458 active site 269482002459 phosphorylation site [posttranslational modification] 269482002460 intermolecular recognition site; other site 269482002461 dimerization interface [polypeptide binding]; other site 269482002462 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 269482002463 Walker A motif; other site 269482002464 ATP binding site [chemical binding]; other site 269482002465 Walker B motif; other site 269482002466 arginine finger; other site 269482002467 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 269482002468 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 269482002469 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 269482002470 active site 269482002471 GlcNAc-PI de-N-acetylase; Region: PIG-L; pfam02585 269482002472 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 269482002473 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 269482002474 putative active site [active] 269482002475 heme pocket [chemical binding]; other site 269482002476 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 269482002477 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 269482002478 putative active site [active] 269482002479 heme pocket [chemical binding]; other site 269482002480 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 269482002481 dimer interface [polypeptide binding]; other site 269482002482 phosphorylation site [posttranslational modification] 269482002483 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 269482002484 ATP binding site [chemical binding]; other site 269482002485 Mg2+ binding site [ion binding]; other site 269482002486 G-X-G motif; other site 269482002487 Response regulator receiver domain; Region: Response_reg; pfam00072 269482002488 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 269482002489 active site 269482002490 phosphorylation site [posttranslational modification] 269482002491 intermolecular recognition site; other site 269482002492 dimerization interface [polypeptide binding]; other site 269482002493 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 269482002494 UDP-glucuronate decarboxylase (UGD) and related proteins, extended (e) SDRs; Region: UGD_SDR_e; cd05230 269482002495 NAD binding site [chemical binding]; other site 269482002496 putative substrate binding site 2 [chemical binding]; other site 269482002497 putative substrate binding site 1 [chemical binding]; other site 269482002498 active site 269482002499 This family is most closely related to the GT1 family of glycosyltransferases. The sucrose-phosphate synthases in this family may be unique to plants and photosynthetic bacteria. This enzyme catalyzes the synthesis of sucrose 6-phosphate from fructose...; Region: GT1_Sucrose_synthase; cd03800 269482002500 D-inositol-3-phosphate glycosyltransferase; Region: mycothiol_MshA; TIGR03449 269482002501 putative ADP-binding pocket [chemical binding]; other site 269482002502 BON domain; Region: BON; pfam04972 269482002503 short chain dehydrogenase; Provisional; Region: PRK07109 269482002504 classical (c) SDR, subgroup 3; Region: SDR_c3; cd05360 269482002505 putative NAD(P) binding site [chemical binding]; other site 269482002506 active site 269482002507 Protein of unknown function (DUF2795); Region: DUF2795; pfam11387 269482002508 short chain dehydrogenase; Provisional; Region: PRK06701 269482002509 classical (c) SDR, subgroup 1; Region: SDR_c1; cd05355 269482002510 NAD binding site [chemical binding]; other site 269482002511 metal binding site [ion binding]; metal-binding site 269482002512 active site 269482002513 Domain of unknown function (DUF4142); Region: DUF4142; pfam13628 269482002514 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 269482002515 dinuclear metal binding motif [ion binding]; other site 269482002516 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; COG1914 269482002517 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 269482002518 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 269482002519 Fe-S cluster binding site [ion binding]; other site 269482002520 active site 269482002521 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 269482002522 Response regulator receiver domain; Region: Response_reg; pfam00072 269482002523 active site 269482002524 phosphorylation site [posttranslational modification] 269482002525 intermolecular recognition site; other site 269482002526 dimerization interface [polypeptide binding]; other site 269482002527 Transcriptional regulator [Transcription]; Region: LysR; COG0583 269482002528 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 269482002529 TThe C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_4; cd08440 269482002530 putative dimerization interface [polypeptide binding]; other site 269482002531 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 269482002532 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 269482002533 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 269482002534 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 269482002535 citrate-proton symporter; Provisional; Region: PRK15075 269482002536 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 269482002537 putative substrate translocation pore; other site 269482002538 PRC-barrel domain; Region: PRC; pfam05239 269482002539 FOG: CBS domain [General function prediction only]; Region: COG0517 269482002540 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair_9; cd04622 269482002541 RNA polymerase factor sigma-54; Provisional; Region: PRK12469 269482002542 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 269482002543 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 269482002544 Protein of unknown function (DUF3022); Region: DUF3022; pfam11226 269482002545 hydroperoxidase II; Provisional; Region: katE; PRK11249 269482002546 Clade 2 of the heme-binding enzyme catalase; Region: catalase_clade_2; cd08155 269482002547 tetramer interface [polypeptide binding]; other site 269482002548 heme binding pocket [chemical binding]; other site 269482002549 Type 1 glutamine amidotransferase (GATase1)-like domain found in at the C-terminal of several large catalases; Region: GATase1_catalase; cd03132 269482002550 domain interactions; other site 269482002551 Ku protein, prokaryotic; Region: Ku_bact; TIGR02772 269482002552 Ku-core domain, Ku-like subfamily; composed of prokaryotic homologs of the eukaryotic DNA binding protein Ku. The alignment includes the core domain shared by the prokaryotic YkoV-like proteins and the eukaryotic Ku70 and Ku80. The prokaryotic Ku...; Region: KU_like; cd00789 269482002553 putative DNA binding site [nucleotide binding]; other site 269482002554 putative homodimer interface [polypeptide binding]; other site 269482002555 DNA ligase D, 3'-phosphoesterase domain; Region: LigD_PE_dom; TIGR02777 269482002556 Adenylation domain of Mycobacterium tuberculosis LigD and LigC-like ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_LigD_LigC; cd07906 269482002557 active site 269482002558 DNA binding site [nucleotide binding] 269482002559 DNA ligase D; Region: NHEJ_ligase_prk; TIGR02776 269482002560 The Oligonucleotide/oligosaccharide binding (OB)-fold domain of ATP-dependent DNA ligase LigD is a DNA-binding module that is part of the catalytic core unit; Region: OBF_DNA_ligase_LigD; cd07971 269482002561 DNA binding site [nucleotide binding] 269482002562 PaeLigD_Pol_like: Polymerase (Pol) domain of bacterial LigD proteins similar to Pseudomonas aeruginosa (Pae) LigD. The LigD Pol domain belongs to the archaeal/eukaryal primase (AEP) superfamily. In prokaryotes, LigD along with Ku is required for...; Region: PaeLigD_Pol_like; cd04862 269482002563 nucleotide binding site [chemical binding]; other site 269482002564 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 269482002565 Protein of unknown function (DUF3175); Region: DUF3175; pfam11373 269482002566 Protein of unknown function (DUF3022); Region: DUF3022; pfam11226 269482002567 intracellular protease, PfpI family; Region: PfpI; TIGR01382 269482002568 A type 1 glutamine amidotransferase (GATase1)-like domain found in PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_like; cd03134 269482002569 proposed catalytic triad [active] 269482002570 conserved cys residue [active] 269482002571 Protein of unknown function (DUF1488); Region: DUF1488; pfam07369 269482002572 Phophatidylserine decarboxylase; Region: PSDC; pfam12588 269482002573 Phosphatidylserine decarboxylase; Region: PS_Dcarbxylase; pfam02666 269482002574 PAS domain; Region: PAS_9; pfam13426 269482002575 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 269482002576 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 269482002577 metal binding site [ion binding]; metal-binding site 269482002578 active site 269482002579 I-site; other site 269482002580 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 269482002581 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 269482002582 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 269482002583 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 269482002584 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 269482002585 H-NS histone family; Region: Histone_HNS; pfam00816 269482002586 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 269482002587 Autoinducer synthetase; Region: Autoind_synth; cl17404 269482002588 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 269482002589 Helix-turn-helix domain; Region: HTH_38; pfam13936 269482002590 Integrase core domain; Region: rve; pfam00665 269482002591 transcriptional regulator TraR; Provisional; Region: PRK13870 269482002592 Autoinducer binding domain; Region: Autoind_bind; pfam03472 269482002593 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 269482002594 DNA binding residues [nucleotide binding] 269482002595 dimerization interface [polypeptide binding]; other site 269482002596 Condensing enzymes; Family of enzymes that catalyze a (decarboxylating or non-decarboxylating) Claisen-like condensation reaction. Members are share strong structural similarity, and are involved in the synthesis and degradation of fatty acids, and the...; Region: cond_enzymes; cl09938 269482002597 active site 269482002598 Condensing enzymes; Family of enzymes that catalyze a (decarboxylating or non-decarboxylating) Claisen-like condensation reaction. Members are share strong structural similarity, and are involved in the synthesis and degradation of fatty acids, and the...; Region: cond_enzymes; cl09938 269482002599 active site 269482002600 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 269482002601 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 269482002602 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 269482002603 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 269482002604 pyridoxal-dependent decarboxylase, exosortase A system-associated; Region: dCO2ase_PEP1; TIGR03099 269482002605 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Btrk Decarboxylase; Region: PLPDE_III_Btrk_like; cd06839 269482002606 dimer interface [polypeptide binding]; other site 269482002607 active site 269482002608 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 269482002609 catalytic residues [active] 269482002610 substrate binding site [chemical binding]; other site 269482002611 acyl-CoA ligase (AMP-forming), exosortase A-associated; Region: ligase_PEP_1; TIGR03098 269482002612 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 269482002613 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_6; cd05922 269482002614 acyl-activating enzyme (AAE) consensus motif; other site 269482002615 putative AMP binding site [chemical binding]; other site 269482002616 putative active site [active] 269482002617 putative CoA binding site [chemical binding]; other site 269482002618 hypothetical protein; Validated; Region: PRK06840 269482002619 Condensing enzymes; Family of enzymes that catalyze a (decarboxylating or non-decarboxylating) Claisen-like condensation reaction. Members are share strong structural similarity, and are involved in the synthesis and degradation of fatty acids, and the...; Region: cond_enzymes; cl09938 269482002620 active site 269482002621 Condensing enzymes; Family of enzymes that catalyze a (decarboxylating or non-decarboxylating) Claisen-like condensation reaction. Members are share strong structural similarity, and are involved in the synthesis and degradation of fatty acids, and the...; Region: cond_enzymes; cl09938 269482002622 active site 269482002623 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 269482002624 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 269482002625 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 269482002626 active site 269482002627 Transcriptional regulators [Transcription]; Region: GntR; COG1802 269482002628 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 269482002629 DNA-binding site [nucleotide binding]; DNA binding site 269482002630 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 269482002631 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 269482002632 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 269482002633 TM-ABC transporter signature motif; other site 269482002634 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 269482002635 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 269482002636 TM-ABC transporter signature motif; other site 269482002637 urea ABC transporter, ATP-binding protein UrtD; Region: urea_trans_UrtD; TIGR03411 269482002638 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 269482002639 Walker A/P-loop; other site 269482002640 ATP binding site [chemical binding]; other site 269482002641 Q-loop/lid; other site 269482002642 ABC transporter signature motif; other site 269482002643 Walker B; other site 269482002644 D-loop; other site 269482002645 H-loop/switch region; other site 269482002646 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 269482002647 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 269482002648 Walker A/P-loop; other site 269482002649 ATP binding site [chemical binding]; other site 269482002650 Q-loop/lid; other site 269482002651 ABC transporter signature motif; other site 269482002652 Walker B; other site 269482002653 D-loop; other site 269482002654 H-loop/switch region; other site 269482002655 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 269482002656 Type I periplasmic components of amide-binding protein (AmiC) and the active transport system for short-chain and urea (FmdDEF); Region: PBP1_AmiC_like; cd06331 269482002657 ligand binding site [chemical binding]; other site 269482002658 putative amidase; Provisional; Region: PRK06169 269482002659 Amidase; Region: Amidase; cl11426 269482002660 Amino acid synthesis; Region: AA_synth; pfam06684 269482002661 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 269482002662 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 269482002663 trimer interface [polypeptide binding]; other site 269482002664 eyelet of channel; other site 269482002665 Prophage CP4-57 regulatory protein (AlpA); Region: Phage_AlpA; pfam05930 269482002666 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 269482002667 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 269482002668 N-acetyl-D-glucosamine binding site [chemical binding]; other site 269482002669 catalytic residue [active] 269482002670 TrbC/VIRB2 family; Region: TrbC; pfam04956 269482002671 Type IV secretory pathway, VirB3-like protein; Region: VirB3; cl01501 269482002672 type IV secretion/conjugal transfer ATPase, VirB4 family; Region: VirB4_CagE; TIGR00929 269482002673 CagE, TrbE, VirB family, component of type IV transporter system; Region: CagE_TrbE_VirB; pfam03135 269482002674 TrbL/VirB6 plasmid conjugal transfer protein; Region: TrbL; pfam04610 269482002675 P-type DNA transfer protein VirB5; Region: VirB5; TIGR02791 269482002676 Type IV secretion system proteins; Region: T4SS; pfam07996 269482002677 VirB8 protein; Region: VirB8; pfam04335 269482002678 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 269482002679 VirB7 interaction site; other site 269482002680 Bacterial conjugation TrbI-like protein; Region: TrbI; pfam03743 269482002681 P-type DNA transfer ATPase VirB11; Region: VirB11; TIGR02788 269482002682 Type IV secretory pathway component VirB11, and related ATPases. The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to...; Region: VirB11-like_ATPase; cd01130 269482002683 Walker A motif; other site 269482002684 hexamer interface [polypeptide binding]; other site 269482002685 ATP binding site [chemical binding]; other site 269482002686 Walker B motif; other site 269482002687 conjugal transfer coupling protein TraG; Provisional; Region: PRK13876 269482002688 Type IV secretory system Conjugative DNA transfer; Region: T4SS-DNA_transf; pfam02534 269482002689 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 269482002690 Walker A motif; other site 269482002691 ATP binding site [chemical binding]; other site 269482002692 Walker B motif; other site 269482002693 Primase C terminal 2 (PriCT-2); Region: PriCT_2; pfam08707 269482002694 type IV secretion system T-DNA border endonuclease VirD2; Provisional; Region: PRK13863 269482002695 Domain of unknown function (DUF932); Region: DUF932; pfam06067 269482002696 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 269482002697 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 269482002698 dimer interface [polypeptide binding]; other site 269482002699 phosphorylation site [posttranslational modification] 269482002700 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 269482002701 ATP binding site [chemical binding]; other site 269482002702 Mg2+ binding site [ion binding]; other site 269482002703 G-X-G motif; other site 269482002704 maltooligosyl trehalose synthase; Provisional; Region: PRK14511 269482002705 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 269482002706 Alpha amylase catalytic domain found in maltooligosyl trehalose synthase (MTSase); Region: AmyAc_MTSase; cd11336 269482002707 active site 269482002708 catalytic site [active] 269482002709 4-alpha-glucanotransferase [Carbohydrate transport and metabolism]; Region: MalQ; COG1640 269482002710 4-alpha-glucanotransferase; Region: Glyco_hydro_77; cl00711 269482002711 N-terminal Early set domain associated with the catalytic domain of Maltooligosyl trehalose trehalohydrolase (also called Glycosyltrehalose trehalohydrolase) and similar proteins; Region: E_set_MTHase_like_N; cd02853 269482002712 malto-oligosyltrehalose trehalohydrolase; Region: trehalose_TreZ; TIGR02402 269482002713 Alpha amylase catalytic domain found in Glycosyltrehalose trehalohydrolase (also called Maltooligosyl trehalose Trehalohydrolase); Region: AmyAc_GTHase; cd11325 269482002714 active site 269482002715 catalytic site [active] 269482002716 Domain of unknown function (DUF3459); Region: DUF3459; pfam11941 269482002717 glycogen debranching enzyme GlgX; Region: glgX_debranch; TIGR02100 269482002718 N-terminal Early set domain associated with the catalytic domain of Glycogen debranching enzyme and bacterial isoamylase (also called glycogen 6-glucanohydrolase); Region: E_set_GDE_Isoamylase_N; cd02856 269482002719 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 269482002720 active site 269482002721 catalytic site [active] 269482002722 glycogen branching enzyme; Provisional; Region: PRK05402 269482002723 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 269482002724 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 269482002725 active site 269482002726 catalytic site [active] 269482002727 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 269482002728 trehalose synthase; Region: treS_nterm; TIGR02456 269482002729 Alpha amylase catalytic domain found in Trehalose synthetase; Region: AmyAc_TreS; cd11334 269482002730 active site 269482002731 catalytic site [active] 269482002732 trehalose synthase-fused probable maltokinase; Region: TreS_Cterm; TIGR02457 269482002733 Uncharacterized protein, probably involved in trehalose biosynthesis [Carbohydrate transport and metabolism]; Region: Ble; COG3281 269482002734 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 269482002735 Domain of unknown function (DUF3416); Region: DUF3416; pfam11896 269482002736 Alpha amylase catalytic domain found in GlgE-like proteins; Region: AmyAc_GlgE_like; cd11344 269482002737 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 269482002738 active site 269482002739 homodimer interface [polypeptide binding]; other site 269482002740 catalytic site [active] 269482002741 acceptor binding site [chemical binding]; other site 269482002742 Protein of unknown function (DUF2591); Region: DUF2591; cl11584 269482002743 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 269482002744 putative catalytic site [active] 269482002745 putative metal binding site [ion binding]; other site 269482002746 putative phosphate binding site [ion binding]; other site 269482002747 Phosphatidylserine/phosphatidylglycerophosphate/car diolipin synthases and related enzymes [Lipid metabolism]; Region: Cls; COG1502 269482002748 Catalytic domain, repeat 1, of uncharacterized bacterial proteins with similarity to vertebrate phospholipases, PLD1 and PLD2; Region: PLDc_vPLD1_2_like_bac_1; cd09140 269482002749 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 269482002750 putative active site [active] 269482002751 putative active site [active] 269482002752 catalytic site [active] 269482002753 catalytic site [active] 269482002754 Catalytic domain, repeat 2, of uncharacterized bacterial proteins with similarity to vertebrate phospholipases, PLD1 and PLD2; Region: PLDc_vPLD1_2_like_bac_2; cd09143 269482002755 putative active site [active] 269482002756 catalytic site [active] 269482002757 Uncharacterized conserved protein [Function unknown]; Region: COG0398 269482002758 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 269482002759 Uncharacterized membrane protein [Function unknown]; Region: SapB; COG1285 269482002760 MgtC family; Region: MgtC; pfam02308 269482002761 succinate dehydrogenase iron-sulfur subunit; Provisional; Region: PRK12575 269482002762 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 269482002763 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 269482002764 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 269482002765 motif II; other site 269482002766 putative arabinose transporter; Provisional; Region: PRK03545 269482002767 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 269482002768 putative substrate translocation pore; other site 269482002769 catechol 1,2-dioxygenase, proteobacterial; Region: catechol_proteo; TIGR02439 269482002770 Catechol 1,2 dioxygenase (1,2-CTD) catalyzes an intradiol cleavage reaction of catechol to form cis,cis-muconate. 1,2-CTDs is homodimers with one catalytic non-heme ferric ion per monomer. They belong to the aromatic dioxygenase family, a family of...; Region: 1,2-CTD; cd03460 269482002771 dimer interface [polypeptide binding]; other site 269482002772 active site 269482002773 benzoate 1,2-dioxygenase, large subunit; Region: benzo_1_2_benA; TIGR03229 269482002774 Rieske non-heme iron oxygenase (RO) family, 2-Halobenzoate 1,2-dioxygenase (HBDO) subfamily, N-terminal Rieske domain of the oxygenase alpha subunit; ROs comprise a large class of aromatic ring-hydroxylating dioxygenases that enable microorganisms to...; Region: Rieske_RO_Alpha_HBDO; cd03542 269482002775 C-terminal catalytic domain of the oxygenase alpha subunit of Pseudomonas resinovorans strain CA10 anthranilate 1,2-dioxygenase and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_AntDO-like; cd08879 269482002776 putative alpha subunit interface [polypeptide binding]; other site 269482002777 putative active site [active] 269482002778 putative substrate binding site [chemical binding]; other site 269482002779 Fe binding site [ion binding]; other site 269482002780 Ring hydroxylating dioxygenase beta subunit. This subunit has a similar structure to NTF-2, Ketosteroid isomerase and scytalone dehydratase.The degradation of aromatic compounds by aerobic bacteria frequently begins with the dihydroxylation of the...; Region: ring_hydroxylating_dioxygenases_beta; cd00667 269482002781 inter-subunit interface; other site 269482002782 anthranilate dioxygenase reductase; Provisional; Region: antC; PRK11872 269482002783 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 269482002784 catalytic loop [active] 269482002785 iron binding site [ion binding]; other site 269482002786 Benzoate dioxygenase reductase (BenDO) FAD/NAD binding domain. Oxygenases oxidize hydrocarbons using dioxygen as the oxidant. As a Class I bacterial dioxygenases, benzoate dioxygenase like proteins combine an [2Fe-2S] cluster containing N-terminal...; Region: BenDO_FAD_NAD; cd06209 269482002787 FAD binding pocket [chemical binding]; other site 269482002788 FAD binding motif [chemical binding]; other site 269482002789 phosphate binding motif [ion binding]; other site 269482002790 beta-alpha-beta structure motif; other site 269482002791 NAD binding pocket [chemical binding]; other site 269482002792 1,6-dihydroxycyclohexa-2,4-diene-1-carboxylate dehydrogenase; Provisional; Region: benD; PRK12823 269482002793 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269482002794 NAD(P) binding site [chemical binding]; other site 269482002795 active site 269482002796 YjgH belongs to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no...; Region: YjgH_like; cd02198 269482002797 homotrimer interaction site [polypeptide binding]; other site 269482002798 putative active site [active] 269482002799 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 269482002800 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 269482002801 Cytochrome c; Region: Cytochrom_C; pfam00034 269482002802 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 269482002803 Ubiquinol oxidase subunit I. Ubiquinol oxidase, the terminal oxidase in the respiratory chains of aerobic bacteria, is a multi-chain transmembrane protein located in the cell membrane. It catalyzes the reduction of O2 and simultaneously pumps protons...; Region: Ubiquinol_Oxidase_I; cd01662 269482002804 D-pathway; other site 269482002805 Putative ubiquinol binding site [chemical binding]; other site 269482002806 Low-spin heme (heme b) binding site [chemical binding]; other site 269482002807 Putative water exit pathway; other site 269482002808 Binuclear center (heme o3/CuB) [ion binding]; other site 269482002809 K-pathway; other site 269482002810 Putative proton exit pathway; other site 269482002811 Heme-copper oxidase subunit III. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which couple the reduction of molecular oxygen to water to, proton pumping across the membrane. The...; Region: Heme_Cu_Oxidase_III_like; cd00386 269482002812 Subunit I/III interface [polypeptide binding]; other site 269482002813 cytochrome c oxidase, subunit II; Region: CoxB; TIGR02866 269482002814 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 269482002815 Cytochrome c; Region: Cytochrom_C; pfam00034 269482002816 short chain dehydrogenase; Provisional; Region: PRK07109 269482002817 classical (c) SDR, subgroup 3; Region: SDR_c3; cd05360 269482002818 putative NAD(P) binding site [chemical binding]; other site 269482002819 active site 269482002820 Glucoamylase and related glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: SGA1; COG3387 269482002821 Glycosyl hydrolases family 15; Region: Glyco_hydro_15; pfam00723 269482002822 thiamine pyrophosphate protein; Provisional; Region: PRK08273 269482002823 Pyrimidine (PYR) binding domain of POX; Region: TPP_PYR_POX; cd07039 269482002824 PYR/PP interface [polypeptide binding]; other site 269482002825 dimer interface [polypeptide binding]; other site 269482002826 tetramer interface [polypeptide binding]; other site 269482002827 TPP binding site [chemical binding]; other site 269482002828 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 269482002829 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cl01629 269482002830 TPP-binding site [chemical binding]; other site 269482002831 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 269482002832 Mandelate racemase (MR)-like subfamily of the enolase superfamily, subgroup 3. Enzymes of this subgroup share three conserved carboxylate ligands for the essential divalent metal ion (usually Mg2+), two aspartates and a glutamate, and conserved catalytic...; Region: MR_like_3; cd03328 269482002833 putative active site pocket [active] 269482002834 putative metal binding site [ion binding]; other site 269482002835 Gluconate 2-dehydrogenase subunit 3; Region: Gluconate_2-dh3; pfam13618 269482002836 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 269482002837 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 269482002838 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 269482002839 Domain of unknown function (DUF305); Region: DUF305; cl17794 269482002840 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 269482002841 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 269482002842 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 269482002843 FRG domain; Region: FRG; pfam08867 269482002844 BON domain; Region: BON; cl02771 269482002845 Uncharacterized conserved protein [Function unknown]; Region: COG2427 269482002846 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_10; cd04667 269482002847 nudix motif; other site 269482002848 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269482002849 active site 269482002850 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269482002851 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 269482002852 NAD(P) binding site [chemical binding]; other site 269482002853 active site 269482002854 Transcriptional regulator [Transcription]; Region: LysR; COG0583 269482002855 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 269482002856 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 269482002857 putative effector binding pocket; other site 269482002858 dimerization interface [polypeptide binding]; other site 269482002859 PAS domain S-box; Region: sensory_box; TIGR00229 269482002860 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 269482002861 putative active site [active] 269482002862 heme pocket [chemical binding]; other site 269482002863 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 269482002864 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 269482002865 metal binding site [ion binding]; metal-binding site 269482002866 active site 269482002867 I-site; other site 269482002868 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 269482002869 Integrase core domain; Region: rve; pfam00665 269482002870 Integrase core domain; Region: rve_3; pfam13683 269482002871 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 269482002872 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like6; cd05664 269482002873 metal binding site [ion binding]; metal-binding site 269482002874 putative dimer interface [polypeptide binding]; other site 269482002875 Predicted membrane protein [Function unknown]; Region: COG2860 269482002876 UPF0126 domain; Region: UPF0126; pfam03458 269482002877 UPF0126 domain; Region: UPF0126; pfam03458 269482002878 Predicted transcriptional regulators [Transcription]; Region: COG1733 269482002879 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 269482002880 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 269482002881 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 269482002882 biliverdin IX beta reductase (BVR-B, aka flavin reductase)-like proteins; atypical (a) SDRs; Region: BVR-B_like_SDR_a; cd05244 269482002883 NADH(P)-binding; Region: NAD_binding_10; pfam13460 269482002884 NAD binding site [chemical binding]; other site 269482002885 substrate binding site [chemical binding]; other site 269482002886 putative active site [active] 269482002887 short chain dehydrogenase; Provisional; Region: PRK06197 269482002888 retinol dehydrogenase (retinol-DH), Light dependent Protochlorophyllide (Pchlide) OxidoReductase (LPOR) and related proteins, classical (c) SDRs; Region: retinol-DH_like_SDR_c_like; cd05327 269482002889 putative NAD(P) binding site [chemical binding]; other site 269482002890 active site 269482002891 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 269482002892 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 269482002893 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 269482002894 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 269482002895 GAF domain; Region: GAF; pfam01590 269482002896 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 269482002897 PAS fold; Region: PAS_3; pfam08447 269482002898 putative active site [active] 269482002899 heme pocket [chemical binding]; other site 269482002900 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 269482002901 putative active site [active] 269482002902 heme pocket [chemical binding]; other site 269482002903 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 269482002904 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 269482002905 metal binding site [ion binding]; metal-binding site 269482002906 active site 269482002907 I-site; other site 269482002908 Transposase; Region: HTH_Tnp_1; cl17663 269482002909 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 269482002910 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 269482002911 Manganese catalase, ferritin-like diiron-binding domain; Region: Mn_catalase; cd01051 269482002912 dimanganese center [ion binding]; other site 269482002913 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 269482002914 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 269482002915 HlyD family secretion protein; Region: HlyD_3; pfam13437 269482002916 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 269482002917 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 269482002918 putative substrate translocation pore; other site 269482002919 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 269482002920 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 269482002921 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 269482002922 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 269482002923 Histidine-containing phosphocarrier protein (HPr)-like proteins. HPr is a central component of the bacterial phosphoenolpyruvate sugar phosphotransferase system (PTS). The PTS catalyses the phosphorylation of sugar substrates during their translocation...; Region: PTS-HPr_like; cl00206 269482002924 active site 269482002925 regulatory protein interface [polypeptide binding]; other site 269482002926 regulatory phosphorylation site [posttranslational modification]; other site 269482002927 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 269482002928 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 269482002929 PhnA protein; Region: PhnA; pfam03831 269482002930 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 269482002931 Protein of unknown function (DUF1275); Region: DUF1275; pfam06912 269482002932 Protein of unknown function (DUF2909); Region: DUF2909; pfam11137 269482002933 HipA N-terminal domain; Region: Couple_hipA; pfam13657 269482002934 Toxin module HipA, protein kinase of phosphatidylinositol 3/4-kinase superfamily [General function prediction only]; Region: HipA; COG3550 269482002935 HipA-like N-terminal domain; Region: HipA_N; pfam07805 269482002936 HipA-like C-terminal domain; Region: HipA_C; pfam07804 269482002937 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 269482002938 non-specific DNA binding site [nucleotide binding]; other site 269482002939 salt bridge; other site 269482002940 sequence-specific DNA binding site [nucleotide binding]; other site 269482002941 bifunctional nitric oxide dioxygenase/dihydropteridine reductase 2; Provisional; Region: PRK13289 269482002942 Globins are heme proteins, which bind and transport oxygen. This family summarizes a diverse set of homologous protein domains, including: (1) tetrameric vertebrate hemoglobins, which are the major protein component of erythrocytes and transport oxygen...; Region: globin; cd01040 269482002943 heme-binding site [chemical binding]; other site 269482002944 FAD_NAD(P)H binding domain of flavohemoglobin. Flavohemoglobins have a globin domain containing a B-type heme fused with a ferredoxin reductase-like FAD/NAD-binding domain. Flavohemoglobins detoxify nitric oxide (NO) via an NO dioxygenase reaction. The...; Region: flavohem_like_fad_nad_binding; cd06184 269482002945 FAD binding pocket [chemical binding]; other site 269482002946 FAD binding motif [chemical binding]; other site 269482002947 phosphate binding motif [ion binding]; other site 269482002948 beta-alpha-beta structure motif; other site 269482002949 NAD binding pocket [chemical binding]; other site 269482002950 Heme binding pocket [chemical binding]; other site 269482002951 MgtC family; Region: MgtC; pfam02308 269482002952 FOG: CBS domain [General function prediction only]; Region: COG0517 269482002953 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair_9; cd04622 269482002954 Protein of unknown function (DUF2934); Region: DUF2934; pfam11154 269482002955 MEDS: MEthanogen/methylotroph, DcmR Sensory domain; Region: MEDS; pfam14417 269482002956 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 269482002957 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 269482002958 dimer interface [polypeptide binding]; other site 269482002959 phosphorylation site [posttranslational modification] 269482002960 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 269482002961 ATP binding site [chemical binding]; other site 269482002962 Mg2+ binding site [ion binding]; other site 269482002963 G-X-G motif; other site 269482002964 Response regulator receiver domain; Region: Response_reg; pfam00072 269482002965 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 269482002966 active site 269482002967 phosphorylation site [posttranslational modification] 269482002968 intermolecular recognition site; other site 269482002969 dimerization interface [polypeptide binding]; other site 269482002970 oxidoreductase; Provisional; Region: PRK06128 269482002971 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269482002972 NAD(P) binding site [chemical binding]; other site 269482002973 active site 269482002974 Methyltransferase domain; Region: Methyltransf_23; pfam13489 269482002975 Methyltransferase domain; Region: Methyltransf_11; pfam08241 269482002976 Deoxyribodipyrimidine photolyase [DNA replication, recombination, and repair]; Region: PhrB; COG0415 269482002977 DNA photolyase; Region: DNA_photolyase; pfam00875 269482002978 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cd00312 269482002979 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 269482002980 substrate binding pocket [chemical binding]; other site 269482002981 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 269482002982 Helix-Turn-Helix DNA binding domain of the transcription regulators MlrA and CarA; Region: HTH_MlrA-CarA; cd01104 269482002983 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 269482002984 DNA binding residues [nucleotide binding] 269482002985 Uncharacterized protein related to deoxyribodipyrimidine photolyase [General function prediction only]; Region: COG3046 269482002986 Deoxyribodipyrimidine photo-lyase-related protein; Region: DPRP; pfam04244 269482002987 Predicted NAD/FAD-dependent oxidoreductase [General function prediction only]; Region: COG3380 269482002988 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 269482002989 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 269482002990 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 269482002991 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cl17257 269482002992 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 269482002993 GTP cyclohydrolase I; Provisional; Region: PLN03044 269482002994 active site 269482002995 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 269482002996 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 269482002997 S-adenosylmethionine binding site [chemical binding]; other site 269482002998 Protein of unknown function (DUF1365); Region: DUF1365; pfam07103 269482002999 Flavin containing amine oxidoreductase; Region: Amino_oxidase; pfam01593 269482003000 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 269482003001 Lipocalin-like domain; Region: Lipocalin_2; pfam08212 269482003002 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 269482003003 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 269482003004 Protein of unknown function (DUF1295); Region: DUF1295; cl17837 269482003005 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5343 269482003006 Anti-sigma-K factor rskA; Region: RskA; pfam10099 269482003007 RNA polymerase sigma factor; Provisional; Region: PRK12514 269482003008 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 269482003009 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cl17257 269482003010 DNA binding residues [nucleotide binding] 269482003011 Lipocalin-like domain; Region: Lipocalin_2; pfam08212 269482003012 Carbonic anhydrases (CA) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism in which the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide is followed by the regeneration of an...; Region: beta_CA_cladeB; cd00884 269482003013 active site clefts [active] 269482003014 zinc binding site [ion binding]; other site 269482003015 dimer interface [polypeptide binding]; other site 269482003016 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 269482003017 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 269482003018 conserved cys residue [active] 269482003019 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 269482003020 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 269482003021 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 269482003022 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 269482003023 active site 269482003024 phosphorylation site [posttranslational modification] 269482003025 intermolecular recognition site; other site 269482003026 dimerization interface [polypeptide binding]; other site 269482003027 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 269482003028 DNA binding residues [nucleotide binding] 269482003029 dimerization interface [polypeptide binding]; other site 269482003030 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 269482003031 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 269482003032 ATP binding site [chemical binding]; other site 269482003033 Mg2+ binding site [ion binding]; other site 269482003034 G-X-G motif; other site 269482003035 Domain of unknown function (DUF3331); Region: DUF3331; pfam11811 269482003036 Response regulator receiver domain; Region: Response_reg; pfam00072 269482003037 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 269482003038 active site 269482003039 phosphorylation site [posttranslational modification] 269482003040 intermolecular recognition site; other site 269482003041 dimerization interface [polypeptide binding]; other site 269482003042 ChrR Cupin-like domain; Region: Cupin_7; pfam12973 269482003043 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 269482003044 Helix-turn-helix domain; Region: HTH_18; pfam12833 269482003045 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 269482003046 2-dehydropantoate 2-reductase; Provisional; Region: PRK12921 269482003047 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 269482003048 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 269482003049 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 269482003050 putative substrate translocation pore; other site 269482003051 Major Facilitator Superfamily; Region: MFS_1; pfam07690 269482003052 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 269482003053 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 269482003054 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 269482003055 dimerization interface [polypeptide binding]; other site 269482003056 substrate binding pocket [chemical binding]; other site 269482003057 Predicted carbamoyl transferase, NodU family [Posttranslational modification, protein turnover, chaperones]; Region: COG2192 269482003058 Carbamoyltransferase; Region: CmcH_NodU; pfam02543 269482003059 High-affinity nickel permease [Inorganic ion transport and metabolism]; Region: HoxN; COG3376 269482003060 Ni,Fe-hydrogenase I small subunit [Energy production and conversion]; Region: HyaA; COG1740 269482003061 Tat (twin-arginine translocation) pathway signal sequence; Region: TAT_signal_seq; TIGR01409 269482003062 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; pfam01058 269482003063 Ni,Fe-hydrogenase I large subunit [Energy production and conversion]; Region: HyaB; COG0374 269482003064 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; pfam00374 269482003065 Ni/Fe-hydrogenase, b-type cytochrome subunit; Region: CytB-hydogenase; TIGR02125 269482003066 coenzyme F420-reducing hydrogenase delta subunit (putative coenzyme F420 hydrogenase processing subunit); Region: frhD; TIGR00130 269482003067 Endopeptidases belonging to membrane-bound hydrogenases group. These hydrogenases transfer electrons from H2 to a cytochrome that is bound to a membrane-located complex coupling electron transfer to transmembrane proton translocation. Endopeptidase HybD...; Region: H2MP_MemB-H2up; cd06062 269482003068 putative substrate-binding site; other site 269482003069 nickel binding site [ion binding]; other site 269482003070 HupF/HypC family; Region: HupF_HypC; pfam01455 269482003071 HyaE family; HyaE is also called HupG and HoxO. They are proteins serving a critical role in the assembly of multimeric [NiFe] hydrogenases, the enzymes that catalyze the oxidation of molecular hydrogen to enable microorganisms to utilize hydrogen as the...; Region: HyaE; cd02965 269482003072 HupH hydrogenase expression protein, C-terminal conserved region; Region: HupH_C; pfam04809 269482003073 Rubredoxin; nonheme iron binding domains containing a [Fe(SCys)4] center. Rubredoxins are small nonheme iron proteins. The iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc. They are...; Region: rubredoxin; cd00730 269482003074 Rubredoxin; Region: Rubredoxin; pfam00301 269482003075 iron binding site [ion binding]; other site 269482003076 Protein of unknown function (DUF3457); Region: DUF3457; pfam11939 269482003077 Coenzyme F420-reducing hydrogenase, alpha subunit [Energy production and conversion]; Region: FrhA; COG3259 269482003078 Zn finger protein HypA/HybF (possibly regulating hydrogenase expression) [General function prediction only]; Region: HybF; COG0375 269482003079 Hydrogenase expression/synthesis hypA family; Region: HypA; pfam01155 269482003080 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 269482003081 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypF; COG0068 269482003082 HupF/HypC family; Region: HupF_HypC; pfam01455 269482003083 hydrogenase isoenzymes formation protein HypD; Provisional; Region: PRK15062 269482003084 hydrogenase expression/formation protein HypD; Region: hypD; TIGR00075 269482003085 HypE (Hydrogenase expression/formation protein). HypE is involved in Ni-Fe hydrogenase biosynthesis. HypE dehydrates its own carbamoyl moiety in an ATP-dependent process to yield the enzyme thiocyanate. The N-terminal domain of HypE is related to the...; Region: HypE; cd02197 269482003086 dimerization interface [polypeptide binding]; other site 269482003087 hydrogenase expression/formation protein HypE; Region: hypE; TIGR02124 269482003088 ATP binding site [chemical binding]; other site 269482003089 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 269482003090 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 269482003091 active site 269482003092 phosphorylation site [posttranslational modification] 269482003093 intermolecular recognition site; other site 269482003094 dimerization interface [polypeptide binding]; other site 269482003095 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 269482003096 Walker A motif; other site 269482003097 ATP binding site [chemical binding]; other site 269482003098 Walker B motif; other site 269482003099 arginine finger; other site 269482003100 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 269482003101 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; pfam01058 269482003102 Ni,Fe-hydrogenase I large subunit [Energy production and conversion]; Region: HyaB; COG0374 269482003103 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; pfam00374 269482003104 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 269482003105 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 269482003106 dimer interface [polypeptide binding]; other site 269482003107 phosphorylation site [posttranslational modification] 269482003108 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 269482003109 ATP binding site [chemical binding]; other site 269482003110 Mg2+ binding site [ion binding]; other site 269482003111 G-X-G motif; other site 269482003112 Beta-ketoacyl synthase, N-terminal domain; Region: Ketoacyl-synt_2; pfam13723 269482003113 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 269482003114 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cl17185 269482003115 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 269482003116 putative acyl-acceptor binding pocket; other site 269482003117 Phosphopantetheine attachment site; Region: PP-binding; cl09936 269482003118 acyl carrier protein; Provisional; Region: PRK05350 269482003119 Predicted membrane protein [Function unknown]; Region: COG4648 269482003120 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 269482003121 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 269482003122 AMP binding site [chemical binding]; other site 269482003123 active site 269482003124 acyl-activating enzyme (AAE) consensus motif; other site 269482003125 CoA binding site [chemical binding]; other site 269482003126 FabA/Z, beta-hydroxyacyl-acyl carrier protein (ACP)-dehydratases: One of several distinct enzyme types of the dissociative, type II, fatty acid synthase system (found in bacteria and plants) required to complete successive cycles of fatty acid elongation; Region: FabA_FabZ; cd00493 269482003127 active site 2 [active] 269482003128 dimer interface [polypeptide binding]; other site 269482003129 active site 1 [active] 269482003130 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 269482003131 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 269482003132 Ligand binding site; other site 269482003133 Putative Catalytic site; other site 269482003134 DXD motif; other site 269482003135 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 269482003136 putative acyl-acceptor binding pocket; other site 269482003137 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 269482003138 active sites [active] 269482003139 tetramer interface [polypeptide binding]; other site 269482003140 4-hydroxybenzoyl-CoA thioesterase (4HBT). Catalyzes the final step in the 4-chlorobenzoate degradation pathway in which 4-chlorobenzoate is converted to 4-hydroxybenzoate in certain soil-dwelling bacteria. 4HBT forms a homotetramer with four active sites; Region: 4HBT; cd00586 269482003141 active site 269482003142 Predicted exporter [General function prediction only]; Region: COG4258 269482003143 Sterol-sensing domain of SREBP cleavage-activation; Region: Sterol-sensing; pfam12349 269482003144 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK09185 269482003145 Beta-ketoacyl-acyl carrier protein (ACP) synthase (KAS), type I and II. KASs are responsible for the elongation steps in fatty acid biosynthesis. KASIII catalyses the initial condensation and KAS I and II catalyze further elongation steps by Claisen...; Region: KAS_I_II; cd00834 269482003146 dimer interface [polypeptide binding]; other site 269482003147 active site 269482003148 Domain of unknown function, appears to be related to a diverse group of beta-hydroxydecanoyl ACP dehydratases (FabA) and beta-hydroxyacyl ACP dehydratases (FabZ). This group appears to lack the conserved active site histidine of FabA and FabZ; Region: FabA_like; cd01289 269482003149 putative active site 1 [active] 269482003150 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 269482003151 3-oxoacyl-(acyl-carrier-protein) reductase, putative; Region: fabG_rel; TIGR01831 269482003152 NAD(P) binding site [chemical binding]; other site 269482003153 homotetramer interface [polypeptide binding]; other site 269482003154 homodimer interface [polypeptide binding]; other site 269482003155 active site 269482003156 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK09116 269482003157 Beta-ketoacyl-acyl carrier protein (ACP) synthase (KAS), type I and II. KASs are responsible for the elongation steps in fatty acid biosynthesis. KASIII catalyses the initial condensation and KAS I and II catalyze further elongation steps by Claisen...; Region: KAS_I_II; cd00834 269482003158 dimer interface [polypeptide binding]; other site 269482003159 active site 269482003160 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK07967 269482003161 Beta-ketoacyl-acyl carrier protein (ACP) synthase (KAS), type I and II. KASs are responsible for the elongation steps in fatty acid biosynthesis. KASIII catalyses the initial condensation and KAS I and II catalyze further elongation steps by Claisen...; Region: KAS_I_II; cd00834 269482003162 dimer interface [polypeptide binding]; other site 269482003163 active site 269482003164 Putative heavy-metal-binding; Region: YbjQ_1; cl00426 269482003165 Methyltransferase domain; Region: Methyltransf_23; pfam13489 269482003166 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 269482003167 S-adenosylmethionine binding site [chemical binding]; other site 269482003168 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 269482003169 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 269482003170 Rubrerythrin, ferritin-like diiron-binding domain; Region: Rubrerythrin; cd01041 269482003171 Rubrerythrin [Energy production and conversion]; Region: COG1592 269482003172 binuclear metal center [ion binding]; other site 269482003173 Peptidase propeptide and YPEB domain; Region: PepSY_2; pfam13670 269482003174 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cl00859 269482003175 DNA-binding transcriptional activator CusR; Provisional; Region: PRK09836 269482003176 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 269482003177 active site 269482003178 phosphorylation site [posttranslational modification] 269482003179 intermolecular recognition site; other site 269482003180 dimerization interface [polypeptide binding]; other site 269482003181 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cl17355 269482003182 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 269482003183 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 269482003184 dimer interface [polypeptide binding]; other site 269482003185 phosphorylation site [posttranslational modification] 269482003186 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 269482003187 ATP binding site [chemical binding]; other site 269482003188 Mg2+ binding site [ion binding]; other site 269482003189 G-X-G motif; other site 269482003190 Thioredoxin (TRX)-like [2Fe-2S] Ferredoxin (Fd) family; composed of [2Fe-2S] Fds with a TRX fold (TRX-like Fds) and proteins containing domains similar to TRX-like Fd including formate dehydrogenases, NAD-reducing hydrogenases and the subunit E of NADH:...; Region: TRX_Fd_family; cd02980 269482003191 dimer interface [polypeptide binding]; other site 269482003192 [2Fe-2S] cluster binding site [ion binding]; other site 269482003193 Ferredoxin-like protein [Energy production and conversion]; Region: FixX; COG2440 269482003194 oxidoreductase; Provisional; Region: PRK10015 269482003195 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 269482003196 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 269482003197 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_alpha; cd01715 269482003198 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 269482003199 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_beta; cd01714 269482003200 Ligand binding site [chemical binding]; other site 269482003201 Electron transfer flavoprotein domain; Region: ETF; pfam01012 269482003202 nitrogenase stabilizing/protective protein; Provisional; Region: nifW; PRK00810 269482003203 Serine acetyltransferase [Amino acid transport and metabolism]; Region: CysE; COG1045 269482003204 Serine acetyltransferase (SAT): SAT catalyzes the CoA-dependent acetylation of the side chain hydroxyl group of L-serine to form O-acetylserine, as the first step of a two-step biosynthetic pathway in bacteria and plants leading to the formation of...; Region: LbH_SAT; cd03354 269482003205 trimer interface [polypeptide binding]; other site 269482003206 active site 269482003207 substrate binding site [chemical binding]; other site 269482003208 CoA binding site [chemical binding]; other site 269482003209 homocitrate synthase NifV; Region: nifV_homocitr; TIGR02660 269482003210 Streptomyces rubellomurinus FrbC and related proteins, catalytic TIM barrel domain; Region: DRE_TIM_NifV; cd07939 269482003211 active site 269482003212 catalytic residues [active] 269482003213 metal binding site [ion binding]; metal-binding site 269482003214 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 269482003215 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 269482003216 catalytic loop [active] 269482003217 iron binding site [ion binding]; other site 269482003218 chaperone protein HscA; Provisional; Region: hscA; PRK05183 269482003219 Nucleotide-binding domain of HscA and similar proteins; Region: HscA_like_NBD; cd10236 269482003220 nucleotide binding site [chemical binding]; other site 269482003221 putative NEF/HSP70 interaction site [polypeptide binding]; other site 269482003222 SBD interface [polypeptide binding]; other site 269482003223 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 269482003224 iron-sulfur cluster insertion protein ErpA; Provisional; Region: PRK13623 269482003225 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 269482003226 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 269482003227 trimerization site [polypeptide binding]; other site 269482003228 active site 269482003229 Nif-specific regulatory protein; Region: nifA; TIGR01817 269482003230 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 269482003231 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 269482003232 Walker A motif; other site 269482003233 ATP binding site [chemical binding]; other site 269482003234 Walker B motif; other site 269482003235 arginine finger; other site 269482003236 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 269482003237 nitrogenase cofactor biosynthesis protein NifB; Region: nifB; TIGR01290 269482003238 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 269482003239 FeS/SAM binding site; other site 269482003240 NifB belongs to a family of iron-molybdenum cluster-binding proteins that includes NifX, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of the dinitrogenase enzyme as part of...; Region: NifB; cd00852 269482003241 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 269482003242 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 269482003243 LRV protein FeS4 cluster; Region: LRV_FeS; pfam05484 269482003244 NifZ domain; Region: NifZ; pfam04319 269482003245 NifZ domain; Region: NifZ; pfam04319 269482003246 Protein of unknown function (DUF3024); Region: DUF3024; pfam11225 269482003247 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 269482003248 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 269482003249 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 269482003250 catalytic residue [active] 269482003251 NifT/FixU protein; Region: NifT; pfam06988 269482003252 DegT/DnrJ/EryC1/StrS aminotransferase family; Region: DegT_DnrJ_EryC1; pfam01041 269482003253 3-amino-5-hydroxybenzoic acid synthase family (AHBA_syn). AHBA_syn family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The members of this CD are involved in various biosynthetic pathways for secondary...; Region: AHBA_syn; cd00616 269482003254 inhibitor-cofactor binding pocket; inhibition site 269482003255 pyridoxal 5'-phosphate binding site [chemical binding]; other site 269482003256 catalytic residue [active] 269482003257 SIR2-like domain; Region: SIR2_2; pfam13289 269482003258 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 269482003259 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 269482003260 catalytic loop [active] 269482003261 iron binding site [ion binding]; other site 269482003262 putative regulatory protein, FmdB family; Region: CxxC_CxxC_SSSS; TIGR02605 269482003263 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 269482003264 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cl00125 269482003265 active site residue [active] 269482003266 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 269482003267 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 269482003268 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 269482003269 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 269482003270 Truncated hemoglobins (trHbs) are a family of oxygen-binding heme proteins found in cyanobacteria, eubacteria, unicellular eukaryotes, and plants. The truncated hemoglobins have a characteristic two-over-two alpha helical folding pattern that is distinct...; Region: Trunc_globin; cd00454 269482003271 apolar tunnel; other site 269482003272 heme binding site [chemical binding]; other site 269482003273 dimerization interface [polypeptide binding]; other site 269482003274 nitrogenase reductase; Reviewed; Region: nifH; PRK13234 269482003275 NifH gene encodes component II (iron protein) of nitrogenase. Nitrogenase is responsible for the biological nitrogen fixation, i.e. reduction of molecular nitrogen to ammonia. NifH consists of two oxygen-sensitive metallosulfur proteins: the...; Region: NifH; cd02040 269482003276 Nucleotide-binding sites [chemical binding]; other site 269482003277 Walker A motif; other site 269482003278 Switch I region of nucleotide binding site; other site 269482003279 Fe4S4 binding sites [ion binding]; other site 269482003280 Switch II region of nucleotide binding site; other site 269482003281 Nitrogenase molybdenum-iron protein, alpha and beta chains [Energy production and conversion]; Region: NifD; COG2710 269482003282 Nitrogenase_MoFe_alpha_II: Nitrogenase MoFe protein, beta subunit. A group of proteins similar to the alpha subunit of the MoFe protein of the molybdenum (Mo-) nitrogenase. The nitrogenase enzyme catalyzes the ATP-dependent reduction of dinitrogen to...; Region: Nitrogenase_MoFe_alpha; cd01976 269482003283 MoFe protein alpha/beta subunit interactions; other site 269482003284 Alpha subunit P cluster binding residues; other site 269482003285 FeMoco binding residues [chemical binding]; other site 269482003286 MoFe protein alpha subunit/Fe protein contacts; other site 269482003287 MoFe protein dimer/ dimer interactions; other site 269482003288 nitrogenase molybdenum-iron protein beta chain; Region: nifK; TIGR01286 269482003289 Domain of unknown function (DUF3364); Region: DUF3364; pfam11844 269482003290 Nitrogenase_MoFe_beta: Nitrogenase MoFe protein, beta subunit. The nitrogenase enzyme catalyzes the ATP-dependent reduction of dinitrogen to ammonia. The Molybdenum (Mo-) nitrogenase is the most widespread and best characterized of these systems; Region: Nitrogenase_MoFe_beta; cd01974 269482003291 MoFe protein beta/alpha subunit interactions; other site 269482003292 Beta subunit P cluster binding residues; other site 269482003293 MoFe protein beta subunit/Fe protein contacts; other site 269482003294 MoFe protein dimer/ dimer interactions; other site 269482003295 nitrogenase molybdenum-cofactor biosynthesis protein NifE; Provisional; Region: PRK14478 269482003296 nitrogenase molybdenum-iron cofactor biosynthesis protein NifE; Region: nifE; TIGR01283 269482003297 Nitrogenase_nifN1: A subgroup of the NifN subunit of the NifEN complex: NifN forms an alpha2beta2 tetramer with NifE. NifN and nifE are structurally homologous to nitrogenase MoFe protein beta and alpha subunits respectively. NifEN participates in the...; Region: Nitrogenase_NifN_1; cd01966 269482003298 Nitrogenase component 1 type Oxidoreductase; Region: Oxidored_nitro; pfam00148 269482003299 NifX belongs to a family of iron-molybdenum cluster-binding proteins that includes NifB, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of the dinitrogenase enzyme. The protein...; Region: NifX; cd00853 269482003300 probable nitrogen fixation protein; Region: TIGR02935 269482003301 Rop-like; Region: Rop-like; pfam05082 269482003302 ferredoxin III, nif-specific; Region: fdxN_nitrog; TIGR02936 269482003303 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 269482003304 NifQ; Region: NifQ; pfam04891 269482003305 superfamily containing globins and truncated hemoglobins; Region: globin_like; cl00280 269482003306 heme-binding site [chemical binding]; other site 269482003307 Uncharacterized protein conserved in bacteria (DUF2325); Region: DUF2325; pfam10087 269482003308 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 269482003309 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 269482003310 dimer interface [polypeptide binding]; other site 269482003311 conserved gate region; other site 269482003312 putative PBP binding loops; other site 269482003313 ABC-ATPase subunit interface; other site 269482003314 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 269482003315 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 269482003316 ABC-type thiamine transport system, ATPase component [Coenzyme metabolism]; Region: ThiQ; COG3840 269482003317 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 269482003318 Walker A/P-loop; other site 269482003319 ATP binding site [chemical binding]; other site 269482003320 Q-loop/lid; other site 269482003321 ABC transporter signature motif; other site 269482003322 Walker B; other site 269482003323 D-loop; other site 269482003324 H-loop/switch region; other site 269482003325 DNA-binding transcriptional regulator ModE; Provisional; Region: PRK10676 269482003326 N-terminal domain of molybdenum-binding protein [General function prediction only]; Region: ModE; COG2005 269482003327 Molybdopterin-binding protein [Coenzyme metabolism]; Region: MopI; COG3585 269482003328 Molybdopterin-binding protein [Coenzyme metabolism]; Region: MopI; COG3585 269482003329 Phenazine biosynthesis-like protein; Region: PhzC-PhzF; pfam02567 269482003330 Cupin domain; Region: Cupin_2; cl17218 269482003331 Protein of unknown function (DUF1778); Region: DUF1778; pfam08681 269482003332 DNA-binding transcriptional regulator CynR; Provisional; Region: PRK11242 269482003333 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 269482003334 The C-terminal substrate-binding domain of the LysR-type transcriptional regulator CynR, contains the type 2 periplasmic binding fold; Region: PBP2_CynR; cd08425 269482003335 dimerization interface [polypeptide binding]; other site 269482003336 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 269482003337 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 269482003338 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 269482003339 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 269482003340 cyanate hydratase; Validated; Region: PRK02866 269482003341 Cyanase C-terminal domain. Cyanase (Cyanate lyase) is responsible for the hydrolysis of cyanate. It catalyzes the reaction of cyanate with bicarbonate to produce ammonia and carbon dioxide. This allows organisms that possess the enzyme to overcome the...; Region: Cyanase_C; cd00559 269482003342 oligomer interface [polypeptide binding]; other site 269482003343 active site 269482003344 Carbonic anhydrases (CA) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism in which the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide is followed by the regeneration of an...; Region: beta_CA_cladeB; cd00884 269482003345 active site clefts [active] 269482003346 zinc binding site [ion binding]; other site 269482003347 dimer interface [polypeptide binding]; other site 269482003348 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 269482003349 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 269482003350 DNA-binding site [nucleotide binding]; DNA binding site 269482003351 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 269482003352 pyridoxal 5'-phosphate binding site [chemical binding]; other site 269482003353 homodimer interface [polypeptide binding]; other site 269482003354 catalytic residue [active] 269482003355 MSMEG_0572 family protein; Region: MSMEG_0572_fam; TIGR04044 269482003356 Predicted amidohydrolase [General function prediction only]; Region: COG0388 269482003357 Nitrilases, cyanide hydratase (CH)s, and similar proteins (class 1 nitrilases); Region: nitrilases_CHs; cd07564 269482003358 putative active site [active] 269482003359 catalytic triad [active] 269482003360 putative dimer interface [polypeptide binding]; other site 269482003361 radical SAM protein, MSMEG_0568 family; Region: rSAM_MSMEG_0568; TIGR04043 269482003362 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 269482003363 FeS/SAM binding site; other site 269482003364 Acetyltransferase (GNAT) domain; Region: Acetyltransf_5; cl17496 269482003365 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 269482003366 Coenzyme A binding pocket [chemical binding]; other site 269482003367 AIR synthase-related protein, sll0787 family; Region: AIR_rel_sll0787; TIGR04049 269482003368 AIR synthase (PurM) related protein, subgroup 3 of unknown function. The family of PurM related proteins includes Hydrogen expression/formation protein HypE, AIR synthases, FGAM synthase and Selenophosphate synthetase (SelD). They all contain two...; Region: PurM-like3; cd02192 269482003369 dimerization interface [polypeptide binding]; other site 269482003370 putative ATP binding site [chemical binding]; other site 269482003371 glycosyltransferase, MSMEG_0565 family; Region: MSMEG_0565_glyc; TIGR04047 269482003372 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 269482003373 MSMEG_0570 family protein; Region: MSMEG_0570_fam; TIGR04042 269482003374 flavin-dependent oxidoreductase, MSMEG_0569 family; Region: MSMEG_0569_nitr; TIGR04046 269482003375 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 269482003376 probable biosynthetic protein, Pnap_2097 family; Region: biosn_Pnap_2097; TIGR04099 269482003377 Coenzyme B12-dependent-methylmalonyl coenzyme A (CoA) mutase (MCM)-like family; contains proteins similar to MCM, and the large subunit of Streptomyces coenzyme B12-dependent isobutyryl-CoA mutase (ICM). MCM catalyzes the isomerization of...; Region: MM_CoA_mutase; cl00817 269482003378 methylmalonyl-CoA mutase; Reviewed; Region: PRK09426 269482003379 methylmalonyl CoA mutase B12 binding domain. This domain binds to B12 (adenosylcobamide), which initiates the conversion of succinyl CoA and methylmalonyl CoA by forming an adenosyl radical, which then undergoes a rearrangement exchanging a hydrogen atom...; Region: MM_CoA_mut_B12_BD; cd02071 269482003380 B12 binding site [chemical binding]; other site 269482003381 cobalt ligand [ion binding]; other site 269482003382 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 269482003383 DNA-binding site [nucleotide binding]; DNA binding site 269482003384 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 269482003385 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 269482003386 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 269482003387 Bacterial protein of unknown function (DUF934); Region: DUF934; pfam06073 269482003388 Sulfite reductase, beta subunit (hemoprotein) [Inorganic ion transport and metabolism]; Region: CysI; COG0155 269482003389 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 269482003390 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 269482003391 PIN domain of ribonucleases (toxins), VapC, FitB, and PAE0151 of bacterial and archaeal toxin/antitoxin-like operons, and other similar homologs; Region: PIN_VapC-like; cd09861 269482003392 putative active site [active] 269482003393 RES domain; Region: RES; smart00953 269482003394 Phage integrase protein; Region: DUF3701; pfam12482 269482003395 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 269482003396 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 269482003397 active site 269482003398 DNA binding site [nucleotide binding] 269482003399 Int/Topo IB signature motif; other site 269482003400 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 269482003401 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 269482003402 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 269482003403 HlyD family secretion protein; Region: HlyD_3; pfam13437 269482003404 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 269482003405 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 269482003406 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 269482003407 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 269482003408 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 269482003409 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 269482003410 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 269482003411 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 269482003412 Transposase; Region: HTH_Tnp_1; pfam01527 269482003413 Zinc-dependent metalloprotease. This super-family of metalloproteases contains two major branches, the astacin-like proteases and the adamalysin/reprolysin-like proteases. Both branches have wide phylogenetic distribution, and contain sub-families, which...; Region: ZnMc; cl00064 269482003414 active site 269482003415 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 269482003416 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 269482003417 Phage integrase, N-terminal SAM-like domain; Region: Phage_integr_N; cl12235 269482003418 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 269482003419 active site 269482003420 DNA binding site [nucleotide binding] 269482003421 Int/Topo IB signature motif; other site 269482003422 Domain of unknown function (DUF4158); Region: DUF4158; pfam13700 269482003423 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; pfam01526 269482003424 High-affinity nickel-transport protein; Region: NicO; cl00964 269482003425 High-affinity nickel-transport protein; Region: NicO; cl00964 269482003426 Alcaligenes xylosoxidans NreA and related domains; this domain family was previously known as part of DUF156; Region: NreA-like_DUF156; cd10154 269482003427 putative homodimer interface [polypeptide binding]; other site 269482003428 putative homotetramer interface [polypeptide binding]; other site 269482003429 putative metal binding site [ion binding]; other site 269482003430 putative homodimer-homodimer interface [polypeptide binding]; other site 269482003431 putative allosteric switch controlling residues; other site 269482003432 Phage integrase protein; Region: DUF3701; pfam12482 269482003433 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 269482003434 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 269482003435 INT_SG1, DNA breaking-rejoining enzymes, integrase/recombinases subgroup 1, C-terminal catalytic domain. The CD contains mainly predicted integrase/recombinase and site-specific XerD recombinases. The members of this CD are found predominantly in...; Region: INT_SG1_C; cd01183 269482003436 Int/Topo IB signature motif; other site 269482003437 Domain of unknown function (DUF4158); Region: DUF4158; pfam13700 269482003438 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; pfam01526 269482003439 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 269482003440 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 269482003441 dimer interface [polypeptide binding]; other site 269482003442 conserved gate region; other site 269482003443 putative PBP binding loops; other site 269482003444 ABC-ATPase subunit interface; other site 269482003445 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 269482003446 Walker A/P-loop; other site 269482003447 ATP binding site [chemical binding]; other site 269482003448 Q-loop/lid; other site 269482003449 tungstate ABC transporter binding protein WtpA; Region: tungstate_WtpA; TIGR03730 269482003450 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 269482003451 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 269482003452 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 269482003453 active site 269482003454 metal binding site [ion binding]; metal-binding site 269482003455 cytochrome c-type biogenesis protein CcsB; Region: cytochr_II_ccsB; TIGR03144 269482003456 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cl00125 269482003457 active site residue [active] 269482003458 Chromate resistance exported protein; Region: Chrome_Resist; pfam09828 269482003459 Chromate transport protein ChrA [Inorganic ion transport and metabolism]; Region: ChrA; COG2059 269482003460 chromate transporter, chromate ion transporter (CHR) family; Region: 2A51; TIGR00937 269482003461 Chromate transporter; Region: Chromate_transp; pfam02417 269482003462 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 269482003463 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 269482003464 Chromate transport protein ChrA [Inorganic ion transport and metabolism]; Region: ChrA; COG2059 269482003465 Chromate transporter; Region: Chromate_transp; pfam02417 269482003466 Protein of unknown function (DUF2874); Region: DUF2874; pfam11396 269482003467 Chromate resistance exported protein; Region: Chrome_Resist; pfam09828 269482003468 Domain of Unknown Function (DUF1259); Region: DUF1529; pfam07485 269482003469 Domain of Unknown Function (DUF1259); Region: DUF1529; pfam07485 269482003470 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 269482003471 Laminin G domain; Laminin G-like domains are usually Ca++ mediated receptors that can have binding sites for steroids, beta1 integrins, heparin, sulfatides, fibulin-1, and alpha-dystroglycans. Proteins that contain LamG domains serve a variety of...; Region: LamG; cl17353 269482003472 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 269482003473 catalytic site [active] 269482003474 Domain of unknown function (DUF4158); Region: DUF4158; pfam13700 269482003475 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; pfam01526 269482003476 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 269482003477 Protein of unknown function (DUF1778); Region: DUF1778; pfam08681 269482003478 Hypothetical protein (DUF2513); Region: DUF2513; pfam10711 269482003479 Predicted nucleotide-binding protein containing TIR-like domain; Region: TIR-like; pfam10137 269482003480 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 269482003481 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 269482003482 active site 269482003483 DNA binding site [nucleotide binding] 269482003484 Int/Topo IB signature motif; other site 269482003485 Integrase core domain; Region: rve; pfam00665 269482003486 Mu transposase, C-terminal; Region: Mu-transpos_C; pfam09299 269482003487 Bacterial TniB protein; Region: TniB; pfam05621 269482003488 AAA domain; Region: AAA_22; pfam13401 269482003489 TniQ; Region: TniQ; pfam06527 269482003490 Transposase; Region: HTH_Tnp_1; pfam01527 269482003491 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 269482003492 putative transposase OrfB; Reviewed; Region: PHA02517 269482003493 Integrase core domain; Region: rve; pfam00665 269482003494 Integrase core domain; Region: rve_3; pfam13683 269482003495 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 269482003496 PHP domain; Region: PHP; pfam02811 269482003497 active site 269482003498 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 269482003499 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 269482003500 trimer interface [polypeptide binding]; other site 269482003501 eyelet of channel; other site 269482003502 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 269482003503 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 269482003504 Insertion element 4 transposase N-terminal; Region: Nterm_IS4; pfam13006 269482003505 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 269482003506 Transposase; Region: HTH_Tnp_1; pfam01527 269482003507 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 269482003508 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 269482003509 Integrase core domain; Region: rve; pfam00665 269482003510 Transposase; Region: DEDD_Tnp_IS110; pfam01548 269482003511 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 269482003512 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 269482003513 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 269482003514 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 269482003515 metal binding site [ion binding]; metal-binding site 269482003516 active site 269482003517 I-site; other site 269482003518 BON domain; Region: BON; pfam04972 269482003519 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 269482003520 dinuclear metal binding motif [ion binding]; other site 269482003521 Nodulin-21 and CCC1-related protein family; Region: Nodulin-21_like_2; cd02433 269482003522 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 269482003523 Helix-turn-helix domain; Region: HTH_38; pfam13936 269482003524 Integrase core domain; Region: rve; pfam00665 269482003525 Domain of unknown function (DUF3331); Region: DUF3331; pfam11811 269482003526 H-NS histone family; Region: Histone_HNS; pfam00816 269482003527 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 269482003528 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 269482003529 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 269482003530 active site 269482003531 phosphorylation site [posttranslational modification] 269482003532 intermolecular recognition site; other site 269482003533 dimerization interface [polypeptide binding]; other site 269482003534 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 269482003535 DNA binding residues [nucleotide binding] 269482003536 dimerization interface [polypeptide binding]; other site 269482003537 Cytochrome c; Region: Cytochrom_C; cl11414 269482003538 Cytochrome c; Region: Cytochrom_C; cl11414 269482003539 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 269482003540 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 269482003541 Cytochrome c; Region: Cytochrom_C; pfam00034 269482003542 Heme/copper-type cytochrome/quinol oxidases, subunit 2 [Energy production and conversion]; Region: CyoA; COG1622 269482003543 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 269482003544 ba3-like heme-copper oxidase subunit I. The ba3 family of heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and some archaea which catalyze the reduction of O2 and simultaneously pump protons across the...; Region: ba3-like_Oxidase_I; cd01660 269482003545 Putative D-pathway homolog; other site 269482003546 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 269482003547 Low-spin heme binding site [chemical binding]; other site 269482003548 Subunit I/II interface [polypeptide binding]; other site 269482003549 Putative Q-pathway; other site 269482003550 Putative alternate electron transfer pathway; other site 269482003551 Putative water exit pathway; other site 269482003552 Binuclear center (active site) [active] 269482003553 Putative K-pathway homolog; other site 269482003554 Putative proton exit pathway; other site 269482003555 Subunit I/IIa interface [polypeptide binding]; other site 269482003556 Electron transfer pathway; other site 269482003557 Cytochrome c553 [Energy production and conversion]; Region: COG2863 269482003558 Cytochrome c; Region: Cytochrom_C; cl11414 269482003559 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 269482003560 Integrase core domain; Region: rve; pfam00665 269482003561 Transposase; Region: DEDD_Tnp_IS110; pfam01548 269482003562 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 269482003563 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 269482003564 acetoacetyl-CoA reductase; Region: AcAcCoA_reduct; TIGR01829 269482003565 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 269482003566 NAD(P) binding site [chemical binding]; other site 269482003567 homotetramer interface [polypeptide binding]; other site 269482003568 homodimer interface [polypeptide binding]; other site 269482003569 active site 269482003570 propionate/acetate kinase; Provisional; Region: PRK12379 269482003571 Acetokinase family; Region: Acetate_kinase; cl17229 269482003572 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK07533 269482003573 Helix-turn-helix domain; Region: HTH_18; pfam12833 269482003574 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 269482003575 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 269482003576 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 269482003577 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 269482003578 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 269482003579 HlyD family secretion protein; Region: HlyD_3; pfam13437 269482003580 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 269482003581 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 269482003582 Walker A/P-loop; other site 269482003583 ATP binding site [chemical binding]; other site 269482003584 Q-loop/lid; other site 269482003585 ABC transporter signature motif; other site 269482003586 Walker B; other site 269482003587 D-loop; other site 269482003588 H-loop/switch region; other site 269482003589 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 269482003590 Walker A/P-loop; other site 269482003591 ATP binding site [chemical binding]; other site 269482003592 Q-loop/lid; other site 269482003593 ABC transporter signature motif; other site 269482003594 Walker B; other site 269482003595 D-loop; other site 269482003596 H-loop/switch region; other site 269482003597 ABC-2 family transporter protein; Region: ABC2_membrane_2; pfam12679 269482003598 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 269482003599 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 269482003600 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 269482003601 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 269482003602 Protein of unknown function (DUF3141); Region: DUF3141; pfam11339 269482003603 phosphate acetyltransferase; Provisional; Region: PRK11890 269482003604 bifunctional enoyl-CoA hydratase/phosphate acetyltransferase; Validated; Region: PRK08190 269482003605 propionate/acetate kinase; Provisional; Region: PRK12379 269482003606 Acetokinase family; Region: Acetate_kinase; cl17229 269482003607 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK07533 269482003608 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 269482003609 NAD binding site [chemical binding]; other site 269482003610 homotetramer interface [polypeptide binding]; other site 269482003611 homodimer interface [polypeptide binding]; other site 269482003612 substrate binding site [chemical binding]; other site 269482003613 active site 269482003614 Transposase DDE domain; Region: DDE_Tnp_1_5; pfam13737 269482003615 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 269482003616 TniQ; Region: TniQ; pfam06527 269482003617 Phage integrase protein; Region: DUF3701; pfam12482 269482003618 Phage integrase, N-terminal SAM-like domain; Region: Phage_integr_N2; pfam13495 269482003619 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 269482003620 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 269482003621 active site 269482003622 DNA binding site [nucleotide binding] 269482003623 Int/Topo IB signature motif; other site 269482003624 Transcriptional regulator; Region: Rrf2; cl17282 269482003625 Rrf2 family protein; Region: rrf2_super; TIGR00738 269482003626 NnrS protein; Region: NnrS; pfam05940 269482003627 Hemerythrin-like domain; Region: Hr-like; cd12108 269482003628 Fe binding site [ion binding]; other site 269482003629 Uncharacterized conserved protein (DUF2249); Region: DUF2249; pfam10006 269482003630 fumarate/nitrate reduction transcriptional regulator; Provisional; Region: PRK11161 269482003631 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 269482003632 ligand binding site [chemical binding]; other site 269482003633 flexible hinge region; other site 269482003634 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cd00092 269482003635 putative switch regulator; other site 269482003636 non-specific DNA interactions [nucleotide binding]; other site 269482003637 DNA binding site [nucleotide binding] 269482003638 sequence specific DNA binding site [nucleotide binding]; other site 269482003639 putative cAMP binding site [chemical binding]; other site 269482003640 Hemerythrin-like domain; Region: Hr-like; cd12108 269482003641 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 269482003642 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 269482003643 Transposase, Mutator family; Region: Transposase_mut; pfam00872 269482003644 MULE transposase domain; Region: MULE; pfam10551 269482003645 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 269482003646 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 269482003647 Domain of unknown function (DUF4158); Region: DUF4158; pfam13700 269482003648 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; pfam01526 269482003649 Transposase; Region: HTH_Tnp_1; pfam01527 269482003650 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 269482003651 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 269482003652 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 269482003653 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 269482003654 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 269482003655 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 269482003656 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 269482003657 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 269482003658 Plasmid pRiA4b ORF-3-like protein; Region: PRiA4_ORF3; pfam07929 269482003659 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 269482003660 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 269482003661 metal binding site [ion binding]; metal-binding site 269482003662 active site 269482003663 I-site; other site 269482003664 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 269482003665 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 269482003666 active site 269482003667 phosphorylation site [posttranslational modification] 269482003668 intermolecular recognition site; other site 269482003669 dimerization interface [polypeptide binding]; other site 269482003670 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 269482003671 DNA binding residues [nucleotide binding] 269482003672 dimerization interface [polypeptide binding]; other site 269482003673 Transposase domain (DUF772); Region: DUF772; pfam05598 269482003674 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 269482003675 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 269482003676 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 269482003677 H-NS histone family; Region: Histone_HNS; pfam00816 269482003678 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 269482003679 Domain of unknown function (DUF3331); Region: DUF3331; pfam11811 269482003680 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 269482003681 dinuclear metal binding motif [ion binding]; other site 269482003682 Nodulin-21 and CCC1-related protein family; Region: Nodulin-21_like_2; cd02433 269482003683 BON domain; Region: BON; pfam04972 269482003684 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 269482003685 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 269482003686 metal binding site [ion binding]; metal-binding site 269482003687 active site 269482003688 I-site; other site 269482003689 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 269482003690 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 269482003691 metal binding site [ion binding]; metal-binding site 269482003692 active site 269482003693 I-site; other site 269482003694 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 269482003695 PemK-like protein; Region: PemK; pfam02452 269482003696 H-NS histone family; Region: Histone_HNS; pfam00816 269482003697 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 269482003698 Helix-turn-helix domain; Region: HTH_28; pfam13518 269482003699 Winged helix-turn helix; Region: HTH_29; pfam13551 269482003700 Homeodomain-like domain; Region: HTH_32; pfam13565 269482003701 Integrase core domain; Region: rve; pfam00665 269482003702 IstB-like ATP binding N-terminal; Region: IstB_IS21_ATP; pfam08483 269482003703 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 269482003704 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 269482003705 Walker A motif; other site 269482003706 ATP binding site [chemical binding]; other site 269482003707 Walker B motif; other site 269482003708 arginine finger; other site 269482003709 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 269482003710 Integrase core domain; Region: rve; pfam00665 269482003711 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 269482003712 SIR2 superfamily of proteins includes silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation, where the acetyl group from the lysine epsilon-amino group is transferred to the ADP-ribose moiety of NAD+; Region: SIR2; cl00195 269482003713 exonuclease V subunit alpha; Provisional; Region: recD; PRK10875 269482003714 AAA domain; Region: AAA_30; pfam13604 269482003715 Family description; Region: UvrD_C_2; pfam13538 269482003716 exonuclease V subunit beta; Provisional; Region: recB; PRK10876 269482003717 Family description; Region: UvrD_C_2; pfam13538 269482003718 Exodeoxyribonuclease V, gamma subunit; Region: Exonuc_V_gamma; pfam04257 269482003719 exonuclease V subunit gamma; Provisional; Region: recC; PRK11069 269482003720 WYL domain; Region: WYL; pfam13280 269482003721 Dynamin-like protein including dynamins, mitofusins, and guanylate-binding proteins; Region: DLP_2; cd09912 269482003722 G1 box; other site 269482003723 GTP/Mg2+ binding site [chemical binding]; other site 269482003724 G2 box; other site 269482003725 Switch I region; other site 269482003726 G3 box; other site 269482003727 Switch II region; other site 269482003728 G4 box; other site 269482003729 G5 box; other site 269482003730 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 269482003731 Dynamin family; Region: Dynamin_N; pfam00350 269482003732 G1 box; other site 269482003733 GTP/Mg2+ binding site [chemical binding]; other site 269482003734 G2 box; other site 269482003735 Switch I region; other site 269482003736 G3 box; other site 269482003737 Switch II region; other site 269482003738 G4 box; other site 269482003739 G5 box; other site 269482003740 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 269482003741 G1 box; other site 269482003742 GTP/Mg2+ binding site [chemical binding]; other site 269482003743 G2 box; other site 269482003744 Switch I region; other site 269482003745 G3 box; other site 269482003746 Switch II region; other site 269482003747 G4 box; other site 269482003748 G5 box; other site 269482003749 Transposase domain (DUF772); Region: DUF772; pfam05598 269482003750 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 269482003751 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 269482003752 Transposase domain (DUF772); Region: DUF772; pfam05598 269482003753 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 269482003754 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 269482003755 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 269482003756 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 269482003757 WYL domain; Region: WYL; pfam13280 269482003758 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 269482003759 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 269482003760 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 269482003761 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 269482003762 PLD-like domain; Region: PLDc_2; pfam13091 269482003763 Catalytic domain of type II restriction endonucleases BfiI and NgoFVII, and uncharacterized proteins with a DEAD domain; Region: PLDc_Bfil_DEXD_like; cd09117 269482003764 putative active site [active] 269482003765 homodimer interface [polypeptide binding]; other site 269482003766 catalytic site [active] 269482003767 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 269482003768 putative active site [active] 269482003769 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 269482003770 PLD-like domain; Region: PLDc_2; pfam13091 269482003771 putative active site [active] 269482003772 catalytic site [active] 269482003773 Na+/H+ antiporter 1; Region: Na_H_antiport_1; cl01133 269482003774 DEAD-like helicases superfamily; Region: DEXDc; smart00487 269482003775 DEAD-like helicases superfamily; Region: DEXDc; smart00487 269482003776 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 269482003777 nucleotide binding region [chemical binding]; other site 269482003778 ATP-binding site [chemical binding]; other site 269482003779 Nuclease-related domain; Region: NERD; pfam08378 269482003780 Family description; Region: UvrD_C_2; pfam13538 269482003781 EcsC protein family; Region: EcsC; pfam12787 269482003782 Transposase; Region: HTH_Tnp_1; cl17663 269482003783 putative transposase OrfB; Reviewed; Region: PHA02517 269482003784 HTH-like domain; Region: HTH_21; pfam13276 269482003785 Integrase core domain; Region: rve; pfam00665 269482003786 Integrase core domain; Region: rve_3; pfam13683 269482003787 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; pfam08843 269482003788 Domain of unknown function (DUF4095); Region: DUF4095; pfam13338 269482003789 Protein of unknwon function (DUF2893); Region: DUF2893; pfam11459 269482003790 Transposase; Region: DEDD_Tnp_IS110; pfam01548 269482003791 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 269482003792 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 269482003793 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 269482003794 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 269482003795 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 269482003796 Coniferyl aldehyde dehydrogenase-like; Region: ALDH_CALDH_CalB; cd07133 269482003797 NAD(P) binding site [chemical binding]; other site 269482003798 catalytic residues [active] 269482003799 choline dehydrogenase; Validated; Region: PRK02106 269482003800 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 269482003801 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 269482003802 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 269482003803 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 269482003804 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 269482003805 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 269482003806 trimer interface [polypeptide binding]; other site 269482003807 eyelet of channel; other site 269482003808 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 269482003809 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 269482003810 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]; Region: COG1139 269482003811 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 269482003812 Domain of unknown function (DUF3390); Region: DUF3390; pfam11870 269482003813 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 269482003814 Cysteine-rich domain; Region: CCG; pfam02754 269482003815 Cysteine-rich domain; Region: CCG; pfam02754 269482003816 D-lactate dehydrogenase; Provisional; Region: PRK11183 269482003817 FAD binding domain; Region: FAD_binding_4; pfam01565 269482003818 D-lactate dehydrogenase, membrane binding; Region: Lact-deh-memb; pfam09330 269482003819 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 269482003820 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 269482003821 The C-terminal substrate binding domain of LysR-type transcrptional regulator BudR, which is responsible for activation of the expression of the butanediol operon genes; contains the type 2 periplasmic binding fold; Region: PBP2_BudR; cd08451 269482003822 putative dimerization interface [polypeptide binding]; other site 269482003823 putative substrate binding pocket [chemical binding]; other site 269482003824 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 269482003825 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 269482003826 Uncharacterized enzymes similar to novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like-2; cd12809 269482003827 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 269482003828 catalytic site [active] 269482003829 EthD domain; Region: EthD; cl17553 269482003830 Transcriptional regulator [Transcription]; Region: LysR; COG0583 269482003831 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 269482003832 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 269482003833 dimerization interface [polypeptide binding]; other site 269482003834 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 269482003835 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cd00181 269482003836 dimer interface [polypeptide binding]; other site 269482003837 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 269482003838 dimerization interface [polypeptide binding]; other site 269482003839 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 269482003840 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 269482003841 dimer interface [polypeptide binding]; other site 269482003842 putative CheW interface [polypeptide binding]; other site 269482003843 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 269482003844 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 269482003845 Walker A/P-loop; other site 269482003846 ATP binding site [chemical binding]; other site 269482003847 Q-loop/lid; other site 269482003848 ABC transporter signature motif; other site 269482003849 Walker B; other site 269482003850 D-loop; other site 269482003851 H-loop/switch region; other site 269482003852 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 269482003853 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 269482003854 dimer interface [polypeptide binding]; other site 269482003855 conserved gate region; other site 269482003856 putative PBP binding loops; other site 269482003857 ABC-ATPase subunit interface; other site 269482003858 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 269482003859 dimer interface [polypeptide binding]; other site 269482003860 conserved gate region; other site 269482003861 putative PBP binding loops; other site 269482003862 ABC-ATPase subunit interface; other site 269482003863 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 269482003864 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 269482003865 substrate binding pocket [chemical binding]; other site 269482003866 membrane-bound complex binding site; other site 269482003867 hinge residues; other site 269482003868 HAMP domain; Region: HAMP; pfam00672 269482003869 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 269482003870 dimer interface [polypeptide binding]; other site 269482003871 phosphorylation site [posttranslational modification] 269482003872 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 269482003873 ATP binding site [chemical binding]; other site 269482003874 G-X-G motif; other site 269482003875 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 269482003876 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 269482003877 active site 269482003878 phosphorylation site [posttranslational modification] 269482003879 intermolecular recognition site; other site 269482003880 dimerization interface [polypeptide binding]; other site 269482003881 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 269482003882 DNA binding site [nucleotide binding] 269482003883 Cytochrome b562; Region: Cytochrom_B562; pfam07361 269482003884 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 269482003885 Hemerythrin-like domain; Region: Hr-like; cd12108 269482003886 Fe binding site [ion binding]; other site 269482003887 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 269482003888 Ligand Binding Site [chemical binding]; other site 269482003889 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 269482003890 Ligand Binding Site [chemical binding]; other site 269482003891 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 269482003892 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 269482003893 Soluble P-type ATPase [General function prediction only]; Region: COG4087 269482003894 Hemerythrin-like domain; Region: Hr-like; cd12108 269482003895 Fe binding site [ion binding]; other site 269482003896 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 269482003897 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 269482003898 cation diffusion facilitator family transporter; Region: CDF; TIGR01297 269482003899 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 269482003900 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 269482003901 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 269482003902 active site 269482003903 phosphorylation site [posttranslational modification] 269482003904 intermolecular recognition site; other site 269482003905 dimerization interface [polypeptide binding]; other site 269482003906 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 269482003907 sensor protein QseC; Provisional; Region: PRK10337 269482003908 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 269482003909 ATP binding site [chemical binding]; other site 269482003910 Mg2+ binding site [ion binding]; other site 269482003911 G-X-G motif; other site 269482003912 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cl00859 269482003913 Dihaem cytochrome c; Region: DHC; pfam09626 269482003914 Domain of unknown function (DUF1924); Region: DUF1924; pfam09086 269482003915 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 269482003916 Beta-lactamase; Region: Beta-lactamase; pfam00144 269482003917 Protein of unknown function (DUF1343); Region: DUF1343; pfam07075 269482003918 Lecithin retinol acyltransferase; Region: LRAT; pfam04970 269482003919 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 269482003920 Putative glycosyl hydrolase domain; Region: DUF4015; pfam13200 269482003921 Putative catalytic NodB homology domain of PgaB, IcaB, and similar proteins which consist of a deformed (beta/alpha)8 barrel fold with 5- or 6-strands; Region: CE4_NodB_like_5s_6s; cd10918 269482003922 putative active site [active] 269482003923 putative metal binding site [ion binding]; other site 269482003924 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 269482003925 1-phosphofructokinase (FruK), minor 6-phosphofructokinase (pfkB) and related sugar kinases. FruK plays an important role in the predominant pathway for fructose utilisation.This group also contains tagatose-6-phophate kinase, an enzyme of the tagatose...; Region: FruK_PfkB_like; cd01164 269482003926 putative substrate binding site [chemical binding]; other site 269482003927 putative ATP binding site [chemical binding]; other site 269482003928 ribonucleotide reductase-like protein; Provisional; Region: PRK06948 269482003929 Ribonucleotide reductase, all-alpha domain; Region: Ribonuc_red_lgN; pfam00317 269482003930 Class II ribonucleotide reductase, dimeric form; Region: RNR_II_dimer; cd02888 269482003931 active site 269482003932 dimer interface [polypeptide binding]; other site 269482003933 effector binding site; other site 269482003934 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 269482003935 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 269482003936 Walker A motif; other site 269482003937 ATP binding site [chemical binding]; other site 269482003938 Walker B motif; other site 269482003939 arginine finger; other site 269482003940 Peptidase family M41; Region: Peptidase_M41; pfam01434 269482003941 Predicted periplasmic or secreted lipoprotein [General function prediction only]; Region: OsmY; COG2823 269482003942 BON domain; Region: BON; pfam04972 269482003943 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 269482003944 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 269482003945 HlyD family secretion protein; Region: HlyD_3; pfam13437 269482003946 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 269482003947 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 269482003948 Walker A/P-loop; other site 269482003949 ATP binding site [chemical binding]; other site 269482003950 Q-loop/lid; other site 269482003951 ABC transporter signature motif; other site 269482003952 Walker B; other site 269482003953 D-loop; other site 269482003954 H-loop/switch region; other site 269482003955 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 269482003956 Walker A/P-loop; other site 269482003957 ATP binding site [chemical binding]; other site 269482003958 Q-loop/lid; other site 269482003959 ABC transporter signature motif; other site 269482003960 Walker B; other site 269482003961 D-loop; other site 269482003962 H-loop/switch region; other site 269482003963 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 269482003964 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 269482003965 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 269482003966 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 269482003967 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 269482003968 Protein of unknown function (DUF2964); Region: DUF2964; pfam11177 269482003969 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 269482003970 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 269482003971 FtsX-like permease family; Region: FtsX; pfam02687 269482003972 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 269482003973 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 269482003974 Walker A/P-loop; other site 269482003975 ATP binding site [chemical binding]; other site 269482003976 Q-loop/lid; other site 269482003977 ABC transporter signature motif; other site 269482003978 Walker B; other site 269482003979 D-loop; other site 269482003980 H-loop/switch region; other site 269482003981 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 269482003982 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 269482003983 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 269482003984 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 269482003985 Beta-Casp domain; Region: Beta-Casp; pfam10996 269482003986 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 269482003987 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_4; pfam14281 269482003988 formaldehyde dehydrogenase (FDH)-like; Region: FDH_like_ADH2; cd08286 269482003989 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 269482003990 catalytic Zn binding site [ion binding]; other site 269482003991 structural Zn binding site [ion binding]; other site 269482003992 NAD(P) binding site [chemical binding]; other site 269482003993 Poly-beta-hydroxybutyrate polymerase N terminal; Region: PHBC_N; pfam12551 269482003994 Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; Region: PhaC_N; pfam07167 269482003995 Poly(3-hydroxyalkanoate) synthetase [Lipid metabolism]; Region: PhaC; COG3243 269482003996 acetoacetyl-CoA reductase; Region: AcAcCoA_reduct; TIGR01829 269482003997 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 269482003998 NAD(P) binding site [chemical binding]; other site 269482003999 homotetramer interface [polypeptide binding]; other site 269482004000 homodimer interface [polypeptide binding]; other site 269482004001 active site 269482004002 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 269482004003 Ligand Binding Site [chemical binding]; other site 269482004004 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 269482004005 Ligand Binding Site [chemical binding]; other site 269482004006 Acetate kinase [Energy production and conversion]; Region: ackA; COG0282 269482004007 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 269482004008 Ligand Binding Site [chemical binding]; other site 269482004009 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 269482004010 Ligand Binding Site [chemical binding]; other site 269482004011 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 269482004012 Ligand Binding Site [chemical binding]; other site 269482004013 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 269482004014 Ligand Binding Site [chemical binding]; other site 269482004015 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 269482004016 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 269482004017 active site 269482004018 phosphorylation site [posttranslational modification] 269482004019 intermolecular recognition site; other site 269482004020 dimerization interface [polypeptide binding]; other site 269482004021 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 269482004022 DNA binding residues [nucleotide binding] 269482004023 dimerization interface [polypeptide binding]; other site 269482004024 fumarate/nitrate reduction transcriptional regulator; Provisional; Region: PRK11161 269482004025 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 269482004026 ligand binding site [chemical binding]; other site 269482004027 flexible hinge region; other site 269482004028 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cd00092 269482004029 putative switch regulator; other site 269482004030 non-specific DNA interactions [nucleotide binding]; other site 269482004031 DNA binding site [nucleotide binding] 269482004032 sequence specific DNA binding site [nucleotide binding]; other site 269482004033 putative cAMP binding site [chemical binding]; other site 269482004034 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 269482004035 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD2; cd08298 269482004036 putative NAD(P) binding site [chemical binding]; other site 269482004037 putative substrate binding site [chemical binding]; other site 269482004038 catalytic Zn binding site [ion binding]; other site 269482004039 structural Zn binding site [ion binding]; other site 269482004040 Proteins of this family catalyze the reduction of flavin or nitrocompounds using NAD(P)H as electron donor in a obligatory two-electron transfer, utilizing FMN or FAD as cofactor. They are often found to be homodimers. Enzymes of this family are...; Region: Nitro_FMN_reductase; cd02062 269482004041 FMN binding site [chemical binding]; other site 269482004042 dimer interface [polypeptide binding]; other site 269482004043 Cytochrome c; Region: Cytochrom_C; cl11414 269482004044 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 269482004045 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 269482004046 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 269482004047 Sulfate transporter family; Region: Sulfate_transp; pfam00916 269482004048 Sulphate Transporter and Anti-Sigma factor antagonist domain of SulP-like sulfate transporters, plays a role in the function and regulation of the transport activity, proposed general NTP binding function; Region: STAS_SulP_like_sulfate_transporter; cd07042 269482004049 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 269482004050 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 269482004051 metal binding site [ion binding]; metal-binding site 269482004052 active site 269482004053 I-site; other site 269482004054 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 269482004055 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 269482004056 active site 269482004057 phosphorylation site [posttranslational modification] 269482004058 intermolecular recognition site; other site 269482004059 dimerization interface [polypeptide binding]; other site 269482004060 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 269482004061 DNA binding residues [nucleotide binding] 269482004062 dimerization interface [polypeptide binding]; other site 269482004063 Predicted periplasmic or secreted lipoprotein [General function prediction only]; Region: OsmY; COG2823 269482004064 BON domain; Region: BON; pfam04972 269482004065 BON domain; Region: BON; pfam04972 269482004066 BON domain; Region: BON; pfam04972 269482004067 This family is the oxydase domain of NRPS (non-ribosomal peptide synthetase) and other proteins that modify polypeptides by cyclizing a thioester to form a ring. These include epoB, part of the epothilone biosynthesis pathway; tubD, part of the tubulysin...; Region: mcbC-like_oxidoreductase; cd02142 269482004068 putative FMN binding site [chemical binding]; other site 269482004069 NADPH bind site [chemical binding]; other site 269482004070 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 269482004071 Group of bacterial proteins containing an alpha crystallin domain (ACD) similar to Lactobacillus plantarum (Lp) small heat shock proteins (sHsp) HSP 18.5, HSP 18.55 and HSP 19.3. sHsps are molecular chaperones that suppress protein aggregation and...; Region: ACD_LpsHSP_like; cd06471 269482004072 putative dimer interface [polypeptide binding]; other site 269482004073 Protein of unknown function (DUF1488); Region: DUF1488; pfam07369 269482004074 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 269482004075 Ligand Binding Site [chemical binding]; other site 269482004076 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2187 269482004077 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cl17270 269482004078 AAA domain; Region: AAA_33; pfam13671 269482004079 Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates...; Region: NK; cl17190 269482004080 active site 269482004081 FOG: CBS domain [General function prediction only]; Region: COG0517 269482004082 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair_9; cd04622 269482004083 FOG: CBS domain [General function prediction only]; Region: COG0517 269482004084 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair_9; cd04622 269482004085 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 269482004086 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 269482004087 ligand binding site [chemical binding]; other site 269482004088 flexible hinge region; other site 269482004089 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cl17320 269482004090 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4564 269482004091 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 269482004092 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 269482004093 substrate binding pocket [chemical binding]; other site 269482004094 membrane-bound complex binding site; other site 269482004095 hinge residues; other site 269482004096 Left-handed beta-roll, including virulence factors and various other proteins; Region: LbR-like; cl17507 269482004097 trimer interface [polypeptide binding]; other site 269482004098 Haemagglutinin; Region: HIM; pfam05662 269482004099 YadA-like C-terminal region; Region: YadA; pfam03895 269482004100 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 269482004101 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 269482004102 active site 269482004103 phosphorylation site [posttranslational modification] 269482004104 intermolecular recognition site; other site 269482004105 dimerization interface [polypeptide binding]; other site 269482004106 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 269482004107 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 269482004108 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11074 269482004109 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 269482004110 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 269482004111 dimerization interface [polypeptide binding]; other site 269482004112 Predicted membrane protein [Function unknown]; Region: COG2259 269482004113 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 269482004114 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 269482004115 DNA binding site [nucleotide binding] 269482004116 Predicted ATPase [General function prediction only]; Region: COG3903 269482004117 Domain of unknown function (DUF3331); Region: DUF3331; pfam11811 269482004118 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 269482004119 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 269482004120 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 269482004121 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 269482004122 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 269482004123 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 269482004124 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 269482004125 HlyD family secretion protein; Region: HlyD_3; pfam13437 269482004126 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 269482004127 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 269482004128 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 269482004129 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 269482004130 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 269482004131 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_9; cd07245 269482004132 dimer interface [polypeptide binding]; other site 269482004133 putative metal binding site [ion binding]; other site 269482004134 hypothetical protein; Provisional; Region: PRK07236 269482004135 FAD binding domain; Region: FAD_binding_3; pfam01494 269482004136 Protein of unknown function, DUF485; Region: DUF485; pfam04341 269482004137 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 269482004138 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 269482004139 Na binding site [ion binding]; other site 269482004140 Amidohydrolase; Region: Amidohydro_2; pfam04909 269482004141 Cytochrome c; Region: Cytochrom_C; pfam00034 269482004142 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 269482004143 Cytochrome c; Region: Cytochrom_C; pfam00034 269482004144 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 269482004145 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 269482004146 catalytic loop [active] 269482004147 iron binding site [ion binding]; other site 269482004148 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 269482004149 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 269482004150 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 269482004151 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 269482004152 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 269482004153 Transcriptional regulator [Transcription]; Region: LysR; COG0583 269482004154 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 269482004155 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_3; cd08472 269482004156 putative effector binding pocket; other site 269482004157 putative dimerization interface [polypeptide binding]; other site 269482004158 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 269482004159 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 269482004160 putative substrate translocation pore; other site 269482004161 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 269482004162 Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a...; Region: OYE_like_FMN; cd02933 269482004163 FMN binding site [chemical binding]; other site 269482004164 active site 269482004165 substrate binding site [chemical binding]; other site 269482004166 catalytic residue [active] 269482004167 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 269482004168 YtcJ_like metal dependent amidohydrolases. YtcJ is a Bacillus subtilis ORF of unknown function. The Arabidopsis homolog LAF3 has been identified as a factor required for photochrome A signalling; Region: YtcJ_like; cd01300 269482004169 active site 269482004170 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 269482004171 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 269482004172 DNA binding site [nucleotide binding] 269482004173 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 269482004174 Predicted ATPase [General function prediction only]; Region: COG3903 269482004175 Walker A motif; other site 269482004176 ATP binding site [chemical binding]; other site 269482004177 Walker B motif; other site 269482004178 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 269482004179 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 269482004180 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 269482004181 Transcriptional regulator [Transcription]; Region: LysR; COG0583 269482004182 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 269482004183 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 269482004184 putative effector binding pocket; other site 269482004185 dimerization interface [polypeptide binding]; other site 269482004186 Domain of unknown function (DUF4104); Region: DUF4104; pfam13372 269482004187 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cl01053 269482004188 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 269482004189 Protein of unknown function (DUF1275); Region: DUF1275; pfam06912 269482004190 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 269482004191 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 269482004192 hypothetical protein; Provisional; Region: PRK07236 269482004193 2-polyprenyl-6-methoxyphenol hydroxylase and related FAD-dependent oxidoreductases [Coenzyme metabolism / Energy production and conversion]; Region: UbiH; COG0654 269482004194 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 269482004195 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 269482004196 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 269482004197 HlyD family secretion protein; Region: HlyD_3; pfam13437 269482004198 Outer membrane efflux protein; Region: OEP; pfam02321 269482004199 Outer membrane efflux protein; Region: OEP; pfam02321 269482004200 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 269482004201 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 269482004202 dimer interface [polypeptide binding]; other site 269482004203 phosphorylation site [posttranslational modification] 269482004204 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 269482004205 ATP binding site [chemical binding]; other site 269482004206 Mg2+ binding site [ion binding]; other site 269482004207 G-X-G motif; other site 269482004208 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 269482004209 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 269482004210 active site 269482004211 phosphorylation site [posttranslational modification] 269482004212 intermolecular recognition site; other site 269482004213 dimerization interface [polypeptide binding]; other site 269482004214 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 269482004215 DNA binding site [nucleotide binding] 269482004216 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 269482004217 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 269482004218 Coenzyme A binding pocket [chemical binding]; other site 269482004219 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 269482004220 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 269482004221 metal binding site [ion binding]; metal-binding site 269482004222 putative dimer interface [polypeptide binding]; other site 269482004223 Rhodococcus ruber 6-oxolauric acid dehydrogenase-like; Region: ALDH_CddD_SSP0762; cd07138 269482004224 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 269482004225 NAD binding site [chemical binding]; other site 269482004226 catalytic residues [active] 269482004227 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 269482004228 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 269482004229 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 269482004230 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 269482004231 Protein of unknown function (DUF861); Region: Cupin_3; pfam05899 269482004232 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 269482004233 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 269482004234 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 269482004235 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 269482004236 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 269482004237 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 269482004238 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 269482004239 Walker A/P-loop; other site 269482004240 ATP binding site [chemical binding]; other site 269482004241 Q-loop/lid; other site 269482004242 ABC transporter signature motif; other site 269482004243 Walker B; other site 269482004244 D-loop; other site 269482004245 H-loop/switch region; other site 269482004246 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 269482004247 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 269482004248 Walker A/P-loop; other site 269482004249 ATP binding site [chemical binding]; other site 269482004250 Q-loop/lid; other site 269482004251 ABC transporter signature motif; other site 269482004252 Walker B; other site 269482004253 D-loop; other site 269482004254 H-loop/switch region; other site 269482004255 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 269482004256 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 269482004257 Binding-protein-dependent transport system inner membrane component; Region: BPD_transp_1; pfam00528 269482004258 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 269482004259 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 269482004260 dimer interface [polypeptide binding]; other site 269482004261 conserved gate region; other site 269482004262 putative PBP binding loops; other site 269482004263 ABC-ATPase subunit interface; other site 269482004264 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 269482004265 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_17; cd08503 269482004266 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 269482004267 Type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine); Region: PBP1_ABC_LIVBP_like; cd06342 269482004268 dimerization interface [polypeptide binding]; other site 269482004269 ligand binding site [chemical binding]; other site 269482004270 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 269482004271 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 269482004272 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 269482004273 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 269482004274 DNA-binding site [nucleotide binding]; DNA binding site 269482004275 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 269482004276 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 269482004277 pyridoxal 5'-phosphate binding site [chemical binding]; other site 269482004278 homodimer interface [polypeptide binding]; other site 269482004279 catalytic residue [active] 269482004280 Cache domain; Region: Cache_1; pfam02743 269482004281 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 269482004282 dimerization interface [polypeptide binding]; other site 269482004283 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 269482004284 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 269482004285 dimer interface [polypeptide binding]; other site 269482004286 putative CheW interface [polypeptide binding]; other site 269482004287 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 269482004288 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 269482004289 dimer interface [polypeptide binding]; other site 269482004290 putative CheW interface [polypeptide binding]; other site 269482004291 2-haloalkanoic acid dehalogenase, type II; Region: HAD_type_II; TIGR01428 269482004292 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 269482004293 motif II; other site 269482004294 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 269482004295 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 269482004296 Coenzyme A binding pocket [chemical binding]; other site 269482004297 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 269482004298 Putative glycerate dehydrogenase and related proteins of the D-specific 2-hydroxy dehydrogenase family; Region: GDH_like_2; cd12164 269482004299 putative ligand binding site [chemical binding]; other site 269482004300 NAD binding site [chemical binding]; other site 269482004301 dimerization interface [polypeptide binding]; other site 269482004302 catalytic site [active] 269482004303 hypothetical protein; Provisional; Region: PRK05965 269482004304 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 269482004305 inhibitor-cofactor binding pocket; inhibition site 269482004306 pyridoxal 5'-phosphate binding site [chemical binding]; other site 269482004307 catalytic residue [active] 269482004308 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 269482004309 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 269482004310 putative DNA binding site [nucleotide binding]; other site 269482004311 putative Zn2+ binding site [ion binding]; other site 269482004312 AsnC family; Region: AsnC_trans_reg; pfam01037 269482004313 succinic semialdehyde dehydrogenase; Region: PLN02278 269482004314 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 269482004315 tetramerization interface [polypeptide binding]; other site 269482004316 NAD(P) binding site [chemical binding]; other site 269482004317 catalytic residues [active] 269482004318 Cache domain; Region: Cache_1; pfam02743 269482004319 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 269482004320 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 269482004321 metal binding site [ion binding]; metal-binding site 269482004322 active site 269482004323 I-site; other site 269482004324 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 269482004325 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 269482004326 dimer interface [polypeptide binding]; other site 269482004327 putative CheW interface [polypeptide binding]; other site 269482004328 PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cl00474 269482004329 active site 269482004330 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 269482004331 Protein of unknown function DUF72; Region: DUF72; pfam01904 269482004332 LysR family transcriptional regulator; Provisional; Region: PRK14997 269482004333 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 269482004334 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 269482004335 putative effector binding pocket; other site 269482004336 dimerization interface [polypeptide binding]; other site 269482004337 NmrA-like family; Region: NmrA; pfam05368 269482004338 NmrA (a transcriptional regulator) and HSCARG (an NADPH sensor) like proteins, atypical (a) SDRs; Region: NmrA_like_SDR_a; cd05251 269482004339 NADP binding site [chemical binding]; other site 269482004340 active site 269482004341 regulatory binding site [polypeptide binding]; other site 269482004342 Cupin domain; Region: Cupin_2; cl17218 269482004343 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 269482004344 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 269482004345 active site 269482004346 catalytic tetrad [active] 269482004347 Transcriptional regulator [Transcription]; Region: LysR; COG0583 269482004348 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 269482004349 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_5; cd08474 269482004350 putative effector binding pocket; other site 269482004351 putative dimerization interface [polypeptide binding]; other site 269482004352 Anion permease ArsB. These permeases have been shown to export arsenate and antimonite in eubacteria and archaea. A typical ArsB permease contains 8-13 transmembrane helices and can function either independently as a chemiosmotic transporter or as a...; Region: ArsB_permease; cd01118 269482004353 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 269482004354 transmembrane helices; other site 269482004355 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 269482004356 Major Facilitator Superfamily; Region: MFS_1; pfam07690 269482004357 Response regulator receiver domain; Region: Response_reg; pfam00072 269482004358 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 269482004359 active site 269482004360 phosphorylation site [posttranslational modification] 269482004361 intermolecular recognition site; other site 269482004362 dimerization interface [polypeptide binding]; other site 269482004363 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 269482004364 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 269482004365 Walker A motif; other site 269482004366 ATP binding site [chemical binding]; other site 269482004367 Walker B motif; other site 269482004368 arginine finger; other site 269482004369 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 269482004370 His Kinase A (phosphoacceptor) domain; Region: HisKA; smart00388 269482004371 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 269482004372 ATP binding site [chemical binding]; other site 269482004373 G-X-G motif; other site 269482004374 Ribose/xylose/arabinose/galactoside ABC-type transport systems, permease components [Carbohydrate transport and metabolism]; Region: AraH; COG1172 269482004375 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 269482004376 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 269482004377 TM-ABC transporter signature motif; other site 269482004378 xylose transporter ATP-binding subunit; Provisional; Region: PRK13549 269482004379 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 269482004380 Walker A/P-loop; other site 269482004381 ATP binding site [chemical binding]; other site 269482004382 Q-loop/lid; other site 269482004383 ABC transporter signature motif; other site 269482004384 Walker B; other site 269482004385 D-loop; other site 269482004386 H-loop/switch region; other site 269482004387 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 269482004388 D-xylose ABC transporter, substrate-binding protein; Region: xylF; TIGR02634 269482004389 Periplasmic xylose-binding component of the ABC-type transport systems that belong to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_xylose_binding; cd01538 269482004390 putative ligand binding site [chemical binding]; other site 269482004391 xylulokinase; Provisional; Region: PRK15027 269482004392 Escherichia coli xylulokinase-like D-xylulose kinases; a subgroup of the FGGY family of carbohydrate kinases; Region: FGGY_D-XK_EcXK-like; cd07808 269482004393 N- and C-terminal domain interface [polypeptide binding]; other site 269482004394 active site 269482004395 MgATP binding site [chemical binding]; other site 269482004396 catalytic site [active] 269482004397 metal binding site [ion binding]; metal-binding site 269482004398 xylulose binding site [chemical binding]; other site 269482004399 homodimer interface [polypeptide binding]; other site 269482004400 xylose isomerase; Provisional; Region: PRK05474 269482004401 xylose isomerase; Region: xylose_isom_A; TIGR02630 269482004402 Ligand-binding domain of DNA transcription repressor specific for xylose (XylR); Region: PBP1_XylR; cd01543 269482004403 putative dimerization interface [polypeptide binding]; other site 269482004404 putative ligand binding site [chemical binding]; other site 269482004405 Transcriptional regulators [Transcription]; Region: PurR; COG1609 269482004406 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 269482004407 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 269482004408 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 269482004409 active site 269482004410 catalytic residues [active] 269482004411 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 269482004412 Major Facilitator Superfamily; Region: MFS_1; pfam07690 269482004413 putative substrate translocation pore; other site 269482004414 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 269482004415 SnoaL-like domain; Region: SnoaL_2; pfam12680 269482004416 DNA-binding transcriptional activator SdiA; Provisional; Region: PRK10188 269482004417 Autoinducer binding domain; Region: Autoind_bind; pfam03472 269482004418 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 269482004419 DNA binding residues [nucleotide binding] 269482004420 dimerization interface [polypeptide binding]; other site 269482004421 Transcriptional regulators RcnR and FrmR, and related domains; this domain family was previously known as part of DUF156; Region: RcnR-FrmR-like_DUF156; cd10153 269482004422 putative metal binding site [ion binding]; other site 269482004423 putative homodimer interface [polypeptide binding]; other site 269482004424 putative homotetramer interface [polypeptide binding]; other site 269482004425 putative homodimer-homodimer interface [polypeptide binding]; other site 269482004426 putative allosteric switch controlling residues; other site 269482004427 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 269482004428 S-(hydroxymethyl)glutathione dehydrogenase/class III alcohol dehydrogenase; Region: adh_III_F_hyde; TIGR02818 269482004429 substrate binding site [chemical binding]; other site 269482004430 catalytic Zn binding site [ion binding]; other site 269482004431 NAD binding site [chemical binding]; other site 269482004432 structural Zn binding site [ion binding]; other site 269482004433 dimer interface [polypeptide binding]; other site 269482004434 NnrS protein; Region: NnrS; pfam05940 269482004435 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 269482004436 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 269482004437 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 269482004438 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 269482004439 BAAT / Acyl-CoA thioester hydrolase C terminal; Region: BAAT_C; pfam08840 269482004440 SnoaL-like domain; Region: SnoaL_2; pfam12680 269482004441 short chain dehydrogenase; Provisional; Region: PRK08265 269482004442 classical (c) SDRs; Region: SDR_c; cd05233 269482004443 NAD(P) binding site [chemical binding]; other site 269482004444 active site 269482004445 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 269482004446 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 269482004447 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; cl01768 269482004448 Flp pilus assembly protein TadC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: TadC; COG2064 269482004449 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 269482004450 Flp pilus assembly protein TadB [Intracellular trafficking and secretion]; Region: TadB; COG4965 269482004451 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 269482004452 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 269482004453 Type IV secretory pathway component VirB11, and related ATPases. The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to...; Region: VirB11-like_ATPase; cd01130 269482004454 hexamer interface [polypeptide binding]; other site 269482004455 Walker B motif; other site 269482004456 Response regulator receiver domain; Region: Response_reg; pfam00072 269482004457 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 269482004458 This protein family consists of proteins similar to the cpaE protein of the Caulobacter pilus assembly and the orf4 protein of Actinobacillus pilus formation gene cluster. The function of these proteins are unkown. The Caulobacter pilus assembly contains...; Region: CpaE_like; cd03111 269482004459 This protein family consists of proteins similar to the cpaE protein of the Caulobacter pilus assembly and the orf4 protein of Actinobacillus pilus formation gene cluster. The function of these proteins are unkown. The Caulobacter pilus assembly contains...; Region: CpaE_like; cd03111 269482004460 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 269482004461 TadE-like protein; Region: TadE; pfam07811 269482004462 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 269482004463 TadE-like protein; Region: TadE; pfam07811 269482004464 Putative Flp pilus-assembly TadE/G-like; Region: Tad; pfam13400 269482004465 Flp pilus assembly protein, secretin CpaC [Intracellular trafficking and secretion]; Region: CpaC; COG4964 269482004466 Pilus formation protein N terminal region; Region: T2SS-T3SS_pil_N; pfam13629 269482004467 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 269482004468 Flp pilus assembly protein CpaB [Intracellular trafficking and secretion]; Region: CpaB; COG3745 269482004469 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 269482004470 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 269482004471 Walker A motif; other site 269482004472 ATP binding site [chemical binding]; other site 269482004473 Flp/Fap pilin component; Region: Flp_Fap; cl01585 269482004474 Protein of unknown function (DUF2029); Region: DUF2029; pfam09594 269482004475 Protein of unknown function (DUF2029); Region: DUF2029; pfam09594 269482004476 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 269482004477 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 269482004478 Ligand binding site; other site 269482004479 Putative Catalytic site; other site 269482004480 DXD motif; other site 269482004481 Esterase PHB depolymerase; Region: Esterase_phd; pfam10503 269482004482 MHYT domain (predicted integral membrane sensor domain) [Signal transduction mechanisms]; Region: COG3300 269482004483 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 269482004484 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 269482004485 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 269482004486 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 269482004487 dimer interface [polypeptide binding]; other site 269482004488 phosphorylation site [posttranslational modification] 269482004489 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 269482004490 ATP binding site [chemical binding]; other site 269482004491 Mg2+ binding site [ion binding]; other site 269482004492 G-X-G motif; other site 269482004493 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 269482004494 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 269482004495 active site 269482004496 phosphorylation site [posttranslational modification] 269482004497 intermolecular recognition site; other site 269482004498 dimerization interface [polypeptide binding]; other site 269482004499 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 269482004500 Zn2+ binding site [ion binding]; other site 269482004501 Mg2+ binding site [ion binding]; other site 269482004502 Antibiotic biosynthesis monooxygenase; Region: ABM; pfam03992 269482004503 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 269482004504 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 269482004505 substrate binding pocket [chemical binding]; other site 269482004506 membrane-bound complex binding site; other site 269482004507 hinge residues; other site 269482004508 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 269482004509 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 269482004510 active site 269482004511 catalytic tetrad [active] 269482004512 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 269482004513 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 269482004514 Transcriptional regulator [Transcription]; Region: LysR; COG0583 269482004515 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 269482004516 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_3; cd08472 269482004517 putative effector binding pocket; other site 269482004518 putative dimerization interface [polypeptide binding]; other site 269482004519 hypothetical protein; Provisional; Region: PRK07208 269482004520 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 269482004521 UDP-galactopyranose mutase; Region: GLF; pfam03275 269482004522 Predicted membrane protein [Function unknown]; Region: COG2246 269482004523 GtrA-like protein; Region: GtrA; pfam04138 269482004524 Excinuclease ATPase subunit [DNA replication, recombination, and repair]; Region: UvrA; COG0178 269482004525 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 269482004526 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 269482004527 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 269482004528 Walker A/P-loop; other site 269482004529 ATP binding site [chemical binding]; other site 269482004530 Q-loop/lid; other site 269482004531 ABC transporter signature motif; other site 269482004532 Walker B; other site 269482004533 D-loop; other site 269482004534 H-loop/switch region; other site 269482004535 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 269482004536 Walker A/P-loop; other site 269482004537 ATP binding site [chemical binding]; other site 269482004538 Q-loop/lid; other site 269482004539 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 269482004540 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 269482004541 H-NS histone family; Region: Histone_HNS; pfam00816 269482004542 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 269482004543 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 269482004544 The phosphomannomutase/phosphoglucomutase (PMM/PGM) bifunctional enzyme catalyzes the reversible conversion of 1-phospho to 6-phospho-sugars (e.g. between mannose-1-phosphate and mannose-6-phosphate or glucose-1-phosphate and glucose-6-phosphate) via a...; Region: PMM_PGM; cd03089 269482004545 active site 269482004546 substrate binding site [chemical binding]; other site 269482004547 metal binding site [ion binding]; metal-binding site 269482004548 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 269482004549 binding surface 269482004550 TPR motif; other site 269482004551 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 269482004552 binding surface 269482004553 TPR motif; other site 269482004554 Tetratricopeptide repeat; Region: TPR_16; pfam13432 269482004555 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 269482004556 TPR motif; other site 269482004557 binding surface 269482004558 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 269482004559 TPR motif; other site 269482004560 binding surface 269482004561 Cellulose synthase operon protein C C-terminus (BCSC_C); Region: BCSC_C; pfam05420 269482004562 cellulose synthase regulator protein; Provisional; Region: PRK11114 269482004563 cellulose synthase catalytic subunit (UDP-forming); Region: CelA; TIGR03030 269482004564 CESA_CelA_like are involved in the elongation of the glucan chain of cellulose; Region: CESA_CelA_like; cd06421 269482004565 DXD motif; other site 269482004566 PilZ domain; Region: PilZ; pfam07238 269482004567 cellulose synthase operon protein YhjQ; Region: cellulose_yhjQ; TIGR03371 269482004568 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 269482004569 P-loop; other site 269482004570 Magnesium ion binding site [ion binding]; other site 269482004571 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 269482004572 Magnesium ion binding site [ion binding]; other site 269482004573 Cellulose synthase subunit D; Region: Cellsynth_D; pfam03500 269482004574 Flagellar transcriptional activator (FlhD); Region: FlhD; cl05012 269482004575 Flagellar transcriptional activator (FlhD); Region: FlhD; cl05012 269482004576 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 269482004577 active site 269482004578 tetramer interface; other site 269482004579 putative glycosyl transferase; Provisional; Region: PRK10307 269482004580 This family is most closely related to the GT1 family of glycosyltransferases. wbuB in E. coli is involved in the biosynthesis of the O26 O-antigen. It has been proposed to function as an N-acetyl-L-fucosamine (L-FucNAc) transferase; Region: GT1_wbuB_like; cd03794 269482004581 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 269482004582 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 269482004583 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 269482004584 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 269482004585 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 269482004586 Pectate lyase superfamily protein; Region: Pectate_lyase_3; pfam12708 269482004587 This family is most closely related to the GT1 family of glycosyltransferases. Bme6 in Brucella melitensis has been shown to be involved in the biosynthesis of a polysaccharide; Region: GT1_Bme6_like; cd03821 269482004588 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 269482004589 putative ADP-binding pocket [chemical binding]; other site 269482004590 putative acyl transferase; Provisional; Region: PRK10502 269482004591 wcaF-like: This group is composed of the protein product of the E. coli wcaF gene and similar proteins. WcaF is part of the gene cluster responsible for the biosynthesis of the extracellular polysaccharide colanic acid. The wcaF protein is predicted to...; Region: LbH_wcaF_like; cd05825 269482004592 putative trimer interface [polypeptide binding]; other site 269482004593 putative active site [active] 269482004594 putative substrate binding site [chemical binding]; other site 269482004595 putative CoA binding site [chemical binding]; other site 269482004596 Arginine N-succinyltransferase beta subunit; Region: AstA; cl11440 269482004597 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 269482004598 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 269482004599 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 269482004600 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 269482004601 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 269482004602 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 269482004603 GDP-fucose synthetase, extended (e) SDRs; Region: GDP_FS_SDR_e; cd05239 269482004604 GDP-4-keto-6-deoxymannose-3, 5-epimerase-4-reductase; Region: PLN02725 269482004605 NADP binding site [chemical binding]; other site 269482004606 active site 269482004607 putative substrate binding site [chemical binding]; other site 269482004608 GDP-D-mannose dehydratase [Cell envelope biogenesis, outer membrane]; Region: Gmd; COG1089 269482004609 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 269482004610 NADP-binding site; other site 269482004611 homotetramer interface [polypeptide binding]; other site 269482004612 substrate binding site [chemical binding]; other site 269482004613 homodimer interface [polypeptide binding]; other site 269482004614 active site 269482004615 tyrosine kinase; Provisional; Region: PRK11519 269482004616 Chain length determinant protein; Region: Wzz; pfam02706 269482004617 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 269482004618 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 269482004619 Low molecular weight phosphatase family; Region: LMWPc; cd00115 269482004620 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 269482004621 active site 269482004622 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 269482004623 polysaccharide export protein EpsE; Region: EpsE; TIGR03028 269482004624 SLBB domain; Region: SLBB; pfam10531 269482004625 Undecaprenyl-phosphate glucose phosphotransferase; Region: WcaJ_sugtrans; TIGR03023 269482004626 Bacterial sugar transferase; Region: Bac_transf; pfam02397 269482004627 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 269482004628 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 269482004629 Substrate binding site; other site 269482004630 Mannose-6-phosphate isomerase; Region: MannoseP_isomer; pfam01050 269482004631 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 269482004632 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 269482004633 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 269482004634 GDP-mannose glycosyl hydrolase (AKA GDP-mannose mannosyl hydrolase (GDPMH)) is a member of the Nudix hydrolase superfamily. This class of enzymes is unique from other members of the superfamily in two aspects. First, it contains a modified Nudix...; Region: GDPMH; cd03430 269482004635 active site 269482004636 GDP-Mannose binding site [chemical binding]; other site 269482004637 dimer interface [polypeptide binding]; other site 269482004638 modified nudix motif 269482004639 metal binding site [ion binding]; metal-binding site 269482004640 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 269482004641 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 269482004642 conserved cys residue [active] 269482004643 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 269482004644 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 269482004645 Helix-turn-helix domain; Region: HTH_38; pfam13936 269482004646 Integrase core domain; Region: rve; pfam00665 269482004647 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 269482004648 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 269482004649 trimer interface [polypeptide binding]; other site 269482004650 eyelet of channel; other site 269482004651 YadA-like C-terminal region; Region: YadA; pfam03895 269482004652 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 269482004653 Helix-turn-helix domain; Region: HTH_38; pfam13936 269482004654 Integrase core domain; Region: rve; pfam00665 269482004655 Response regulator receiver domain; Region: Response_reg; pfam00072 269482004656 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 269482004657 active site 269482004658 phosphorylation site [posttranslational modification] 269482004659 intermolecular recognition site; other site 269482004660 dimerization interface [polypeptide binding]; other site 269482004661 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 269482004662 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 269482004663 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 269482004664 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 269482004665 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 269482004666 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 269482004667 dimer interface [polypeptide binding]; other site 269482004668 phosphorylation site [posttranslational modification] 269482004669 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 269482004670 ATP binding site [chemical binding]; other site 269482004671 Mg2+ binding site [ion binding]; other site 269482004672 G-X-G motif; other site 269482004673 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 269482004674 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 269482004675 TM-ABC transporter signature motif; other site 269482004676 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 269482004677 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 269482004678 TM-ABC transporter signature motif; other site 269482004679 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 269482004680 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 269482004681 Walker A/P-loop; other site 269482004682 ATP binding site [chemical binding]; other site 269482004683 Q-loop/lid; other site 269482004684 ABC transporter signature motif; other site 269482004685 Walker B; other site 269482004686 D-loop; other site 269482004687 H-loop/switch region; other site 269482004688 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 269482004689 Periplasmic binding domain of ABC-type YtfQ-like transport systems; Region: PBP1_YtfQ_like; cd06309 269482004690 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 269482004691 putative ligand binding site [chemical binding]; other site 269482004692 Topoisomerase IB [DNA replication, recombination, and repair]; Region: COG3569 269482004693 DNA topoisomerase IB, C-terminal catalytic domain. Topoisomerase I promotes the relaxation of both positive and negative DNA superhelical tension by introducing a transient single-stranded break in duplex DNA. This function is vital for the processes of...; Region: Topo_IB_C; cd00659 269482004694 active site 269482004695 DNA binding site [nucleotide binding] 269482004696 Int/Topo IB signature motif; other site 269482004697 catalytic residues [active] 269482004698 pyrroloquinoline quinone biosynthesis protein PqqE; Provisional; Region: PRK05301 269482004699 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 269482004700 FeS/SAM binding site; other site 269482004701 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 269482004702 coenzyme PQQ biosynthesis protein PqqD; Region: PQQ_PqqD; TIGR03859 269482004703 pyrroloquinoline quinone biosynthesis protein PqqC; Provisional; Region: PRK05157 269482004704 pyrroloquinoline quinone biosynthesis protein PqqB; Provisional; Region: PRK05184 269482004705 coenzyme PQQ biosynthesis protein B; Region: PQQ_syn_pqqB; TIGR02108 269482004706 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 269482004707 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 269482004708 Walker A motif; other site 269482004709 ATP binding site [chemical binding]; other site 269482004710 Walker B motif; other site 269482004711 arginine finger; other site 269482004712 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 269482004713 proline iminopeptidase, Neisseria-type subfamily; Region: pro_imino_pep_1; TIGR01249 269482004714 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 269482004715 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 269482004716 N-terminal plug; other site 269482004717 ligand-binding site [chemical binding]; other site 269482004718 PQQ-dependent dehydrogenase, methanol/ethanol family; Region: PQQ_enz_alc_DH; TIGR03075 269482004719 Ethanol dehydrogenase, a bacterial quinoprotein (PQQ-dependent type I alcohol dehydrogenase); Region: PQQ_ADH_I; cd10277 269482004720 dimer interface [polypeptide binding]; other site 269482004721 Trp docking motif [polypeptide binding]; other site 269482004722 active site 269482004723 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 269482004724 substrate binding pocket [chemical binding]; other site 269482004725 membrane-bound complex binding site; other site 269482004726 hinge residues; other site 269482004727 Cytochrome c; Region: Cytochrom_C; pfam00034 269482004728 High potential iron-sulfur protein; Region: HIPIP; pfam01355 269482004729 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 269482004730 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 269482004731 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 269482004732 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 269482004733 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 269482004734 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 269482004735 DNA binding residues [nucleotide binding] 269482004736 acetyl-CoA synthetase; Provisional; Region: PRK00174 269482004737 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 269482004738 active site 269482004739 CoA binding site [chemical binding]; other site 269482004740 acyl-activating enzyme (AAE) consensus motif; other site 269482004741 AMP binding site [chemical binding]; other site 269482004742 acetate binding site [chemical binding]; other site 269482004743 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 269482004744 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 269482004745 trimer interface [polypeptide binding]; other site 269482004746 eyelet of channel; other site 269482004747 proline/glycine betaine transporter; Provisional; Region: PRK10642 269482004748 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 269482004749 putative substrate translocation pore; other site 269482004750 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 269482004751 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 269482004752 catalytic site [active] 269482004753 DctM-like transporters; Region: DctM; pfam06808 269482004754 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 269482004755 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 269482004756 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 269482004757 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 269482004758 anti-TRAP (AT) protein specific to Bacilli; Region: anti-TRAP; cd10748 269482004759 TRAP binding interface [polypeptide binding]; other site 269482004760 Zn binding site [ion binding]; other site 269482004761 Transcriptional regulators [Transcription]; Region: GntR; COG1802 269482004762 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 269482004763 DNA-binding site [nucleotide binding]; DNA binding site 269482004764 FCD domain; Region: FCD; pfam07729 269482004765 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 269482004766 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 269482004767 inhibitor site; inhibition site 269482004768 active site 269482004769 dimer interface [polypeptide binding]; other site 269482004770 catalytic residue [active] 269482004771 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 269482004772 Uncharacterized conserved protein [Function unknown]; Region: COG3391 269482004773 Uncharacterized conserved protein [Function unknown]; Region: COG5476 269482004774 Protein of unknown function (DUF1485); Region: DUF1485; pfam07364 269482004775 MlrC C-terminus; Region: MlrC_C; pfam07171 269482004776 allantoate amidohydrolase; Reviewed; Region: PRK12893 269482004777 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 269482004778 active site 269482004779 metal binding site [ion binding]; metal-binding site 269482004780 dimer interface [polypeptide binding]; other site 269482004781 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 269482004782 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 269482004783 Walker A/P-loop; other site 269482004784 ATP binding site [chemical binding]; other site 269482004785 Q-loop/lid; other site 269482004786 ABC transporter signature motif; other site 269482004787 Walker B; other site 269482004788 D-loop; other site 269482004789 H-loop/switch region; other site 269482004790 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 269482004791 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 269482004792 Walker A/P-loop; other site 269482004793 ATP binding site [chemical binding]; other site 269482004794 Q-loop/lid; other site 269482004795 ABC transporter signature motif; other site 269482004796 Walker B; other site 269482004797 D-loop; other site 269482004798 H-loop/switch region; other site 269482004799 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 269482004800 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 269482004801 TM-ABC transporter signature motif; other site 269482004802 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 269482004803 TM-ABC transporter signature motif; other site 269482004804 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 269482004805 Periplasmic solute-binding domain of active transport proteins that belong to the type I periplasmic binding fold protein family; Region: PBP1_SBP_like_1; cd06327 269482004806 putative ligand binding site [chemical binding]; other site 269482004807 Transcriptional regulators [Transcription]; Region: FadR; COG2186 269482004808 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 269482004809 DNA-binding site [nucleotide binding]; DNA binding site 269482004810 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 269482004811 Rhodococcus ruber 6-oxolauric acid dehydrogenase-like; Region: ALDH_CddD_SSP0762; cd07138 269482004812 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 269482004813 NAD binding site [chemical binding]; other site 269482004814 catalytic residues [active] 269482004815 hypothetical protein; Provisional; Region: PRK06541 269482004816 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 269482004817 inhibitor-cofactor binding pocket; inhibition site 269482004818 pyridoxal 5'-phosphate binding site [chemical binding]; other site 269482004819 catalytic residue [active] 269482004820 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 269482004821 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 269482004822 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 269482004823 benzoate transport; Region: 2A0115; TIGR00895 269482004824 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 269482004825 putative substrate translocation pore; other site 269482004826 H-NS histone family; Region: Histone_HNS; pfam00816 269482004827 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 269482004828 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 269482004829 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 269482004830 NADP binding site [chemical binding]; other site 269482004831 active site 269482004832 putative substrate binding site [chemical binding]; other site 269482004833 Predicted membrane protein [Function unknown]; Region: COG2259 269482004834 Uncharacterized protein conserved in bacteria, putative lipoprotein [Function unknown]; Region: LprI; COG4461 269482004835 Protein of unknown function (DUF1311); Region: DUF1311; pfam07007 269482004836 LysR family transcriptional regulator; Provisional; Region: PRK14997 269482004837 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 269482004838 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 269482004839 putative effector binding pocket; other site 269482004840 dimerization interface [polypeptide binding]; other site 269482004841 Pirin-related protein [General function prediction only]; Region: COG1741 269482004842 Pirin; Region: Pirin; pfam02678 269482004843 NAD(P)H:quinone oxidoreductase; Provisional; Region: PRK03767 269482004844 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 269482004845 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 269482004846 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 269482004847 putative active site [active] 269482004848 putative NTP binding site [chemical binding]; other site 269482004849 putative nucleic acid binding site [nucleotide binding]; other site 269482004850 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 269482004851 Putative effector of murein hydrolase [Cell envelope biogenesis, outer membrane]; Region: LrgB; COG1346 269482004852 Putative effector of murein hydrolase LrgA [General function prediction only]; Region: COG1380 269482004853 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 269482004854 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 269482004855 peroxiredoxin, Ohr subfamily; Region: organ_hyd_perox; TIGR03561 269482004856 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 269482004857 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 269482004858 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 269482004859 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 269482004860 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 269482004861 Walker A/P-loop; other site 269482004862 ATP binding site [chemical binding]; other site 269482004863 Q-loop/lid; other site 269482004864 ABC transporter signature motif; other site 269482004865 Walker B; other site 269482004866 D-loop; other site 269482004867 H-loop/switch region; other site 269482004868 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 269482004869 Type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine); Region: PBP1_ABC_LIVBP_like; cd06342 269482004870 dimerization interface [polypeptide binding]; other site 269482004871 ligand binding site [chemical binding]; other site 269482004872 Transcriptional regulator [Transcription]; Region: LysR; COG0583 269482004873 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 269482004874 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 269482004875 dimerization interface [polypeptide binding]; other site 269482004876 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 269482004877 Helix-turn-helix domain; Region: HTH_38; pfam13936 269482004878 Integrase core domain; Region: rve; pfam00665 269482004879 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 269482004880 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 269482004881 FAD binding domain; Region: FAD_binding_4; pfam01565 269482004882 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 269482004883 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 269482004884 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 269482004885 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 269482004886 dimerization interface [polypeptide binding]; other site 269482004887 substrate binding pocket [chemical binding]; other site 269482004888 Glycogen debranching enzyme [Carbohydrate transport and metabolism]; Region: GDB1; COG3408 269482004889 Amylo-alpha-1,6-glucosidase; Region: GDE_C; pfam06202 269482004890 rod shape-determining protein MreB; Provisional; Region: PRK13930 269482004891 MreB and similar proteins; Region: MreB_like; cd10225 269482004892 nucleotide binding site [chemical binding]; other site 269482004893 Mg binding site [ion binding]; other site 269482004894 putative protofilament interaction site [polypeptide binding]; other site 269482004895 RodZ interaction site [polypeptide binding]; other site 269482004896 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 269482004897 Patatin-like phospholipase domain containing protein 6, protein 7, and fungal NTE1; Region: Pat_PNPLA6_PNPLA7_NTE1_like; cd07205 269482004898 active site 269482004899 nucleophile elbow; other site 269482004900 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 269482004901 Surface antigen; Region: Bac_surface_Ag; pfam01103 269482004902 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 269482004903 dimer interface [polypeptide binding]; other site 269482004904 phosphorylation site [posttranslational modification] 269482004905 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 269482004906 ATP binding site [chemical binding]; other site 269482004907 Mg2+ binding site [ion binding]; other site 269482004908 G-X-G motif; other site 269482004909 DNA-binding transcriptional regulator RstA; Provisional; Region: PRK10701 269482004910 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 269482004911 active site 269482004912 phosphorylation site [posttranslational modification] 269482004913 intermolecular recognition site; other site 269482004914 dimerization interface [polypeptide binding]; other site 269482004915 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 269482004916 DNA binding site [nucleotide binding] 269482004917 Glutaminase [Amino acid transport and metabolism]; Region: GlsA; COG2066 269482004918 glutaminase; Provisional; Region: PRK00971 269482004919 LysE type translocator; Region: LysE; cl00565 269482004920 Helix-Turn-Helix DNA binding domain of the transcription regulators NolA and AlbR; Region: HTH_NolA-AlbR; cd04788 269482004921 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 269482004922 DNA binding residues [nucleotide binding] 269482004923 putative dimer interface [polypeptide binding]; other site 269482004924 TipAS antibiotic-recognition domain; Region: TipAS; pfam07739 269482004925 TipAS antibiotic-recognition domain; Region: TipAS; pfam07739 269482004926 Leucine carboxyl methyltransferase; Region: LCM; cl01306 269482004927 O-Methyltransferase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3315 269482004928 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 269482004929 D-galactonate transporter; Region: 2A0114; TIGR00893 269482004930 putative substrate translocation pore; other site 269482004931 Transcriptional regulator [Transcription]; Region: LysR; COG0583 269482004932 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 269482004933 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 269482004934 dimerization interface [polypeptide binding]; other site 269482004935 amidase; Provisional; Region: PRK07486 269482004936 Amidase; Region: Amidase; pfam01425 269482004937 D-Serine dehydratase is a pyridoxal phosphate (PLP)-dependent enzyme which catalyzes the conversion of L- or D-serine to pyruvate and ammonia. D-serine dehydratase serves as a detoxifying enzyme in most E. coli strains where D-serine is a competitive...; Region: D-Ser-dehyd; cd06447 269482004938 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 269482004939 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 269482004940 catalytic residue [active] 269482004941 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 269482004942 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 269482004943 TAP-like protein; Region: Abhydrolase_4; pfam08386 269482004944 Isochorismatase family; Region: Isochorismatase; pfam00857 269482004945 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cd00431 269482004946 catalytic triad [active] 269482004947 conserved cis-peptide bond; other site 269482004948 Ribonuclease T2 (RNase T2) is a widespread family of secreted RNases found in every organism examined thus far. This family includes RNase Rh, RNase MC1, RNase LE, and self-incompatibility RNases (S-RNases). Plant T2 RNases are expressed during leaf...; Region: RNase_T2_prok; cd01062 269482004949 B1 nucleotide binding pocket [chemical binding]; other site 269482004950 B2 nucleotide binding pocket [chemical binding]; other site 269482004951 CAS motifs; other site 269482004952 active site 269482004953 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 269482004954 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 269482004955 substrate binding site [chemical binding]; other site 269482004956 oxyanion hole (OAH) forming residues; other site 269482004957 trimer interface [polypeptide binding]; other site 269482004958 2-enoyl-CoA Hydratase C-terminal region; Region: ECH_C; pfam13766 269482004959 enoyl-CoA hydratase; Provisional; Region: PRK09076 269482004960 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 269482004961 substrate binding site [chemical binding]; other site 269482004962 oxyanion hole (OAH) forming residues; other site 269482004963 trimer interface [polypeptide binding]; other site 269482004964 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 269482004965 3-hydroxyisobutyrate dehydrogenase; Region: HIBADH; TIGR01692 269482004966 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 269482004967 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 269482004968 tetrameric interface [polypeptide binding]; other site 269482004969 NAD binding site [chemical binding]; other site 269482004970 catalytic residues [active] 269482004971 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 269482004972 Uncharacterized subfamily of medium-chain acyl-CoA synthetase (MACS); Region: MACS_like_1; cd05974 269482004973 active site 269482004974 acyl-activating enzyme (AAE) consensus motif; other site 269482004975 putative CoA binding site [chemical binding]; other site 269482004976 AMP binding site [chemical binding]; other site 269482004977 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 269482004978 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 269482004979 active site 269482004980 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 269482004981 Helix-turn-helix domain; Region: HTH_18; pfam12833 269482004982 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 269482004983 Membrane-bound serine protease (ClpP class) [Posttranslational modification, protein turnover, chaperones]; Region: NfeD; COG1030 269482004984 Nodulation formation efficiency D (NfeD) is a membrane-bound ClpP-class protease; Region: Clp_protease_NfeD_1; cd07020 269482004985 active site residues [active] 269482004986 dimer interface [polypeptide binding]; other site 269482004987 NfeD-like C-terminal, partner-binding; Region: NfeD; pfam01957 269482004988 Band_7_stomatin_like: A subgroup of the band 7 domain of flotillin (reggie) like proteins similar to stomatin and podicin (two lipid raft-associated integral membrane proteins). Individual proteins of this band 7 domain family may cluster to form...; Region: Band_7_stomatin_like; cd03403 269482004989 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 269482004990 haloacid dehalogenase-like hydrolase; Region: HAD; pfam12710 269482004991 Protein of unknown function (DUF2917); Region: DUF2917; pfam11142 269482004992 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 269482004993 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 269482004994 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 269482004995 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 269482004996 dimerization interface [polypeptide binding]; other site 269482004997 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 269482004998 Protein of unknown function (DUF1488); Region: DUF1488; pfam07369 269482004999 Protein of unknown function (DUF2964); Region: DUF2964; pfam11177 269482005000 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 269482005001 GAF domain; Region: GAF; pfam01590 269482005002 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 269482005003 Walker A motif; other site 269482005004 ATP binding site [chemical binding]; other site 269482005005 Walker B motif; other site 269482005006 arginine finger; other site 269482005007 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 269482005008 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 269482005009 catalytic loop [active] 269482005010 iron binding site [ion binding]; other site 269482005011 Protein of unknown function (DUF2946); Region: DUF2946; pfam11162 269482005012 CopC domain; Region: CopC; pfam04234 269482005013 Protein of unknown function (DUF461); Region: DUF461; pfam04314 269482005014 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 269482005015 Leucine rich repeat; Region: LRR_8; pfam13855 269482005016 Leucine rich repeat; Region: LRR_8; pfam13855 269482005017 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 269482005018 active site 269482005019 ATP binding site [chemical binding]; other site 269482005020 substrate binding site [chemical binding]; other site 269482005021 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 269482005022 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 269482005023 dimer interface [polypeptide binding]; other site 269482005024 phosphorylation site [posttranslational modification] 269482005025 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 269482005026 ATP binding site [chemical binding]; other site 269482005027 Mg2+ binding site [ion binding]; other site 269482005028 G-X-G motif; other site 269482005029 Response regulator receiver domain; Region: Response_reg; pfam00072 269482005030 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 269482005031 active site 269482005032 phosphorylation site [posttranslational modification] 269482005033 intermolecular recognition site; other site 269482005034 dimerization interface [polypeptide binding]; other site 269482005035 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 269482005036 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 269482005037 active site 269482005038 phosphorylation site [posttranslational modification] 269482005039 intermolecular recognition site; other site 269482005040 dimerization interface [polypeptide binding]; other site 269482005041 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 269482005042 DNA binding residues [nucleotide binding] 269482005043 dimerization interface [polypeptide binding]; other site 269482005044 Pectate lyase superfamily protein; Region: Pectate_lyase_3; pfam12708 269482005045 Pectate lyase; Region: Pec_lyase_C; cl01593 269482005046 Transcriptional regulator [Transcription]; Region: LysR; COG0583 269482005047 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 269482005048 The C-terminal substrate domain of LysR-like regulator LrhA (LysR homologue A) and that of closely related homologs, contains the type 2 periplasmic binding fold; Region: PBP2_LrhA_like; cd08439 269482005049 putative dimerization interface [polypeptide binding]; other site 269482005050 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 269482005051 4-aminobutyrate aminotransferase and related aminotransferases [Amino acid transport and metabolism]; Region: GabT; COG0160 269482005052 inhibitor-cofactor binding pocket; inhibition site 269482005053 pyridoxal 5'-phosphate binding site [chemical binding]; other site 269482005054 catalytic residue [active] 269482005055 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 269482005056 Helix-turn-helix domain; Region: HTH_18; pfam12833 269482005057 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 269482005058 Protein of unknown function (DUF2000); Region: DUF2000; pfam09391 269482005059 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 269482005060 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_5; cd07238 269482005061 dimer interface [polypeptide binding]; other site 269482005062 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 269482005063 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 269482005064 Walker A/P-loop; other site 269482005065 ATP binding site [chemical binding]; other site 269482005066 Q-loop/lid; other site 269482005067 ABC transporter signature motif; other site 269482005068 Walker B; other site 269482005069 D-loop; other site 269482005070 H-loop/switch region; other site 269482005071 leucine/isoleucine/valine transporter ATP-binding subunit; Provisional; Region: livG; PRK11300 269482005072 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 269482005073 Walker A/P-loop; other site 269482005074 ATP binding site [chemical binding]; other site 269482005075 Q-loop/lid; other site 269482005076 ABC transporter signature motif; other site 269482005077 Walker B; other site 269482005078 D-loop; other site 269482005079 H-loop/switch region; other site 269482005080 leucine/isoleucine/valine transporter permease subunit; Provisional; Region: livM; PRK11301 269482005081 Domain of unknown function (DUF3382); Region: DUF3382; pfam11862 269482005082 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 269482005083 TM-ABC transporter signature motif; other site 269482005084 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 269482005085 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 269482005086 TM-ABC transporter signature motif; other site 269482005087 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 269482005088 Type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine); Region: PBP1_ABC_LIVBP_like; cd06342 269482005089 dimerization interface [polypeptide binding]; other site 269482005090 ligand binding site [chemical binding]; other site 269482005091 Domain of unknown function (DUF4411); Region: DUF4411; pfam14367 269482005092 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 269482005093 non-specific DNA binding site [nucleotide binding]; other site 269482005094 salt bridge; other site 269482005095 sequence-specific DNA binding site [nucleotide binding]; other site 269482005096 Predicted Zn peptidase [Amino acid transport and metabolism]; Region: COG2856 269482005097 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 269482005098 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 269482005099 hydroxyglutarate oxidase; Provisional; Region: PRK11728 269482005100 Transcriptional regulators [Transcription]; Region: FadR; COG2186 269482005101 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 269482005102 DNA-binding site [nucleotide binding]; DNA binding site 269482005103 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 269482005104 Amidohydrolase; Region: Amidohydro_2; pfam04909 269482005105 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 269482005106 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_2; cd06310 269482005107 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 269482005108 putative ligand binding site [chemical binding]; other site 269482005109 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 269482005110 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 269482005111 TM-ABC transporter signature motif; other site 269482005112 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 269482005113 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 269482005114 Walker A/P-loop; other site 269482005115 ATP binding site [chemical binding]; other site 269482005116 Q-loop/lid; other site 269482005117 ABC transporter signature motif; other site 269482005118 Walker B; other site 269482005119 D-loop; other site 269482005120 H-loop/switch region; other site 269482005121 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 269482005122 short chain dehydrogenase; Provisional; Region: PRK08628 269482005123 classical (c) SDRs; Region: SDR_c; cd05233 269482005124 NAD(P) binding site [chemical binding]; other site 269482005125 active site 269482005126 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 269482005127 Human rTS beta is encoded by the rTS gene which, through alternative RNA splicing, also encodes rTS alpha whose mRNA is complementary to thymidylate synthase mRNA. rTS beta expression is associated with the production of small molecules that appear to...; Region: rTSbeta_L-fuconate_dehydratase; cd03324 269482005128 putative active site pocket [active] 269482005129 metal binding site [ion binding]; metal-binding site 269482005130 2-keto-4-pentenoate hydratase/2-oxohepta-3-ene-1,7-dioic acid hydratase (catechol pathway) [Secondary metabolites biosynthesis, transport, and catabolism]; Region: MhpD; COG0179 269482005131 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 269482005132 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 269482005133 human DHRS6-like, classical (c) SDRs; Region: DHRS6_like_SDR_c; cd05368 269482005134 NAD binding site [chemical binding]; other site 269482005135 homotetramer interface [polypeptide binding]; other site 269482005136 homodimer interface [polypeptide binding]; other site 269482005137 active site 269482005138 Domain of unknown function (DUF3331); Region: DUF3331; pfam11811 269482005139 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 269482005140 gamma-butyrobetaine hydroxylase; Region: carnitine_bodg; TIGR02409 269482005141 Protein of unknown function (DUF971); Region: DUF971; cl01414 269482005142 Clavaminic acid synthetase (CAS) -like; CAS is a trifunctional Fe(II)/ 2-oxoglutarate (2OG) oxygenase carrying out three reactions in the biosynthesis of clavulanic acid, an inhibitor of class A serine beta-lactamases. In general, Fe(II)-2OG oxygenases...; Region: CAS_like; cd00250 269482005143 substrate binding pocket [chemical binding]; other site 269482005144 active site 269482005145 iron coordination sites [ion binding]; other site 269482005146 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 269482005147 4-hydroxybenzoyl-CoA thioesterase (4HBT). Catalyzes the final step in the 4-chlorobenzoate degradation pathway in which 4-chlorobenzoate is converted to 4-hydroxybenzoate in certain soil-dwelling bacteria. 4HBT forms a homotetramer with four active sites; Region: 4HBT; cd00586 269482005148 active site 269482005149 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK07066 269482005150 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 269482005151 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 269482005152 Prokaryotic protein of unknown function (DUF849); Region: DUF849; pfam05853 269482005153 choline ABC transporter, periplasmic binding protein; Region: ABC_choline_bnd; TIGR03414 269482005154 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 269482005155 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 269482005156 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 269482005157 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 269482005158 dimerization interface [polypeptide binding]; other site 269482005159 malic enzyme; Reviewed; Region: PRK12861 269482005160 Malic enzyme, N-terminal domain; Region: malic; pfam00390 269482005161 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 269482005162 putative NAD(P) binding site [chemical binding]; other site 269482005163 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 269482005164 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 269482005165 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 269482005166 catalytic residue [active] 269482005167 LysR family transcriptional regulator; Provisional; Region: PRK14997 269482005168 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 269482005169 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 269482005170 putative effector binding pocket; other site 269482005171 dimerization interface [polypeptide binding]; other site 269482005172 short chain dehydrogenase; Provisional; Region: PRK06500 269482005173 classical (c) SDRs; Region: SDR_c; cd05233 269482005174 NAD(P) binding site [chemical binding]; other site 269482005175 active site 269482005176 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 269482005177 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 269482005178 conserved cys residue [active] 269482005179 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 269482005180 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 269482005181 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 269482005182 substrate binding pocket [chemical binding]; other site 269482005183 membrane-bound complex binding site; other site 269482005184 hinge residues; other site 269482005185 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 269482005186 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_4; pfam13510 269482005187 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 269482005188 hydroxyglutarate oxidase; Provisional; Region: PRK11728 269482005189 DNA-binding transcriptional regulator LysR; Provisional; Region: PRK11013 269482005190 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 269482005191 The C-terminal substrate-domain of LysR-type transcriptional regulators involved in the catabolism of opines and that of related regulators, contains the type 2 periplasmic binding fold; Region: PBP2_LysR_opines_like; cd08415 269482005192 putative dimerization interface [polypeptide binding]; other site 269482005193 Putative heavy-metal-binding; Region: YbjQ_1; cl00426 269482005194 enterobactin exporter EntS; Provisional; Region: PRK10489 269482005195 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 269482005196 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 269482005197 trimer interface [polypeptide binding]; other site 269482005198 eyelet of channel; other site 269482005199 choline ABC transporter, periplasmic binding protein; Region: ABC_choline_bnd; TIGR03414 269482005200 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 269482005201 choline-sulfatase; Region: chol_sulfatase; TIGR03417 269482005202 Sulfatase; Region: Sulfatase; cl17466 269482005203 Choline sulfatase enzyme C terminal; Region: Choline_sulf_C; pfam12411 269482005204 putative choline sulfate-utilization transcription factor; Region: chol_sulf_TF; TIGR03418 269482005205 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 269482005206 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 269482005207 dimerization interface [polypeptide binding]; other site 269482005208 substrate binding pocket [chemical binding]; other site 269482005209 formyltetrahydrofolate deformylase; Reviewed; Region: PRK13011 269482005210 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 269482005211 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 269482005212 putative active site [active] 269482005213 putative substrate binding site [chemical binding]; other site 269482005214 putative cosubstrate binding site; other site 269482005215 catalytic site [active] 269482005216 Amino acid permease; Region: AA_permease_2; pfam13520 269482005217 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 269482005218 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 269482005219 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 269482005220 Iron-sulfur binding ferredoxin reductase (FNR) proteins combine the FAD and NAD(P) binding regions of FNR with an iron-sulfur binding cluster domain. Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible electron...; Region: FNR_iron_sulfur_binding_1; cd06215 269482005221 FAD binding pocket [chemical binding]; other site 269482005222 FAD binding motif [chemical binding]; other site 269482005223 phosphate binding motif [ion binding]; other site 269482005224 beta-alpha-beta structure motif; other site 269482005225 NAD binding pocket [chemical binding]; other site 269482005226 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 269482005227 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 269482005228 catalytic loop [active] 269482005229 iron binding site [ion binding]; other site 269482005230 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 269482005231 Rieske non-heme iron oxygenase (RO) family, N-terminal Rieske domain of the oxygenase alpha subunit; The RO family comprise a large class of aromatic ring-hydroxylating dioxygenases found predominantly in microorganisms. These enzymes enable...; Region: Rieske_RO_Alpha_N; cd03469 269482005232 [2Fe-2S] cluster binding site [ion binding]; other site 269482005233 C-terminal catalytic domain of GbcA (glycine betaine catabolism A) from Pseudomonas aeruginosa PAO1 and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_GbcA-like; cd08884 269482005234 putative alpha subunit interface [polypeptide binding]; other site 269482005235 putative active site [active] 269482005236 putative substrate binding site [chemical binding]; other site 269482005237 Fe binding site [ion binding]; other site 269482005238 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases, ATP sulphurylases Universal Stress Response protein and electron transfer flavoprotein (ETF). The domain forms a apha/beta/apha fold which binds to Adenosine nucleotide; Region: AANH_like; cl00292 269482005239 Electron transfer flavoprotein domain; Region: ETF; pfam01012 269482005240 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 269482005241 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 269482005242 Domain of unknown function (DUF3483); Region: DUF3483; pfam11982 269482005243 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 269482005244 4Fe-4S binding domain; Region: Fer4; cl02805 269482005245 Cysteine-rich domain; Region: CCG; pfam02754 269482005246 Cysteine-rich domain; Region: CCG; pfam02754 269482005247 mycofactocin system FadH/OYE family oxidoreductase 2; Region: mycofact_OYE_2; TIGR03997 269482005248 Old yellow enzyme (OYE)-related FMN binding domain, group 3. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a reducing agent with oxygens, quinones, and alpha,beta-unsaturated aldehydes and ketones, and can act as...; Region: OYE_like_3_FMN; cd04734 269482005249 putative active site [active] 269482005250 putative FMN binding site [chemical binding]; other site 269482005251 putative substrate binding site [chemical binding]; other site 269482005252 putative catalytic residue [active] 269482005253 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 269482005254 The V4R (vinyl 4 reductase) domain is a predicted small molecular binding domain, that may bind to hydrocarbons; Region: V4R; smart00989 269482005255 Zn-dependent dipeptidase, microsomal dipeptidase homolog [Amino acid transport and metabolism]; Region: COG2355 269482005256 renal dipeptidase (rDP), best studied in mammals and also called membrane or microsomal dipeptidase, is a membrane-bound glycoprotein hydrolyzing dipeptides and is involved in hydrolytic metabolism of penem and carbapenem beta-lactam antibiotics; Region: rDP_like; cd01301 269482005257 active site 269482005258 dimer interface [polypeptide binding]; other site 269482005259 serine hydroxymethyltransferase; Reviewed; Region: PRK13034 269482005260 Serine-glycine hydroxymethyltransferase (SHMT). This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). SHMT carries out interconversion of serine and glycine; it catalyzes the transfer of hydroxymethyl...; Region: SHMT; cd00378 269482005261 dimer interface [polypeptide binding]; other site 269482005262 active site 269482005263 glycine-pyridoxal phosphate binding site [chemical binding]; other site 269482005264 folate binding site [chemical binding]; other site 269482005265 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 269482005266 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 269482005267 conserved cys residue [active] 269482005268 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 269482005269 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; COG1914 269482005270 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 269482005271 formaldehyde dehydrogenase, glutathione-independent; Region: fdhA_non_GSH; TIGR02819 269482005272 Pseudomonas putida aldehyde-dismutating formaldehyde dehydrogenase (PFDH); Region: PFDH_like; cd08282 269482005273 NAD binding site [chemical binding]; other site 269482005274 catalytic Zn binding site [ion binding]; other site 269482005275 structural Zn binding site [ion binding]; other site 269482005276 transcriptional regulator BetI; Validated; Region: PRK00767 269482005277 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 269482005278 Bacterial transcriptional repressor; Region: TetR_C_6; pfam13977 269482005279 betaine aldehyde dehydrogenase; Provisional; Region: PRK13252 269482005280 NAD+-dependent 4-trimethylaminobutyraldehyde dehydrogenase, ALDH family 9A1; Region: ALDH_F9_TMBADH; cd07090 269482005281 tetrameric interface [polypeptide binding]; other site 269482005282 NAD binding site [chemical binding]; other site 269482005283 catalytic residues [active] 269482005284 choline dehydrogenase; Validated; Region: PRK02106 269482005285 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 269482005286 Outer membrane protein W [Cell envelope biogenesis, outer membrane]; Region: OmpW; COG3047 269482005287 Protein of unknown function (DUF2957); Region: DUF2957; pfam11170 269482005288 Protein of unknown function (DUF2957); Region: DUF2957; pfam11170 269482005289 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 269482005290 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 269482005291 Walker A/P-loop; other site 269482005292 ATP binding site [chemical binding]; other site 269482005293 Q-loop/lid; other site 269482005294 ABC transporter signature motif; other site 269482005295 Walker B; other site 269482005296 D-loop; other site 269482005297 H-loop/switch region; other site 269482005298 ABC-2 type transporter; Region: ABC2_membrane; cl17235 269482005299 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 269482005300 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 269482005301 PAS fold; Region: PAS_4; pfam08448 269482005302 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 269482005303 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 269482005304 dimer interface [polypeptide binding]; other site 269482005305 phosphorylation site [posttranslational modification] 269482005306 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 269482005307 ATP binding site [chemical binding]; other site 269482005308 G-X-G motif; other site 269482005309 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 269482005310 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 269482005311 active site 269482005312 phosphorylation site [posttranslational modification] 269482005313 intermolecular recognition site; other site 269482005314 dimerization interface [polypeptide binding]; other site 269482005315 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3795 269482005316 Putative esterase; Region: Esterase; pfam00756 269482005317 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 269482005318 X-Pro dipeptidyl-peptidase (S15 family); Region: Peptidase_S15; pfam02129 269482005319 X-Pro dipeptidyl-peptidase C-terminal non-catalytic domain; Region: PepX_C; pfam08530 269482005320 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 269482005321 Hydroxy(phenyl)pyruvate Reductase, D-isomer-specific 2-hydroxyacid-related dehydrogenase; Region: HPPR; cd12156 269482005322 putative ligand binding site [chemical binding]; other site 269482005323 NAD binding site [chemical binding]; other site 269482005324 catalytic site [active] 269482005325 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 269482005326 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; cl17891 269482005327 ABC-type proline/glycine betaine transport systems, permease component [Amino acid transport and metabolism]; Region: OpuBB; COG1174 269482005328 ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]; Region: OpuBA; COG1125 269482005329 ATP-binding cassette domain of the osmoprotectant transporter; Region: ABC_OpuCA_Osmoprotection; cd03295 269482005330 Walker A/P-loop; other site 269482005331 ATP binding site [chemical binding]; other site 269482005332 Q-loop/lid; other site 269482005333 ABC transporter signature motif; other site 269482005334 Walker B; other site 269482005335 D-loop; other site 269482005336 H-loop/switch region; other site 269482005337 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 269482005338 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 269482005339 ABC-ATPase subunit interface; other site 269482005340 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 269482005341 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 269482005342 N-acetyl-D-glucosamine binding site [chemical binding]; other site 269482005343 catalytic residue [active] 269482005344 Dihydroneopterin aldolase [Coenzyme metabolism]; Region: FolB; COG1539 269482005345 active site 269482005346 Sarcosine oxidase gamma subunit [Amino acid transport and metabolism]; Region: COG4583 269482005347 sarcosine oxidase, alpha subunit family, heterotetrameric form; Region: soxA; TIGR01372 269482005348 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_4; pfam13510 269482005349 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 269482005350 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 269482005351 Sarcosine oxidase delta subunit [Amino acid transport and metabolism]; Region: SoxD; COG4311 269482005352 sarcosine oxidase, beta subunit family, heterotetrameric form; Region: soxB; TIGR01373 269482005353 hydroxyglutarate oxidase; Provisional; Region: PRK11728 269482005354 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 269482005355 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 269482005356 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 269482005357 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 269482005358 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 269482005359 conserved cys residue [active] 269482005360 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 269482005361 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 269482005362 Hydroxypyruvate isomerase [Carbohydrate transport and metabolism]; Region: Hfi; COG3622 269482005363 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 269482005364 Aspartyl/asparaginyl beta-hydroxylase and related dioxygenases [Posttranslational modification, protein turnover, chaperones]; Region: COG3555 269482005365 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 269482005366 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 269482005367 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 269482005368 dimerization interface [polypeptide binding]; other site 269482005369 substrate binding pocket [chemical binding]; other site 269482005370 SnoaL-like domain; Region: SnoaL_2; pfam12680 269482005371 Chalcone-flavanone isomerase; Region: Chalcone; cl03589 269482005372 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 269482005373 choline ABC transporter, periplasmic binding protein; Region: ABC_choline_bnd; TIGR03414 269482005374 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 269482005375 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 269482005376 conserved cys residue [active] 269482005377 Enolase-superfamily, characterized by the presence of an enolate anion intermediate which is generated by abstraction of the alpha-proton of the carboxylate substrate by an active site residue and is stabilized by coordination to the essential Mg2+ ion; Region: enolase_like; cl17188 269482005378 metal binding site [ion binding]; metal-binding site 269482005379 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 269482005380 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 269482005381 dimer interface [polypeptide binding]; other site 269482005382 conserved gate region; other site 269482005383 putative PBP binding loops; other site 269482005384 ABC-ATPase subunit interface; other site 269482005385 ABC-type proline/glycine betaine transport system, ATPase component [Amino acid transport and metabolism]; Region: ProV; COG4175 269482005386 ATP-binding cassette domain of the osmoprotectant proline/glycine betaine uptake system; Region: ABC_Pro_Gly_Betaine; cd03294 269482005387 Walker A/P-loop; other site 269482005388 ATP binding site [chemical binding]; other site 269482005389 Q-loop/lid; other site 269482005390 ABC transporter signature motif; other site 269482005391 Walker B; other site 269482005392 D-loop; other site 269482005393 H-loop/switch region; other site 269482005394 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cl15354 269482005395 Predicted membrane protein (DUF2339); Region: DUF2339; pfam10101 269482005396 Predicted membrane protein (DUF2339); Region: DUF2339; pfam10101 269482005397 Protein of unknown function (DUF3999); Region: DUF3999; pfam13163 269482005398 NIPSNAP; Region: NIPSNAP; pfam07978 269482005399 Predicted flavoprotein [General function prediction only]; Region: COG0431 269482005400 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 269482005401 Haemolysin secretion/activation protein ShlB/FhaC/HecB; Region: ShlB; pfam03865 269482005402 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 269482005403 Helix-turn-helix domain; Region: HTH_38; pfam13936 269482005404 Integrase core domain; Region: rve; pfam00665 269482005405 Haemagglutinin; Region: HIM; pfam05662 269482005406 YadA-like C-terminal region; Region: YadA; pfam03895 269482005407 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 269482005408 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 269482005409 ligand binding site [chemical binding]; other site 269482005410 Protein of unknown function (DUF2827); Region: DUF2827; pfam10933 269482005411 Protein of unknown function (DUF2827); Region: DUF2827; pfam10933 269482005412 Protein of unknown function (DUF4019); Region: DUF4019; pfam13211 269482005413 Protein of unknown function (DUF2827); Region: DUF2827; pfam10933 269482005414 methyltransferase, FkbM family; Region: fkbM_fam; TIGR01444 269482005415 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 269482005416 Protein of unknown function (DUF2827); Region: DUF2827; pfam10933 269482005417 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 269482005418 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 269482005419 ATP-grasp domain; Region: ATP-grasp_4; cl17255 269482005420 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 269482005421 The biotinyl-domain or biotin carboxyl carrier protein (BCCP) domain is present in all biotin-dependent enzymes, such as acetyl-CoA carboxylase, pyruvate carboxylase, propionyl-CoA carboxylase, methylcrotonyl-CoA carboxylase, geranyl-CoA carboxylase; Region: biotinyl_domain; cd06850 269482005422 carboxyltransferase (CT) interaction site; other site 269482005423 biotinylation site [posttranslational modification]; other site 269482005424 enoyl-CoA hydratase; Provisional; Region: PRK05995 269482005425 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 269482005426 substrate binding site [chemical binding]; other site 269482005427 oxyanion hole (OAH) forming residues; other site 269482005428 trimer interface [polypeptide binding]; other site 269482005429 3-methylcrotonyl-CoA carboxylase, beta chain; Region: PLN02820 269482005430 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 269482005431 isovaleryl-CoA dehydrogenase; Region: PLN02519 269482005432 Isovaleryl-CoA dehydrogenase; Region: IVD; cd01156 269482005433 substrate binding site [chemical binding]; other site 269482005434 FAD binding site [chemical binding]; other site 269482005435 catalytic base [active] 269482005436 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 269482005437 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 269482005438 Transcriptional regulators [Transcription]; Region: MarR; COG1846 269482005439 MarR family; Region: MarR_2; cl17246 269482005440 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 269482005441 Rieske non-heme iron oxygenase (RO) family, Vanillate-O-demethylase oxygenase (VanA) and dicamba O-demethylase oxygenase (DdmC) subfamily, N-terminal Rieske domain of the oxygenase alpha subunit; ROs comprise a large class of aromatic ring-hydroxylating...; Region: Rieske_RO_Alpha_VanA_DdmC; cd03532 269482005442 C-terminal catalytic domain of the oxygenase alpha subunit of dicamba O-demethylase and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_DMO-like; cd08878 269482005443 alpha subunit interface [polypeptide binding]; other site 269482005444 active site 269482005445 substrate binding site [chemical binding]; other site 269482005446 Fe binding site [ion binding]; other site 269482005447 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 269482005448 Phthalate dioxygenase reductase (PDR) is an FMN-dependent reductase that mediates electron transfer from NADH to FMN to an iron sulfur cluster. PDR has an an N-terminal ferrredoxin reductase (FNR)-like NAD(H) binding domain and a C-terminal iron-sulfur; Region: PDR_like; cd06185 269482005449 FMN-binding pocket [chemical binding]; other site 269482005450 flavin binding motif; other site 269482005451 phosphate binding motif [ion binding]; other site 269482005452 beta-alpha-beta structure motif; other site 269482005453 NAD binding pocket [chemical binding]; other site 269482005454 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 269482005455 catalytic loop [active] 269482005456 iron binding site [ion binding]; other site 269482005457 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 269482005458 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 269482005459 N-terminal plug; other site 269482005460 ligand-binding site [chemical binding]; other site 269482005461 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 269482005462 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 269482005463 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 269482005464 Coenzyme A binding pocket [chemical binding]; other site 269482005465 Calcineurin-like phosphoesterase superfamily domain; Region: Metallophos_2; pfam12850 269482005466 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 269482005467 active site 269482005468 metal binding site [ion binding]; metal-binding site 269482005469 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 269482005470 TAP-like protein; Region: Abhydrolase_4; pfam08386 269482005471 Insertion element 4 transposase N-terminal; Region: Nterm_IS4; pfam13006 269482005472 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 269482005473 WYL domain; Region: WYL; pfam13280 269482005474 SIR2 superfamily of proteins includes silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation, where the acetyl group from the lysine epsilon-amino group is transferred to the ADP-ribose moiety of NAD+; Region: SIR2; cl00195 269482005475 Transposase domain (DUF772); Region: DUF772; pfam05598 269482005476 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 269482005477 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 269482005478 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 269482005479 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 269482005480 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 269482005481 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 269482005482 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 269482005483 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 269482005484 dimerization interface [polypeptide binding]; other site 269482005485 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cl00080 269482005486 dimer interface [polypeptide binding]; other site 269482005487 phosphorylation site [posttranslational modification] 269482005488 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 269482005489 ATP binding site [chemical binding]; other site 269482005490 Mg2+ binding site [ion binding]; other site 269482005491 G-X-G motif; other site 269482005492 osmolarity response regulator; Provisional; Region: ompR; PRK09468 269482005493 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 269482005494 active site 269482005495 phosphorylation site [posttranslational modification] 269482005496 intermolecular recognition site; other site 269482005497 dimerization interface [polypeptide binding]; other site 269482005498 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 269482005499 DNA binding site [nucleotide binding] 269482005500 TlpA-like family, DipZ-like subfamily; composed uncharacterized proteins containing a TlpA-like TRX domain. Some members show domain architectures similar to that of E. coli DipZ protein (also known as DsbD). The only eukaryotic members of the TlpA...; Region: TlpA_like_DipZ_like; cd03012 269482005501 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 269482005502 catalytic residues [active] 269482005503 Transcriptional regulator [Transcription]; Region: PaiB; COG2808 269482005504 Transglycosylase; Region: Transgly; pfam00912 269482005505 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 269482005506 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 269482005507 benzoate transport; Region: 2A0115; TIGR00895 269482005508 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 269482005509 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: COG3264 269482005510 Protein of unknown function (DUF3772); Region: DUF3772; pfam12607 269482005511 Mechanosensitive ion channel; Region: MS_channel; pfam00924 269482005512 NAD+-dependent alpha-aminoadipic semialdehyde dehydrogenase, ALDH family members 7A1 and 7B; Region: ALDH_F7_AASADH; cd07130 269482005513 aldehyde dehydrogenase family 7 member; Region: PLN02315 269482005514 tetrameric interface [polypeptide binding]; other site 269482005515 NAD binding site [chemical binding]; other site 269482005516 catalytic residues [active] 269482005517 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 269482005518 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 269482005519 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 269482005520 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 269482005521 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 269482005522 putative active site [active] 269482005523 catalytic site [active] 269482005524 Putative catalytic domain, repeat 2, of uncharacterized hypothetical proteins similar to Nuc, an endonuclease from Salmonella typhimurium; Region: PLDc_Nuc_like_unchar1_2; cd09173 269482005525 PLD-like domain; Region: PLDc_2; pfam13091 269482005526 putative active site [active] 269482005527 catalytic site [active] 269482005528 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 269482005529 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 269482005530 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 269482005531 NAD+ synthase is a homodimer, which catalyzes the final step in de novo nicotinamide adenine dinucleotide (NAD+) biosynthesis, an amide transfer from either ammonia or glutamine to nicotinic acid adenine dinucleotide (NaAD). The conversion of NaAD to NAD...; Region: NAD_synthase; cd00553 269482005532 NAD synthase [Coenzyme metabolism]; Region: NadE; COG0171 269482005533 homodimer interface [polypeptide binding]; other site 269482005534 NAD binding pocket [chemical binding]; other site 269482005535 ATP binding pocket [chemical binding]; other site 269482005536 Mg binding site [ion binding]; other site 269482005537 active-site loop [active] 269482005538 Carboxypeptidase C (cathepsin A) [Amino acid transport and metabolism]; Region: COG2939 269482005539 Serine carboxypeptidase; Region: Peptidase_S10; cl08270 269482005540 Activation domain of S53 peptidases; Region: Pro-peptidase_S53; cd11377 269482005541 peptidase domain interface [polypeptide binding]; other site 269482005542 Peptidase domain in the S53 family; Region: Peptidases_S53; cd04056 269482005543 active site 269482005544 catalytic triad [active] 269482005545 calcium binding site [ion binding]; other site 269482005546 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 269482005547 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 269482005548 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 269482005549 putative DNA binding site [nucleotide binding]; other site 269482005550 putative Zn2+ binding site [ion binding]; other site 269482005551 AsnC family; Region: AsnC_trans_reg; pfam01037 269482005552 Transcriptional regulator [Transcription]; Region: LysR; COG0583 269482005553 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 269482005554 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 269482005555 dimerization interface [polypeptide binding]; other site 269482005556 Agmatinase-like family includes proclavaminic acid amidinohydrolase; Region: Agmatinase_PAH; cd11592 269482005557 agmatinase; Region: agmatinase; TIGR01230 269482005558 oligomer interface [polypeptide binding]; other site 269482005559 putative active site [active] 269482005560 Mn binding site [ion binding]; other site 269482005561 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional; Region: PRK05222 269482005562 CIMS - Cobalamine-independent methonine synthase, or MetE, N-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_N_terminal_like; cd03312 269482005563 THF binding site; other site 269482005564 CIMS - Cobalamine-independent methonine synthase, or MetE, C-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_C_terminal_like; cd03311 269482005565 substrate binding site [chemical binding]; other site 269482005566 THF binding site; other site 269482005567 zinc-binding site [ion binding]; other site 269482005568 DNA-binding transcriptional regulator MetR; Provisional; Region: PRK15421 269482005569 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 269482005570 The C-terminal substrate binding domain of LysR-type transcriptional regulator metR, which regulates the expression of methionine biosynthetic genes, contains type 2 periplasmic binding fold; Region: PBP2_MetR; cd08441 269482005571 putative dimerization interface [polypeptide binding]; other site 269482005572 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 269482005573 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 269482005574 Uncharacterized protein conserved in bacteria (DUF2086); Region: DUF2086; pfam09859 269482005575 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 269482005576 Major Facilitator Superfamily; Region: MFS_1; pfam07690 269482005577 putative substrate translocation pore; other site 269482005578 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 269482005579 Predicted HD phosphohydrolase [General function prediction only]; Region: COG4341; cl17564 269482005580 putative phosphonoacetaldehyde dehydrogenase; Region: PhnAcAld_DH; TIGR03250 269482005581 Streptomyces putative phosphonoformaldehyde dehydrogenase PhpJ-like; Region: ALDH_PhpJ; cd07146 269482005582 NAD(P) binding site [chemical binding]; other site 269482005583 catalytic residues [active] 269482005584 phosphonoacetate hydrolase; Region: hydr_PhnA; TIGR02335 269482005585 Type I phosphodiesterase / nucleotide pyrophosphatase; Region: Phosphodiest; pfam01663 269482005586 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 269482005587 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 269482005588 conserved gate region; other site 269482005589 2-aminoethylphosphonate transport system permease PhnU; Provisional; Region: PRK15050 269482005590 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 269482005591 dimer interface [polypeptide binding]; other site 269482005592 conserved gate region; other site 269482005593 putative PBP binding loops; other site 269482005594 ABC-ATPase subunit interface; other site 269482005595 2-aminoethylphosphonate ABC transport system, ATP-binding component PhnT; Region: PhnT; TIGR03258 269482005596 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 269482005597 Walker A/P-loop; other site 269482005598 ATP binding site [chemical binding]; other site 269482005599 Q-loop/lid; other site 269482005600 ABC transporter signature motif; other site 269482005601 Walker B; other site 269482005602 D-loop; other site 269482005603 H-loop/switch region; other site 269482005604 TOBE domain; Region: TOBE_2; pfam08402 269482005605 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 269482005606 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 269482005607 2-aminoethylphosphonate--pyruvate transaminase; Provisional; Region: PRK13479 269482005608 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 269482005609 catalytic residue [active] 269482005610 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 269482005611 D-galactonate transporter; Region: 2A0114; TIGR00893 269482005612 putative substrate translocation pore; other site 269482005613 shikimate 5-dehydrogenase; Reviewed; Region: PRK12549 269482005614 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 269482005615 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 269482005616 shikimate binding site; other site 269482005617 NAD(P) binding site [chemical binding]; other site 269482005618 Dehydroquinase (DHQase), type II. Dehydroquinase (or 3-dehydroquinate dehydratase) catalyzes the reversible dehydration of 3-dehydroquinate to form 3-dehydroshikimate. This reaction is part of two metabolic pathways: the biosynthetic shikimate pathway...; Region: DHQase_II; cd00466 269482005619 Dehydroquinase class II; Region: DHquinase_II; pfam01220 269482005620 active site 269482005621 trimer interface [polypeptide binding]; other site 269482005622 dimer interface [polypeptide binding]; other site 269482005623 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 269482005624 4-hydroxyphenylpyruvate dioxygenase; Region: 4HPPD; TIGR01263 269482005625 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 269482005626 dimer interface [polypeptide binding]; other site 269482005627 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 269482005628 active site 269482005629 Fe binding site [ion binding]; other site 269482005630 SPRY-associated domain; Region: PRY; cl02686 269482005631 PAS fold; Region: PAS_4; pfam08448 269482005632 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 269482005633 putative active site [active] 269482005634 heme pocket [chemical binding]; other site 269482005635 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 269482005636 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 269482005637 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 269482005638 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 269482005639 Type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine); Region: PBP1_ABC_LIVBP_like; cd06342 269482005640 dimerization interface [polypeptide binding]; other site 269482005641 ligand binding site [chemical binding]; other site 269482005642 metabolite-proton symporter; Region: 2A0106; TIGR00883 269482005643 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 269482005644 putative substrate translocation pore; other site 269482005645 Predicted membrane protein [Function unknown]; Region: COG2259 269482005646 Fucose dissimilation pathway protein FucU [Carbohydrate transport and metabolism]; Region: FucU; COG4154 269482005647 galactarate dehydratase; Region: galactar-dH20; TIGR03248 269482005648 Domains similar to fish antifreeze type III protein; Region: SAF_AH_GD; cd11613 269482005649 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 269482005650 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 269482005651 5-dehydro-4-deoxyglucarate dehydratase, also called 5-keto-4-deoxy-glucarate dehydratase (KDGDH); Region: KDGDH; cd00951 269482005652 putative active site [active] 269482005653 catalytic residue [active] 269482005654 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 269482005655 Alpha-Ketoglutaric Semialdehyde Dehydrogenase; Region: ALDH_KGSADH; cd07129 269482005656 dimer interface [polypeptide binding]; other site 269482005657 NADP binding site [chemical binding]; other site 269482005658 catalytic residues [active] 269482005659 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 269482005660 D-galactonate transporter; Region: 2A0114; TIGR00893 269482005661 putative substrate translocation pore; other site 269482005662 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 269482005663 non-specific DNA binding site [nucleotide binding]; other site 269482005664 salt bridge; other site 269482005665 sequence-specific DNA binding site [nucleotide binding]; other site 269482005666 sulfur acquisition oxidoreductase, SfnB family; Region: sulfur_SfnB; TIGR04022 269482005667 Dibenzothiophene (DBT) desulfurization enzyme C; Region: DszC; cd01163 269482005668 Flavin binding site [chemical binding]; other site 269482005669 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 269482005670 conserved gate region; other site 269482005671 dimer interface [polypeptide binding]; other site 269482005672 ABC-ATPase subunit interface; other site 269482005673 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 269482005674 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 269482005675 Walker A/P-loop; other site 269482005676 ATP binding site [chemical binding]; other site 269482005677 Q-loop/lid; other site 269482005678 ABC transporter signature motif; other site 269482005679 Walker B; other site 269482005680 D-loop; other site 269482005681 H-loop/switch region; other site 269482005682 This domain is found at the C-terminus of ABC transporter proteins involved in D-methionine transport as well as a number of ferredoxin-like proteins; Region: NIL; smart00930 269482005683 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 269482005684 nitrilotriacetate monoxygenase oxidizes nitrilotriacetate utilizing reduced flavin mononucleotide (FMNH2) and oxygen. The FMNH2 is provided by an NADH:flavin mononucleotide (FMN) oxidorductase that uses NADH to reduce FMN to FMNH2; Region: Nitrilotriacetate_monoxgenase; cd01095 269482005685 active site 269482005686 non-prolyl cis peptide bond; other site 269482005687 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 269482005688 2-hydroxycarboxylate transporter family; Region: 2HCT; pfam03390 269482005689 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 269482005690 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 269482005691 dimer interface [polypeptide binding]; other site 269482005692 phosphorylation site [posttranslational modification] 269482005693 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 269482005694 ATP binding site [chemical binding]; other site 269482005695 Mg2+ binding site [ion binding]; other site 269482005696 G-X-G motif; other site 269482005697 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 269482005698 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 269482005699 active site 269482005700 phosphorylation site [posttranslational modification] 269482005701 intermolecular recognition site; other site 269482005702 dimerization interface [polypeptide binding]; other site 269482005703 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 269482005704 Walker A motif; other site 269482005705 ATP binding site [chemical binding]; other site 269482005706 Walker B motif; other site 269482005707 arginine finger; other site 269482005708 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 269482005709 Protein of unknown function (DUF3579); Region: DUF3579; pfam12112 269482005710 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 269482005711 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 269482005712 catalytic site [active] 269482005713 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 269482005714 AcrB/AcrD/AcrF family; Region: ACR_tran; pfam00873 269482005715 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 269482005716 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 269482005717 HlyD family secretion protein; Region: HlyD_3; pfam13437 269482005718 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cd00312 269482005719 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 269482005720 substrate binding pocket [chemical binding]; other site 269482005721 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 269482005722 Transcriptional regulator [Transcription]; Region: LysR; COG0583 269482005723 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 269482005724 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_3; cd08472 269482005725 putative effector binding pocket; other site 269482005726 putative dimerization interface [polypeptide binding]; other site 269482005727 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 269482005728 Purine nucleoside permease (NUP); Region: NUP; pfam06516 269482005729 LysE type translocator; Region: LysE; cl00565 269482005730 selenophosphate synthetase; Provisional; Region: PRK00943 269482005731 Selenophosphate synthetase (SelD) catalyzes the conversion of selenium to selenophosphate which is required by a number of bacterial, archaeal and eukaryotic organisms for synthesis of Secys-tRNA, the precursor of selenocysteine in selenoenzymes. The...; Region: SelD; cd02195 269482005732 dimerization interface [polypeptide binding]; other site 269482005733 putative ATP binding site [chemical binding]; other site 269482005734 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 269482005735 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 269482005736 DNA-binding site [nucleotide binding]; DNA binding site 269482005737 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 269482005738 pyridoxal 5'-phosphate binding site [chemical binding]; other site 269482005739 homodimer interface [polypeptide binding]; other site 269482005740 catalytic residue [active] 269482005741 4-aminobutyrate aminotransferase; Provisional; Region: PRK06777 269482005742 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 269482005743 inhibitor-cofactor binding pocket; inhibition site 269482005744 pyridoxal 5'-phosphate binding site [chemical binding]; other site 269482005745 catalytic residue [active] 269482005746 succinate-semialdehyde dehydrogenase I; Provisional; Region: gabD; PRK11241 269482005747 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 269482005748 tetramerization interface [polypeptide binding]; other site 269482005749 NAD(P) binding site [chemical binding]; other site 269482005750 catalytic residues [active] 269482005751 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 269482005752 PAS domain; Region: PAS_9; pfam13426 269482005753 putative active site [active] 269482005754 heme pocket [chemical binding]; other site 269482005755 HAMP domain; Region: HAMP; pfam00672 269482005756 dimerization interface [polypeptide binding]; other site 269482005757 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 269482005758 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 269482005759 dimer interface [polypeptide binding]; other site 269482005760 putative CheW interface [polypeptide binding]; other site 269482005761 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 269482005762 PAS domain; Region: PAS_9; pfam13426 269482005763 putative active site [active] 269482005764 heme pocket [chemical binding]; other site 269482005765 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 269482005766 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 269482005767 dimer interface [polypeptide binding]; other site 269482005768 putative CheW interface [polypeptide binding]; other site 269482005769 Uncharacterized conserved protein [Function unknown]; Region: COG1683 269482005770 beta-ketoadipyl CoA thiolase; Validated; Region: PRK09050 269482005771 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 269482005772 dimer interface [polypeptide binding]; other site 269482005773 active site 269482005774 beta-ketoadipate pathway transcriptional regulators, PcaR/PcaU/PobR family; Region: pcaR_pcaU; TIGR02431 269482005775 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 269482005776 Bacterial transcriptional regulator; Region: IclR; pfam01614 269482005777 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 269482005778 metabolite-proton symporter; Region: 2A0106; TIGR00883 269482005779 putative substrate translocation pore; other site 269482005780 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 269482005781 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 269482005782 metal binding site [ion binding]; metal-binding site 269482005783 putative dimer interface [polypeptide binding]; other site 269482005784 uncharacterized peroxidase-related enzyme; Region: peroxid_rel; TIGR01926 269482005785 alkylhydroperoxidase AhpD family core domain; Region: ahpD_dom; TIGR00778 269482005786 short chain dehydrogenase; Provisional; Region: PRK06180 269482005787 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 269482005788 NADP binding site [chemical binding]; other site 269482005789 active site 269482005790 steroid binding site; other site 269482005791 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 269482005792 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 269482005793 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 269482005794 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 269482005795 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 269482005796 Transcriptional regulator [Transcription]; Region: LysR; COG0583 269482005797 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 269482005798 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 269482005799 dimerization interface [polypeptide binding]; other site 269482005800 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 269482005801 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 269482005802 putative substrate translocation pore; other site 269482005803 luciferase-type oxidoreductase, BA3436 family; Region: lucif_BA3436; TIGR03571 269482005804 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 269482005805 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 269482005806 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 269482005807 active site 269482005808 catalytic tetrad [active] 269482005809 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 269482005810 Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a...; Region: OYE_like_FMN; cd02933 269482005811 FMN binding site [chemical binding]; other site 269482005812 active site 269482005813 substrate binding site [chemical binding]; other site 269482005814 catalytic residue [active] 269482005815 Methyltransferase domain; Region: Methyltransf_24; pfam13578 269482005816 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 269482005817 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 269482005818 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 269482005819 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 269482005820 active site 269482005821 nucleophile elbow; other site 269482005822 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 269482005823 YjcZ-like protein; Region: YjcZ; pfam13990 269482005824 hypothetical protein; Provisional; Region: PRK09866 269482005825 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 269482005826 G1 box; other site 269482005827 GTP/Mg2+ binding site [chemical binding]; other site 269482005828 G2 box; other site 269482005829 Switch I region; other site 269482005830 G3 box; other site 269482005831 Switch II region; other site 269482005832 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 269482005833 G3 box; other site 269482005834 Switch II region; other site 269482005835 GTP/Mg2+ binding site [chemical binding]; other site 269482005836 G4 box; other site 269482005837 G5 box; other site 269482005838 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 269482005839 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 269482005840 conserved cys residue [active] 269482005841 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 269482005842 Ketosteroid isomerase homolog [Function unknown]; Region: COG4319 269482005843 SnoaL-like domain; Region: SnoaL_3; pfam13474 269482005844 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 269482005845 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_2; cd03139 269482005846 conserved cys residue [active] 269482005847 short chain dehydrogenase; Provisional; Region: PRK06500 269482005848 classical (c) SDRs; Region: SDR_c; cd05233 269482005849 NAD(P) binding site [chemical binding]; other site 269482005850 active site 269482005851 putative DNA-binding transcriptional regulator; Provisional; Region: PRK09791 269482005852 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 269482005853 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 269482005854 dimerization interface [polypeptide binding]; other site 269482005855 ABC transporter lysine/arginine/ornithine binding periplasmic protein; Provisional; Region: PRK15010 269482005856 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 269482005857 substrate binding pocket [chemical binding]; other site 269482005858 membrane-bound complex binding site; other site 269482005859 hinge residues; other site 269482005860 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like subfamily; subgroup includes Pseudomonas aeruginosa AotO; Region: M14_PaAOTO_like; cd06250 269482005861 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 269482005862 active site 269482005863 Zn binding site [ion binding]; other site 269482005864 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 269482005865 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 269482005866 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 269482005867 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 269482005868 trimer interface [polypeptide binding]; other site 269482005869 eyelet of channel; other site 269482005870 Protein of unknown function (DUF2866); Region: DUF2866; pfam11065 269482005871 Predicted membrane protein [Function unknown]; Region: COG2860 269482005872 UPF0126 domain; Region: UPF0126; pfam03458 269482005873 UPF0126 domain; Region: UPF0126; pfam03458 269482005874 Aminoglycoside/hydroxyurea antibiotic resistance kinase; Region: APH_6_hur; cl17810 269482005875 hypothetical protein; Provisional; Region: PRK11171 269482005876 Cupin domain; Region: Cupin_2; pfam07883 269482005877 Cupin domain; Region: Cupin_2; pfam07883 269482005878 HINT (histidine triad nucleotide-binding protein) subgroup: Members of this CD belong to the superfamily of histidine triad hydrolases that act on alpha-phosphate of ribonucleotides. This subgroup includes members from all three forms of cellular life; Region: HINT_subgroup; cd01277 269482005879 HIT family signature motif; other site 269482005880 catalytic residue [active] 269482005881 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 269482005882 Beta-lactamase; Region: Beta-lactamase; pfam00144 269482005883 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 269482005884 GST_N family, unknown subfamily 2; composed of uncharacterized bacterial proteins with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of...; Region: GST_N_2; cd03047 269482005885 putative C-terminal domain interface [polypeptide binding]; other site 269482005886 putative GSH binding site (G-site) [chemical binding]; other site 269482005887 putative dimer interface [polypeptide binding]; other site 269482005888 C-terminal, alpha helical domain of an unknown subfamily 2 of Glutathione S-transferases; Region: GST_C_2; cd03180 269482005889 putative N-terminal domain interface [polypeptide binding]; other site 269482005890 putative dimer interface [polypeptide binding]; other site 269482005891 putative substrate binding pocket (H-site) [chemical binding]; other site 269482005892 trans-2-enoyl-CoA reductase; Provisional; Region: PRK13656 269482005893 NAD(P)H binding domain of trans-2-enoyl-CoA reductase; Region: Eno-Rase_NADH_b; pfam12242 269482005894 Trans-2-enoyl-CoA reductase catalytic region; Region: Enoyl_reductase; pfam12241 269482005895 Enoyl reductase FAD binding domain; Region: Eno-Rase_FAD_bd; pfam07055 269482005896 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 269482005897 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 269482005898 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; Region: SRPBCC_CalC_Aha1-like_2; cd08895 269482005899 putative hydrophobic ligand binding site [chemical binding]; other site 269482005900 DsbA family, 2-hydroxychromene-2-carboxylate (HCCA) isomerase subfamily; HCCA isomerase is a glutathione (GSH) dependent enzyme involved in the naphthalene catabolic pathway. It converts HCCA, a hemiketal formed spontaneously after ring cleavage of 1; Region: DsbA_HCCA_Iso; cd03022 269482005901 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 269482005902 putative catalytic residue [active] 269482005903 Transcriptional regulator [Transcription]; Region: LysR; COG0583 269482005904 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 269482005905 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 269482005906 putative effector binding pocket; other site 269482005907 dimerization interface [polypeptide binding]; other site 269482005908 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 269482005909 PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cd01610 269482005910 active site 269482005911 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 269482005912 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cd00158 269482005913 active site residue [active] 269482005914 chromosome replication initiation inhibitor protein; Provisional; Region: PRK13348 269482005915 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 269482005916 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 269482005917 dimerization interface [polypeptide binding]; other site 269482005918 Threonine aldolase [Amino acid transport and metabolism]; Region: GLY1; COG2008 269482005919 Low-specificity threonine aldolase (TA). This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). TA catalyzes the conversion of L-threonine or L-allo-threonine to glycine and acetaldehyde in a...; Region: TA_like; cd06502 269482005920 tetramer interface [polypeptide binding]; other site 269482005921 pyridoxal 5'-phosphate binding site [chemical binding]; other site 269482005922 catalytic residue [active] 269482005923 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 269482005924 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 269482005925 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 269482005926 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 269482005927 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 269482005928 dimer interface [polypeptide binding]; other site 269482005929 conserved gate region; other site 269482005930 putative PBP binding loops; other site 269482005931 ABC-ATPase subunit interface; other site 269482005932 2-aminoethylphosphonate ABC transporter substrate-binding protein; Provisional; Region: PRK15046 269482005933 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 269482005934 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 269482005935 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 269482005936 Walker A/P-loop; other site 269482005937 ATP binding site [chemical binding]; other site 269482005938 Q-loop/lid; other site 269482005939 ABC transporter signature motif; other site 269482005940 Walker B; other site 269482005941 D-loop; other site 269482005942 H-loop/switch region; other site 269482005943 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 269482005944 dimer interface [polypeptide binding]; other site 269482005945 conserved gate region; other site 269482005946 putative PBP binding loops; other site 269482005947 ABC-ATPase subunit interface; other site 269482005948 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 269482005949 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 269482005950 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 269482005951 dimerization interface [polypeptide binding]; other site 269482005952 Sulfatase; Region: Sulfatase; cl17466 269482005953 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 269482005954 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 269482005955 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 269482005956 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 269482005957 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 269482005958 Uncharacterized conserved protein [Function unknown]; Region: COG5361 269482005959 Protein of unknown function (DUF1254); Region: DUF1254; pfam06863 269482005960 Protein of unknown function (DUF1214); Region: DUF1214; cl08447 269482005961 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cd00371 269482005962 metal-binding site [ion binding] 269482005963 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cd00371 269482005964 metal-binding site [ion binding] 269482005965 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 269482005966 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cd00371 269482005967 metal-binding site [ion binding] 269482005968 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 269482005969 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 269482005970 motif II; other site 269482005971 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 269482005972 Creatinine amidohydrolase; Region: Creatininase; cl00618 269482005973 MgtC family; Region: MgtC; pfam02308 269482005974 AGE domain; N-acyl-D-glucosamine 2-epimerase domain; Responsible for intermediate epimerization during biosynthesis of N-acetylneuraminic acid. Catalytic mechanism is believed to be via nucleotide elimination and readdition and is ATP modulated. AGE is...; Region: AGE; cl00183 269482005975 putative active cleft [active] 269482005976 methyl-accepting chemotaxis protein II; Provisional; Region: PRK15048 269482005977 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cd00181 269482005978 dimer interface [polypeptide binding]; other site 269482005979 ligand binding site [chemical binding]; other site 269482005980 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 269482005981 dimer interface [polypeptide binding]; other site 269482005982 putative CheW interface [polypeptide binding]; other site 269482005983 PaaI_thioesterase is a tetrameric acyl-CoA thioesterase with a hot dog fold and one of several proteins responsible for phenylacetic acid (PA) degradation in bacteria. Although orthologs of PaaI exist in archaea and eukaryotes, their function has not...; Region: PaaI_thioesterase; cd03443 269482005984 CoenzymeA binding site [chemical binding]; other site 269482005985 subunit interaction site [polypeptide binding]; other site 269482005986 PHB binding site; other site 269482005987 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 269482005988 CoA-transferase family III; Region: CoA_transf_3; pfam02515 269482005989 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 269482005990 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 269482005991 DNA binding residues [nucleotide binding] 269482005992 dimerization interface [polypeptide binding]; other site 269482005993 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 269482005994 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 269482005995 DNA binding residues [nucleotide binding] 269482005996 dimerization interface [polypeptide binding]; other site 269482005997 probable AcnD-accessory protein PrpF; Region: prpF; TIGR02334 269482005998 2-methylisocitrate dehydratase, Fe/S-dependent; Region: 2met_isocit_dHY; TIGR02333 269482005999 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 269482006000 substrate binding site [chemical binding]; other site 269482006001 ligand binding site [chemical binding]; other site 269482006002 Aconitase swivel domain. Aconitase (aconitate hydratase) catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle. This is the aconitase swivel domain, which undergoes swivelling conformational change in the enzyme...; Region: Aconitase_swivel; cl00215 269482006003 substrate binding site [chemical binding]; other site 269482006004 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 269482006005 Subgroup of Escherichia coli (Ec) 2-methylcitrate synthase (2MCS)_like. 2MCS catalyzes the condensation of propionyl-coenzyme A (PrCoA) and oxalacetate (OAA) to form 2-methylcitrate and coenzyme A (CoA) during propionate metabolism. Citrate synthase (CS)...; Region: Ec2MCS_like_1; cd06117 269482006006 dimer interface [polypeptide binding]; other site 269482006007 active site 269482006008 citrylCoA binding site [chemical binding]; other site 269482006009 oxalacetate/citrate binding site [chemical binding]; other site 269482006010 coenzyme A binding site [chemical binding]; other site 269482006011 catalytic triad [active] 269482006012 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 269482006013 Members of the ICL/PEPM enzyme family catalyze either P-C or C-C bond formation/cleavage. Known members are phosphoenolpyruvate mutase (PEPM), phosphonopyruvate hydrolase (PPH), carboxyPEP mutase (CPEP mutase), oxaloacetate hydrolase (OAH), isocitrate...; Region: ICL_PEPM; cd00377 269482006014 tetramer interface [polypeptide binding]; other site 269482006015 active site 269482006016 Mg2+/Mn2+ binding site [ion binding]; other site 269482006017 Propionate catabolism activator; Region: PrpR_N; pfam06506 269482006018 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 269482006019 PAS domain; Region: PAS; smart00091 269482006020 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 269482006021 Walker A motif; other site 269482006022 ATP binding site [chemical binding]; other site 269482006023 Walker B motif; other site 269482006024 arginine finger; other site 269482006025 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 269482006026 2-keto-4-pentenoate hydratase/2-oxohepta-3-ene-1,7-dioic acid hydratase (catechol pathway) [Secondary metabolites biosynthesis, transport, and catabolism]; Region: MhpD; COG0179 269482006027 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 269482006028 Transcriptional regulator [Transcription]; Region: IclR; COG1414 269482006029 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 269482006030 Bacterial transcriptional regulator; Region: IclR; pfam01614 269482006031 acetyl coenzyme A synthetase (ADP forming), alpha domain; Region: AcCoA-syn-alpha; TIGR02717 269482006032 CoA binding domain; Region: CoA_binding_2; pfam13380 269482006033 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 269482006034 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 269482006035 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 269482006036 Coenzyme A binding pocket [chemical binding]; other site 269482006037 H-NS histone family; Region: Histone_HNS; pfam00816 269482006038 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 269482006039 PAS fold; Region: PAS_4; pfam08448 269482006040 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 269482006041 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 269482006042 Walker B motif; other site 269482006043 arginine finger; other site 269482006044 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 269482006045 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 269482006046 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 269482006047 Thioredoxin-like domain; Region: Thioredoxin_2; pfam13098 269482006048 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 269482006049 Phosphoesterase family; Region: Phosphoesterase; pfam04185 269482006050 Transposase, Mutator family; Region: Transposase_mut; pfam00872 269482006051 MULE transposase domain; Region: MULE; pfam10551 269482006052 phospholipase C, phosphocholine-specific, Pseudomonas-type; Region: PC_PLC; TIGR03396 269482006053 Phosphoesterase family; Region: Phosphoesterase; pfam04185 269482006054 Domain of unknown function (DUF756); Region: DUF756; pfam05506 269482006055 Domain of unknown function (DUF756); Region: DUF756; pfam05506 269482006056 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 269482006057 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 269482006058 GlpE sulfurtransferase (ST) and homologs are members of the Rhodanese Homology Domain superfamily. Unlike other rhodanese sulfurtransferases, GlpE is a single domain protein but indications are that it functions as a dimer. The active site contains a...; Region: GlpE_ST; cd01444 269482006059 active site residue [active] 269482006060 outer membrane porin, OprD family; Region: OprD; pfam03573 269482006061 oligopeptide ABC transporter ATP-binding protein OppF; Provisional; Region: PRK15079 269482006062 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 269482006063 Walker A/P-loop; other site 269482006064 ATP binding site [chemical binding]; other site 269482006065 Q-loop/lid; other site 269482006066 ABC transporter signature motif; other site 269482006067 Walker B; other site 269482006068 D-loop; other site 269482006069 H-loop/switch region; other site 269482006070 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 269482006071 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 269482006072 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 269482006073 Walker A/P-loop; other site 269482006074 ATP binding site [chemical binding]; other site 269482006075 Q-loop/lid; other site 269482006076 ABC transporter signature motif; other site 269482006077 Walker B; other site 269482006078 D-loop; other site 269482006079 H-loop/switch region; other site 269482006080 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 269482006081 oligopeptide ABC transporter permease OppC; Provisional; Region: PRK15406 269482006082 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 269482006083 dimer interface [polypeptide binding]; other site 269482006084 conserved gate region; other site 269482006085 putative PBP binding loops; other site 269482006086 ABC-ATPase subunit interface; other site 269482006087 oligopeptide transporter permease; Reviewed; Region: oppB; PRK09471 269482006088 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 269482006089 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 269482006090 ABC-ATPase subunit interface; other site 269482006091 oligopeptide ABC transporter substrate-binding protein OppA; Provisional; Region: PRK15104 269482006092 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 269482006093 peptide binding site [polypeptide binding]; other site 269482006094 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 269482006095 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 269482006096 non-specific DNA binding site [nucleotide binding]; other site 269482006097 salt bridge; other site 269482006098 sequence-specific DNA binding site [nucleotide binding]; other site 269482006099 Cupin domain; Region: Cupin_2; pfam07883 269482006100 dipeptide/tripeptide permease B; Provisional; Region: PRK10207 269482006101 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 269482006102 putative substrate translocation pore; other site 269482006103 POT family; Region: PTR2; cl17359 269482006104 OpgC protein; Region: OpgC_C; pfam10129 269482006105 Acyltransferase family; Region: Acyl_transf_3; pfam01757 269482006106 Predicted permeases [General function prediction only]; Region: RarD; COG2962 269482006107 Multidrug resistance efflux transporter; Region: EmrE; pfam13536 269482006108 acylphosphatase; Provisional; Region: PRK14424 269482006109 hopanoid-associated sugar epimerase; Region: HpnA; TIGR03466 269482006110 uncharacterized subgroup of aldehyde reductase and flavonoid reductase related proteins, extended (e) SDRs; Region: AR_FR_like_1_SDR_e; cd05228 269482006111 putative NADP binding site [chemical binding]; other site 269482006112 putative substrate binding site [chemical binding]; other site 269482006113 active site 269482006114 hopene-associated glycosyltransferase HpnB; Region: HpnB; TIGR03469 269482006115 Glycosyl transferase family 2; Region: Glycos_transf_2; pfam00535 269482006116 active site 269482006117 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 269482006118 LytB protein; Region: LYTB; pfam02401 269482006119 hopanoid biosynthesis associated radical SAM protein HpnH; Region: HpnH; TIGR03470 269482006120 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 269482006121 FeS/SAM binding site; other site 269482006122 Domain of unknown function (DUF3463); Region: DUF3463; pfam11946 269482006123 Dopa 4,5-dioxygenase family; Region: DOPA_dioxygen; pfam08883 269482006124 SnoaL-like domain; Region: SnoaL_2; pfam12680 269482006125 Predicted membrane protein, hemolysin III homolog [General function prediction only]; Region: COG1272 269482006126 channel protein, hemolysin III family; Region: hlyIII; TIGR01065 269482006127 Protein of unknown function (DUF466); Region: DUF466; pfam04328 269482006128 carbon starvation protein A; Provisional; Region: PRK15015 269482006129 Carbon starvation protein CstA; Region: CstA; pfam02554 269482006130 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 269482006131 PRC-barrel domain; Region: PRC; pfam05239 269482006132 phospho-2-dehydro-3-deoxyheptonate aldolase; Provisional; Region: PRK12755 269482006133 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 269482006134 hypothetical protein; Provisional; Region: PRK11239 269482006135 Protein of unknown function, DUF480; Region: DUF480; pfam04337 269482006136 Transposase, Mutator family; Region: Transposase_mut; pfam00872 269482006137 MULE transposase domain; Region: MULE; pfam10551 269482006138 short chain dehydrogenase; Provisional; Region: PRK07023 269482006139 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269482006140 NAD(P) binding site [chemical binding]; other site 269482006141 active site 269482006142 Cupin domain; Region: Cupin_2; pfam07883 269482006143 histidine utilization repressor, proteobacterial; Region: his_ut_repres; TIGR02018 269482006144 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 269482006145 DNA-binding site [nucleotide binding]; DNA binding site 269482006146 UTRA domain; Region: UTRA; pfam07702 269482006147 DNA-binding transcriptional repressor LrhA; Provisional; Region: PRK15092 269482006148 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 269482006149 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 269482006150 dimerization interface [polypeptide binding]; other site 269482006151 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 269482006152 benzoate transport; Region: 2A0115; TIGR00895 269482006153 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 269482006154 putative substrate translocation pore; other site 269482006155 4-carboxymuconolactone decarboxylase; Region: decarb_PcaC; TIGR02425 269482006156 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 269482006157 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 269482006158 TAP-like protein; Region: Abhydrolase_4; pfam08386 269482006159 3-carboxy-cis,cis-muconate cycloisomerase; Provisional; Region: PRK09053 269482006160 prokaryotic 3-carboxy-cis,cis-muconate cycloisomerase (CMLE)_like; Region: pCLME; cd01597 269482006161 tetramer interface [polypeptide binding]; other site 269482006162 active site 269482006163 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 269482006164 Coenzyme A transferase; Region: CoA_trans; cl17247 269482006165 4-hydroxybenzoate 3-monooxygenase; Validated; Region: PRK08243 269482006166 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 269482006167 Transcriptional regulator [Transcription]; Region: LysR; COG0583 269482006168 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 269482006169 The C-terminal substrate binding domain of LysR-type transcriptional regulators that are involved in the catabolism of dinitrotoluene, naphthalene and gamma-hexachlorohexane; contains the type 2 periplasmic binding fold; Region: PBP2_DntR_NahR_LinR_like; cd08459 269482006170 substrate binding pocket [chemical binding]; other site 269482006171 dimerization interface [polypeptide binding]; other site 269482006172 GTP cyclohydrolase I; Provisional; Region: folE; PRK09347 269482006173 GTP cyclohydrolase I; Provisional; Region: PLN03044 269482006174 active site 269482006175 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269482006176 short chain dehydrogenase; Provisional; Region: PRK09134 269482006177 NAD(P) binding site [chemical binding]; other site 269482006178 active site 269482006179 Serine acetyltransferase, N-terminal; Region: SATase_N; cl05762 269482006180 serine O-acetyltransferase; Region: cysE; TIGR01172 269482006181 Serine acetyltransferase (SAT): SAT catalyzes the CoA-dependent acetylation of the side chain hydroxyl group of L-serine to form O-acetylserine, as the first step of a two-step biosynthetic pathway in bacteria and plants leading to the formation of...; Region: LbH_SAT; cd03354 269482006182 trimer interface [polypeptide binding]; other site 269482006183 active site 269482006184 substrate binding site [chemical binding]; other site 269482006185 CoA binding site [chemical binding]; other site 269482006186 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 269482006187 Ligand Binding Site [chemical binding]; other site 269482006188 fumarate/nitrate reduction transcriptional regulator; Provisional; Region: PRK11161 269482006189 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 269482006190 ligand binding site [chemical binding]; other site 269482006191 flexible hinge region; other site 269482006192 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cd00092 269482006193 putative switch regulator; other site 269482006194 non-specific DNA interactions [nucleotide binding]; other site 269482006195 DNA binding site [nucleotide binding] 269482006196 sequence specific DNA binding site [nucleotide binding]; other site 269482006197 putative cAMP binding site [chemical binding]; other site 269482006198 chromosome replication initiation inhibitor protein; Validated; Region: PRK03635 269482006199 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 269482006200 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 269482006201 dimerization interface [polypeptide binding]; other site 269482006202 Lysine efflux permease [General function prediction only]; Region: COG1279 269482006203 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 269482006204 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 269482006205 active site 269482006206 catalytic tetrad [active] 269482006207 oxidoreductase alpha (molybdopterin) subunit; Region: Fdhalpha-like; TIGR01701 269482006208 The MopB_ydeP CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative molybdopterin cofactor binding site. These members belong to the molybdopterin_binding (MopB) superfamily of proteins; Region: MopB_ydeP; cd02767 269482006209 putative molybdopterin cofactor binding site [chemical binding]; other site 269482006210 The MopB_CT_ydeP CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative molybdopterin cofactor binding site. This CD is of the conserved molybdopterin_binding C-terminal (MopB_CT) region...; Region: MopB_CT_ydeP; cd02787 269482006211 putative molybdopterin cofactor binding site; other site 269482006212 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 269482006213 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 269482006214 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 269482006215 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 269482006216 Transcriptional regulator [Transcription]; Region: LysR; COG0583 269482006217 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 269482006218 C-terminal substrate binding domain of LysR-type transcriptional regulator CysL, which activates the transcription of the cysJI operon encoding sulfite reductase, contains the type 2 periplasmic binding fold; Region: PBP2_CysL_like; cd08420 269482006219 putative dimerization interface [polypeptide binding]; other site 269482006220 Domain of unknown function (DUF3331); Region: DUF3331; pfam11811 269482006221 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 269482006222 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 269482006223 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 269482006224 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 269482006225 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 269482006226 malate dehydrogenase; Provisional; Region: PRK05442 269482006227 Chloroplast-like malate dehydrogenases; Region: MDH_choloroplast_like; cd01338 269482006228 NAD(P) binding site [chemical binding]; other site 269482006229 dimer interface [polypeptide binding]; other site 269482006230 malate binding site [chemical binding]; other site 269482006231 Tellurite-resistance/Dicarboxylate Transporter (TDT) family includes sulfite sensitivity protein (sulfite efflux pump; SSU1); Region: TDT_SSU1; cd09318 269482006232 gating phenylalanine in ion channel; other site 269482006233 Fimbrial protein; Region: Fimbrial; pfam00419 269482006234 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 269482006235 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 269482006236 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 269482006237 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 269482006238 PapC N-terminal domain; Region: PapC_N; pfam13954 269482006239 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 269482006240 PapC C-terminal domain; Region: PapC_C; pfam13953 269482006241 Fimbrial protein; Region: Fimbrial; cl01416 269482006242 Predicted transcriptional regulators [Transcription]; Region: COG1695 269482006243 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 269482006244 Siderophore-interacting protein [Inorganic ion transport and metabolism]; Region: ViuB; COG2375 269482006245 Siderophore interacting proteins share the domain structure of the ferredoxin reductase like family. Siderophores are produced in various bacteria (and some plants) to extract iron from hosts. Binding constants are high, so iron can be pilfered from...; Region: siderophore_interacting; cd06193 269482006246 FAD binding pocket [chemical binding]; other site 269482006247 FAD binding motif [chemical binding]; other site 269482006248 phosphate binding motif [ion binding]; other site 269482006249 NAD binding pocket [chemical binding]; other site 269482006250 PAP2_like proteins, BcrC_like subfamily. Several members of this family have been annotated as bacitracin transport permeases, as it was suspected that they form the permease component of an ABC transporter system. It was shown, however, that BcrC from...; Region: PAP2_BcrC_like; cd03385 269482006251 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 269482006252 active site 269482006253 acetoacetate decarboxylase; Provisional; Region: PRK02265 269482006254 3-hydroxybutyrate dehydrogenase; Provisional; Region: PRK13394 269482006255 classical (c) SDRs; Region: SDR_c; cd05233 269482006256 NAD(P) binding site [chemical binding]; other site 269482006257 active site 269482006258 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 269482006259 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 269482006260 nucleophile elbow; other site 269482006261 Patatin phospholipase; Region: DUF3734; pfam12536 269482006262 Transcriptional regulator [Transcription]; Region: LysR; COG0583 269482006263 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 269482006264 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 269482006265 dimerization interface [polypeptide binding]; other site 269482006266 N-acetyl-gamma-glutamyl-phosphate reductase; Provisional; Region: PRK11863 269482006267 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 269482006268 transcriptional activator TtdR; Provisional; Region: PRK09801 269482006269 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 269482006270 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_9; cd08479 269482006271 putative effector binding pocket; other site 269482006272 putative dimerization interface [polypeptide binding]; other site 269482006273 Isocitrate/isopropylmalate dehydrogenase [Amino acid transport and metabolism]; Region: LeuB; COG0473 269482006274 tartrate dehydrogenase; Region: TTC; TIGR02089 269482006275 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3558 269482006276 SnoaL-like domain; Region: SnoaL_2; pfam12680 269482006277 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 269482006278 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 269482006279 L-threonine 3-dehydrogenase; Validated; Region: tdh; PRK05396 269482006280 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 269482006281 NAD(P) binding site [chemical binding]; other site 269482006282 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 269482006283 KBL_like; this family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to serine palmitoyltransferase (SPT), 5-aminolevulinate synthase (ALAS); Region: KBL_like; cd06454 269482006284 substrate-cofactor binding pocket; other site 269482006285 pyridoxal 5'-phosphate binding site [chemical binding]; other site 269482006286 catalytic residue [active] 269482006287 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 269482006288 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 269482006289 non-specific DNA binding site [nucleotide binding]; other site 269482006290 salt bridge; other site 269482006291 sequence-specific DNA binding site [nucleotide binding]; other site 269482006292 Cupin domain; Region: Cupin_2; pfam07883 269482006293 Protein of unknown function (DUF2471); Region: DUF2471; pfam10616 269482006294 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 269482006295 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 269482006296 active site 269482006297 catalytic residues [active] 269482006298 Int/Topo IB signature motif; other site 269482006299 DNA binding site [nucleotide binding] 269482006300 Plasmid replication region DNA-binding N-term; Region: KfrA_N; pfam11740 269482006301 Initiator Replication protein; Region: Rep_3; pfam01051 269482006302 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 269482006303 ParB-like nuclease domain; Region: ParB; smart00470 269482006304 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 269482006305 CobQ/CobB/MinD/ParA nucleotide binding domain; Region: CbiA; pfam01656 269482006306 P-loop; other site 269482006307 Magnesium ion binding site [ion binding]; other site 269482006308 Arsenate Reductase (ArsC) family, ArsC subfamily; arsenic reductases similar to that encoded by arsC on the R733 plasmid of Escherichia coli. E. coli ArsC catalyzes the reduction of arsenate [As(V)] to arsenite [As(III)], the first step in the...; Region: ArsC_ArsC; cd03034 269482006309 ArsC family; Region: ArsC; pfam03960 269482006310 catalytic residues [active] 269482006311 Putative zinc-finger; Region: zf-HC2; pfam13490 269482006312 RNA polymerase sigma factor; Provisional; Region: PRK12545 269482006313 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 269482006314 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 269482006315 DNA binding residues [nucleotide binding] 269482006316 Predicted flavoprotein [General function prediction only]; Region: COG0431 269482006317 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 269482006318 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 269482006319 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 269482006320 dimer interface [polypeptide binding]; other site 269482006321 phosphorylation site [posttranslational modification] 269482006322 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 269482006323 ATP binding site [chemical binding]; other site 269482006324 Mg2+ binding site [ion binding]; other site 269482006325 G-X-G motif; other site 269482006326 Response regulator receiver domain; Region: Response_reg; pfam00072 269482006327 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 269482006328 active site 269482006329 phosphorylation site [posttranslational modification] 269482006330 intermolecular recognition site; other site 269482006331 dimerization interface [polypeptide binding]; other site 269482006332 Response regulator receiver domain; Region: Response_reg; pfam00072 269482006333 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 269482006334 active site 269482006335 phosphorylation site [posttranslational modification] 269482006336 intermolecular recognition site; other site 269482006337 dimerization interface [polypeptide binding]; other site 269482006338 Chemotaxis protein CheC, inhibitor of MCP methylation [Cell motility and secretion / Signal transduction mechanisms]; Region: CheC; COG1776 269482006339 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 269482006340 putative active site [active] 269482006341 heme pocket [chemical binding]; other site 269482006342 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 269482006343 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 269482006344 metal binding site [ion binding]; metal-binding site 269482006345 active site 269482006346 I-site; other site 269482006347 methyl indole-3-acetate methyltransferase; Region: PLN02211; cl17657 269482006348 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 269482006349 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 269482006350 active site lid residues [active] 269482006351 substrate binding pocket [chemical binding]; other site 269482006352 catalytic residues [active] 269482006353 substrate-Mg2+ binding site; other site 269482006354 aspartate-rich region 1; other site 269482006355 aspartate-rich region 2; other site 269482006356 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 269482006357 squalene-associated FAD-dependent desaturase; Region: HpnE; TIGR03467 269482006358 squalene-hopene cyclase; Region: hopene_cyclase; TIGR01507 269482006359 Squalene cyclase (SQCY) domain subgroup 1; found in class II terpene cyclases that have an alpha 6 - alpha 6 barrel fold. Squalene cyclase (SQCY) and 2,3-oxidosqualene cyclase (OSQCY) are integral membrane proteins that catalyze a cationic cyclization...; Region: SQCY_1; cd02892 269482006360 Active site cavity [active] 269482006361 catalytic acid [active] 269482006362 hypothetical protein; Provisional; Region: PRK07077 269482006363 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 269482006364 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 269482006365 metal binding site [ion binding]; metal-binding site 269482006366 active site 269482006367 I-site; other site 269482006368 VacJ like lipoprotein; Region: VacJ; cl01073 269482006369 hopanoid biosynthesis associated RND transporter like protein HpnN; Region: HpnN; TIGR03480 269482006370 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; pfam05494 269482006371 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 269482006372 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 269482006373 active site 269482006374 phosphorylation site [posttranslational modification] 269482006375 intermolecular recognition site; other site 269482006376 dimerization interface [polypeptide binding]; other site 269482006377 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 269482006378 DNA binding residues [nucleotide binding] 269482006379 dimerization interface [polypeptide binding]; other site 269482006380 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4564 269482006381 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 269482006382 Histidine kinase; Region: HisKA_3; pfam07730 269482006383 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 269482006384 ATP binding site [chemical binding]; other site 269482006385 Mg2+ binding site [ion binding]; other site 269482006386 G-X-G motif; other site 269482006387 Cache domain; Region: Cache_1; pfam02743 269482006388 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 269482006389 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 269482006390 metal binding site [ion binding]; metal-binding site 269482006391 active site 269482006392 I-site; other site 269482006393 malate synthase G; Provisional; Region: PRK02999 269482006394 active site 269482006395 Domain of unknown function (DUF336); Region: DUF336; cl01249 269482006396 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 269482006397 2-Nitropropane dioxygenase (NPD), one of the nitroalkane oxidizing enzyme families, catalyzes oxidative denitrification of nitroalkanes to their corresponding carbonyl compounds and nitrites. NDP is a member of the NAD(P)H-dependent flavin oxidoreductase...; Region: NPD_like; cd04730 269482006398 FMN binding site [chemical binding]; other site 269482006399 substrate binding site [chemical binding]; other site 269482006400 putative catalytic residue [active] 269482006401 DEAD-box helicases. A diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif; Region: DEADc; cd00268 269482006402 DEAD-like helicases superfamily; Region: DEXDc; smart00487 269482006403 ATP binding site [chemical binding]; other site 269482006404 Mg++ binding site [ion binding]; other site 269482006405 motif III; other site 269482006406 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 269482006407 nucleotide binding region [chemical binding]; other site 269482006408 ATP-binding site [chemical binding]; other site 269482006409 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 269482006410 Transposase; Region: DDE_Tnp_ISL3; pfam01610 269482006411 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 269482006412 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 269482006413 dimer interface [polypeptide binding]; other site 269482006414 conserved gate region; other site 269482006415 putative PBP binding loops; other site 269482006416 ABC-ATPase subunit interface; other site 269482006417 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 269482006418 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 269482006419 dimer interface [polypeptide binding]; other site 269482006420 conserved gate region; other site 269482006421 putative PBP binding loops; other site 269482006422 ABC-ATPase subunit interface; other site 269482006423 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 269482006424 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 269482006425 Beta-galactosidase [Carbohydrate transport and metabolism]; Region: LacA; COG1874 269482006426 Beta-galactosidase; Region: Glyco_hydro_42; pfam02449 269482006427 A4 beta-galactosidase middle domain: a type 1 glutamine amidotransferase (GATase1)-like domain; Region: A4_beta-galactosidase_middle_domain; cd03143 269482006428 maltose/maltodextrin transporter ATP-binding protein; Provisional; Region: PRK11000 269482006429 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 269482006430 Walker A/P-loop; other site 269482006431 ATP binding site [chemical binding]; other site 269482006432 Q-loop/lid; other site 269482006433 ABC transporter signature motif; other site 269482006434 Walker B; other site 269482006435 D-loop; other site 269482006436 H-loop/switch region; other site 269482006437 TOBE domain; Region: TOBE; cl01440 269482006438 TOBE domain; Region: TOBE_2; pfam08402 269482006439 Transcriptional regulators [Transcription]; Region: PurR; COG1609 269482006440 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 269482006441 DNA binding site [nucleotide binding] 269482006442 domain linker motif; other site 269482006443 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 269482006444 dimerization interface [polypeptide binding]; other site 269482006445 ligand binding site [chemical binding]; other site 269482006446 Organic hydroperoxide reductase [Secondary metabolites biosynthesis, transport and catabolism]; Region: osmC; COG1764 269482006447 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 269482006448 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 269482006449 The C-terminal substrate binding domain of galactose-binding protein regulator contains the type 2 periplasmic binding fold; Region: PBP2_GbpR; cd08435 269482006450 putative dimerization interface [polypeptide binding]; other site 269482006451 dihydroxy-acid dehydratase; Validated; Region: PRK06131 269482006452 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 269482006453 D-galactonate transporter; Region: 2A0114; TIGR00893 269482006454 putative substrate translocation pore; other site 269482006455 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 269482006456 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 269482006457 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 269482006458 inhibitor site; inhibition site 269482006459 active site 269482006460 dimer interface [polypeptide binding]; other site 269482006461 catalytic residue [active] 269482006462 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 269482006463 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 269482006464 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 269482006465 Periplasmic L-arabinose-binding protein (ABP), a member of a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily; Region: PBP1_arabinose_binding; cd01540 269482006466 ligand binding site [chemical binding]; other site 269482006467 L-arabinose transporter ATP-binding protein; Provisional; Region: araG; PRK11288 269482006468 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 269482006469 Walker A/P-loop; other site 269482006470 ATP binding site [chemical binding]; other site 269482006471 Q-loop/lid; other site 269482006472 ABC transporter signature motif; other site 269482006473 Walker B; other site 269482006474 D-loop; other site 269482006475 H-loop/switch region; other site 269482006476 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 269482006477 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 269482006478 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 269482006479 TM-ABC transporter signature motif; other site 269482006480 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 269482006481 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG2159 269482006482 p-hydroxycinnamoyl CoA hydratase/lyase; Validated; Region: PRK09120 269482006483 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 269482006484 substrate binding site [chemical binding]; other site 269482006485 oxyanion hole (OAH) forming residues; other site 269482006486 trimer interface [polypeptide binding]; other site 269482006487 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 269482006488 Salicylaldehyde dehydrogenase, DoxF-like; Region: ALDH_SaliADH; cd07105 269482006489 NAD(P) binding site [chemical binding]; other site 269482006490 catalytic residues [active] 269482006491 feruloyl-CoA synthase; Reviewed; Region: PRK08180 269482006492 Feruloyl-CoA synthetase (FCS); Region: FCS; cd05921 269482006493 acyl-activating enzyme (AAE) consensus motif; other site 269482006494 putative AMP binding site [chemical binding]; other site 269482006495 putative active site [active] 269482006496 putative CoA binding site [chemical binding]; other site 269482006497 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 269482006498 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 269482006499 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 269482006500 active site 269482006501 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 269482006502 MarR family; Region: MarR_2; cl17246 269482006503 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 269482006504 putative 3-hydroxyphenylpropionic transporter MhpT; Provisional; Region: PRK11551 269482006505 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 269482006506 putative substrate translocation pore; other site 269482006507 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 269482006508 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 269482006509 trimer interface [polypeptide binding]; other site 269482006510 eyelet of channel; other site 269482006511 Tannase and feruloyl esterase; Region: Tannase; pfam07519 269482006512 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 269482006513 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 269482006514 active site 269482006515 catalytic site [active] 269482006516 substrate binding site [chemical binding]; other site 269482006517 aminotransferase; Validated; Region: PRK07046 269482006518 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 269482006519 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 269482006520 catalytic residue [active] 269482006521 Endopygalactorunase [Cell envelope biogenesis, outer membrane]; Region: PGU1; COG5434 269482006522 Probable polygalacturonase At3g15720; Region: PLN03003; cl14103 269482006523 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 269482006524 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 269482006525 Coenzyme A binding pocket [chemical binding]; other site 269482006526 Allophanate hydrolase subunit 2; Region: AHS2; smart00797 269482006527 Allophanate hydrolase subunit 1; Region: AHS1; smart00796 269482006528 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; COG2049 269482006529 acetyl-CoA carboxylase biotin carboxylase subunit; Provisional; Region: PRK12833 269482006530 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 269482006531 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 269482006532 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 269482006533 The biotinyl-domain or biotin carboxyl carrier protein (BCCP) domain is present in all biotin-dependent enzymes, such as acetyl-CoA carboxylase, pyruvate carboxylase, propionyl-CoA carboxylase, methylcrotonyl-CoA carboxylase, geranyl-CoA carboxylase; Region: biotinyl_domain; cd06850 269482006534 carboxyltransferase (CT) interaction site; other site 269482006535 biotinylation site [posttranslational modification]; other site 269482006536 uncharacterized proteins similar to the Aspergillus nidulans lactam utilization protein LamB; Region: LamB_YcsF_like_2; cd11664 269482006537 putative active site [active] 269482006538 Transcriptional regulator [Transcription]; Region: LysR; COG0583 269482006539 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 269482006540 The C-terminal substrate-binding domain of putative LysR-type transcriptional regulator PAO1-like, a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_PAO1_like; cd08412 269482006541 putative substrate binding pocket [chemical binding]; other site 269482006542 dimerization interface [polypeptide binding]; other site 269482006543 Glycine zipper 2TM domain; Region: Rick_17kDa_Anti; cl10470 269482006544 UDP-N-acetylglucosamine 2-epimerase [Cell envelope biogenesis, outer membrane]; Region: WecB; COG0381 269482006545 Bacterial members of the UDP-N-Acetylglucosamine (GlcNAc) 2-Epimerase family are known to catalyze the reversible interconversion of UDP-GlcNAc and UDP-N-acetylmannosamine (UDP-ManNAc). The enzyme serves to produce an activated form of ManNAc residues; Region: GT1_UDP-GlcNAc_2-Epimerase; cd03786 269482006546 active site 269482006547 homodimer interface [polypeptide binding]; other site 269482006548 Bacteriophage N adsorption protein A C-term; Region: NfrA_C; pfam13283 269482006549 bacteriophage N4 adsorption protein B; Provisional; Region: PRK14716 269482006550 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 269482006551 active site 269482006552 Glycosyl transferase family group 2; Region: Glyco_trans_2_3; pfam13632 269482006553 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 269482006554 Threonyl-tRNA synthetase (ThrRS) class II core catalytic domain. ThrRS is a homodimer. It is responsible for the attachment of threonine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: ThrRS_core; cd00771 269482006555 active site 269482006556 dimer interface [polypeptide binding]; other site 269482006557 motif 1; other site 269482006558 motif 2; other site 269482006559 motif 3; other site 269482006560 HGTP anticodon binding domain, as found at the C-terminus of histidyl, glycyl, threonyl and prolyl tRNA synthetases, which are classified as a group of class II aminoacyl-tRNA synthetases (aaRS). In aaRSs, the anticodon binding domain is responsible for...; Region: HGTP_anticodon; cl00266 269482006561 anticodon binding site; other site 269482006562 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 269482006563 Chromate transport protein ChrA [Inorganic ion transport and metabolism]; Region: ChrA; COG2059 269482006564 chromate transporter, chromate ion transporter (CHR) family; Region: 2A51; TIGR00937 269482006565 Chromate transporter; Region: Chromate_transp; pfam02417 269482006566 Chromate resistance exported protein; Region: Chrome_Resist; cl01744 269482006567 Transcriptional regulators RcnR and FrmR, and related domains; this domain family was previously known as part of DUF156; Region: RcnR-FrmR-like_DUF156; cd10153 269482006568 putative metal binding site [ion binding]; other site 269482006569 putative homodimer interface [polypeptide binding]; other site 269482006570 putative homotetramer interface [polypeptide binding]; other site 269482006571 putative homodimer-homodimer interface [polypeptide binding]; other site 269482006572 putative allosteric switch controlling residues; other site 269482006573 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 269482006574 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 269482006575 Protein of unknown function (DUF1289); Region: DUF1289; pfam06945 269482006576 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 269482006577 Major Facilitator Superfamily; Region: MFS_1; pfam07690 269482006578 putative substrate translocation pore; other site 269482006579 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 269482006580 Protein of unknown function (DUF3309); Region: DUF3309; pfam11752 269482006581 Histidine phosphatase domain found in phosphoglycerate mutases and related proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP_PGM_like; cd07067 269482006582 bifunctional RNase H/acid phosphatase; Provisional; Region: PRK07238 269482006583 catalytic core [active] 269482006584 Acyl-CoA dehydrogenase (ACAD) 10 and 11, N-terminal domain, and similar proteins. This subfamily is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs); Region: ACAD10_11_like; cd05154 269482006585 Phosphotransferase enzyme family; Region: APH; pfam01636 269482006586 putative active site [active] 269482006587 putative substrate binding site [chemical binding]; other site 269482006588 ATP binding site [chemical binding]; other site 269482006589 short chain dehydrogenase; Provisional; Region: PRK07035 269482006590 classical (c) SDRs; Region: SDR_c; cd05233 269482006591 NAD(P) binding site [chemical binding]; other site 269482006592 active site 269482006593 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 269482006594 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 269482006595 active site 269482006596 leucine transcriptional activator; Reviewed; Region: leuO; PRK09508 269482006597 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 269482006598 The C-terminal substrate binding domain of LysR-type transcriptional regulators that involved in the catabolism of nitroaromatic/naphthalene compounds and that of related regulators; contains the type 2 periplasmic binding fold; Region: PBP2_Nitroaromatics_like; cd08417 269482006599 substrate binding pocket [chemical binding]; other site 269482006600 dimerization interface [polypeptide binding]; other site 269482006601 DnaJ domain; Region: DnaJ; pfam00226 269482006602 HSP70 interaction site [polypeptide binding]; other site 269482006603 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 269482006604 Transcriptional regulator [Transcription]; Region: LysR; COG0583 269482006605 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 269482006606 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 269482006607 putative effector binding pocket; other site 269482006608 dimerization interface [polypeptide binding]; other site 269482006609 DNA-binding transcriptional regulator CynR; Provisional; Region: PRK11242 269482006610 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 269482006611 The C-terminal substrate-binding domain of the LysR-type transcriptional regulator CynR, contains the type 2 periplasmic binding fold; Region: PBP2_CynR; cd08425 269482006612 dimerization interface [polypeptide binding]; other site 269482006613 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 269482006614 p-hydroxybenzoic acid efflux subunit AaeA; Provisional; Region: PRK10559 269482006615 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 269482006616 HlyD family secretion protein; Region: HlyD_3; pfam13437 269482006617 Fusaric acid resistance protein family; Region: FUSC; pfam04632 269482006618 DNA polymerase II; Reviewed; Region: PRK05762 269482006619 DEDDy 3'-5' exonuclease domain of Escherichia coli DNA polymerase II and similar bacterial family-B DNA polymerases; Region: DNA_polB_II_exo; cd05784 269482006620 active site 269482006621 catalytic site [active] 269482006622 substrate binding site [chemical binding]; other site 269482006623 DNA polymerase type-II subfamily catalytic domain. Bacteria contain five DNA polymerases (I, II, III, IV and V). DNA polymerase II (Pol II) is a prototype for the B-family of polymerases. The role of Pol II in a variety of cellular activities, such as...; Region: POLBc_Pol_II; cd05537 269482006624 active site 269482006625 metal-binding site 269482006626 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 269482006627 putative active site [active] 269482006628 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 269482006629 heme pocket [chemical binding]; other site 269482006630 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 269482006631 dimer interface [polypeptide binding]; other site 269482006632 phosphorylation site [posttranslational modification] 269482006633 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 269482006634 ATP binding site [chemical binding]; other site 269482006635 Mg2+ binding site [ion binding]; other site 269482006636 G-X-G motif; other site 269482006637 Response regulator receiver domain; Region: Response_reg; pfam00072 269482006638 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 269482006639 active site 269482006640 phosphorylation site [posttranslational modification] 269482006641 intermolecular recognition site; other site 269482006642 dimerization interface [polypeptide binding]; other site 269482006643 phage resistance protein; Provisional; Region: PRK10551 269482006644 CSS motif domain associated with EAL; Region: CSS-motif; pfam12792 269482006645 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 269482006646 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 269482006647 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 269482006648 Transcriptional regulator [Transcription]; Region: LysR; COG0583 269482006649 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 269482006650 The C-terminal substrate binding of LysR-type transcriptional regulator (CbbR) of RubisCO operon, which is involved in the carbon dioxide fixation, contains the type 2 periplasmic binding fold; Region: PBP2_CbbR_RubisCO_like; cd08419 269482006651 putative dimerization interface [polypeptide binding]; other site 269482006652 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 269482006653 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 269482006654 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 269482006655 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 269482006656 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269482006657 NAD(P) binding site [chemical binding]; other site 269482006658 active site 269482006659 benzoate transporter; Region: benE; TIGR00843 269482006660 Benzoate membrane transport protein; Region: BenE; pfam03594 269482006661 Fatty acid desaturase protein family subgroup, a delta-12 acyl-lipid desaturase-like, DesA-like, yet uncharacterized subgroup of membrane fatty acid desaturase proteins found in alpha-, beta-, and gamma-proteobacteria. Sequences of this domain family...; Region: DesA_FADS-like; cd03509 269482006662 Fatty acid desaturase; Region: FA_desaturase; pfam00487 269482006663 putative di-iron ligands [ion binding]; other site 269482006664 ABC-type phosphate/phosphonate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: PhnD; COG3221 269482006665 ATP-dependent RNA helicase DbpA; Provisional; Region: PRK11776 269482006666 DEAD-box helicases. A diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif; Region: DEADc; cd00268 269482006667 ATP binding site [chemical binding]; other site 269482006668 Mg++ binding site [ion binding]; other site 269482006669 motif III; other site 269482006670 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 269482006671 nucleotide binding region [chemical binding]; other site 269482006672 ATP-binding site [chemical binding]; other site 269482006673 RNA recognition motif in Escherichia coli RNA helicase dbpA and similar proteins; Region: RRM_EcDbpA_like; cd12501 269482006674 putative RNA binding site [nucleotide binding]; other site 269482006675 NAD-dependent protein deacetylases, SIR2 family [Transcription]; Region: SIR2; COG0846 269482006676 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 269482006677 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 269482006678 AsnC family; Region: AsnC_trans_reg; pfam01037 269482006679 Histone deacetylase class IIa; Region: HDAC_classII_APAH; cd10001 269482006680 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 269482006681 active site 269482006682 Zn binding site [ion binding]; other site 269482006683 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 269482006684 Mechanosensitive ion channel; Region: MS_channel; pfam00924 269482006685 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 269482006686 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 269482006687 catalytic residues [active] 269482006688 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 269482006689 dimerization interface [polypeptide binding]; other site 269482006690 putative DNA binding site [nucleotide binding]; other site 269482006691 putative Zn2+ binding site [ion binding]; other site 269482006692 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 269482006693 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 269482006694 catalytic residue [active] 269482006695 Cupin domain; Region: Cupin_2; cl17218 269482006696 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 269482006697 classical (c) SDRs; Region: SDR_c; cd05233 269482006698 NAD(P) binding site [chemical binding]; other site 269482006699 active site 269482006700 Predicted membrane protein [Function unknown]; Region: COG4541 269482006701 Predicted branched-chain amino acid permease (azaleucine resistance) [Amino acid transport and metabolism]; Region: AzlC; COG1296 269482006702 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 269482006703 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 269482006704 putative DNA binding site [nucleotide binding]; other site 269482006705 putative Zn2+ binding site [ion binding]; other site 269482006706 AsnC family; Region: AsnC_trans_reg; pfam01037 269482006707 Uncharacterized protein conserved in bacteria (DUF2322); Region: DUF2322; pfam10084 269482006708 TRX family; composed of two groups: Group I, which includes proteins that exclusively encode a TRX domain; and Group II, which are composed of fusion proteins of TRX and additional domains. Group I TRX is a small ancient protein that alter the redox...; Region: TRX_family; cd02947 269482006709 catalytic residues [active] 269482006710 Uncharacterized protein family UPF0047; Region: UPF0047; pfam01894 269482006711 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 269482006712 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 269482006713 dimer interface [polypeptide binding]; other site 269482006714 phosphorylation site [posttranslational modification] 269482006715 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 269482006716 ATP binding site [chemical binding]; other site 269482006717 Mg2+ binding site [ion binding]; other site 269482006718 G-X-G motif; other site 269482006719 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 269482006720 Response regulator receiver domain; Region: Response_reg; pfam00072 269482006721 active site 269482006722 phosphorylation site [posttranslational modification] 269482006723 intermolecular recognition site; other site 269482006724 dimerization interface [polypeptide binding]; other site 269482006725 Sulfite oxidase (SO) family, molybdopterin binding domain. This molybdopterin cofactor (Moco) binding domain is found in a variety of oxidoreductases, main members of this family are nitrate reductase (NR) and sulfite oxidase (SO). SO catalyzes the...; Region: SO_family_Moco; cl00199 269482006726 BetR domain; Region: BetR; pfam08667 269482006727 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 269482006728 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 269482006729 active site 269482006730 phosphorylation site [posttranslational modification] 269482006731 intermolecular recognition site; other site 269482006732 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 269482006733 dimer interface [polypeptide binding]; other site 269482006734 phosphorylation site [posttranslational modification] 269482006735 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 269482006736 ATP binding site [chemical binding]; other site 269482006737 Mg2+ binding site [ion binding]; other site 269482006738 G-X-G motif; other site 269482006739 Response regulator receiver domain; Region: Response_reg; pfam00072 269482006740 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 269482006741 active site 269482006742 phosphorylation site [posttranslational modification] 269482006743 intermolecular recognition site; other site 269482006744 dimerization interface [polypeptide binding]; other site 269482006745 transcriptional regulator RcsB; Provisional; Region: PRK10840 269482006746 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 269482006747 active site 269482006748 phosphorylation site [posttranslational modification] 269482006749 intermolecular recognition site; other site 269482006750 dimerization interface [polypeptide binding]; other site 269482006751 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 269482006752 DNA binding residues [nucleotide binding] 269482006753 dimerization interface [polypeptide binding]; other site 269482006754 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 269482006755 dimer interface [polypeptide binding]; other site 269482006756 phosphorylation site [posttranslational modification] 269482006757 Anti-sigma regulatory factor (Ser/Thr protein kinase) [Signal transduction mechanisms]; Region: RsbW; COG2172 269482006758 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 269482006759 ATP binding site [chemical binding]; other site 269482006760 Mg2+ binding site [ion binding]; other site 269482006761 G-X-G motif; other site 269482006762 Response regulator receiver domain; Region: Response_reg; pfam00072 269482006763 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 269482006764 active site 269482006765 phosphorylation site [posttranslational modification] 269482006766 intermolecular recognition site; other site 269482006767 dimerization interface [polypeptide binding]; other site 269482006768 1-aminocyclopropane-1-carboxylate deaminase [Amino acid transport and metabolism]; Region: Acd; COG2515 269482006769 Aminocyclopropane-1-carboxylate deaminase (ACCD): Pyridoxal phosphate (PLP)-dependent enzyme which catalyzes the conversion of 1-aminocyclopropane-L-carboxylate (ACC), a precursor of the plant hormone ethylene, to alpha-ketobutyrate and ammonia; Region: ACCD; cd06449 269482006770 pyridoxal 5'-phosphate binding site [chemical binding]; other site 269482006771 catalytic residue [active] 269482006772 leucine-responsive transcriptional regulator; Provisional; Region: PRK11169 269482006773 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 269482006774 putative DNA binding site [nucleotide binding]; other site 269482006775 putative Zn2+ binding site [ion binding]; other site 269482006776 AsnC family; Region: AsnC_trans_reg; pfam01037 269482006777 pyruvate dehydrogenase; Provisional; Region: PRK09124 269482006778 Pyrimidine (PYR) binding domain of POX; Region: TPP_PYR_POX; cd07039 269482006779 PYR/PP interface [polypeptide binding]; other site 269482006780 tetramer interface [polypeptide binding]; other site 269482006781 dimer interface [polypeptide binding]; other site 269482006782 TPP binding site [chemical binding]; other site 269482006783 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 269482006784 Thiamine pyrophosphate (TPP) family, Pyruvate oxidase (POX) subfamily, TPP-binding module; composed of proteins similar to Lactobacillus plantarum POX, which plays a key role in controlling acetate production under aerobic conditions. POX decarboxylates...; Region: TPP_POX; cd02014 269482006785 TPP-binding site [chemical binding]; other site 269482006786 Transcriptional regulator [Transcription]; Region: LysR; COG0583 269482006787 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 269482006788 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 269482006789 dimerization interface [polypeptide binding]; other site 269482006790 Protein of unknown function (DUF3422); Region: DUF3422; pfam11902 269482006791 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 269482006792 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 269482006793 DNA binding residues [nucleotide binding] 269482006794 dimerization interface [polypeptide binding]; other site 269482006795 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 269482006796 D-galactonate transporter; Region: 2A0114; TIGR00893 269482006797 putative substrate translocation pore; other site 269482006798 Predicted transcriptional regulators [Transcription]; Region: COG1733 269482006799 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 269482006800 glutathionine S-transferase; Provisional; Region: PRK10542 269482006801 GST_N family, Class Beta subfamily; GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic alkylating agents, including carcinogens; Region: GST_N_Beta; cd03057 269482006802 C-terminal domain interface [polypeptide binding]; other site 269482006803 GSH binding site (G-site) [chemical binding]; other site 269482006804 dimer interface [polypeptide binding]; other site 269482006805 C-terminal, alpha helical domain of Class Beta Glutathione S-transferases; Region: GST_C_Beta; cd03188 269482006806 dimer interface [polypeptide binding]; other site 269482006807 N-terminal domain interface [polypeptide binding]; other site 269482006808 substrate binding pocket (H-site) [chemical binding]; other site 269482006809 Ca2+/Na+ antiporter [Inorganic ion transport and metabolism]; Region: ECM27; COG0530 269482006810 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 269482006811 YhcR_OBF_like: A subfamily of OB-fold domains similar to the OB folds of Bacillus subtilis YhcR. YhcR is a sugar-nonspecific nuclease, which is active in the presence of Ca2+ and Mn2+. It cleaves RNA endonucleolytically, producing 3'-monophosphate...; Region: YhcR_OBF_like; cd04486 269482006812 generic binding surface I; other site 269482006813 generic binding surface II; other site 269482006814 Mycoplasma pulmonis MnuA nuclease-like; Region: MnuA_DNase1-like; cd10283 269482006815 putative active site [active] 269482006816 putative catalytic site [active] 269482006817 putative Mg binding site IVb [ion binding]; other site 269482006818 putative phosphate binding site [ion binding]; other site 269482006819 putative DNA binding site [nucleotide binding]; other site 269482006820 putative Mg binding site IVa [ion binding]; other site 269482006821 Carboxypeptidase C (cathepsin A) [Amino acid transport and metabolism]; Region: COG2939 269482006822 Serine carboxypeptidase; Region: Peptidase_S10; cl08270 269482006823 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 269482006824 Serine-glycine hydroxymethyltransferase (SHMT). This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). SHMT carries out interconversion of serine and glycine; it catalyzes the transfer of hydroxymethyl...; Region: SHMT; cd00378 269482006825 dimer interface [polypeptide binding]; other site 269482006826 active site 269482006827 glycine-pyridoxal phosphate binding site [chemical binding]; other site 269482006828 folate binding site [chemical binding]; other site 269482006829 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 269482006830 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 269482006831 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 269482006832 catalytic residue [active] 269482006833 Putative phosphatase (DUF442); Region: DUF442; cl17385 269482006834 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 269482006835 GST_N family, Saccharomyces cerevisiae GTT1-like subfamily; composed of predominantly uncharacterized proteins with similarity to the S. cerevisiae GST protein, GTT1, and the Schizosaccharomyces pombe GST-III. GSTs are cytosolic dimeric proteins involved...; Region: GST_N_GTT1_like; cd03046 269482006836 putative C-terminal domain interface [polypeptide binding]; other site 269482006837 putative GSH binding site (G-site) [chemical binding]; other site 269482006838 putative dimer interface [polypeptide binding]; other site 269482006839 C-terminal, alpha helical domain of an unknown subfamily 8 of Glutathione S-transferases; Region: GST_C_8; cd03207 269482006840 dimer interface [polypeptide binding]; other site 269482006841 N-terminal domain interface [polypeptide binding]; other site 269482006842 putative substrate binding pocket (H-site) [chemical binding]; other site 269482006843 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 269482006844 Helix-turn-helix domain; Region: HTH_18; pfam12833 269482006845 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 269482006846 transcriptional regulator; Provisional; Region: PRK10632 269482006847 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 269482006848 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 269482006849 dimerization interface [polypeptide binding]; other site 269482006850 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 269482006851 Response regulator receiver domain; Region: Response_reg; pfam00072 269482006852 active site 269482006853 phosphorylation site [posttranslational modification] 269482006854 intermolecular recognition site; other site 269482006855 dimerization interface [polypeptide binding]; other site 269482006856 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 269482006857 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 269482006858 putative active site [active] 269482006859 heme pocket [chemical binding]; other site 269482006860 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 269482006861 putative active site [active] 269482006862 heme pocket [chemical binding]; other site 269482006863 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 269482006864 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 269482006865 dimer interface [polypeptide binding]; other site 269482006866 phosphorylation site [posttranslational modification] 269482006867 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 269482006868 ATP binding site [chemical binding]; other site 269482006869 Mg2+ binding site [ion binding]; other site 269482006870 G-X-G motif; other site 269482006871 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 269482006872 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 269482006873 active site 269482006874 phosphorylation site [posttranslational modification] 269482006875 intermolecular recognition site; other site 269482006876 dimerization interface [polypeptide binding]; other site 269482006877 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 269482006878 DNA binding residues [nucleotide binding] 269482006879 dimerization interface [polypeptide binding]; other site 269482006880 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 269482006881 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 269482006882 putative substrate translocation pore; other site 269482006883 mercuric reductase; Validated; Region: PRK06370 269482006884 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 269482006885 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 269482006886 Short-chain dehydrogenase involved in D-alanine esterification of lipoteichoic acid and wall teichoic acid (D-alanine transfer protein) [Cell envelope biogenesis, outer membrane]; Region: DltE; COG3967 269482006887 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269482006888 NAD(P) binding site [chemical binding]; other site 269482006889 active site 269482006890 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 269482006891 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269482006892 NAD(P) binding site [chemical binding]; other site 269482006893 active site 269482006894 BON domain; Region: BON; pfam04972 269482006895 uncharacterized peroxidase-related enzyme; Region: peroxid_rel; TIGR01926 269482006896 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 269482006897 Uncharacterized conserved protein [Function unknown]; Region: COG1359 269482006898 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 269482006899 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 269482006900 putative substrate translocation pore; other site 269482006901 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 269482006902 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 269482006903 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 269482006904 Glutathione S-transferase, N-terminal domain; Region: GST_N_3; pfam13417 269482006905 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 269482006906 N-terminal domain interface [polypeptide binding]; other site 269482006907 dimer interface [polypeptide binding]; other site 269482006908 substrate binding pocket (H-site) [chemical binding]; other site 269482006909 Predicted membrane protein [Function unknown]; Region: COG2259 269482006910 Transcriptional regulator [Transcription]; Region: LysR; COG0583 269482006911 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 269482006912 LysR substrate binding domain; Region: LysR_substrate; pfam03466 269482006913 dimerization interface [polypeptide binding]; other site 269482006914 YHS domain; Region: YHS; pfam04945 269482006915 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 269482006916 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 269482006917 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 269482006918 motif II; other site 269482006919 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 269482006920 Helix-Turn-Helix DNA binding domain of CueR-like transcription regulators; Region: HTH_CueR; cd01108 269482006921 DNA binding residues [nucleotide binding] 269482006922 dimer interface [polypeptide binding]; other site 269482006923 copper binding site [ion binding]; other site 269482006924 Copper resistance protein D; Region: CopD; cl00563 269482006925 CopC domain; Region: CopC; pfam04234 269482006926 Copper binding periplasmic protein CusF; Region: CusF_Ec; pfam11604 269482006927 Putative multicopper oxidases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: SufI; COG2132 269482006928 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 269482006929 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 269482006930 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 269482006931 Repair protein; Region: Repair_PSII; pfam04536 269482006932 Beta-propeller domains of methanol dehydrogenase type [General function prediction only]; Region: COG1512 269482006933 Repair protein; Region: Repair_PSII; pfam04536 269482006934 Uncharacterized conserved protein [Function unknown]; Region: LemA; COG1704 269482006935 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 269482006936 Glutamine amidotransferases class-II (Gn-AT)_GFAT-type. This domain is found at the N-terminus of glucosamine-6P synthase (GlmS, or GFAT in humans). The glutaminase domain catalyzes amide nitrogen transfer from glutamine to the appropriate substrate. In...; Region: GFAT; cd00714 269482006937 glutaminase active site [active] 269482006938 SIS (Sugar ISomerase) domain repeat 1 found in Glucosamine 6-phosphate synthase (GlmS) and Glucosamine-6-phosphate deaminase (GlmD). The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. GlmS contains a N-terminal...; Region: SIS_GlmS_GlmD_1; cd05008 269482006939 dimer interface [polypeptide binding]; other site 269482006940 active site 269482006941 SIS (Sugar ISomerase) domain repeat 2 found in Glucosamine 6-phosphate synthase (GlmS) and Glucosamine-6-phosphate deaminase (GlmD). The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. GlmS contains a N-terminal...; Region: SIS_GlmS_GlmD_2; cd05009 269482006942 dimer interface [polypeptide binding]; other site 269482006943 active site 269482006944 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 269482006945 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 269482006946 AsnC family; Region: AsnC_trans_reg; pfam01037 269482006947 methylated-DNA--protein-cysteine methyltransferase; Provisional; Region: PRK00901 269482006948 The DNA repair protein O6-alkylguanine-DNA alkyltransferase (ATase; also known as AGT, AGAT and MGMT) reverses O6-alkylation DNA damage by transferring O6-alkyl adducts to an active site cysteine irreversibly, without inducing DNA strand breaks. ATases...; Region: ATase; cd06445 269482006949 DNA binding site [nucleotide binding] 269482006950 active site 269482006951 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 269482006952 Major Facilitator Superfamily; Region: MFS_1; pfam07690 269482006953 putative substrate translocation pore; other site 269482006954 Transcriptional regulators [Transcription]; Region: PurR; COG1609 269482006955 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 269482006956 DNA binding site [nucleotide binding] 269482006957 domain linker motif; other site 269482006958 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 269482006959 dimerization interface [polypeptide binding]; other site 269482006960 ligand binding site [chemical binding]; other site 269482006961 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269482006962 NADH(P)-binding; Region: NAD_binding_10; pfam13460 269482006963 NAD(P) binding site [chemical binding]; other site 269482006964 active site 269482006965 Protein of unknown function (DUF1330); Region: DUF1330; cl02288 269482006966 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 269482006967 haemagglutination activity domain; Region: Haemagg_act; pfam05860 269482006968 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 269482006969 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 269482006970 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 269482006971 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 269482006972 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 269482006973 Transposase domain (DUF772); Region: DUF772; pfam05598 269482006974 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 269482006975 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 269482006976 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 269482006977 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 269482006978 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 269482006979 Haemolysin secretion/activation protein ShlB/FhaC/HecB; Region: ShlB; pfam03865 269482006980 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 269482006981 Helix-turn-helix domain; Region: HTH_38; pfam13936 269482006982 Integrase core domain; Region: rve; pfam00665 269482006983 Autoinducer synthetase; Region: Autoind_synth; cl17404 269482006984 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK06333 269482006985 Beta-ketoacyl-acyl carrier protein (ACP) synthase (KAS), type I and II. KASs are responsible for the elongation steps in fatty acid biosynthesis. KASIII catalyses the initial condensation and KAS I and II catalyze further elongation steps by Claisen...; Region: KAS_I_II; cd00834 269482006986 dimer interface [polypeptide binding]; other site 269482006987 active site 269482006988 geranylgeranyl reductase family; Region: GG-red-SF; TIGR02032 269482006989 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 269482006990 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 269482006991 The membrane fatty acid desaturase (Membrane_FADS)-like CD includes membrane FADSs, alkane hydroxylases, beta carotene ketolases (CrtW-like), hydroxylases (CrtR-like), and other related proteins. They are present in all groups of organisms with the...; Region: Membrane-FADS-like; cl00615 269482006992 Fatty acid desaturase; Region: FA_desaturase; pfam00487 269482006993 putative di-iron ligands [ion binding]; other site 269482006994 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 269482006995 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cl00938 269482006996 iron-sulfur cluster [ion binding]; other site 269482006997 [2Fe-2S] cluster binding site [ion binding]; other site 269482006998 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 269482006999 hydrophobic ligand binding site; other site 269482007000 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 269482007001 putative substrate translocation pore; other site 269482007002 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 269482007003 acyl-CoA synthetase; Validated; Region: PRK05850 269482007004 Fatty acyl-AMP ligase (FAAL); Region: FAAL; cd05931 269482007005 acyl-activating enzyme (AAE) consensus motif; other site 269482007006 active site 269482007007 The Delta9 Fatty Acid Desaturase (Delta9-FADS)-like CD includes the delta-9 and delta-11 acyl CoA desaturases found in various eukaryotes including vertebrates, insects, higher plants, and fungi. The delta-9 acyl-lipid desaturases are found in a wide...; Region: Delta9-FADS-like; cd03505 269482007008 Di-iron ligands [ion binding]; other site 269482007009 The Delta9 Fatty Acid Desaturase (Delta9-FADS)-like CD includes the delta-9 and delta-11 acyl CoA desaturases found in various eukaryotes including vertebrates, insects, higher plants, and fungi. The delta-9 acyl-lipid desaturases are found in a wide...; Region: Delta9-FADS-like; cd03505 269482007010 The Delta9 Fatty Acid Desaturase (Delta9-FADS)-like CD includes the delta-9 and delta-11 acyl CoA desaturases found in various eukaryotes including vertebrates, insects, higher plants, and fungi. The delta-9 acyl-lipid desaturases are found in a wide...; Region: Delta9-FADS-like; cd03505 269482007011 Fatty acid desaturase; Region: FA_desaturase; pfam00487 269482007012 Di-iron ligands [ion binding]; other site 269482007013 Phosphopantetheine attachment site; Region: PKS_PP; smart00823 269482007014 Fatty acid desaturase [Lipid metabolism]; Region: DesA; COG3239 269482007015 The Delta12 Fatty Acid Desaturase (Delta12-FADS)-like CD includes the integral-membrane enzymes, delta-12 acyl-lipid desaturases, oleate 12-hydroxylases, omega3 and omega6 fatty acid desaturases, and other related proteins, found in a wide range of...; Region: Delta12-FADS-like; cd03507 269482007016 putative di-iron ligands [ion binding]; other site 269482007017 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 269482007018 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 269482007019 TAP-like protein; Region: Abhydrolase_4; pfam08386 269482007020 Rubredoxin [Energy production and conversion]; Region: COG1773 269482007021 Rubredoxin; nonheme iron binding domains containing a [Fe(SCys)4] center. Rubredoxins are small nonheme iron proteins. The iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc. They are...; Region: rubredoxin; cd00730 269482007022 iron binding site [ion binding]; other site 269482007023 putative acyltransferase; Provisional; Region: PRK05790 269482007024 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 269482007025 dimer interface [polypeptide binding]; other site 269482007026 active site 269482007027 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 269482007028 Aminotransferase class I and II; Region: Aminotran_1_2; pfam00155 269482007029 pyridoxal 5'-phosphate binding site [chemical binding]; other site 269482007030 homodimer interface [polypeptide binding]; other site 269482007031 catalytic residue [active] 269482007032 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxase_2; pfam12766 269482007033 PPOX class probable FMN-dependent enzyme, alr4036 family; Region: PPOX_FMN_cyano; TIGR04026 269482007034 Epoxide hydrolase N terminus; Region: EHN; pfam06441 269482007035 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 269482007036 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 269482007037 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 269482007038 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 269482007039 LysE type translocator; Region: LysE; cl00565 269482007040 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 269482007041 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 269482007042 trimer interface [polypeptide binding]; other site 269482007043 eyelet of channel; other site 269482007044 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR7; cd08276 269482007045 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 269482007046 putative NAD(P) binding site [chemical binding]; other site 269482007047 transcriptional regulator; Provisional; Region: PRK10632 269482007048 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 269482007049 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_6; cd08475 269482007050 putative effector binding pocket; other site 269482007051 putative dimerization interface [polypeptide binding]; other site 269482007052 transcriptional regulator, ArgP family; Region: argP; TIGR03298 269482007053 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 269482007054 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 269482007055 dimerization interface [polypeptide binding]; other site 269482007056 hypothetical protein; Provisional; Region: PRK05463 269482007057 benzoate transport; Region: 2A0115; TIGR00895 269482007058 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 269482007059 putative substrate translocation pore; other site 269482007060 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 269482007061 5-oxoprolinase; Region: PLN02666 269482007062 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 269482007063 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; pfam01968 269482007064 N-methylhydantoinase B/acetone carboxylase, alpha subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuB; COG0146 269482007065 RNase II stability modulator; Provisional; Region: PRK10060 269482007066 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 269482007067 metal binding site [ion binding]; metal-binding site 269482007068 active site 269482007069 I-site; other site 269482007070 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 269482007071 enoyl-CoA hydratase; Validated; Region: PRK08788 269482007072 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 269482007073 substrate binding site [chemical binding]; other site 269482007074 oxyanion hole (OAH) forming residues; other site 269482007075 trimer interface [polypeptide binding]; other site 269482007076 Domain of Unknown Function with PDB structure (DUF3857); Region: DUF3857; pfam12969 269482007077 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 269482007078 Cupin; Region: Cupin_6; pfam12852 269482007079 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 269482007080 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 269482007081 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 269482007082 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 269482007083 putative substrate translocation pore; other site 269482007084 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 269482007085 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 269482007086 YCII-related domain; Region: YCII; cl00999 269482007087 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 269482007088 GST_N family, Saccharomyces cerevisiae GTT1-like subfamily; composed of predominantly uncharacterized proteins with similarity to the S. cerevisiae GST protein, GTT1, and the Schizosaccharomyces pombe GST-III. GSTs are cytosolic dimeric proteins involved...; Region: GST_N_GTT1_like; cd03046 269482007089 putative C-terminal domain interface [polypeptide binding]; other site 269482007090 putative GSH binding site (G-site) [chemical binding]; other site 269482007091 putative dimer interface [polypeptide binding]; other site 269482007092 C-terminal, alpha helical domain of an unknown subfamily 8 of Glutathione S-transferases; Region: GST_C_8; cd03207 269482007093 dimer interface [polypeptide binding]; other site 269482007094 N-terminal domain interface [polypeptide binding]; other site 269482007095 putative substrate binding pocket (H-site) [chemical binding]; other site 269482007096 Predicted ornithine cyclodeaminase, mu-crystallin homolog [Amino acid transport and metabolism]; Region: COG2423 269482007097 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 269482007098 Predicted amino acid aldolase or racemase [Amino acid transport and metabolism]; Region: COG3616 269482007099 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes Similar to D-Serine Dehydratase and D-Threonine Aldolase, Unknown Group 1; Region: PLPDE_III_DSD_D-TA_like_1; cd06812 269482007100 dimer interface [polypeptide binding]; other site 269482007101 active site 269482007102 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 269482007103 substrate binding site [chemical binding]; other site 269482007104 catalytic residue [active] 269482007105 Transcriptional regulator [Transcription]; Region: LysR; COG0583 269482007106 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 269482007107 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 269482007108 dimerization interface [polypeptide binding]; other site 269482007109 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 269482007110 Domain of unknown function (DUF2760); Region: DUF2760; pfam10816 269482007111 Nucleotide-binding domain of the HSP70 family; Region: HSP70_NBD; cd10170 269482007112 nucleotide binding site [chemical binding]; other site 269482007113 putative NEF/HSP70 interaction site [polypeptide binding]; other site 269482007114 SBD interface [polypeptide binding]; other site 269482007115 Nucleotide-binding domain of the HSP70 family; Region: HSP70_NBD; cd10170 269482007116 nucleotide binding site [chemical binding]; other site 269482007117 putative NEF/HSP70 interaction site [polypeptide binding]; other site 269482007118 SBD interface [polypeptide binding]; other site 269482007119 DNA-K related protein; Region: DUF3731; pfam12531 269482007120 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 269482007121 uncharacterized peroxidase-related enzyme; Region: peroxid_rel; TIGR01926 269482007122 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4950; cl17731 269482007123 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 269482007124 FAD-NAD(P)-binding; Region: NAD_binding_9; pfam13454 269482007125 Transcriptional regulator [Transcription]; Region: LysR; COG0583 269482007126 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 269482007127 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 269482007128 dimerization interface [polypeptide binding]; other site 269482007129 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 269482007130 Type I periplasmic ligand-binding domain of uncharacterized ABC (Atpase Binding Cassette)-type active transport systems; Region: PBP1_ABC_ligand_binding_like_14; cd06349 269482007131 putative ligand binding site [chemical binding]; other site 269482007132 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 269482007133 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 269482007134 TM-ABC transporter signature motif; other site 269482007135 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 269482007136 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 269482007137 TM-ABC transporter signature motif; other site 269482007138 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 269482007139 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 269482007140 Walker A/P-loop; other site 269482007141 ATP binding site [chemical binding]; other site 269482007142 Q-loop/lid; other site 269482007143 ABC transporter signature motif; other site 269482007144 Walker B; other site 269482007145 D-loop; other site 269482007146 H-loop/switch region; other site 269482007147 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 269482007148 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 269482007149 Walker A/P-loop; other site 269482007150 ATP binding site [chemical binding]; other site 269482007151 Q-loop/lid; other site 269482007152 ABC transporter signature motif; other site 269482007153 Walker B; other site 269482007154 D-loop; other site 269482007155 H-loop/switch region; other site 269482007156 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 269482007157 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 269482007158 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain; Region: HAMP; smart00304 269482007159 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 269482007160 dimer interface [polypeptide binding]; other site 269482007161 phosphorylation site [posttranslational modification] 269482007162 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 269482007163 ATP binding site [chemical binding]; other site 269482007164 Mg2+ binding site [ion binding]; other site 269482007165 G-X-G motif; other site 269482007166 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 269482007167 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 269482007168 active site 269482007169 phosphorylation site [posttranslational modification] 269482007170 intermolecular recognition site; other site 269482007171 dimerization interface [polypeptide binding]; other site 269482007172 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 269482007173 DNA binding site [nucleotide binding] 269482007174 NMT1-like family; Region: NMT1_2; pfam13379 269482007175 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 269482007176 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 269482007177 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 269482007178 putative substrate translocation pore; other site 269482007179 Histidine kinase; Region: HisKA_3; pfam07730 269482007180 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 269482007181 ATP binding site [chemical binding]; other site 269482007182 G-X-G motif; other site 269482007183 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 269482007184 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 269482007185 active site 269482007186 phosphorylation site [posttranslational modification] 269482007187 intermolecular recognition site; other site 269482007188 dimerization interface [polypeptide binding]; other site 269482007189 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 269482007190 DNA binding residues [nucleotide binding] 269482007191 dimerization interface [polypeptide binding]; other site 269482007192 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 269482007193 PAP2_like_2 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which is specific to bacteria, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_2; cd03392 269482007194 active site 269482007195 LssY C-terminus; Region: LssY_C; pfam14067 269482007196 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 269482007197 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 269482007198 Coenzyme A binding pocket [chemical binding]; other site 269482007199 Transposase, Mutator family; Region: Transposase_mut; pfam00872 269482007200 MULE transposase domain; Region: MULE; pfam10551 269482007201 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 269482007202 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 269482007203 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 269482007204 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 269482007205 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 269482007206 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 269482007207 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_4; pfam13510 269482007208 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 269482007209 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 269482007210 dimer interface [polypeptide binding]; other site 269482007211 conserved gate region; other site 269482007212 putative PBP binding loops; other site 269482007213 ABC-ATPase subunit interface; other site 269482007214 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 269482007215 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 269482007216 dimer interface [polypeptide binding]; other site 269482007217 conserved gate region; other site 269482007218 putative PBP binding loops; other site 269482007219 ABC-ATPase subunit interface; other site 269482007220 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 269482007221 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 269482007222 Walker A/P-loop; other site 269482007223 ATP binding site [chemical binding]; other site 269482007224 Q-loop/lid; other site 269482007225 ABC transporter signature motif; other site 269482007226 Walker B; other site 269482007227 D-loop; other site 269482007228 H-loop/switch region; other site 269482007229 TOBE domain; Region: TOBE_2; pfam08402 269482007230 Transcriptional regulator [Transcription]; Region: IclR; COG1414 269482007231 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 269482007232 dimerization interface [polypeptide binding]; other site 269482007233 putative Zn2+ binding site [ion binding]; other site 269482007234 putative DNA binding site [nucleotide binding]; other site 269482007235 Bacterial transcriptional regulator; Region: IclR; pfam01614 269482007236 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 269482007237 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 269482007238 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 269482007239 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 269482007240 dimer interface [polypeptide binding]; other site 269482007241 putative CheW interface [polypeptide binding]; other site 269482007242 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 269482007243 Sel1-like repeats; Region: SEL1; smart00671 269482007244 PAAR motif; Region: PAAR_motif; pfam05488 269482007245 cyanate transporter; Region: CynX; TIGR00896 269482007246 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 269482007247 putative substrate translocation pore; other site 269482007248 Helix-turn-helix domain; Region: HTH_31; pfam13560 269482007249 atypical (a) SDRs, subgroup 7; Region: SDR_a7; cd05262 269482007250 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 269482007251 putative NAD(P) binding site [chemical binding]; other site 269482007252 mercuric reductase; Validated; Region: PRK06370 269482007253 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 269482007254 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 269482007255 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 269482007256 Protein of unknown function (DUF3348); Region: DUF3348; pfam11828 269482007257 Domain of unknown function (DUF802); Region: DUF802; pfam05650 269482007258 Domain of unknown function (DUF802); Region: DUF802; pfam05650 269482007259 hypothetical protein; Provisional; Region: PRK09040 269482007260 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 269482007261 ligand binding site [chemical binding]; other site 269482007262 Protein of unknown function (DUF2894); Region: DUF2894; pfam11445 269482007263 Protein of unknown function (DUF2894); Region: DUF2894; pfam11445 269482007264 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 269482007265 Predicted flavoprotein [General function prediction only]; Region: COG0431 269482007266 Phospholipid methyltransferase; Region: PEMT; cl17370 269482007267 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 269482007268 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 269482007269 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 269482007270 S-formylglutathione hydrolase; Region: PLN02442 269482007271 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 269482007272 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 269482007273 short chain dehydrogenase; Provisional; Region: PRK06181 269482007274 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269482007275 NAD(P) binding site [chemical binding]; other site 269482007276 active site 269482007277 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 269482007278 LysR family transcriptional regulator; Provisional; Region: PRK14997 269482007279 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 269482007280 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 269482007281 putative effector binding pocket; other site 269482007282 dimerization interface [polypeptide binding]; other site 269482007283 GST_N family, unknown subfamily 4; composed of uncharacterized bacterial proteins with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of...; Region: GST_N_4; cd03056 269482007284 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 269482007285 putative C-terminal domain interface [polypeptide binding]; other site 269482007286 putative GSH binding site (G-site) [chemical binding]; other site 269482007287 putative dimer interface [polypeptide binding]; other site 269482007288 C-terminal, alpha helical domain of an unknown subfamily 7 of Glutathione S-transferases; Region: GST_C_7; cd03206 269482007289 putative N-terminal domain interface [polypeptide binding]; other site 269482007290 putative dimer interface [polypeptide binding]; other site 269482007291 putative substrate binding pocket (H-site) [chemical binding]; other site 269482007292 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 269482007293 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 269482007294 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 269482007295 FAD_NAD(P)H binding domain of flavohemoglobin. Flavohemoglobins have a globin domain containing a B-type heme fused with a ferredoxin reductase-like FAD/NAD-binding domain. Flavohemoglobins detoxify nitric oxide (NO) via an NO dioxygenase reaction. The...; Region: flavohem_like_fad_nad_binding; cd06184 269482007296 FAD binding pocket [chemical binding]; other site 269482007297 FAD binding motif [chemical binding]; other site 269482007298 phosphate binding motif [ion binding]; other site 269482007299 beta-alpha-beta structure motif; other site 269482007300 NAD binding pocket [chemical binding]; other site 269482007301 Heme binding pocket [chemical binding]; other site 269482007302 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 269482007303 catalytic loop [active] 269482007304 iron binding site [ion binding]; other site 269482007305 Protein of unknown function (DUF2970); Region: DUF2970; pfam11174 269482007306 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 269482007307 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 269482007308 N-terminal plug; other site 269482007309 ligand-binding site [chemical binding]; other site 269482007310 Nicotinamide mononucleotide transporter; Region: NMN_transporter; pfam04973 269482007311 Phosphotransferase enzyme family; Region: APH; pfam01636 269482007312 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cl17270 269482007313 active site 269482007314 ATP binding site [chemical binding]; other site 269482007315 substrate binding site [chemical binding]; other site 269482007316 O-acetylhomoserine aminocarboxypropyltransferase; Validated; Region: PRK06084 269482007317 CGS_like: Cystathionine gamma-synthase is a PLP dependent enzyme and catalyzes the committed step of methionine biosynthesis. This pathway is unique to microorganisms and plants, rendering the enzyme an attractive target for the development of...; Region: CGS_like; cd00614 269482007318 homodimer interface [polypeptide binding]; other site 269482007319 substrate-cofactor binding pocket; other site 269482007320 pyridoxal 5'-phosphate binding site [chemical binding]; other site 269482007321 catalytic residue [active] 269482007322 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 269482007323 S-adenosylmethionine binding site [chemical binding]; other site 269482007324 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 269482007325 Immunity protein Imm5; Region: Imm5; pfam14423 269482007326 argininosuccinate synthase; Validated; Region: PRK05370 269482007327 argininosuccinate synthase; Provisional; Region: PRK13820 269482007328 Predicted membrane protein [Function unknown]; Region: COG1289 269482007329 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 269482007330 Cache domain; Region: Cache_1; pfam02743 269482007331 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 269482007332 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 269482007333 metal binding site [ion binding]; metal-binding site 269482007334 active site 269482007335 I-site; other site 269482007336 lysine transporter; Provisional; Region: PRK10836 269482007337 Protein of unknown function (DUF3717); Region: DUF3717; pfam12512 269482007338 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 269482007339 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 269482007340 The C-terminal substrate binding domain of LysR-type transcriptional regulators involved in benzoate catabolism; contains the type 2 periplasmic binding fold; Region: PBP2_BenM_CatM_CatR; cd08445 269482007341 dimerizarion interface [polypeptide binding]; other site 269482007342 CrgA pocket; other site 269482007343 substrate binding pocket [chemical binding]; other site 269482007344 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 269482007345 histidine utilization repressor, proteobacterial; Region: his_ut_repres; TIGR02018 269482007346 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 269482007347 DNA-binding site [nucleotide binding]; DNA binding site 269482007348 UTRA domain; Region: UTRA; pfam07702 269482007349 Protein of unknown function (DUF3761); Region: DUF3761; pfam12587 269482007350 Transposase; Region: HTH_Tnp_1; pfam01527 269482007351 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 269482007352 putative transposase OrfB; Reviewed; Region: PHA02517 269482007353 Integrase core domain; Region: rve; pfam00665 269482007354 Integrase core domain; Region: rve_3; pfam13683 269482007355 HTH-like domain; Region: HTH_21; pfam13276 269482007356 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 269482007357 Integrase core domain; Region: rve; pfam00665 269482007358 Integrase core domain; Region: rve_3; pfam13683 269482007359 Transposase, Mutator family; Region: Transposase_mut; pfam00872 269482007360 MULE transposase domain; Region: MULE; pfam10551 269482007361 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 269482007362 Methyltransferase domain; Region: Methyltransf_31; pfam13847 269482007363 S-adenosylmethionine binding site [chemical binding]; other site 269482007364 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 269482007365 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 269482007366 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 269482007367 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 269482007368 hypothetical protein; Provisional; Region: PRK09936 269482007369 Putative NodB-like catalytic domain of uncharacterized proteins found in bacteria; Region: CE4_COG5298; cd10923 269482007370 Uncharacterized protein conserved in bacteria (DUF2334); Region: DUF2334; pfam10096 269482007371 NodB motif; other site 269482007372 putative active site [active] 269482007373 putative catalytic site [active] 269482007374 putative Zn binding site [ion binding]; other site 269482007375 bacteriophage N4 adsorption protein B; Provisional; Region: nfrB; PRK15489 269482007376 active site 269482007377 Glycosyl transferase family group 2; Region: Glyco_trans_2_3; pfam13632 269482007378 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 269482007379 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 269482007380 TPR motif; other site 269482007381 binding surface 269482007382 Bacteriophage N adsorption protein A C-term; Region: NfrA_C; pfam13283 269482007383 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 269482007384 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 269482007385 ligand binding site [chemical binding]; other site 269482007386 flexible hinge region; other site 269482007387 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 269482007388 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 269482007389 Flagellar motor protein [Cell motility and secretion]; Region: MotB; COG1360 269482007390 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 269482007391 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 269482007392 ligand binding site [chemical binding]; other site 269482007393 UDP-N-acetylglucosamine 2-epimerase [Cell envelope biogenesis, outer membrane]; Region: WecB; COG0381 269482007394 Bacterial members of the UDP-N-Acetylglucosamine (GlcNAc) 2-Epimerase family are known to catalyze the reversible interconversion of UDP-GlcNAc and UDP-N-acetylmannosamine (UDP-ManNAc). The enzyme serves to produce an activated form of ManNAc residues; Region: GT1_UDP-GlcNAc_2-Epimerase; cd03786 269482007395 active site 269482007396 homodimer interface [polypeptide binding]; other site 269482007397 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 269482007398 Glutamine amidotransferases class-II (Gn-AT)_GFAT-type. This domain is found at the N-terminus of glucosamine-6P synthase (GlmS, or GFAT in humans). The glutaminase domain catalyzes amide nitrogen transfer from glutamine to the appropriate substrate. In...; Region: GFAT; cd00714 269482007399 glutaminase active site [active] 269482007400 SIS (Sugar ISomerase) domain repeat 1 found in Glucosamine 6-phosphate synthase (GlmS) and Glucosamine-6-phosphate deaminase (GlmD). The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. GlmS contains a N-terminal...; Region: SIS_GlmS_GlmD_1; cd05008 269482007401 dimer interface [polypeptide binding]; other site 269482007402 active site 269482007403 SIS (Sugar ISomerase) domain repeat 2 found in Glucosamine 6-phosphate synthase (GlmS) and Glucosamine-6-phosphate deaminase (GlmD). The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. GlmS contains a N-terminal...; Region: SIS_GlmS_GlmD_2; cd05009 269482007404 dimer interface [polypeptide binding]; other site 269482007405 active site 269482007406 TIGR02594 family protein; Region: TIGR02594 269482007407 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 269482007408 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 269482007409 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 269482007410 putative substrate translocation pore; other site 269482007411 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 269482007412 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 269482007413 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 269482007414 HlyD family secretion protein; Region: HlyD_3; pfam13437 269482007415 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 269482007416 MarR family; Region: MarR_2; pfam12802 269482007417 Transcriptional regulator [Transcription]; Region: LysR; COG0583 269482007418 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 269482007419 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 269482007420 putative effector binding pocket; other site 269482007421 dimerization interface [polypeptide binding]; other site 269482007422 Transcriptional regulators [Transcription]; Region: MarR; COG1846 269482007423 MarR family; Region: MarR_2; pfam12802 269482007424 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 269482007425 Helix-turn-helix domain; Region: HTH_18; pfam12833 269482007426 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 269482007427 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 269482007428 2,4-dienoyl-CoA reductase (DCR) FMN-binding domain. DCR in E. coli is an iron-sulfur flavoenzyme which contains FMN, FAD, and a 4Fe-4S cluster. It is also a monomer, unlike that of its eukaryotic counterparts which form homotetramers and lack the...; Region: DCR_FMN; cd02930 269482007429 active site 269482007430 FMN binding site [chemical binding]; other site 269482007431 2,4-decadienoyl-CoA binding site; other site 269482007432 catalytic residue [active] 269482007433 4Fe-4S cluster binding site [ion binding]; other site 269482007434 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 269482007435 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 269482007436 Protein of unknown function (DUF2471); Region: DUF2471; pfam10616 269482007437 Transcriptional regulator [Transcription]; Region: LysR; COG0583 269482007438 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 269482007439 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 269482007440 dimerization interface [polypeptide binding]; other site 269482007441 Putative NADPH-quinone reductase (modulator of drug activity B) [General function prediction only]; Region: MdaB; COG2249 269482007442 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 269482007443 muconolactone delta-isomerase; Region: muco_delta; TIGR03221 269482007444 catechol 1,2-dioxygenase, proteobacterial; Region: catechol_proteo; TIGR02439 269482007445 Catechol 1,2 dioxygenase (1,2-CTD) catalyzes an intradiol cleavage reaction of catechol to form cis,cis-muconate. 1,2-CTDs is homodimers with one catalytic non-heme ferric ion per monomer. They belong to the aromatic dioxygenase family, a family of...; Region: 1,2-CTD; cd03460 269482007446 dimer interface [polypeptide binding]; other site 269482007447 active site 269482007448 Muconate Lactonizing Enzyme (MLE), an homooctameric enzyme, catalyses the conversion of cis,cis-muconate (CCM) to muconolactone (ML) in the catechol branch of the beta-ketoadipate pathway. This pathway is used in soil microbes to breakdown lignin-derived...; Region: MLE; cd03318 269482007449 muconate and chloromuconate cycloisomerases; Region: mucon_cyclo; TIGR02534 269482007450 octamer interface [polypeptide binding]; other site 269482007451 active site 269482007452 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 269482007453 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 269482007454 The C-terminal substrate binding domain of LysR-type transcriptional regulators involved in benzoate catabolism; contains the type 2 periplasmic binding fold; Region: PBP2_BenM_CatM_CatR; cd08445 269482007455 dimerizarion interface [polypeptide binding]; other site 269482007456 CrgA pocket; other site 269482007457 substrate binding pocket [chemical binding]; other site 269482007458 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 269482007459 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 269482007460 Rieske non-heme iron oxygenase (RO) family, Ortho-halobenzoate-1,2-dioxygenase (OHBDO)-like subfamily, N-terminal Rieske domain of the oxygenase alpha subunit; composed of the oxygenase alpha subunits of OHBDO, salicylate 5-hydroxylase (S5H); Region: Rieske_RO_Alpha_OHBDO_like; cd03545 269482007461 C-terminal catalytic domain of the large/alpha subunit (ahdA1c) of a ring-hydroxylating dioxygenase from Sphingomonas sp. strain P2 and related proteins; Region: RHO_alpha_C_ahdA1c-like; cd08880 269482007462 putative alpha subunit interface [polypeptide binding]; other site 269482007463 putative active site [active] 269482007464 putative substrate binding site [chemical binding]; other site 269482007465 Fe binding site [ion binding]; other site 269482007466 Ring hydroxylating dioxygenase beta subunit. This subunit has a similar structure to NTF-2, Ketosteroid isomerase and scytalone dehydratase.The degradation of aromatic compounds by aerobic bacteria frequently begins with the dihydroxylation of the...; Region: ring_hydroxylating_dioxygenases_beta; cd00667 269482007467 inter-subunit interface; other site 269482007468 Rieske non-heme iron oxygenase (RO) family, Rieske ferredoxin component; composed of the Rieske ferredoxin component of some three-component RO systems including biphenyl dioxygenase (BPDO) and carbazole 1,9a-dioxygenase (CARDO). The RO family comprise a...; Region: Rieske_RO_ferredoxin; cd03528 269482007469 [2Fe-2S] cluster binding site [ion binding]; other site 269482007470 phenylpropionate dioxygenase ferredoxin reductase subunit; Provisional; Region: PRK09754 269482007471 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 269482007472 Protein of unknown function (DUF445); Region: DUF445; pfam04286 269482007473 Predicted transcriptional regulator [Transcription]; Region: COG3636 269482007474 putative addiction module killer protein; Region: upstrm_HI1419; TIGR02683 269482007475 acetolactate synthase; Reviewed; Region: PRK08322 269482007476 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 269482007477 PYR/PP interface [polypeptide binding]; other site 269482007478 dimer interface [polypeptide binding]; other site 269482007479 TPP binding site [chemical binding]; other site 269482007480 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 269482007481 Thiamine pyrophosphate (TPP) family, Acetolactate synthase (ALS) subfamily, TPP-binding module; composed of proteins similar to Klebsiella pneumoniae ALS, a catabolic enzyme required for butanediol fermentation. ALS catalyzes the conversion of 2...; Region: TPP_ALS; cd02010 269482007482 TPP-binding site [chemical binding]; other site 269482007483 dimer interface [polypeptide binding]; other site 269482007484 Aldehyde dehydrogenase family 21A1-like; Region: ALDH_F21_RNP123; cd07147 269482007485 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 269482007486 NAD(P) binding site [chemical binding]; other site 269482007487 catalytic residues [active] 269482007488 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 269482007489 Response regulator receiver domain; Region: Response_reg; pfam00072 269482007490 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 269482007491 active site 269482007492 phosphorylation site [posttranslational modification] 269482007493 intermolecular recognition site; other site 269482007494 dimerization interface [polypeptide binding]; other site 269482007495 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 269482007496 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 269482007497 dimer interface [polypeptide binding]; other site 269482007498 phosphorylation site [posttranslational modification] 269482007499 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 269482007500 ATP binding site [chemical binding]; other site 269482007501 Mg2+ binding site [ion binding]; other site 269482007502 G-X-G motif; other site 269482007503 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 269482007504 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 269482007505 dimerization interface [polypeptide binding]; other site 269482007506 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 269482007507 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 269482007508 dimer interface [polypeptide binding]; other site 269482007509 putative CheW interface [polypeptide binding]; other site 269482007510 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cl00256 269482007511 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 269482007512 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 269482007513 Tetratricopeptide repeat; Region: TPR_16; pfam13432 269482007514 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 269482007515 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cl00086 269482007516 putative binding surface; other site 269482007517 active site 269482007518 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 269482007519 ATP binding site [chemical binding]; other site 269482007520 Mg2+ binding site [ion binding]; other site 269482007521 G-X-G motif; other site 269482007522 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cl00256 269482007523 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 269482007524 Response regulator receiver domain; Region: Response_reg; pfam00072 269482007525 active site 269482007526 phosphorylation site [posttranslational modification] 269482007527 intermolecular recognition site; other site 269482007528 dimerization interface [polypeptide binding]; other site 269482007529 chemotaxis-specific methylesterase; Provisional; Region: PRK12555 269482007530 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 269482007531 active site 269482007532 phosphorylation site [posttranslational modification] 269482007533 intermolecular recognition site; other site 269482007534 CheB methylesterase; Region: CheB_methylest; pfam01339 269482007535 ClC sycA-like chloride channel proteins. This ClC family presents in bacteria, where it facilitates acid resistance in acidic soil. Mutation of this gene (sycA) in Rhizobium tropici CIAT899 causes serious deficiencies in nodule development, nodulation...; Region: ClC_sycA_like; cd03682 269482007536 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 269482007537 putative Cl- selectivity filter; other site 269482007538 putative pore gating glutamate residue; other site 269482007539 riboflavin synthase subunit alpha; Provisional; Region: PRK13020 269482007540 Lumazine binding domain; Region: Lum_binding; pfam00677 269482007541 Lumazine binding domain; Region: Lum_binding; pfam00677 269482007542 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 269482007543 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 269482007544 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 269482007545 Walker A/P-loop; other site 269482007546 ATP binding site [chemical binding]; other site 269482007547 Q-loop/lid; other site 269482007548 ABC transporter signature motif; other site 269482007549 Walker B; other site 269482007550 D-loop; other site 269482007551 H-loop/switch region; other site 269482007552 Dyp-type peroxidase family; Region: Dyp_perox_fam; TIGR01413 269482007553 OsmC-like protein; Region: OsmC; pfam02566 269482007554 Transcriptional regulator [Transcription]; Region: LysR; COG0583 269482007555 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 269482007556 The C-terminal substrate binding domain of LysR-type transcriptional regulators that involved in the catabolism of nitroaromatic/naphthalene compounds and that of related regulators; contains the type 2 periplasmic binding fold; Region: PBP2_Nitroaromatics_like; cd08417 269482007557 substrate binding pocket [chemical binding]; other site 269482007558 dimerization interface [polypeptide binding]; other site 269482007559 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 269482007560 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 269482007561 manganese transport protein MntH; Reviewed; Region: PRK00701 269482007562 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 269482007563 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269482007564 short chain dehydrogenase; Validated; Region: PRK07069 269482007565 NAD(P) binding site [chemical binding]; other site 269482007566 active site 269482007567 Putative NADP-dependent oxidoreductases [General function prediction only]; Region: COG2130 269482007568 Prostaglandin dehydrogenases; Region: PGDH; cd05288 269482007569 NAD(P) binding site [chemical binding]; other site 269482007570 substrate binding site [chemical binding]; other site 269482007571 dimer interface [polypeptide binding]; other site 269482007572 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 269482007573 Domain of unknown function DUF20; Region: UPF0118; pfam01594 269482007574 The SYLF domain (also called DUF500), a novel lipid-binding module; Region: SYLF; cd11524 269482007575 Bacterial protein of unknown function (DUF883); Region: DUF883; pfam05957 269482007576 YCII-related domain; Region: YCII; cl00999 269482007577 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3795 269482007578 Predicted RNA polymerase sigma factor containing a TPR repeat domain [Transcription]; Region: COG4941 269482007579 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 269482007580 Uncharacterized protein, contains Trp-Asp (WD) repeat [General function prediction only]; Region: COG5354 269482007581 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 269482007582 Transcriptional activator HlyU; Region: HlyU; cl02273 269482007583 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 269482007584 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 269482007585 Substrate binding site; other site 269482007586 Mannose-6-phosphate isomerase; Region: MannoseP_isomer; pfam01050 269482007587 CoA-binding domain; Region: CoA_binding_3; pfam13727 269482007588 Bacterial sugar transferase; Region: Bac_transf; pfam02397 269482007589 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 269482007590 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 269482007591 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 269482007592 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 269482007593 Low molecular weight phosphatase family; Region: LMWPc; cd00115 269482007594 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 269482007595 active site 269482007596 polysaccharide export protein Wza; Provisional; Region: PRK15078 269482007597 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 269482007598 SLBB domain; Region: SLBB; pfam10531 269482007599 SLBB domain; Region: SLBB; pfam10531 269482007600 tyrosine kinase; Provisional; Region: PRK11519 269482007601 Chain length determinant protein; Region: Wzz; pfam02706 269482007602 Chain length determinant protein; Region: Wzz; cl15801 269482007603 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 269482007604 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 269482007605 P-loop; other site 269482007606 Magnesium ion binding site [ion binding]; other site 269482007607 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 269482007608 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 269482007609 active site 269482007610 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 269482007611 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 269482007612 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 269482007613 Glycosyltransferase Family 4; Region: Glyco_transf_4; pfam13439 269482007614 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 269482007615 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 269482007616 Predicted transcriptional regulators [Transcription]; Region: COG1733 269482007617 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 269482007618 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 269482007619 putative substrate translocation pore; other site 269482007620 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 269482007621 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 269482007622 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 269482007623 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 269482007624 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 269482007625 Predicted metal-dependent hydrolase; Region: Metal_hydrol; pfam10118 269482007626 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG3687 269482007627 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 269482007628 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 269482007629 Walker A motif; other site 269482007630 ATP binding site [chemical binding]; other site 269482007631 Walker B motif; other site 269482007632 arginine finger; other site 269482007633 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 269482007634 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 269482007635 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 269482007636 substrate binding pocket [chemical binding]; other site 269482007637 membrane-bound complex binding site; other site 269482007638 hinge residues; other site 269482007639 Protein of unknown function (DUF2384); Region: DUF2384; pfam09722 269482007640 RES domain; Region: RES; smart00953 269482007641 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 269482007642 active site 269482007643 metal binding site [ion binding]; metal-binding site 269482007644 Protein of unknown function (DUF1345); Region: DUF1345; pfam07077 269482007645 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 269482007646 S-adenosylmethionine binding site [chemical binding]; other site 269482007647 N-terminal Early set domain associated with the catalytic domain of Maltooligosyl trehalose trehalohydrolase (also called Glycosyltrehalose trehalohydrolase) and similar proteins; Region: E_set_MTHase_like_N; cd02853 269482007648 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 269482007649 active site 269482007650 catalytic site [active] 269482007651 Domain of unknown function (DUF3459); Region: DUF3459; pfam11941 269482007652 Thiamine monophosphate synthase (TMP synthase)/TenI. TMP synthase catalyzes an important step in the thiamine biosynthesis pathway, the substitution of the pyrophosphate of 2-methyl-4-amino-5- hydroxymethylpyrimidine pyrophosphate by 4-methyl-5-; Region: TMP_TenI; cd00564 269482007653 active site 269482007654 thiamine phosphate binding site [chemical binding]; other site 269482007655 pyrophosphate binding site [ion binding]; other site 269482007656 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 269482007657 Domain of unknown function DUF21; Region: DUF21; pfam01595 269482007658 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the CorC_HlyC domain. CorC_HlyC is a transporter associated domain. This small domain is found in Na+/H+ antiporters, in proteins involved in...; Region: CBS_pair_CorC_HlyC_assoc; cd04590 269482007659 Transporter associated domain; Region: CorC_HlyC; smart01091 269482007660 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 269482007661 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 269482007662 dimer interface [polypeptide binding]; other site 269482007663 phosphorylation site [posttranslational modification] 269482007664 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 269482007665 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 269482007666 dimerization interface [polypeptide binding]; other site 269482007667 4-Oxalocrotonate Tautomerase: Catalyzes the isomerization of unsaturated ketones. The structure is a homohexamer that is arranged as a trimer of dimers. The hexamer contains six active sites, each formed by residues from three monomers, two from one...; Region: 4Oxalocrotonate_Tautomerase; cl00235 269482007668 The CHAD domain is an alpha-helical domain functionally associated with some members of the adenylate cyclase family; Region: CHAD; smart00880 269482007669 N-terminal domain of molybdenum-binding protein [General function prediction only]; Region: ModE; COG2005 269482007670 DNA-binding transcriptional regulator ModE; Provisional; Region: PRK10676 269482007671 TOBE domain; Region: TOBE; cl01440 269482007672 Molybdopterin-binding protein [Coenzyme metabolism]; Region: MopI; COG3585 269482007673 thiamine ABC transporter, ATP-binding protein; Region: thiQ; TIGR01277 269482007674 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 269482007675 Walker A/P-loop; other site 269482007676 ATP binding site [chemical binding]; other site 269482007677 Q-loop/lid; other site 269482007678 ABC transporter signature motif; other site 269482007679 Walker B; other site 269482007680 D-loop; other site 269482007681 H-loop/switch region; other site 269482007682 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 269482007683 putative PBP binding loops; other site 269482007684 dimer interface [polypeptide binding]; other site 269482007685 ABC-ATPase subunit interface; other site 269482007686 ABC-type molybdate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: ModA; COG0725 269482007687 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 269482007688 PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cl00474 269482007689 active site 269482007690 Esterase PHB depolymerase; Region: Esterase_phd; pfam10503 269482007691 Protein of unknown function (DUF3563); Region: DUF3563; pfam12086 269482007692 peroxiredoxin, Ohr subfamily; Region: organ_hyd_perox; TIGR03561 269482007693 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 269482007694 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 269482007695 putative Zn2+ binding site [ion binding]; other site 269482007696 putative DNA binding site [nucleotide binding]; other site 269482007697 Putative homoserine kinase type II (protein kinase fold) [General function prediction only]; Region: COG2334 269482007698 Homoserine Kinase, type II. Homoserine kinase is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs), RIO kinases, actin-fragmin kinase (AFK), and...; Region: HomoserineK_II; cd05153 269482007699 putative active site [active] 269482007700 putative substrate binding site [chemical binding]; other site 269482007701 ATP binding site [chemical binding]; other site 269482007702 AMP nucleosidase; Provisional; Region: PRK08292 269482007703 Bacterial AMP nucleoside phosphorylase N-terminus; Region: AMNp_N; pfam10423 269482007704 Nucleoside phosphorylase [Nucleotide transport and metabolism]; Region: Pfs; COG0775 269482007705 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 269482007706 DNA polymerase I; Provisional; Region: PRK05755 269482007707 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 269482007708 active site 269482007709 metal binding site 1 [ion binding]; metal-binding site 269482007710 putative 5' ssDNA interaction site; other site 269482007711 metal binding site 3; metal-binding site 269482007712 metal binding site 2 [ion binding]; metal-binding site 269482007713 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 269482007714 putative DNA binding site [nucleotide binding]; other site 269482007715 putative metal binding site [ion binding]; other site 269482007716 DEDDy 3'-5' exonuclease domain of Escherichia coli DNA polymerase I and similar bacterial family-A DNA polymerases; Region: DNA_polA_I_Ecoli_like_exo; cd06139 269482007717 active site 269482007718 catalytic site [active] 269482007719 substrate binding site [chemical binding]; other site 269482007720 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 269482007721 active site 269482007722 DNA binding site [nucleotide binding] 269482007723 catalytic site [active] 269482007724 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 269482007725 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 269482007726 Dienelactone hydrolase family; Region: DLH; pfam01738 269482007727 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 269482007728 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cl00125 269482007729 active site residue [active] 269482007730 Thiosulfate sulfurtransferase (TST), C-terminal, catalytic domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the second repeat. Only the second repeat contains the catalytically active Cys residue; Region: TST_Repeat_2; cd01449 269482007731 active site residue [active] 269482007732 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 269482007733 Rieske non-heme iron oxygenase (RO) family, N-terminal Rieske domain of the oxygenase alpha subunit; The RO family comprise a large class of aromatic ring-hydroxylating dioxygenases found predominantly in microorganisms. These enzymes enable...; Region: Rieske_RO_Alpha_N; cd03469 269482007734 [2Fe-2S] cluster binding site [ion binding]; other site 269482007735 C-terminal catalytic domain of the oxygenase alpha subunit of Rieske-type non-heme iron aromatic ring-hydroxylating oxygenases; Region: RHO_alpha_C; cd00680 269482007736 alpha subunit interface [polypeptide binding]; other site 269482007737 active site 269482007738 substrate binding site [chemical binding]; other site 269482007739 Fe binding site [ion binding]; other site 269482007740 Insertion element 4 transposase N-terminal; Region: Nterm_IS4; pfam13006 269482007741 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 269482007742 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 269482007743 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 269482007744 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 269482007745 substrate binding pocket [chemical binding]; other site 269482007746 chain length determination region; other site 269482007747 substrate-Mg2+ binding site; other site 269482007748 catalytic residues [active] 269482007749 aspartate-rich region 1; other site 269482007750 active site lid residues [active] 269482007751 aspartate-rich region 2; other site 269482007752 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 269482007753 Thiamine pyrophosphate (TPP) family, DXS subfamily, TPP-binding module; 1-Deoxy-D-xylulose-5-phosphate synthase (DXS) is a regulatory enzyme of the mevalonate-independent pathway involved in terpenoid biosynthesis. Terpeniods are plant natural products...; Region: TPP_DXS; cd02007 269482007754 TPP-binding site; other site 269482007755 Pyrimidine (PYR) binding domain of 1-deoxy-D-xylulose-5-phosphate synthase (DXS), transketolase (TK), and related proteins; Region: TPP_PYR_DXS_TK_like; cd07033 269482007756 PYR/PP interface [polypeptide binding]; other site 269482007757 dimer interface [polypeptide binding]; other site 269482007758 TPP binding site [chemical binding]; other site 269482007759 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 269482007760 putative GTP cyclohydrolase; Provisional; Region: PRK13674 269482007761 UGMP family protein; Validated; Region: PRK09604 269482007762 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl17884 269482007763 Predicted flavoproteins [General function prediction only]; Region: COG2081 269482007764 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 269482007765 Yqey-like protein; Region: YqeY; pfam09424 269482007766 DNA primase; Validated; Region: dnaG; PRK05667 269482007767 CHC2 zinc finger; Region: zf-CHC2; pfam01807 269482007768 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 269482007769 TOPRIM_DnaG_primases: The topoisomerase-primase (TORPIM) nucleotidyl transferase/hydrolase domain found in the active site regions of proteins similar to Escherichia coli DnaG. Primases synthesize RNA primers for the initiation of DNA replication. DnaG...; Region: TOPRIM_DnaG_primases; cd03364 269482007770 active site 269482007771 metal binding site [ion binding]; metal-binding site 269482007772 interdomain interaction site; other site 269482007773 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 269482007774 DNA primase DnaG DnaB-binding; Region: DnaG_DnaB_bind; smart00766 269482007775 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 269482007776 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 269482007777 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 269482007778 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 269482007779 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 269482007780 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 269482007781 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 269482007782 DNA binding residues [nucleotide binding] 269482007783 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 269482007784 Phthalate dioxygenase reductase (PDR) is an FMN-dependent reductase that mediates electron transfer from NADH to FMN to an iron sulfur cluster. PDR has an an N-terminal ferrredoxin reductase (FNR)-like NAD(H) binding domain and a C-terminal iron-sulfur; Region: PDR_like; cd06185 269482007785 FMN-binding pocket [chemical binding]; other site 269482007786 flavin binding motif; other site 269482007787 phosphate binding motif [ion binding]; other site 269482007788 beta-alpha-beta structure motif; other site 269482007789 NAD binding pocket [chemical binding]; other site 269482007790 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 269482007791 catalytic loop [active] 269482007792 iron binding site [ion binding]; other site 269482007793 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 269482007794 D-galactonate transporter; Region: 2A0114; TIGR00893 269482007795 putative substrate translocation pore; other site 269482007796 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 269482007797 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 269482007798 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 269482007799 nicotinate-nucleotide pyrophosphorylase; Provisional; Region: PRK06978 269482007800 Quinolinate phosphoribosyl transferase (QAPRTase or QPRTase), also called nicotinate-nucleotide pyrophosphorylase, is involved in the de novo synthesis of NAD in both prokaryotes and eukaryotes. It catalyses the reaction of quinolinic acid (QA) with...; Region: QPRTase; cd01572 269482007801 dimerization interface [polypeptide binding]; other site 269482007802 active site 269482007803 Transposase, Mutator family; Region: Transposase_mut; pfam00872 269482007804 MULE transposase domain; Region: MULE; pfam10551 269482007805 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 269482007806 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 269482007807 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 269482007808 Rieske non-heme iron oxygenase (RO) family, Phthalate 4,5-dioxygenase (PhDO)-like subfamily, N-terminal Rieske domain of the oxygenase alpha subunit; composed of the oxygenase alpha subunits of PhDO and similar proteins including 3-chlorobenzoate 3; Region: Rieske_RO_Alpha_PhDO_like; cd03479 269482007809 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 269482007810 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 269482007811 hydrophobic ligand binding site; other site 269482007812 Hemerythrin; Region: Hemerythrin; cd12107 269482007813 Fe binding site [ion binding]; other site 269482007814 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 269482007815 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 269482007816 active site 269482007817 catalytic tetrad [active] 269482007818 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 269482007819 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD1; cd05283 269482007820 putative NAD(P) binding site [chemical binding]; other site 269482007821 putative substrate binding site [chemical binding]; other site 269482007822 catalytic Zn binding site [ion binding]; other site 269482007823 structural Zn binding site [ion binding]; other site 269482007824 dimer interface [polypeptide binding]; other site 269482007825 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 269482007826 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 269482007827 putative substrate translocation pore; other site 269482007828 Transcriptional regulator [Transcription]; Region: LysR; COG0583 269482007829 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 269482007830 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_5; cd08474 269482007831 putative effector binding pocket; other site 269482007832 putative dimerization interface [polypeptide binding]; other site 269482007833 putative transporter; Provisional; Region: PRK12382 269482007834 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 269482007835 putative substrate translocation pore; other site 269482007836 4-Oxalocrotonate Tautomerase: Catalyzes the isomerization of unsaturated ketones. The structure is a homohexamer that is arranged as a trimer of dimers. The hexamer contains six active sites, each formed by residues from three monomers, two from one...; Region: 4Oxalocrotonate_Tautomerase; cl00235 269482007837 active site 1 [active] 269482007838 dimer interface [polypeptide binding]; other site 269482007839 hexamer interface [polypeptide binding]; other site 269482007840 active site 2 [active] 269482007841 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 269482007842 Transposase, Mutator family; Region: Transposase_mut; pfam00872 269482007843 MULE transposase domain; Region: MULE; pfam10551 269482007844 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 269482007845 Helix-turn-helix domain; Region: HTH_38; pfam13936 269482007846 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl17189 269482007847 Transposase; Region: DEDD_Tnp_IS110; pfam01548 269482007848 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 269482007849 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 269482007850 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 269482007851 Integrase core domain; Region: rve; pfam00665 269482007852 MULE transposase domain; Region: MULE; pfam10551 269482007853 Transposase, Mutator family; Region: Transposase_mut; pfam00872 269482007854 putative transposase OrfB; Reviewed; Region: PHA02517 269482007855 HTH-like domain; Region: HTH_21; pfam13276 269482007856 Integrase core domain; Region: rve; pfam00665 269482007857 Integrase core domain; Region: rve_3; pfam13683 269482007858 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 269482007859 DNA-binding interface [nucleotide binding]; DNA binding site 269482007860 MarR family; Region: MarR; pfam01047 269482007861 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 269482007862 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 269482007863 trimer interface [polypeptide binding]; other site 269482007864 eyelet of channel; other site 269482007865 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 269482007866 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 269482007867 Walker A/P-loop; other site 269482007868 ATP binding site [chemical binding]; other site 269482007869 Q-loop/lid; other site 269482007870 ABC transporter signature motif; other site 269482007871 Walker B; other site 269482007872 D-loop; other site 269482007873 H-loop/switch region; other site 269482007874 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 269482007875 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 269482007876 dimer interface [polypeptide binding]; other site 269482007877 conserved gate region; other site 269482007878 putative PBP binding loops; other site 269482007879 ABC-ATPase subunit interface; other site 269482007880 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 269482007881 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cl17432 269482007882 substrate binding pocket [chemical binding]; other site 269482007883 membrane-bound complex binding site; other site 269482007884 hinge residues; other site 269482007885 Transposase; Region: HTH_Tnp_1; pfam01527 269482007886 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 269482007887 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 269482007888 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 269482007889 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 269482007890 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 269482007891 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 269482007892 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 269482007893 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 269482007894 Plasmid pRiA4b ORF-3-like protein; Region: PRiA4_ORF3; pfam07929 269482007895 acetolactate synthase catalytic subunit; Validated; Region: PRK08327 269482007896 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 269482007897 PYR/PP interface [polypeptide binding]; other site 269482007898 dimer interface [polypeptide binding]; other site 269482007899 TPP binding site [chemical binding]; other site 269482007900 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 269482007901 Thiamine pyrophosphate (TPP) family, BFDC subfamily, TPP-binding module; composed of proteins similar to Pseudomonas putida benzoylformate decarboxylase (BFDC). P. putida BFDC plays a role in the mandelate pathway, catalyzing the conversion of...; Region: TPP_BFDC; cd02002 269482007902 TPP-binding site [chemical binding]; other site 269482007903 dimer interface [polypeptide binding]; other site 269482007904 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 269482007905 Nocardioides 2-carboxybenzaldehyde dehydrogenase, PhdK-like; Region: ALDH_PhdK-like; cd07107 269482007906 NAD(P) binding site [chemical binding]; other site 269482007907 catalytic residues [active] 269482007908 catalytic residues [active] 269482007909 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 269482007910 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 269482007911 D-galactonate transporter; Region: 2A0114; TIGR00893 269482007912 putative substrate translocation pore; other site 269482007913 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 269482007914 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 269482007915 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 269482007916 dimer interface [polypeptide binding]; other site 269482007917 putative CheW interface [polypeptide binding]; other site 269482007918 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cl17257 269482007919 DNA binding residues [nucleotide binding] 269482007920 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 269482007921 Integrase core domain; Region: rve; pfam00665 269482007922 Integrase core domain; Region: rve_3; cl15866 269482007923 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 269482007924 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 269482007925 IstB-like ATP binding N-terminal; Region: IstB_IS21_ATP; pfam08483 269482007926 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 269482007927 Walker A motif; other site 269482007928 ATP binding site [chemical binding]; other site 269482007929 Walker B motif; other site 269482007930 arginine finger; other site 269482007931 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 269482007932 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 269482007933 Walker A motif; other site 269482007934 ATP binding site [chemical binding]; other site 269482007935 Walker B motif; other site 269482007936 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 269482007937 Transposase; Region: DEDD_Tnp_IS110; pfam01548 269482007938 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 269482007939 zinc-ribbon domain; Region: zf-ribbon_3; cl11198 269482007940 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 269482007941 A family including aminopeptidase P, aminopeptidase M, and prolidase. Also known as metallopeptidase family M24. This family of enzymes is able to cleave amido-, imido- and amidino-containing bonds. Members exibit relatively narrow substrate specificity...; Region: APP_MetAP; cd01066 269482007942 active site 269482007943 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 269482007944 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 269482007945 trimer interface [polypeptide binding]; other site 269482007946 eyelet of channel; other site 269482007947 metabolite-proton symporter; Region: 2A0106; TIGR00883 269482007948 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 269482007949 Uncharacterized conserved protein [Function unknown]; Region: COG3391 269482007950 NHL repeat; Region: NHL; pfam01436 269482007951 Transcriptional regulator [Transcription]; Region: LysR; COG0583 269482007952 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 269482007953 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 269482007954 dimerization interface [polypeptide binding]; other site 269482007955 Uncharacterized conserved protein [Function unknown]; Region: COG3391 269482007956 NHL repeat; Region: NHL; pfam01436 269482007957 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 269482007958 Type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine); Region: PBP1_ABC_LIVBP_like; cd06342 269482007959 dimerization interface [polypeptide binding]; other site 269482007960 ligand binding site [chemical binding]; other site 269482007961 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 269482007962 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 269482007963 TM-ABC transporter signature motif; other site 269482007964 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 269482007965 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 269482007966 TM-ABC transporter signature motif; other site 269482007967 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 269482007968 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 269482007969 Walker A/P-loop; other site 269482007970 ATP binding site [chemical binding]; other site 269482007971 Q-loop/lid; other site 269482007972 ABC transporter signature motif; other site 269482007973 Walker B; other site 269482007974 D-loop; other site 269482007975 H-loop/switch region; other site 269482007976 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 269482007977 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 269482007978 Walker A/P-loop; other site 269482007979 ATP binding site [chemical binding]; other site 269482007980 Q-loop/lid; other site 269482007981 ABC transporter signature motif; other site 269482007982 Walker B; other site 269482007983 D-loop; other site 269482007984 H-loop/switch region; other site 269482007985 amidase; Provisional; Region: PRK07056 269482007986 Amidase; Region: Amidase; cl11426 269482007987 NHL repeat; Region: NHL; pfam01436 269482007988 Uncharacterized conserved protein [Function unknown]; Region: COG3391 269482007989 NHL repeat; Region: NHL; pfam01436 269482007990 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 269482007991 Piwi-like: PIWI domain. Domain found in proteins involved in RNA silencing. RNA silencing refers to a group of related gene-silencing mechanisms mediated by short RNA molecules, including siRNAs, miRNAs, and heterochromatin-related guide RNAs. The...; Region: Piwi-like; cl00628 269482007992 5' RNA guide strand anchoring site; other site 269482007993 active site 269482007994 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 269482007995 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 269482007996 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 269482007997 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 269482007998 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 269482007999 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 269482008000 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 269482008001 TniQ; Region: TniQ; pfam06527 269482008002 Bacterial TniB protein; Region: TniB; pfam05621 269482008003 AAA domain; Region: AAA_22; pfam13401 269482008004 TnsA endonuclease N terminal; Region: Tn7_Tnp_TnsA_N; pfam08722 269482008005 TnsA endonuclease C terminal; Region: Tn7_Tnp_TnsA_C; pfam08721 269482008006 Integrase core domain; Region: rve; pfam00665 269482008007 Mu transposase, C-terminal; Region: Mu-transpos_C; pfam09299 269482008008 Phage protein Gp37/Gp68; Region: Gp37_Gp68; cl15384 269482008009 Transposase, Mutator family; Region: Transposase_mut; pfam00872 269482008010 MULE transposase domain; Region: MULE; pfam10551 269482008011 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 269482008012 IstB-like ATP binding N-terminal; Region: IstB_IS21_ATP; pfam08483 269482008013 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 269482008014 Walker A motif; other site 269482008015 ATP binding site [chemical binding]; other site 269482008016 Walker B motif; other site 269482008017 arginine finger; other site 269482008018 TniQ; Region: TniQ; pfam06527 269482008019 Transposase domain (DUF772); Region: DUF772; pfam05598 269482008020 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 269482008021 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 269482008022 AAA domain; Region: AAA_22; pfam13401 269482008023 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 269482008024 Transposase domain (DUF772); Region: DUF772; pfam05598 269482008025 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 269482008026 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 269482008027 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 269482008028 non-specific DNA binding site [nucleotide binding]; other site 269482008029 salt bridge; other site 269482008030 sequence-specific DNA binding site [nucleotide binding]; other site 269482008031 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cl00057 269482008032 Caspase domain; Region: Peptidase_C14; pfam00656 269482008033 ski2-like helicase; Provisional; Region: PRK02362 269482008034 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 269482008035 ATP binding site [chemical binding]; other site 269482008036 putative Mg++ binding site [ion binding]; other site 269482008037 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 269482008038 nucleotide binding region [chemical binding]; other site 269482008039 ATP-binding site [chemical binding]; other site 269482008040 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cl00144 269482008041 dimer interface [polypeptide binding]; other site 269482008042 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 269482008043 dimerization interface [polypeptide binding]; other site 269482008044 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 269482008045 dimer interface [polypeptide binding]; other site 269482008046 putative CheW interface [polypeptide binding]; other site 269482008047 Patatin-like phospholipase; includes PNPLA8, PNPLA9, and Pat17; Region: Pat17_PNPLA8_PNPLA9_like; cd07199 269482008048 active site 269482008049 nucleophile elbow; other site 269482008050 Putative catalytic domain, repeat 1, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_1; cd09111 269482008051 putative active site [active] 269482008052 catalytic site [active] 269482008053 Putative catalytic domain, repeat 2, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_2; cd09113 269482008054 PLD-like domain; Region: PLDc_2; pfam13091 269482008055 putative active site [active] 269482008056 catalytic site [active] 269482008057 putative mechanosensitive channel protein; Provisional; Region: PRK11465 269482008058 Mechanosensitive ion channel; Region: MS_channel; pfam00924 269482008059 luciferase-type oxidoreductase, BA3436 family; Region: lucif_BA3436; TIGR03571 269482008060 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 269482008061 NAD-dependent deacetylase; Provisional; Region: PRK05333 269482008062 SIR2 superfamily of proteins includes silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation, where the acetyl group from the lysine epsilon-amino group is transferred to the ADP-ribose moiety of NAD+; Region: SIR2; cl00195 269482008063 Protein of unknown function (DUF938); Region: DUF938; pfam06080 269482008064 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 269482008065 6-phosphogluconate dehydrogenase; Validated; Region: PRK09287 269482008066 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 269482008067 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 269482008068 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 269482008069 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 269482008070 E3 interaction surface; other site 269482008071 lipoyl attachment site [posttranslational modification]; other site 269482008072 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 269482008073 Protein of unknown function (DUF2946); Region: DUF2946; pfam11162 269482008074 TonB-dependent copper receptor; Region: TonB-copper; TIGR01778 269482008075 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 269482008076 N-terminal plug; other site 269482008077 ligand-binding site [chemical binding]; other site 269482008078 Lipase (class 2); Region: Lipase_2; pfam01674 269482008079 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 269482008080 PGAP1-like protein; Region: PGAP1; pfam07819 269482008081 Predicted acetyltransferases and hydrolases with the alpha/beta hydrolase fold [General function prediction only]; Region: LipA; COG1075 269482008082 Lipase (class 2); Region: Lipase_2; pfam01674 269482008083 PGAP1-like protein; Region: PGAP1; pfam07819 269482008084 lipase chaperone; Provisional; Region: PRK01294 269482008085 Proteobacterial lipase chaperone protein; Region: Lipase_chap; cl02224 269482008086 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 269482008087 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 269482008088 DNA-binding site [nucleotide binding]; DNA binding site 269482008089 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 269482008090 pyridoxal 5'-phosphate binding site [chemical binding]; other site 269482008091 homodimer interface [polypeptide binding]; other site 269482008092 catalytic residue [active] 269482008093 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 269482008094 ATP-binding cassette domain of the polyamine transporter; Region: ABC_PotA_N; cd03300 269482008095 Walker A/P-loop; other site 269482008096 ATP binding site [chemical binding]; other site 269482008097 Q-loop/lid; other site 269482008098 ABC transporter signature motif; other site 269482008099 Walker B; other site 269482008100 D-loop; other site 269482008101 H-loop/switch region; other site 269482008102 TOBE domain; Region: TOBE_2; pfam08402 269482008103 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 269482008104 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 269482008105 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 269482008106 dimer interface [polypeptide binding]; other site 269482008107 conserved gate region; other site 269482008108 putative PBP binding loops; other site 269482008109 ABC-ATPase subunit interface; other site 269482008110 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 269482008111 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 269482008112 dimer interface [polypeptide binding]; other site 269482008113 conserved gate region; other site 269482008114 putative PBP binding loops; other site 269482008115 ABC-ATPase subunit interface; other site 269482008116 Activation domain of S53 peptidases; Region: Pro-peptidase_S53; cd11377 269482008117 peptidase domain interface [polypeptide binding]; other site 269482008118 Peptidase domain in the S53 family; Region: Peptidases_S53; cd04056 269482008119 active site 269482008120 catalytic triad [active] 269482008121 calcium binding site [ion binding]; other site 269482008122 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 269482008123 dimerization interface [polypeptide binding]; other site 269482008124 putative DNA binding site [nucleotide binding]; other site 269482008125 putative Zn2+ binding site [ion binding]; other site 269482008126 Putative hydrophobic ligand-binding SRPBCC domain of Micromonospora echinospora CalC, human Aha1, and related proteins; Region: SRPBCC_CalC_Aha1-like; cd07814 269482008127 putative hydrophobic ligand binding site [chemical binding]; other site 269482008128 Domain of unknown function (DU1801); Region: DUF1801; cl17490 269482008129 aconitate hydratase; Provisional; Region: acnA; PRK12881 269482008130 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 269482008131 substrate binding site [chemical binding]; other site 269482008132 ligand binding site [chemical binding]; other site 269482008133 Aconitase A swivel domain. This is the major form of the TCA cycle enzyme aconitate hydratase, also known as aconitase and citrate hydro-lyase. It includes bacterial and archaeal aconitase A, and the eukaryotic cytosolic form of aconitase. This group...; Region: AcnA_IRP_Swivel; cd01580 269482008134 substrate binding site [chemical binding]; other site 269482008135 2-methylcitrate dehydratase; Provisional; Region: prpD; PRK09425 269482008136 2-methylcitrate dehydratase; Region: prpD; TIGR02330 269482008137 Citrate lyase beta subunit [Carbohydrate transport and metabolism]; Region: CitE; COG2301 269482008138 malate dehydrogenase; Provisional; Region: PRK05442 269482008139 Chloroplast-like malate dehydrogenases; Region: MDH_choloroplast_like; cd01338 269482008140 NAD(P) binding site [chemical binding]; other site 269482008141 dimer interface [polypeptide binding]; other site 269482008142 malate binding site [chemical binding]; other site 269482008143 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 269482008144 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 269482008145 DNA-binding site [nucleotide binding]; DNA binding site 269482008146 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 269482008147 Succinate:quinone oxidoreductase (SQR) Type C subfamily, Succinate dehydrogenase C (SdhC) subunit; composed of bacterial SdhC and eukaryotic large cytochrome b binding (CybL) proteins. SQR catalyzes the oxidation of succinate to fumarate coupled to the...; Region: SQR_TypeC_SdhC; cd03499 269482008148 Iron-sulfur protein interface; other site 269482008149 proximal quinone binding site [chemical binding]; other site 269482008150 SdhD (CybS) interface [polypeptide binding]; other site 269482008151 proximal heme binding site [chemical binding]; other site 269482008152 Succinate:quinone oxidoreductase (SQR) Type C subfamily, Succinate dehydrogenase D (SdhD) subunit; SQR catalyzes the oxidation of succinate to fumarate coupled to the reduction of quinone to quinol. E. coli SQR, a member of this subfamily, reduces the...; Region: SQR_TypeC_SdhD; cd03494 269482008153 SdhC subunit interface [polypeptide binding]; other site 269482008154 proximal heme binding site [chemical binding]; other site 269482008155 cardiolipin binding site; other site 269482008156 Iron-sulfur protein interface; other site 269482008157 proximal quinone binding site [chemical binding]; other site 269482008158 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK07057 269482008159 L-aspartate oxidase; Provisional; Region: PRK06175 269482008160 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 269482008161 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 269482008162 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 269482008163 Flavinator of succinate dehydrogenase; Region: Sdh5; cl01110 269482008164 Escherichia coli (Ec) citrate synthase (CS) GltA_like. CS catalyzes the condensation of acetyl coenzyme A (AcCoA) and oxalacetate (OAA) to form citrate and coenzyme A (CoA), the first step in the citric acid cycle (TCA or Krebs cycle). The overall CS...; Region: EcCS_like; cd06114 269482008165 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 269482008166 dimer interface [polypeptide binding]; other site 269482008167 active site 269482008168 citrylCoA binding site [chemical binding]; other site 269482008169 NADH binding [chemical binding]; other site 269482008170 cationic pore residues; other site 269482008171 oxalacetate/citrate binding site [chemical binding]; other site 269482008172 coenzyme A binding site [chemical binding]; other site 269482008173 catalytic triad [active] 269482008174 Cupin domain; Region: Cupin_2; cl17218 269482008175 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 269482008176 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 269482008177 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_19; cd07262 269482008178 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 269482008179 Protein of unknown function (DUF1479); Region: DUF1479; pfam07350 269482008180 indole acetimide hydrolase; Validated; Region: PRK07488 269482008181 Amidase; Region: Amidase; pfam01425 269482008182 Transcriptional regulator [Transcription]; Region: LysR; COG0583 269482008183 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 269482008184 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 269482008185 putative effector binding pocket; other site 269482008186 dimerization interface [polypeptide binding]; other site 269482008187 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 269482008188 putative substrate translocation pore; other site 269482008189 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4460 269482008190 anthranilate 1,2-dioxygenase, large subunit; Region: anthran_1_2_A; TIGR03228 269482008191 Rieske non-heme iron oxygenase (RO) family, Anthranilate 1,2-dioxygenase (AntDO) subfamily, N-terminal Rieske domain of the oxygenase alpha subunit; ROs comprise a large class of aromatic ring-hydroxylating dioxygenases that enable microorganisms to...; Region: Rieske_RO_Alpha_AntDO; cd03538 269482008192 C-terminal catalytic domain of the oxygenase alpha subunit of Pseudomonas resinovorans strain CA10 anthranilate 1,2-dioxygenase and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_AntDO-like; cd08879 269482008193 putative alpha subunit interface [polypeptide binding]; other site 269482008194 putative active site [active] 269482008195 putative substrate binding site [chemical binding]; other site 269482008196 Fe binding site [ion binding]; other site 269482008197 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 269482008198 Flavin containing amine oxidoreductase; Region: Amino_oxidase; pfam01593 269482008199 GST_N family, Class Sigma_like; composed of GSTs belonging to class Sigma and similar proteins, including GSTs from class Mu, Pi and Alpha. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of...; Region: GST_N_Sigma_like; cd03039 269482008200 glutathione s-transferase; Provisional; Region: PTZ00057 269482008201 GSH binding site (G-site) [chemical binding]; other site 269482008202 C-terminal domain interface [polypeptide binding]; other site 269482008203 dimer interface [polypeptide binding]; other site 269482008204 C-terminal, alpha helical domain of Class Sigma-like Glutathione S-transferases; Region: GST_C_Sigma_like; cd03192 269482008205 dimer interface [polypeptide binding]; other site 269482008206 N-terminal domain interface [polypeptide binding]; other site 269482008207 substrate binding pocket (H-site) [chemical binding]; other site 269482008208 type VI secretion system lysozyme-like protein; Region: VI_zyme; TIGR03357 269482008209 Uncharacterized protein conserved in bacteria (DUF2077); Region: DUF2077; pfam09850 269482008210 type VI secretion protein, VC_A0114 family; Region: VI_chp_4; TIGR03353 269482008211 Bacterial protein of unknown function (DUF876); Region: DUF876; pfam05936 269482008212 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3517; cl05484 269482008213 Protein of unknown function (DUF877); Region: DUF877; pfam05943 269482008214 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 269482008215 Rhs element Vgr protein; Region: vgr_GE; TIGR01646 269482008216 Phage-related baseplate assembly protein; Region: Phage_base_V; cl17812 269482008217 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 269482008218 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; pfam10106 269482008219 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 269482008220 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 269482008221 Phage-related baseplate assembly protein; Region: Phage_base_V; cl17812 269482008222 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 269482008223 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; pfam10106 269482008224 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 269482008225 catalytic residue [active] 269482008226 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 269482008227 Helix-turn-helix domain; Region: HTH_38; pfam13936 269482008228 Integrase core domain; Region: rve; pfam00665 269482008229 The Sema domain, a protein interacting module, of semaphorins and plexins; Region: Sema; cl15693 269482008230 Intracellular multiplication and human macrophage-killing; Region: IcmF-related; pfam06761 269482008231 Protein of unknown function (DUF1215); Region: DUF1215; pfam06744 269482008232 Type VI protein secretion system component VasA [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3519 269482008233 Bacterial protein of unknown function (DUF879); Region: DUF879; pfam05947 269482008234 Protein of unknown function (DUF1305); Region: DUF1305; pfam06996 269482008235 Type VI secretion lipoprotein; Region: T6SS-SciN; pfam12790 269482008236 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 269482008237 Helix-turn-helix domain; Region: HTH_38; pfam13936 269482008238 Integrase core domain; Region: rve; pfam00665 269482008239 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 269482008240 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 269482008241 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 269482008242 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 269482008243 transposase/IS protein; Provisional; Region: PRK09183 269482008244 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 269482008245 Walker A motif; other site 269482008246 ATP binding site [chemical binding]; other site 269482008247 Walker B motif; other site 269482008248 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 269482008249 Integrase core domain; Region: rve; pfam00665 269482008250 putative transposase OrfB; Reviewed; Region: PHA02517 269482008251 Integrase core domain; Region: rve; pfam00665 269482008252 Integrase core domain; Region: rve_3; pfam13683 269482008253 Transposase; Region: HTH_Tnp_1; pfam01527 269482008254 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 269482008255 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 269482008256 Phosphatidylserine/phosphatidylglycerophosphate/car diolipin synthases and related enzymes [Lipid metabolism]; Region: Cls; COG1502 269482008257 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 269482008258 Catalytic domain, repeat 2, of vertebrate phospholipases, PLD1 and PLD2, and similar proteins; Region: PLDc_vPLD1_2_like_2; cd09105 269482008259 putative active site [active] 269482008260 catalytic site [active] 269482008261 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 269482008262 Sel1-like repeats; Region: SEL1; smart00671 269482008263 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 269482008264 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 269482008265 substrate binding site [chemical binding]; other site 269482008266 ligand binding site [chemical binding]; other site 269482008267 Predicted small secreted protein [Function unknown]; Region: COG5510 269482008268 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 269482008269 Aconatase-like swivel domain of 3-isopropylmalate dehydratase and related uncharacterized proteins. 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate, via the formation of 2-isopropylmaleate...; Region: IPMI_Swivel; cd01577 269482008270 substrate binding site [chemical binding]; other site 269482008271 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 269482008272 tartrate dehydrogenase; Region: TTC; TIGR02089 269482008273 aspartate-semialdehyde dehydrogenase; Reviewed; Region: PRK06598 269482008274 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 269482008275 FimV N-terminal domain; Region: FimV_core; TIGR03505 269482008276 FimV C-terminal domain; Region: FimV_Cterm; TIGR03504 269482008277 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 269482008278 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 269482008279 dimerization interface 3.5A [polypeptide binding]; other site 269482008280 active site 269482008281 Phosphoribosylanthranilate isomerase (PRAI) catalyzes the fourth step of the tryptophan biosynthesis, the conversion of N-(5'- phosphoribosyl)-anthranilate (PRA) to 1-(o-carboxyphenylamino)- 1-deoxyribulose 5-phosphate (CdRP). Most PRAIs are...; Region: PRAI; cd00405 269482008282 active site 269482008283 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 269482008284 Tryptophan synthase-beta: Trptophan synthase is a bifunctional enzyme that catalyses the last two steps in the biosynthesis of L-tryptophan via its alpha and beta reactions. In the alpha reaction, indole 3-glycerol phosphate is cleaved reversibly to...; Region: Trp-synth_B; cd06446 269482008285 pyridoxal 5'-phosphate binding site [chemical binding]; other site 269482008286 catalytic residue [active] 269482008287 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 269482008288 DNA methylase; Region: N6_N4_Mtase; pfam01555 269482008289 tryptophan synthase alpha subunit; Provisional; Region: trpA; CHL00200 269482008290 Ttryptophan synthase (TRPS) alpha subunit (TSA). TPRS is a bifunctional tetrameric enzyme (2 alpha and 2 beta subunits) that catalyzes the last two steps of L-tryptophan biosynthesis. Alpha and beta subunit catalyze two distinct reactions which are both...; Region: Tryptophan_synthase_alpha; cd04724 269482008291 substrate binding site [chemical binding]; other site 269482008292 active site 269482008293 catalytic residues [active] 269482008294 heterodimer interface [polypeptide binding]; other site 269482008295 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 269482008296 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 269482008297 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 269482008298 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 269482008299 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 269482008300 Sporulation related domain; Region: SPOR; cl10051 269482008301 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 269482008302 Colicin V production protein; Region: Colicin_V; pfam02674 269482008303 amidophosphoribosyltransferase; Provisional; Region: PRK09246 269482008304 Glutamine amidotransferases class-II (GN-AT)_GPAT- type. This domain is found at the N-terminus of glutamine phosphoribosylpyrophosphate (Prpp) amidotransferase (GPATase) . The glutaminase domain catalyzes amide nitrogen transfer from glutamine to the...; Region: GPATase_N; cd00715 269482008305 active site 269482008306 tetramer interface [polypeptide binding]; other site 269482008307 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 269482008308 active site 269482008309 O-succinylhomoserine sulfhydrylase; Validated; Region: PRK08133 269482008310 CGS_like: Cystathionine gamma-synthase is a PLP dependent enzyme and catalyzes the committed step of methionine biosynthesis. This pathway is unique to microorganisms and plants, rendering the enzyme an attractive target for the development of...; Region: CGS_like; cd00614 269482008311 homodimer interface [polypeptide binding]; other site 269482008312 substrate-cofactor binding pocket; other site 269482008313 pyridoxal 5'-phosphate binding site [chemical binding]; other site 269482008314 catalytic residue [active] 269482008315 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 269482008316 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269482008317 NAD(P) binding site [chemical binding]; other site 269482008318 active site 269482008319 GDP-D-mannose dehydratase [Cell envelope biogenesis, outer membrane]; Region: Gmd; COG1089 269482008320 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 269482008321 NADP-binding site; other site 269482008322 homotetramer interface [polypeptide binding]; other site 269482008323 substrate binding site [chemical binding]; other site 269482008324 homodimer interface [polypeptide binding]; other site 269482008325 active site 269482008326 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 269482008327 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 269482008328 Wzx, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_Wzx_like; cd13128 269482008329 This family is most closely related to the GT1 family of glycosyltransferases. wbaZ in Salmonella enterica has been shown to possess the mannosyl transferase activity. The members of this family are found in certain bacteria and Archaea; Region: GT1_wbaZ_like; cd03804 269482008330 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 269482008331 putative ADP-binding pocket [chemical binding]; other site 269482008332 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 269482008333 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 269482008334 Acyltransferase family; Region: Acyl_transf_3; pfam01757 269482008335 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 269482008336 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 269482008337 active site 269482008338 tetramer interface; other site 269482008339 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 269482008340 Escherichia coli PhnB and similar proteins; the E. coli phnB gene is found next to an operon involved in the cleavage of carbon-phosphorus bonds in unactivated alkylphosphonates; Region: PhnB_like; cd06588 269482008341 dimer interface [polypeptide binding]; other site 269482008342 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 269482008343 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 269482008344 trimer interface [polypeptide binding]; other site 269482008345 eyelet of channel; other site 269482008346 Virulence factor BrkB; Region: Virul_fac_BrkB; pfam03631 269482008347 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 269482008348 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 269482008349 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 269482008350 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 269482008351 Formate dehydrogenase N, alpha subunit (Formate-Dh-Na) is a major component of nitrate respiration in bacteria such as in the E. coli formate dehydrogenase N (Fdh-N). Fdh-N is a membrane protein that is a complex of three different subunits and is the...; Region: MopB_CT_Formate-Dh-Na-like; cd02792 269482008352 molybdopterin cofactor binding site; other site 269482008353 formate dehydrogenase, beta subunit, Fe-S containing; Region: FDH-beta; TIGR01582 269482008354 4Fe-4S binding domain; Region: Fer4; cl02805 269482008355 Formate dehydrogenase N, transmembrane; Region: Form-deh_trans; pfam09163 269482008356 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cl00859 269482008357 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 269482008358 formate dehydrogenase accessory protein FdhE; Region: FdhE; TIGR01562 269482008359 Protein involved in formate dehydrogenase formation; Region: FdhE; pfam04216 269482008360 selenocysteine synthase; Provisional; Region: PRK04311 269482008361 Selenocysteine synthase N terminal; Region: Se-cys_synth_N; pfam12390 269482008362 Selenocysteine synthase [seryl-tRNASer selenium transferase] [Amino acid transport and metabolism]; Region: SelA; COG1921 269482008363 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 269482008364 catalytic residue [active] 269482008365 selenocysteinyl-tRNA-specific translation factor; Provisional; Region: PRK10512 269482008366 SelB, the dedicated elongation factor for delivery of selenocysteinyl-tRNA to the ribosome; Region: SelB; cd04171 269482008367 G1 box; other site 269482008368 putative GEF interaction site [polypeptide binding]; other site 269482008369 GTP/Mg2+ binding site [chemical binding]; other site 269482008370 Switch I region; other site 269482008371 G2 box; other site 269482008372 G3 box; other site 269482008373 Switch II region; other site 269482008374 G4 box; other site 269482008375 G5 box; other site 269482008376 selB_II: this subfamily represents the domain of elongation factor SelB, homologous to domain II of EF-Tu. SelB may function by replacing EF-Tu. In prokaryotes, the incorporation of selenocysteine as the 21st amino acid, encoded by TGA, requires several...; Region: selB_II; cd03696 269482008377 This family represents the domain of elongation factor SelB, homologous to domain III of EF-Tu. SelB may function by replacing EF-Tu. In prokaryotes, the incorporation of selenocysteine as the 21st amino acid, encoded by TGA, requires several elements:...; Region: selB_III; cd04094 269482008378 Elongation factor SelB, winged helix; Region: SelB-wing_2; pfam09106 269482008379 Elongation factor SelB, winged helix; Region: SelB-wing_3; pfam09107 269482008380 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 269482008381 Helix-turn-helix domain; Region: HTH_38; pfam13936 269482008382 Integrase core domain; Region: rve; pfam00665 269482008383 HNH endonuclease; Region: HNH_3; pfam13392 269482008384 AP2 domain; Region: AP2; pfam00847 269482008385 DNA binding site [nucleotide binding] 269482008386 Protein of unknown function (DUF551); Region: DUF551; pfam04448 269482008387 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 269482008388 restriction alleviation protein, Lar family; Region: anti_R_Lar; TIGR03655 269482008389 HNH endonuclease; Region: HNH_3; pfam13392 269482008390 RecT family; Region: RecT; cl04285 269482008391 exonuclease VIII; Reviewed; Region: PRK09709 269482008392 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 269482008393 Helix-turn-helix domain; Region: HTH_38; pfam13936 269482008394 Integrase core domain; Region: rve; pfam00665 269482008395 Predicted transcriptional regulator [Transcription]; Region: COG2944 269482008396 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 269482008397 non-specific DNA binding site [nucleotide binding]; other site 269482008398 salt bridge; other site 269482008399 sequence-specific DNA binding site [nucleotide binding]; other site 269482008400 Domain of unknown function (DUF4258); Region: DUF4258; pfam14076 269482008401 Uncharacterized protein conserved in bacteria, prophage-related [Function unknown]; Region: COG4197 269482008402 Protein of unknown function (DUF1376); Region: DUF1376; cl01531 269482008403 Endodeoxyribonuclease RusA; Region: RusA; pfam05866 269482008404 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5410 269482008405 Terminase-like family; Region: Terminase_6; pfam03237 269482008406 Phage-related terminase [General function prediction only]; Region: COG5362; cl02216 269482008407 phage-related protein, HI1409 family; Region: phge_rel_HI1409; TIGR01555 269482008408 Protein of unknown function (DUF1073); Region: DUF1073; pfam06381 269482008409 Phage Mu protein F like protein; Region: Phage_Mu_F; cl10072 269482008410 Uncharacterized protein conserved in bacteria (DUF2213); Region: DUF2213; pfam09979 269482008411 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4834 269482008412 Uncharacterized protein conserved in bacteria (DUF2184); Region: DUF2184; pfam09950 269482008413 Protein of unknown function (DUF4054); Region: DUF4054; pfam13262 269482008414 HNH endonuclease; Region: HNH_3; pfam13392 269482008415 AP2 domain; Region: AP2; pfam00847 269482008416 DNA binding site [nucleotide binding] 269482008417 Protein of unknown function (DUF3383); Region: DUF3383; pfam11863 269482008418 HNH endonuclease; Region: HNH_3; pfam13392 269482008419 DNA-binding domain found in transcription regulators in plants such as APETALA2 and EREBP (ethylene responsive element binding protein). In EREBPs the domain specifically binds to the 11bp GCC box of the ethylene response element (ERE), a promotor...; Region: AP2; cl00033 269482008420 DNA binding site [nucleotide binding] 269482008421 Protein of unknown function (DUF3277); Region: DUF3277; pfam11681 269482008422 phage tail tape measure protein, TP901 family, core region; Region: tape_meas_TP901; TIGR01760 269482008423 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; pfam01832 269482008424 Arc-like DNA binding domain; Region: Arc; pfam03869 269482008425 Arc-like DNA binding domain; Region: Arc; pfam03869 269482008426 KilA-N domain; Region: KilA-N; pfam04383 269482008427 Phage antirepressor protein KilAC domain; Region: ANT; pfam03374 269482008428 Bacteriophage Mu Gp45 protein; Region: Phage_Mu_Gp45; cl15410 269482008429 Baseplate J-like protein; Region: Baseplate_J; cl01294 269482008430 Protein of unknown function (DUF2612); Region: DUF2612; pfam11041 269482008431 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cd00229 269482008432 active site 269482008433 catalytic triad [active] 269482008434 oxyanion hole [active] 269482008435 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 269482008436 catalytic residue [active] 269482008437 major tropism determinant; Region: mtd; PHA00653 269482008438 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cd00229 269482008439 active site 269482008440 catalytic triad [active] 269482008441 oxyanion hole [active] 269482008442 Lipase. Lipases are esterases that can hydrolyze long-chain acyl-triglycerides into di- and monoglycerides, glycerol, and free fatty acids at a water/lipid interface. A typical feature of lipases is "interfacial activation", the process of...; Region: Lipase; cl14883 269482008443 nucleophilic elbow; other site 269482008444 catalytic triad; other site 269482008445 3-hydroxybutyryl-CoA dehydratase; Validated; Region: PRK05809 269482008446 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 269482008447 substrate binding site [chemical binding]; other site 269482008448 oxyanion hole (OAH) forming residues; other site 269482008449 trimer interface [polypeptide binding]; other site 269482008450 2-enoyl-CoA Hydratase C-terminal region; Region: ECH_C; pfam13766 269482008451 Sugar diacid utilization regulator [Transcription / Signal transduction mechanisms]; Region: CdaR; COG3835 269482008452 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 269482008453 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 269482008454 CoA-transferase family III; Region: CoA_transf_3; pfam02515 269482008455 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 269482008456 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 269482008457 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 269482008458 active site 269482008459 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 269482008460 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 269482008461 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 269482008462 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 269482008463 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_beta; cd01714 269482008464 Ligand binding site [chemical binding]; other site 269482008465 Electron transfer flavoprotein domain; Region: ETF; pfam01012 269482008466 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 269482008467 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_alpha; cd01715 269482008468 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 269482008469 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 269482008470 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 269482008471 SurA N-terminal domain; Region: SurA_N; pfam09312 269482008472 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 269482008473 transcriptional regulator; Provisional; Region: PRK10632 269482008474 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 269482008475 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 269482008476 putative effector binding pocket; other site 269482008477 dimerization interface [polypeptide binding]; other site 269482008478 Transcriptional regulator [Transcription]; Region: LysR; COG0583 269482008479 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 269482008480 The C-terminal substrate binding domain of LysR-like transcriptional regulator CidR, contains the type 2 periplasmic binding fold; Region: PBP2_CidR; cd08438 269482008481 putative dimerization interface [polypeptide binding]; other site 269482008482 acetoacetate decarboxylase; Provisional; Region: PRK02265 269482008483 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 269482008484 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 269482008485 The C-terminal substrate binding domain of LysR-type transcriptional regulators involved in the catabolism of aromatic compounds and that of other related regulators, contains type 2 periplasmic binding fold; Region: PBP2_LTTR_aromatics_like; cd08414 269482008486 dimerization interface [polypeptide binding]; other site 269482008487 substrate binding pocket [chemical binding]; other site 269482008488 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK07066 269482008489 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 269482008490 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 269482008491 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 269482008492 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 269482008493 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 269482008494 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 269482008495 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 269482008496 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 269482008497 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 269482008498 PAS domain; Region: PAS_9; pfam13426 269482008499 putative active site [active] 269482008500 heme pocket [chemical binding]; other site 269482008501 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 269482008502 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 269482008503 metal binding site [ion binding]; metal-binding site 269482008504 active site 269482008505 I-site; other site 269482008506 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 269482008507 Pyrroloquinoline quinone (Coenzyme PQQ) biosynthesis protein C [Coenzyme metabolism]; Region: COG5424 269482008508 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 269482008509 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 269482008510 active site 269482008511 phosphorylation site [posttranslational modification] 269482008512 intermolecular recognition site; other site 269482008513 dimerization interface [polypeptide binding]; other site 269482008514 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 269482008515 DNA binding site [nucleotide binding] 269482008516 Domain of unknown function (DUF4382); Region: DUF4382; pfam14321 269482008517 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_10; cd04667 269482008518 nudix motif; other site 269482008519 Xanthine/uracil permeases [Nucleotide transport and metabolism]; Region: UraA; COG2233 269482008520 leucine transcriptional activator; Reviewed; Region: leuO; PRK09508 269482008521 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 269482008522 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 269482008523 dimerization interface [polypeptide binding]; other site 269482008524 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269482008525 C factor cell-cell signaling protein; Provisional; Region: PRK09009 269482008526 NAD(P) binding site [chemical binding]; other site 269482008527 active site 269482008528 Uncharacterized conserved protein [Function unknown]; Region: COG1359 269482008529 5-hydroxyvalerate dehydrogenase (HVD) catalyzes the oxidation of 5-hydroxyvalerate to 5-oxovalerate with NAD+ as cofactor; Region: HVD; cd08193 269482008530 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 269482008531 putative active site [active] 269482008532 metal binding site [ion binding]; metal-binding site 269482008533 Putative glycolipid-binding; Region: Glycolipid_bind; pfam06475 269482008534 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 269482008535 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 269482008536 substrate binding pocket [chemical binding]; other site 269482008537 membrane-bound complex binding site; other site 269482008538 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2343 269482008539 Protein of unknown function (DUF2591); Region: DUF2591; cl11584 269482008540 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 269482008541 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cl17432 269482008542 Transcriptional regulator [Transcription]; Region: LysR; COG0583 269482008543 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 269482008544 The C-terminal substrate binding domain of LysR-type transcriptional regulators involved in the catabolism of aromatic compounds and that of other related regulators, contains type 2 periplasmic binding fold; Region: PBP2_LTTR_aromatics_like; cd08414 269482008545 dimerization interface [polypeptide binding]; other site 269482008546 substrate binding pocket [chemical binding]; other site 269482008547 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 269482008548 putative substrate translocation pore; other site 269482008549 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 269482008550 Transcriptional regulator [Transcription]; Region: LysR; COG0583 269482008551 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 269482008552 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator similar to DntR, which is involved in the catabolism of dinitrotoluene; contains the type 2 periplasmic binding fold; Region: PBP2_DntR_like_4; cd08463 269482008553 putative substrate binding pocket [chemical binding]; other site 269482008554 putative dimerization interface [polypeptide binding]; other site 269482008555 Protein of unknown function (DUF3005); Region: DUF3005; pfam11448 269482008556 Domain of unknown function (DUF4397); Region: DUF4397; pfam14344 269482008557 Domain of unknown function (DUF4397); Region: DUF4397; pfam14344 269482008558 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 269482008559 3-hydroxyisobutyrate dehydrogenase; Region: HIBADH; TIGR01692 269482008560 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 269482008561 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 269482008562 tetrameric interface [polypeptide binding]; other site 269482008563 NAD binding site [chemical binding]; other site 269482008564 catalytic residues [active] 269482008565 shikimate transporter; Provisional; Region: PRK09952 269482008566 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 269482008567 putative substrate translocation pore; other site 269482008568 Transcriptional regulator [Transcription]; Region: LysR; COG0583 269482008569 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 269482008570 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 269482008571 dimerization interface [polypeptide binding]; other site 269482008572 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 269482008573 GAF domain; Region: GAF; pfam01590 269482008574 PAS domain S-box; Region: sensory_box; TIGR00229 269482008575 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 269482008576 putative active site [active] 269482008577 heme pocket [chemical binding]; other site 269482008578 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 269482008579 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 269482008580 metal binding site [ion binding]; metal-binding site 269482008581 active site 269482008582 I-site; other site 269482008583 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 269482008584 Response regulator receiver domain; Region: Response_reg; pfam00072 269482008585 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 269482008586 active site 269482008587 phosphorylation site [posttranslational modification] 269482008588 intermolecular recognition site; other site 269482008589 dimerization interface [polypeptide binding]; other site 269482008590 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 269482008591 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 269482008592 metal binding site [ion binding]; metal-binding site 269482008593 active site 269482008594 I-site; other site 269482008595 Protein of unknown function (DUF969); Region: DUF969; pfam06149 269482008596 Predicted membrane protein [Function unknown]; Region: COG3817 269482008597 Protein of unknown function (DUF979); Region: DUF979; pfam06166 269482008598 Protein of unknown function (DUF2891); Region: DUF2891; pfam11199 269482008599 Outer membrane receptor for monomeric catechols [Inorganic ion transport and metabolism]; Region: Fiu; COG4774 269482008600 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 269482008601 N-terminal plug; other site 269482008602 ligand-binding site [chemical binding]; other site 269482008603 L-asparaginase II; Region: Asparaginase_II; pfam06089 269482008604 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 269482008605 transcriptional activator TtdR; Provisional; Region: PRK09801 269482008606 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 269482008607 putative effector binding pocket; other site 269482008608 dimerization interface [polypeptide binding]; other site 269482008609 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 269482008610 Aspartase; Region: Aspartase; cd01357 269482008611 active sites [active] 269482008612 tetramer interface [polypeptide binding]; other site 269482008613 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 269482008614 Predicted esterase [General function prediction only]; Region: COG0400 269482008615 putative hydrolase; Provisional; Region: PRK11460 269482008616 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 269482008617 Helix-turn-helix domain; Region: HTH_38; pfam13936 269482008618 Integrase core domain; Region: rve; pfam00665 269482008619 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 269482008620 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 269482008621 dimerization interface [polypeptide binding]; other site 269482008622 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 269482008623 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cd00088 269482008624 putative binding surface; other site 269482008625 active site 269482008626 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 269482008627 ATP binding site [chemical binding]; other site 269482008628 Mg2+ binding site [ion binding]; other site 269482008629 G-X-G motif; other site 269482008630 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 269482008631 putative CheW interface [polypeptide binding]; other site 269482008632 Chemotaxis phosphatase CheX; Region: CheX; pfam13690 269482008633 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 269482008634 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 269482008635 active site 269482008636 phosphorylation site [posttranslational modification] 269482008637 intermolecular recognition site; other site 269482008638 dimerization interface [polypeptide binding]; other site 269482008639 enoyl-CoA hydratase; Validated; Region: PRK08139 269482008640 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 269482008641 substrate binding site [chemical binding]; other site 269482008642 oxyanion hole (OAH) forming residues; other site 269482008643 trimer interface [polypeptide binding]; other site 269482008644 alanine racemase; Reviewed; Region: dadX; PRK03646 269482008645 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 269482008646 active site 269482008647 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 269482008648 substrate binding site [chemical binding]; other site 269482008649 catalytic residues [active] 269482008650 dimer interface [polypeptide binding]; other site 269482008651 MAPEG family; Region: MAPEG; cl09190 269482008652 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 269482008653 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 269482008654 substrate binding pocket [chemical binding]; other site 269482008655 membrane-bound complex binding site; other site 269482008656 hinge residues; other site 269482008657 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 269482008658 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 269482008659 cell division ATP-binding protein FtsE; Region: FtsE; TIGR02673 269482008660 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 269482008661 Walker A/P-loop; other site 269482008662 ATP binding site [chemical binding]; other site 269482008663 Q-loop/lid; other site 269482008664 ABC transporter signature motif; other site 269482008665 Walker B; other site 269482008666 D-loop; other site 269482008667 H-loop/switch region; other site 269482008668 hypothetical protein; Provisional; Region: PRK07483 269482008669 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 269482008670 inhibitor-cofactor binding pocket; inhibition site 269482008671 pyridoxal 5'-phosphate binding site [chemical binding]; other site 269482008672 catalytic residue [active] 269482008673 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 269482008674 Aspartyl/asparaginyl beta-hydroxylase and related dioxygenases [Posttranslational modification, protein turnover, chaperones]; Region: COG3555 269482008675 alkyl hydroperoxide reductase subunit F; Provisional; Region: PRK15317 269482008676 Alkyl hydroperoxide reductase F subunit (AhpF) N-terminal domain (NTD) family, N-terminal TRX-fold subdomain; AhpF is a homodimeric flavoenzyme which catalyzes the NADH-dependent reduction of the peroxiredoxin AhpC, which in turn catalyzes the reduction...; Region: AhpF_NTD_N; cd02974 269482008677 catalytic residue [active] 269482008678 TRX-GRX-like family, Alkyl hydroperoxide reductase F subunit (AhpF) N-terminal domain (NTD) subfamily, C-terminal TRX-fold subdomain; AhpF is a homodimeric flavoenzyme which catalyzes the NADH-dependent reduction of the peroxiredoxin AhpC, which then...; Region: AhpF_NTD_C; cd03026 269482008679 catalytic residues [active] 269482008680 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 269482008681 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 269482008682 peroxiredoxin; Region: AhpC; TIGR03137 269482008683 Peroxiredoxin (PRX) family, Typical 2-Cys PRX subfamily; PRXs are thiol-specific antioxidant (TSA) proteins, which confer a protective role in cells through its peroxidase activity by reducing hydrogen peroxide, peroxynitrite, and organic hydroperoxides; Region: PRX_Typ2cys; cd03015 269482008684 dimer interface [polypeptide binding]; other site 269482008685 decamer (pentamer of dimers) interface [polypeptide binding]; other site 269482008686 catalytic triad [active] 269482008687 peroxidatic and resolving cysteines [active] 269482008688 PIN domain of ribonucleases (toxins), VapC and FitB, of prokaryotic toxin/antitoxin operons, Pyrococcus horikoshii protein PH0500, and other similar bacterial and archaeal homologs; Region: PIN_VapC-FitB; cd09881 269482008689 oligomeric interface; other site 269482008690 putative active site [active] 269482008691 homodimer interface [polypeptide binding]; other site 269482008692 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 269482008693 Cytochrome c; Region: Cytochrom_C; pfam00034 269482008694 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 269482008695 Glutamine amidotransferases class-II (Gn-AT)_GFAT-type. This domain is found at the N-terminus of glucosamine-6P synthase (GlmS, or GFAT in humans). The glutaminase domain catalyzes amide nitrogen transfer from glutamine to the appropriate substrate. In...; Region: GFAT; cd00714 269482008696 glutaminase active site [active] 269482008697 SIS (Sugar ISomerase) domain repeat 1 found in Glucosamine 6-phosphate synthase (GlmS) and Glucosamine-6-phosphate deaminase (GlmD). The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. GlmS contains a N-terminal...; Region: SIS_GlmS_GlmD_1; cd05008 269482008698 dimer interface [polypeptide binding]; other site 269482008699 active site 269482008700 SIS (Sugar ISomerase) domain repeat 2 found in Glucosamine 6-phosphate synthase (GlmS) and Glucosamine-6-phosphate deaminase (GlmD). The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. GlmS contains a N-terminal...; Region: SIS_GlmS_GlmD_2; cd05009 269482008701 dimer interface [polypeptide binding]; other site 269482008702 active site 269482008703 N-glycosyltransferase; Provisional; Region: PRK11204 269482008704 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 269482008705 DXD motif; other site 269482008706 poly-beta-1,6-N-acetyl-D-glucosamine N-deacetylase PgaB; Region: deacetyl_PgaB; TIGR03938 269482008707 N-terminal putative catalytic polysaccharide deacetylase domain of bacterial poly-beta-1,6-N-acetyl-D-glucosamine N-deacetylase PgaB, and similar proteins; Region: CE4_PgaB_5s; cd10964 269482008708 putative active site [active] 269482008709 putative metal binding site [ion binding]; other site 269482008710 poly-beta-1,6 N-acetyl-D-glucosamine export porin PgaA; Region: PGA_TPR_OMP; TIGR03939 269482008711 cell density-dependent motility repressor; Provisional; Region: PRK10082 269482008712 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 269482008713 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 269482008714 dimerization interface [polypeptide binding]; other site 269482008715 Uncharacterized conserved protein [Function unknown]; Region: COG2308 269482008716 A predicted alpha-helical domain with a conserved ER motif; Region: Alpha-E; pfam04168 269482008717 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2307 269482008718 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 269482008719 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 269482008720 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 269482008721 Transglutaminase-like superfamily; Region: Transglut_core; cl17362 269482008722 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 269482008723 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 269482008724 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 269482008725 Putative amidoligase enzyme (DUF2126); Region: DUF2126; pfam09899 269482008726 A circularly permuted ATPgrasp; Region: CP_ATPgrasp_1; pfam04174 269482008727 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2307 269482008728 A predicted alpha-helical domain with a conserved ER motif; Region: Alpha-E; pfam04168 269482008729 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 269482008730 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 269482008731 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 269482008732 proline iminopeptidase, Neisseria-type subfamily; Region: pro_imino_pep_1; TIGR01249 269482008733 TAP-like protein; Region: Abhydrolase_4; pfam08386 269482008734 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 269482008735 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 269482008736 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 269482008737 GST_N family, Saccharomyces cerevisiae GTT2-like subfamily; composed of predominantly uncharacterized proteins with similarity to the S. cerevisiae GST protein, GTT2. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing...; Region: GST_N_GTT2_like; cd03051 269482008738 putative C-terminal domain interface [polypeptide binding]; other site 269482008739 putative GSH binding site (G-site) [chemical binding]; other site 269482008740 putative dimer interface [polypeptide binding]; other site 269482008741 C-terminal, alpha helical domain of GTT2-like Glutathione S-transferases; Region: GST_C_GTT2_like; cd03182 269482008742 putative N-terminal domain interface [polypeptide binding]; other site 269482008743 putative dimer interface [polypeptide binding]; other site 269482008744 putative substrate binding pocket (H-site) [chemical binding]; other site 269482008745 arsenical pump-driving ATPase; Region: arsen_driv_ArsA; TIGR04291 269482008746 ArsA ATPase functionas as an efflux pump located on the inner membrane of the cell. This ATP-driven oxyanion pump catalyzes the extrusion of arsenite, antimonite and arsenate. Maintenance of a low intracellular concentration of oxyanion produces...; Region: ArsA; cd02035 269482008747 P loop; other site 269482008748 Nucleotide binding site [chemical binding]; other site 269482008749 DTAP/Switch II; other site 269482008750 Switch I; other site 269482008751 ArsA ATPase functionas as an efflux pump located on the inner membrane of the cell. This ATP-driven oxyanion pump catalyzes the extrusion of arsenite, antimonite and arsenate. Maintenance of a low intracellular concentration of oxyanion produces...; Region: ArsA; cd02035 269482008752 DTAP/Switch II; other site 269482008753 Switch I; other site 269482008754 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 269482008755 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 269482008756 Coenzyme A binding pocket [chemical binding]; other site 269482008757 Arsenical resistance operon trans-acting repressor ArsD; Region: ArsD; pfam06953 269482008758 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 269482008759 arsenical-resistance protein; Region: acr3; TIGR00832 269482008760 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 269482008761 Low molecular weight phosphatase family; Region: LMWPc; cd00115 269482008762 active site 269482008763 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 269482008764 dimerization interface [polypeptide binding]; other site 269482008765 putative DNA binding site [nucleotide binding]; other site 269482008766 putative Zn2+ binding site [ion binding]; other site 269482008767 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 269482008768 Aminotransferase class I and II; Region: Aminotran_1_2; pfam00155 269482008769 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 269482008770 catalytic residue [active] 269482008771 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 269482008772 phosphonopyruvate decarboxylase; Region: Ppyr-DeCO2ase; TIGR03297 269482008773 PYR/PP interface [polypeptide binding]; other site 269482008774 dimer interface [polypeptide binding]; other site 269482008775 TPP binding site [chemical binding]; other site 269482008776 Thiamine pyrophosphate (TPP) family, PpyrDC subfamily, TPP-binding module; composed of proteins similar to phosphonopyruvate decarboxylase (PpyrDC) proteins. PpyrDC is a homotrimeric enzyme which functions in the biosynthesis of C-P compounds such as...; Region: TPP_PpyrDC; cd03371 269482008777 TPP-binding site; other site 269482008778 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 269482008779 Members of the ICL/PEPM enzyme family catalyze either P-C or C-C bond formation/cleavage. Known members are phosphoenolpyruvate mutase (PEPM), phosphonopyruvate hydrolase (PPH), carboxyPEP mutase (CPEP mutase), oxaloacetate hydrolase (OAH), isocitrate...; Region: ICL_PEPM; cd00377 269482008780 tetramer interface [polypeptide binding]; other site 269482008781 active site 269482008782 Mg2+/Mn2+ binding site [ion binding]; other site 269482008783 Phosphocholine cytidylyltransferases catalyze the synthesis of CDP-choline; Region: PC_cytidylyltransferase; cd02523 269482008784 active site 269482008785 metal-binding site 269482008786 Phosphocholine cytidylyltransferases catalyze the synthesis of CDP-choline; Region: PC_cytidylyltransferase; cd02523 269482008787 active site 269482008788 metal-binding site 269482008789 Uncharacterized protein family (UPF0104); Region: UPF0104; cl04219 269482008790 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_3; pfam13640 269482008791 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 269482008792 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 269482008793 succinate CoA transferase; Region: YgfH_subfam; TIGR03458 269482008794 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 269482008795 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 269482008796 Helix-Turn-Helix DNA binding domain of putative transcription regulators from the MerR superfamily; Region: HTH_MerR-like_sg6; cd04781 269482008797 DNA binding residues [nucleotide binding] 269482008798 putative dimer interface [polypeptide binding]; other site 269482008799 putative metal binding residues [ion binding]; other site 269482008800 RelA- and SpoT-like ppGpp Synthetases and Hydrolases, catalytic domain; Region: Rel-Spo_like; cl11966 269482008801 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 269482008802 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 269482008803 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 269482008804 RNA polymerase sigma-70 factor, sigma-B/F/G subfamily; Region: SigBFG; TIGR02980 269482008805 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 269482008806 Sigma-70, region 4; Region: Sigma70_r4; pfam04545 269482008807 DNA binding residues [nucleotide binding] 269482008808 Uncharacterized protein with a bacterial SH3 domain homologue [Function unknown]; Region: COG4991 269482008809 Bacterial SH3 domain; Region: SH3_3; pfam08239 269482008810 dihydroxy-acid dehydratase; Provisional; Region: PRK12448 269482008811 Malate/L-lactate dehydrogenases [Energy production and conversion]; Region: COG2055 269482008812 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 269482008813 Alpha-Ketoglutaric Semialdehyde Dehydrogenase; Region: ALDH_KGSADH; cd07129 269482008814 dimer interface [polypeptide binding]; other site 269482008815 NADP binding site [chemical binding]; other site 269482008816 catalytic residues [active] 269482008817 hydroxyproline-2-epimerase; Provisional; Region: PRK13970 269482008818 hydroxyproline-2-epimerase; Provisional; Region: PRK13971 269482008819 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 269482008820 hydroxyglutarate oxidase; Provisional; Region: PRK11728 269482008821 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 269482008822 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_4; pfam13510 269482008823 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 269482008824 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 269482008825 dimerization interface [polypeptide binding]; other site 269482008826 putative DNA binding site [nucleotide binding]; other site 269482008827 putative Zn2+ binding site [ion binding]; other site 269482008828 Predicted transporter component [General function prediction only]; Region: COG2391 269482008829 Domain of unknown function (DUF4341); Region: DUF4341; pfam14241 269482008830 Sulphur transport; Region: Sulf_transp; pfam04143 269482008831 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 269482008832 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 269482008833 DNA-binding site [nucleotide binding]; DNA binding site 269482008834 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 269482008835 pyridoxal 5'-phosphate binding site [chemical binding]; other site 269482008836 homodimer interface [polypeptide binding]; other site 269482008837 catalytic residue [active] 269482008838 Di-haem cytochrome c peroxidase; Region: CCP_MauG; pfam03150 269482008839 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 269482008840 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 269482008841 active site 269482008842 metal binding site [ion binding]; metal-binding site 269482008843 Methyltransferase domain; Region: Methyltransf_31; pfam13847 269482008844 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 269482008845 S-adenosylmethionine binding site [chemical binding]; other site 269482008846 Extended Signal Peptide of Type V secretion system; Region: ESPR; pfam13018 269482008847 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 269482008848 Autotransporter beta-domain; Region: Autotransporter; pfam03797 269482008849 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 269482008850 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 269482008851 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 269482008852 putative active site [active] 269482008853 Ntn-hydrolase superfamily, L-Asparaginase type 2-like enzymes. This family includes Glycosylasparaginase, Taspase 1 and L-Asparaginase type 2 enzymes. Glycosylasparaginase catalyzes the hydrolysis of the glycosylamide bond of asparagine-linked...; Region: Ntn_Asparaginase_2_like; cl00635 269482008854 L-Asparaginase type 2. L-Asparaginase hydrolyzes L-asparagine to L-aspartate and ammonia. The proenzyme undergoes an autoproteolytic cleavage into alpha and beta subunits to expose a threonine residue which becomes the N-terminal residue of the beta...; Region: Asparaginase_2; cd04701 269482008855 catalytic nucleophile [active] 269482008856 glutathione transporter ATP-binding protein; Provisional; Region: PRK10261 269482008857 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 269482008858 Walker A/P-loop; other site 269482008859 ATP binding site [chemical binding]; other site 269482008860 Q-loop/lid; other site 269482008861 ABC transporter signature motif; other site 269482008862 Walker B; other site 269482008863 D-loop; other site 269482008864 H-loop/switch region; other site 269482008865 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 269482008866 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 269482008867 Walker A/P-loop; other site 269482008868 ATP binding site [chemical binding]; other site 269482008869 Q-loop/lid; other site 269482008870 ABC transporter signature motif; other site 269482008871 Walker B; other site 269482008872 D-loop; other site 269482008873 H-loop/switch region; other site 269482008874 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 269482008875 glutathione ABC transporter substrate-binding protein GsiB; Provisional; Region: PRK15413 269482008876 The substrate-binding component of an uncharacterized ABC-type peptide import system Ylib contains the type 2 periplasmic binding fold; Region: PBP2_Ylib_like; cd08499 269482008877 glutathione ABC transporter permease GsiC; Provisional; Region: PRK15081 269482008878 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 269482008879 dimer interface [polypeptide binding]; other site 269482008880 conserved gate region; other site 269482008881 putative PBP binding loops; other site 269482008882 ABC-ATPase subunit interface; other site 269482008883 glutathione ABC transporter permease GsiD; Provisional; Region: PRK15082 269482008884 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 269482008885 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 269482008886 dimer interface [polypeptide binding]; other site 269482008887 conserved gate region; other site 269482008888 putative PBP binding loops; other site 269482008889 ABC-ATPase subunit interface; other site 269482008890 L-Aminopeptidase D-amidase/D-esterase (DmpA) family; DmpA catalyzes the release of N-terminal D and L amino acids from peptide susbtrates. DmpA is synthesized as a single polypeptide precursor, which is autocatalytically cleaved to the active...; Region: DmpA; cd02253 269482008891 homodimer interface [polypeptide binding]; other site 269482008892 homotetramer interface [polypeptide binding]; other site 269482008893 active site pocket [active] 269482008894 cleavage site 269482008895 Peptidase M55, D-aminopeptidase dipeptide-binding protein family; Region: DAP_dppA_1; cd08663 269482008896 SxDxEG motif; other site 269482008897 active site 269482008898 metal binding site [ion binding]; metal-binding site 269482008899 homopentamer interface [polypeptide binding]; other site 269482008900 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 269482008901 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 269482008902 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 269482008903 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 269482008904 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 269482008905 hopanoid biosynthesis associated glycosyl transferase protein HpnI; Region: HpnI; TIGR03472 269482008906 Glucosylceramide synthase catalyzes the first glycosylation step of glycosphingolipid synthesis; Region: Glucosylceramide_synthase; cd02520 269482008907 ligand binding site; other site 269482008908 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 269482008909 MarR family; Region: MarR_2; pfam12802 269482008910 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 269482008911 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 269482008912 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 269482008913 putative substrate translocation pore; other site 269482008914 Transcriptional regulator [Transcription]; Region: LysR; COG0583 269482008915 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 269482008916 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 269482008917 putative effector binding pocket; other site 269482008918 dimerization interface [polypeptide binding]; other site 269482008919 Glyoxalase-like domain; Region: Glyoxalase_3; pfam13468 269482008920 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 269482008921 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 269482008922 Acyltransferase family; Region: Acyl_transf_3; pfam01757 269482008923 beta-lactamase TEM; Provisional; Region: PRK15442 269482008924 Beta-lactamase enzyme family; Region: Beta-lactamase2; pfam13354 269482008925 Protocatechuate 3,4-dioxygenase (3,4-PCD) , alpha subunit. 3,4-PCD catalyzes the oxidative ring cleavage of 3,4-dihydroxybenzoate to produce beta-carboxy-cis,cis-muconate. 3,4-PCDs are large aggregates of 12 protomers, each composed of an alpha- and...; Region: 3,4-PCD_alpha; cd03463 269482008926 heterodimer interface [polypeptide binding]; other site 269482008927 active site 269482008928 Protocatechuate 3,4-dioxygenase (3,4-PCD) , beta subunit. 3,4-PCD catalyzes the oxidative ring cleavage of 3,4-dihydroxybenzoate to produce beta-carboxy-cis,cis-muconate. 3,4-PCDs are large aggregates of 12 protomers, each composed of an alpha- and...; Region: 3,4-PCD_beta; cd03464 269482008929 heterodimer interface [polypeptide binding]; other site 269482008930 multimer interface [polypeptide binding]; other site 269482008931 protocatechuate 3,4-dioxygenase, beta subunit; Region: protocat_beta; TIGR02422 269482008932 active site 269482008933 Orthopoxvirus protein of unknown function (DUF830); Region: DUF830; cl13998 269482008934 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 269482008935 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 269482008936 non-specific DNA binding site [nucleotide binding]; other site 269482008937 salt bridge; other site 269482008938 sequence-specific DNA binding site [nucleotide binding]; other site 269482008939 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 269482008940 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 269482008941 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 269482008942 dimerization interface [polypeptide binding]; other site 269482008943 putative transporter; Provisional; Region: PRK11021 269482008944 putative transporter; Provisional; Region: PRK11021 269482008945 Lhr-like helicases [General function prediction only]; Region: Lhr; COG1201 269482008946 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 269482008947 ATP binding site [chemical binding]; other site 269482008948 putative Mg++ binding site [ion binding]; other site 269482008949 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 269482008950 nucleotide binding region [chemical binding]; other site 269482008951 ATP-binding site [chemical binding]; other site 269482008952 putative ATP-dependent helicase Lhr; Provisional; Region: PRK09751 269482008953 DEAD/H associated; Region: DEAD_assoc; pfam08494 269482008954 Predicted membrane-bound metal-dependent hydrolase (DUF457); Region: DUF457; pfam04307 269482008955 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 269482008956 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 269482008957 polyphosphate kinase 2, PA0141 family; Region: PPK2_P_aer; TIGR03707 269482008958 Uncharacterized conserved protein [Function unknown]; Region: COG1739 269482008959 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 269482008960 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 269482008961 HAMP domain; Region: HAMP; pfam00672 269482008962 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 269482008963 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 269482008964 dimer interface [polypeptide binding]; other site 269482008965 putative CheW interface [polypeptide binding]; other site 269482008966 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 269482008967 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 269482008968 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 269482008969 shikimate binding site; other site 269482008970 NAD(P) binding site [chemical binding]; other site 269482008971 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 269482008972 CoA-transferase family III; Region: CoA_transf_3; pfam02515 269482008973 (R)-hydratase [(R)-specific enoyl-CoA hydratase]. Catalyzes the hydration of trans-2-enoyl CoA to (R)-3-hydroxyacyl-CoA as part of the PHA (polyhydroxyalkanoate) biosynthetic pathway. The structure of the monomer includes a five-strand antiparallel...; Region: R_hydratase_like; cd03441 269482008974 active site 269482008975 catalytic site [active] 269482008976 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 269482008977 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cd06587 269482008978 active site 269482008979 metal binding site [ion binding]; metal-binding site 269482008980 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 269482008981 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 269482008982 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 269482008983 Transcriptional regulator [Transcription]; Region: LysR; COG0583 269482008984 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 269482008985 The C-terminal substrate binding domain of LysR-type transcriptional regulators that are involved in the catabolism of dinitrotoluene, naphthalene and gamma-hexachlorohexane; contains the type 2 periplasmic binding fold; Region: PBP2_DntR_NahR_LinR_like; cd08459 269482008986 substrate binding pocket [chemical binding]; other site 269482008987 dimerization interface [polypeptide binding]; other site 269482008988 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 269482008989 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 269482008990 Protein export membrane protein; Region: SecD_SecF; cl14618 269482008991 periplasmic multidrug efflux lipoprotein precursor; Reviewed; Region: PRK09578 269482008992 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 269482008993 HlyD family secretion protein; Region: HlyD_3; pfam13437 269482008994 osmolarity response regulator; Provisional; Region: ompR; PRK09468 269482008995 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 269482008996 active site 269482008997 phosphorylation site [posttranslational modification] 269482008998 intermolecular recognition site; other site 269482008999 dimerization interface [polypeptide binding]; other site 269482009000 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 269482009001 DNA binding site [nucleotide binding] 269482009002 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 269482009003 dimer interface [polypeptide binding]; other site 269482009004 phosphorylation site [posttranslational modification] 269482009005 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 269482009006 ATP binding site [chemical binding]; other site 269482009007 Mg2+ binding site [ion binding]; other site 269482009008 G-X-G motif; other site 269482009009 CHASE3 domain; Region: CHASE3; pfam05227 269482009010 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 269482009011 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 269482009012 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 269482009013 dimer interface [polypeptide binding]; other site 269482009014 putative CheW interface [polypeptide binding]; other site 269482009015 beta-D-glucoside glucohydrolase; Provisional; Region: PRK15098 269482009016 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 269482009017 Fibronectin type III-like domain; Region: Fn3-like; pfam14310 269482009018 exosortase A system-associated hydrolase 1; Region: hydr1_PEP; TIGR03100 269482009019 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 269482009020 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 269482009021 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 269482009022 Wzx, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_Wzx_like; cd13128 269482009023 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 269482009024 polysaccharide export protein EpsE; Region: EpsE; TIGR03028 269482009025 SLBB domain; Region: SLBB; pfam10531 269482009026 cryptic autophosphorylating protein tyrosine kinase Etk; Provisional; Region: PRK09841 269482009027 Chain length determinant protein; Region: Wzz; cl15801 269482009028 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 269482009029 Chain length determinant protein; Region: Wzz; cl15801 269482009030 ArsA ATPase functionas as an efflux pump located on the inner membrane of the cell. This ATP-driven oxyanion pump catalyzes the extrusion of arsenite, antimonite and arsenate. Maintenance of a low intracellular concentration of oxyanion produces...; Region: ArsA; cd02035 269482009031 Nucleotide binding site [chemical binding]; other site 269482009032 P loop; other site 269482009033 DTAP/Switch II; other site 269482009034 Switch I; other site 269482009035 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 269482009036 Right handed beta helix region; Region: Beta_helix; pfam13229 269482009037 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 269482009038 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 269482009039 Substrate binding site; other site 269482009040 Mannose-6-phosphate isomerase; Region: MannoseP_isomer; pfam01050 269482009041 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 269482009042 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 269482009043 This family is most closely related to the GT1 family of glycosyltransferases. wbaZ in Salmonella enterica has been shown to possess the mannosyl transferase activity. The members of this family are found in certain bacteria and Archaea; Region: GT1_wbaZ_like; cd03804 269482009044 putative ADP-binding pocket [chemical binding]; other site 269482009045 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 269482009046 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 269482009047 Walker A motif; other site 269482009048 ATP binding site [chemical binding]; other site 269482009049 Walker B motif; other site 269482009050 arginine finger; other site 269482009051 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 269482009052 Beta-galactosidase/beta-glucuronidase [Carbohydrate transport and metabolism]; Region: LacZ; COG3250 269482009053 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 269482009054 Domain of unknown function (DUF1839); Region: DUF1839; pfam08893 269482009055 Gly_His_Pro_Ser_Thr_tRNA synthetase class II core domain. This domain is the core catalytic domain of tRNA synthetases of the subgroup containing glycyl, histidyl, prolyl, seryl and threonyl tRNA synthetases. It is primarily responsible for ATP-dependent...; Region: Gly_His_Pro_Ser_Thr_tRS_core; cd00670 269482009056 dimer interface [polypeptide binding]; other site 269482009057 motif 1; other site 269482009058 active site 269482009059 motif 2; other site 269482009060 motif 3; other site 269482009061 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 269482009062 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 269482009063 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 269482009064 active site 269482009065 acyl carrier protein; Provisional; Region: PRK07081 269482009066 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 269482009067 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 269482009068 ligand binding site [chemical binding]; other site 269482009069 flexible hinge region; other site 269482009070 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 269482009071 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 269482009072 Helix-turn-helix domain; Region: HTH_38; pfam13936 269482009073 Integrase core domain; Region: rve; pfam00665 269482009074 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 269482009075 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cd00092 269482009076 non-specific DNA interactions [nucleotide binding]; other site 269482009077 DNA binding site [nucleotide binding] 269482009078 sequence specific DNA binding site [nucleotide binding]; other site 269482009079 putative cAMP binding site [chemical binding]; other site 269482009080 exopolysaccharide biosynthesis polyprenyl glycosylphosphotransferase; Region: EPS_sugtrans; TIGR03025 269482009081 Bacterial sugar transferase; Region: Bac_transf; pfam02397 269482009082 This family is most closely related to the GT1 family of glycosyltransferases. mtfB (mannosyltransferase B) in E. coli has been shown to direct the growth of the O9-specific polysaccharide chain. It transfers two mannoses into the position 3 of the...; Region: GT1_mtfB_like; cd03809 269482009083 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 269482009084 DnaK suppressor protein [Signal transduction mechanisms]; Region: DksA; COG1734 269482009085 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 269482009086 Alanine dehydrogenase NAD-binding and catalytic domains; Region: L-AlaDH; cd05305 269482009087 hexamer interface [polypeptide binding]; other site 269482009088 ligand binding site [chemical binding]; other site 269482009089 putative active site [active] 269482009090 NAD(P) binding site [chemical binding]; other site 269482009091 Protein of unknown function (DUF3995); Region: DUF3995; pfam13160 269482009092 Gluconate 2-dehydrogenase subunit 3; Region: Gluconate_2-dh3; pfam13618 269482009093 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 269482009094 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 269482009095 Cytochrome c; Region: Cytochrom_C; pfam00034 269482009096 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 269482009097 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 269482009098 Cytochrome c; Region: Cytochrom_C; pfam00034 269482009099 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 269482009100 putative cation:proton antiport protein; Provisional; Region: PRK10669 269482009101 TrkA-N domain; Region: TrkA_N; pfam02254 269482009102 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 269482009103 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 269482009104 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 269482009105 Protein of unknown function (DUF3564); Region: DUF3564; pfam12087 269482009106 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 269482009107 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269482009108 NAD(P) binding site [chemical binding]; other site 269482009109 active site 269482009110 MarR family; Region: MarR_2; cl17246 269482009111 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 269482009112 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 269482009113 4-hydroxyphenylacetate degradation bifunctional isomerase/decarboxylase, C-terminal subunit; Region: HpaG-C-term; TIGR02303 269482009114 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 269482009115 5-carboxymethyl-2-hydroxymuconate semialdehyde dehydrogenase; Region: HpaE; TIGR02299 269482009116 Human aldehyde dehydrogenase family 8 member A1-like; Region: ALDH_F8_HMSADH; cd07093 269482009117 NAD binding site [chemical binding]; other site 269482009118 catalytic residues [active] 269482009119 The Class III extradiol dioxygenase, homoprotocatechuate 2,3-dioxygenase, catalyzes the key ring cleavage step in the metabolism of homoprotocatechuate; Region: HPCD; cd07370 269482009120 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 269482009121 putative active site [active] 269482009122 putative metal binding site [ion binding]; other site 269482009123 5-carboxymethyl-2-hydroxymuconate isomerase (CHMI) is a trimeric enzyme catalyzing the isomerization of the unsaturated ketone 5-(carboxymethyl)-2-hydroxymuconate to 5-(carboxymethyl)-2-oxo-3-hexene-1,6-dionate. This is one step in the...; Region: CHMI; cd00580 269482009124 putative substrate binding pocket [chemical binding]; other site 269482009125 trimer interface [polypeptide binding]; other site 269482009126 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 269482009127 HpcH/HpaI aldolase/citrate lyase family; Region: HpcH_HpaI; cl17231 269482009128 Helix-turn-helix domain; Region: HTH_18; pfam12833 269482009129 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 269482009130 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 269482009131 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 269482009132 NAD(P) binding site [chemical binding]; other site 269482009133 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 269482009134 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 269482009135 eyelet of channel; other site 269482009136 trimer interface [polypeptide binding]; other site 269482009137 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 269482009138 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 269482009139 Walker A/P-loop; other site 269482009140 ATP binding site [chemical binding]; other site 269482009141 Q-loop/lid; other site 269482009142 ABC transporter signature motif; other site 269482009143 Walker B; other site 269482009144 D-loop; other site 269482009145 H-loop/switch region; other site 269482009146 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 269482009147 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 269482009148 dimer interface [polypeptide binding]; other site 269482009149 conserved gate region; other site 269482009150 ABC-ATPase subunit interface; other site 269482009151 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 269482009152 dimer interface [polypeptide binding]; other site 269482009153 conserved gate region; other site 269482009154 putative PBP binding loops; other site 269482009155 ABC-ATPase subunit interface; other site 269482009156 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 269482009157 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 269482009158 transcriptional regulatory protein TctD; Provisional; Region: PRK15479 269482009159 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 269482009160 active site 269482009161 phosphorylation site [posttranslational modification] 269482009162 intermolecular recognition site; other site 269482009163 dimerization interface [polypeptide binding]; other site 269482009164 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 269482009165 DNA binding site [nucleotide binding] 269482009166 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 269482009167 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 269482009168 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 269482009169 dimer interface [polypeptide binding]; other site 269482009170 phosphorylation site [posttranslational modification] 269482009171 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 269482009172 ATP binding site [chemical binding]; other site 269482009173 Mg2+ binding site [ion binding]; other site 269482009174 G-X-G motif; other site 269482009175 MOSC N-terminal beta barrel domain; Region: MOSC_N; pfam03476 269482009176 MOSC domain; Region: MOSC; pfam03473 269482009177 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 269482009178 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 269482009179 membrane-bound complex binding site; other site 269482009180 Cytochrome c; Region: Cytochrom_C; pfam00034 269482009181 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 269482009182 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 269482009183 Walker A/P-loop; other site 269482009184 ATP binding site [chemical binding]; other site 269482009185 Q-loop/lid; other site 269482009186 ABC transporter signature motif; other site 269482009187 Walker B; other site 269482009188 D-loop; other site 269482009189 H-loop/switch region; other site 269482009190 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 269482009191 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 269482009192 dimer interface [polypeptide binding]; other site 269482009193 conserved gate region; other site 269482009194 putative PBP binding loops; other site 269482009195 ABC-ATPase subunit interface; other site 269482009196 NMT1-like family; Region: NMT1_2; pfam13379 269482009197 NMT1/THI5 like; Region: NMT1; pfam09084 269482009198 hypothetical protein; Provisional; Region: PRK06208 269482009199 active site 269482009200 intersubunit interface [polypeptide binding]; other site 269482009201 Zn2+ binding site [ion binding]; other site 269482009202 Alkanesulfonate monoxygenase is the monoxygenase of a two-component system that catalyzes the conversion of alkanesulfonates to the corresponding aldehyde and sulfite. Alkanesulfonate monoxygenase (SsuD) has an absolute requirement for reduced flavin...; Region: Alkanesulfonate_monoxygenase; cd01094 269482009203 alkanesulfonate monooxygenase, FMNH(2)-dependent; Region: alk_sulf_monoox; TIGR03565 269482009204 dimer interface [polypeptide binding]; other site 269482009205 active site 269482009206 non-prolyl cis peptide bond; other site 269482009207 insertion regions; other site 269482009208 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 269482009209 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 269482009210 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 269482009211 Predicted metal-dependent enzyme of the double-stranded beta helix superfamily [General function prediction only]; Region: COG5553 269482009212 Member of the Rhodanese Homology Domain superfamily, repeat 1. This CD includes putative rhodanese-related sulfurtransferases which contain 4 copies of the Rhodanese Homology Domain. This CD aligns the 1st repeat which does not contain the putative...; Region: 4RHOD_Repeat_1; cd01532 269482009213 active site residue [active] 269482009214 Member of the Rhodanese Homology Domain superfamily, repeat 2. This CD includes putative rhodanese-related sulfurtransferases which contain 4 copies of the Rhodanese Homology Domain. This CD aligns the 2nd repeat which does contain the putative catalytic...; Region: 4RHOD_Repeat_2; cd01533 269482009215 active site residue [active] 269482009216 Member of the Rhodanese Homology Domain superfamily, repeat 3. This CD includes putative rhodanese-related sulfurtransferases which contain 4 copies of the Rhodanese Homology Domain. This CD aligns the 3rd repeat which does not contain the putative...; Region: 4RHOD_Repeat_3; cd01534 269482009217 active site residue [active] 269482009218 Member of the Rhodanese Homology Domain superfamily, repeat 4. This CD includes putative rhodanese-related sulfurtransferases which contain 4 copies of the Rhodanese Homology Domain. This CD aligns the 4th repeat which, in general, contains the putative...; Region: 4RHOD_Repeat_4; cd01535 269482009219 active site residue [active] 269482009220 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 269482009221 active site lid residues [active] 269482009222 substrate binding pocket [chemical binding]; other site 269482009223 catalytic residues [active] 269482009224 substrate-Mg2+ binding site; other site 269482009225 aspartate-rich region 1; other site 269482009226 aspartate-rich region 2; other site 269482009227 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 269482009228 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 269482009229 trimer interface [polypeptide binding]; other site 269482009230 eyelet of channel; other site 269482009231 Cupin domain; Region: Cupin_2; cl17218 269482009232 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 269482009233 Uncharacterized conserved protein [Function unknown]; Region: COG2128 269482009234 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 269482009235 DNA-binding site [nucleotide binding]; DNA binding site 269482009236 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 269482009237 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 269482009238 pyridoxal 5'-phosphate binding site [chemical binding]; other site 269482009239 homodimer interface [polypeptide binding]; other site 269482009240 catalytic residue [active] 269482009241 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11074 269482009242 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 269482009243 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 269482009244 dimerization interface [polypeptide binding]; other site 269482009245 short chain dehydrogenase; Provisional; Region: PRK06500 269482009246 classical (c) SDRs; Region: SDR_c; cd05233 269482009247 NAD(P) binding site [chemical binding]; other site 269482009248 active site 269482009249 Glycosyl hydrolases family 32; Region: Glyco_32; smart00640 269482009250 Glycosyl hydrolase family 32, beta-fructosidases; Region: GH32_B_Fructosidase; cd08996 269482009251 substrate binding [chemical binding]; other site 269482009252 active site 269482009253 Glycosyl hydrolases family 32 C terminal; Region: Glyco_hydro_32C; pfam08244 269482009254 Glycosyl hydrolase family 68, includes levansucrase, beta-fructofuranosidase and inulosucrase; Region: GH68; cd08997 269482009255 active site 269482009256 Transcriptional regulators [Transcription]; Region: PurR; COG1609 269482009257 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 269482009258 DNA binding site [nucleotide binding] 269482009259 domain linker motif; other site 269482009260 Ligand-binding domain of DNA transcription repressors specific for raffinose (RafR) and alpha-glucosides (AglR) which are members of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_AglR_RafR_like; cd06271 269482009261 ligand binding site [chemical binding]; other site 269482009262 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 269482009263 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Escherichia coli Hsp31 protein; Region: GATase1_Hsp31_like; cd03141 269482009264 potential catalytic triad [active] 269482009265 conserved cys residue [active] 269482009266 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 269482009267 Old yellow enzyme (OYE) YqjM-like FMN binding domain. YqjM is involved in the oxidative stress response of Bacillus subtilis. Like the other OYE members, each monomer of YqjM contains FMN as a non-covalently bound cofactor and uses NADPH as a reducing...; Region: OYE_YqiM_FMN; cd02932 269482009268 active site 269482009269 FMN binding site [chemical binding]; other site 269482009270 substrate binding site [chemical binding]; other site 269482009271 homotetramer interface [polypeptide binding]; other site 269482009272 catalytic residue [active] 269482009273 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 269482009274 Domain of unknown function DUF20; Region: UPF0118; pfam01594 269482009275 SmpA / OmlA family; Region: SmpA_OmlA; cl17115 269482009276 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 269482009277 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269482009278 NAD(P) binding site [chemical binding]; other site 269482009279 active site 269482009280 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 269482009281 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 269482009282 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 269482009283 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 269482009284 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 269482009285 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 269482009286 HAMP domain; Region: HAMP; pfam00672 269482009287 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 269482009288 dimer interface [polypeptide binding]; other site 269482009289 phosphorylation site [posttranslational modification] 269482009290 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 269482009291 ATP binding site [chemical binding]; other site 269482009292 Mg2+ binding site [ion binding]; other site 269482009293 G-X-G motif; other site 269482009294 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 269482009295 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 269482009296 active site 269482009297 phosphorylation site [posttranslational modification] 269482009298 intermolecular recognition site; other site 269482009299 dimerization interface [polypeptide binding]; other site 269482009300 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 269482009301 DNA binding site [nucleotide binding] 269482009302 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 269482009303 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 269482009304 ligand binding site [chemical binding]; other site 269482009305 flexible hinge region; other site 269482009306 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 269482009307 acyl-CoA synthetase; Validated; Region: PRK08162 269482009308 Fatty acyl-CoA synthetases similar to LC-FACS from Thermus thermophiles and Arabidopsis; Region: ttLC_FACS_AEE21_like; cd12118 269482009309 acyl-activating enzyme (AAE) consensus motif; other site 269482009310 putative active site [active] 269482009311 AMP binding site [chemical binding]; other site 269482009312 putative CoA binding site [chemical binding]; other site 269482009313 Cache domain; Region: Cache_1; pfam02743 269482009314 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 269482009315 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 269482009316 dimer interface [polypeptide binding]; other site 269482009317 putative CheW interface [polypeptide binding]; other site 269482009318 Predicted membrane protein [Function unknown]; Region: COG1238 269482009319 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cd06587 269482009320 active site 269482009321 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 269482009322 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 269482009323 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 269482009324 putative DNA binding site [nucleotide binding]; other site 269482009325 putative Zn2+ binding site [ion binding]; other site 269482009326 AsnC family; Region: AsnC_trans_reg; pfam01037 269482009327 Transcriptional regulator [Transcription]; Region: IclR; COG1414 269482009328 Bacterial transcriptional regulator; Region: IclR; pfam01614 269482009329 Transcriptional regulator [Transcription]; Region: IclR; COG1414 269482009330 Bacterial transcriptional regulator; Region: IclR; pfam01614 269482009331 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 269482009332 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 269482009333 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 269482009334 putative substrate translocation pore; other site 269482009335 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 269482009336 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269482009337 NAD(P) binding site [chemical binding]; other site 269482009338 active site 269482009339 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 269482009340 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 269482009341 conserved cys residue [active] 269482009342 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 269482009343 Epoxide hydrolase N terminus; Region: EHN; pfam06441 269482009344 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 269482009345 ChrR Cupin-like domain; Region: Cupin_7; pfam12973 269482009346 Transcriptional regulator [Transcription]; Region: LysR; COG0583 269482009347 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 269482009348 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 269482009349 dimerization interface [polypeptide binding]; other site 269482009350 beta alanine--pyruvate transaminase; Provisional; Region: PRK09221 269482009351 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 269482009352 inhibitor-cofactor binding pocket; inhibition site 269482009353 pyridoxal 5'-phosphate binding site [chemical binding]; other site 269482009354 catalytic residue [active] 269482009355 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 269482009356 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 269482009357 tetrameric interface [polypeptide binding]; other site 269482009358 NAD binding site [chemical binding]; other site 269482009359 catalytic residues [active] 269482009360 Secreted repeat of unknown function; Region: Lipoprotein_15; pfam03640 269482009361 Secreted repeat of unknown function; Region: Lipoprotein_15; pfam03640 269482009362 Predicted permeases [General function prediction only]; Region: COG0679 269482009363 Transcriptional regulator [Transcription]; Region: LysR; COG0583 269482009364 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 269482009365 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_2; cd08427 269482009366 putative dimerization interface [polypeptide binding]; other site 269482009367 SnoaL-like domain; Region: SnoaL_2; pfam12680 269482009368 Fusaric acid resistance protein family; Region: FUSC; pfam04632 269482009369 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 269482009370 Transcriptional regulator [Transcription]; Region: LysR; COG0583 269482009371 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 269482009372 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 269482009373 putative effector binding pocket; other site 269482009374 dimerization interface [polypeptide binding]; other site 269482009375 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 269482009376 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 269482009377 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 269482009378 trimer interface [polypeptide binding]; other site 269482009379 eyelet of channel; other site 269482009380 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_14; cd08355 269482009381 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 269482009382 cytosine deaminase; Provisional; Region: PRK09230 269482009383 Bacterial cytosine deaminase and related metal-dependent hydrolases. Cytosine deaminases (CDs) catalyze the deamination of cytosine, producing uracil and ammonia. They play an important role in pyrimidine salvage. CDs are present in prokaryotes and fungi; Region: Bact_CD; cd01293 269482009384 active site 269482009385 Putative ClC chloride channel. Clc proteins are putative halogen ion (Cl-, Br- and I-) transporters found in eubacteria. They belong to the ClC superfamily of halogen ion channels, which share a unique double-barreled architecture and voltage-dependent...; Region: ClC_like; cd01033 269482009386 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 269482009387 putative ion selectivity filter; other site 269482009388 putative pore gating glutamate residue; other site 269482009389 Methyltransferase domain; Region: Methyltransf_31; pfam13847 269482009390 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 269482009391 S-adenosylmethionine binding site [chemical binding]; other site 269482009392 Di-haem cytochrome c peroxidase; Region: CCP_MauG; pfam03150 269482009393 di-heme enzyme, MXAN_0977 family; Region: MXAN_0977_Heme2; TIGR04039 269482009394 Phosphoesterase family; Region: Phosphoesterase; pfam04185 269482009395 phosphonate utilization associated putative membrane protein; Region: phn_DUF6; TIGR03340 269482009396 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 269482009397 EamA-like transporter family; Region: EamA; pfam00892 269482009398 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 269482009399 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 269482009400 putative DNA binding site [nucleotide binding]; other site 269482009401 putative Zn2+ binding site [ion binding]; other site 269482009402 AsnC family; Region: AsnC_trans_reg; pfam01037 269482009403 aromatic amino acid transporter; Provisional; Region: PRK10238 269482009404 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 269482009405 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 269482009406 pyridoxal 5'-phosphate binding site [chemical binding]; other site 269482009407 homodimer interface [polypeptide binding]; other site 269482009408 catalytic residue [active] 269482009409 Protein of unknown function, DUF488; Region: DUF488; cl01246 269482009410 Protein of unknown function (DUF1488); Region: DUF1488; pfam07369 269482009411 fumarate/nitrate reduction transcriptional regulator; Provisional; Region: PRK11161 269482009412 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 269482009413 ligand binding site [chemical binding]; other site 269482009414 flexible hinge region; other site 269482009415 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cd00092 269482009416 putative switch regulator; other site 269482009417 non-specific DNA interactions [nucleotide binding]; other site 269482009418 DNA binding site [nucleotide binding] 269482009419 sequence specific DNA binding site [nucleotide binding]; other site 269482009420 putative cAMP binding site [chemical binding]; other site 269482009421 Response regulator receiver domain; Region: Response_reg; pfam00072 269482009422 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 269482009423 active site 269482009424 phosphorylation site [posttranslational modification] 269482009425 intermolecular recognition site; other site 269482009426 dimerization interface [polypeptide binding]; other site 269482009427 ornithine cyclodeaminase; Validated; Region: PRK07340 269482009428 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 269482009429 Transcriptional regulators [Transcription]; Region: FadR; COG2186 269482009430 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 269482009431 DNA-binding site [nucleotide binding]; DNA binding site 269482009432 FCD domain; Region: FCD; pfam07729 269482009433 Transglycosylase; Region: Transgly; pfam00912 269482009434 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 269482009435 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 269482009436 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 269482009437 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3755 269482009438 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 269482009439 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 269482009440 active site 269482009441 phosphorylation site [posttranslational modification] 269482009442 intermolecular recognition site; other site 269482009443 dimerization interface [polypeptide binding]; other site 269482009444 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 269482009445 DNA binding residues [nucleotide binding] 269482009446 dimerization interface [polypeptide binding]; other site 269482009447 PAS domain S-box; Region: sensory_box; TIGR00229 269482009448 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 269482009449 putative active site [active] 269482009450 heme pocket [chemical binding]; other site 269482009451 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 269482009452 Histidine kinase; Region: HisKA_3; pfam07730 269482009453 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 269482009454 ATP binding site [chemical binding]; other site 269482009455 Mg2+ binding site [ion binding]; other site 269482009456 G-X-G motif; other site 269482009457 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 269482009458 Ligand Binding Site [chemical binding]; other site 269482009459 Cupin superfamily (DUF985); Region: Cupin_5; pfam06172 269482009460 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 269482009461 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cl00125 269482009462 active site residue [active] 269482009463 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 269482009464 Ligand Binding Site [chemical binding]; other site 269482009465 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 269482009466 Ligand Binding Site [chemical binding]; other site 269482009467 Protein of unknown function (DUF3562); Region: DUF3562; pfam12085 269482009468 Cache domain; Region: Cache_1; pfam02743 269482009469 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 269482009470 dimerization interface [polypeptide binding]; other site 269482009471 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 269482009472 dimer interface [polypeptide binding]; other site 269482009473 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 269482009474 putative CheW interface [polypeptide binding]; other site 269482009475 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 269482009476 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 269482009477 Walker A motif; other site 269482009478 ATP binding site [chemical binding]; other site 269482009479 Walker B motif; other site 269482009480 arginine finger; other site 269482009481 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 269482009482 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 269482009483 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 269482009484 putative active site [active] 269482009485 heme pocket [chemical binding]; other site 269482009486 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 269482009487 dimer interface [polypeptide binding]; other site 269482009488 phosphorylation site [posttranslational modification] 269482009489 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 269482009490 ATP binding site [chemical binding]; other site 269482009491 Mg2+ binding site [ion binding]; other site 269482009492 G-X-G motif; other site 269482009493 Response regulator receiver domain; Region: Response_reg; pfam00072 269482009494 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 269482009495 active site 269482009496 phosphorylation site [posttranslational modification] 269482009497 intermolecular recognition site; other site 269482009498 dimerization interface [polypeptide binding]; other site 269482009499 periplasmic protein; Provisional; Region: PRK10568 269482009500 Domain of unknown function (DUF4142); Region: DUF4142; pfam13628 269482009501 PRC-barrel domain; Region: PRC; pfam05239 269482009502 FOG: CBS domain [General function prediction only]; Region: COG0517 269482009503 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair_9; cd04622 269482009504 Outer membrane protein V [Cell envelope biogenesis, outer membrane]; Region: OmpV; COG3713 269482009505 This model contains proteins with the VRR-NUC domain; Region: VRR_NUC; smart00990 269482009506 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 269482009507 DEAD/DEAH box helicase; Region: DEAD; pfam00270 269482009508 DEAD_2; Region: DEAD_2; pfam06733 269482009509 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 269482009510 beta-ketoadipate pathway transcriptional regulators, PcaR/PcaU/PobR family; Region: pcaR_pcaU; TIGR02431 269482009511 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 269482009512 Bacterial transcriptional regulator; Region: IclR; pfam01614 269482009513 This domain family includes the Enolpyruvate transferase (EPT) family and the RNA 3' phosphate cyclase family (RTPC). These 2 families differ in that EPT is formed by 3 repeats of an alpha-beta structural domain while RTPC has 3 similar repeats...; Region: EPT_RTPC-like; cl00288 269482009514 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 269482009515 putative active site [active] 269482009516 shikimate transporter; Provisional; Region: PRK09952 269482009517 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 269482009518 putative substrate translocation pore; other site 269482009519 4-hydroxyphenylpyruvate dioxygenase and related hemolysins [Amino acid transport and metabolism / General function prediction only]; Region: COG3185 269482009520 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 269482009521 dimer interface [polypeptide binding]; other site 269482009522 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 269482009523 active site 269482009524 Fe binding site [ion binding]; other site 269482009525 HipA N-terminal domain; Region: couple_hipA; TIGR03071 269482009526 Toxin module HipA, protein kinase of phosphatidylinositol 3/4-kinase superfamily [General function prediction only]; Region: HipA; COG3550 269482009527 HipA-like N-terminal domain; Region: HipA_N; pfam07805 269482009528 HipA-like C-terminal domain; Region: HipA_C; pfam07804 269482009529 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 269482009530 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 269482009531 salt bridge; other site 269482009532 non-specific DNA binding site [nucleotide binding]; other site 269482009533 sequence-specific DNA binding site [nucleotide binding]; other site 269482009534 Transcriptional regulator [Transcription]; Region: LysR; COG0583 269482009535 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 269482009536 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 269482009537 dimerization interface [polypeptide binding]; other site 269482009538 Lipocalin-like domain; Region: Lipocalin_5; pfam13924 269482009539 chromosome replication initiation inhibitor protein; Provisional; Region: PRK13348 269482009540 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 269482009541 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 269482009542 dimerization interface [polypeptide binding]; other site 269482009543 FMN reductase, SsuE family; Region: FMN_reduc_SsuE; TIGR03567 269482009544 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 269482009545 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 269482009546 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 269482009547 catalytic loop [active] 269482009548 iron binding site [ion binding]; other site 269482009549 TENA/THI-4/PQQC family; Region: TENA_THI-4; cl15243 269482009550 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 269482009551 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 269482009552 histidinol-phosphate aminotransferase; Validated; Region: PRK02731 269482009553 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 269482009554 pyridoxal 5'-phosphate binding site [chemical binding]; other site 269482009555 homodimer interface [polypeptide binding]; other site 269482009556 catalytic residue [active] 269482009557 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; pfam05721 269482009558 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 269482009559 EPSP synthase domain. 3-phosphoshikimate 1-carboxyvinyltransferase (5-enolpyruvylshikimate-3-phosphate synthase) (EC 2.5.1.19) catalyses the reaction between shikimate-3-phosphate (S3P) and phosphoenolpyruvate (PEP) to form...; Region: EPSP_synthase; cd01556 269482009560 hinge; other site 269482009561 active site 269482009562 Protein of unknown function (DUF1611); Region: DUF1611; pfam07755 269482009563 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 269482009564 alkanesulfonate monooxygenase, FMNH(2)-dependent; Region: alk_sulf_monoox; TIGR03565 269482009565 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 269482009566 PIG3 p53-inducible quinone oxidoreductase; Region: p53_inducible_oxidoreductase; cd05276 269482009567 NAD(P) binding site [chemical binding]; other site 269482009568 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 269482009569 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 269482009570 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 269482009571 tetramerization interface [polypeptide binding]; other site 269482009572 NAD(P) binding site [chemical binding]; other site 269482009573 catalytic residues [active] 269482009574 transcriptional regulator; Provisional; Region: PRK10632 269482009575 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 269482009576 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 269482009577 putative effector binding pocket; other site 269482009578 dimerization interface [polypeptide binding]; other site 269482009579 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 269482009580 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 269482009581 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 269482009582 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 269482009583 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 269482009584 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 269482009585 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 269482009586 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 269482009587 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 269482009588 non-specific DNA binding site [nucleotide binding]; other site 269482009589 salt bridge; other site 269482009590 sequence-specific DNA binding site [nucleotide binding]; other site 269482009591 Cupin domain; Region: Cupin_2; pfam07883 269482009592 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 269482009593 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 269482009594 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 269482009595 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 269482009596 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_14; cd08497 269482009597 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4174 269482009598 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 269482009599 dimer interface [polypeptide binding]; other site 269482009600 conserved gate region; other site 269482009601 putative PBP binding loops; other site 269482009602 ABC-ATPase subunit interface; other site 269482009603 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 269482009604 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4239 269482009605 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 269482009606 dimer interface [polypeptide binding]; other site 269482009607 conserved gate region; other site 269482009608 putative PBP binding loops; other site 269482009609 ABC-ATPase subunit interface; other site 269482009610 ABC-type uncharacterized transport system, duplicated ATPase component [General function prediction only]; Region: COG4172 269482009611 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 269482009612 Walker A/P-loop; other site 269482009613 ATP binding site [chemical binding]; other site 269482009614 Q-loop/lid; other site 269482009615 ABC transporter signature motif; other site 269482009616 Walker B; other site 269482009617 D-loop; other site 269482009618 H-loop/switch region; other site 269482009619 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 269482009620 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 269482009621 Walker A/P-loop; other site 269482009622 ATP binding site [chemical binding]; other site 269482009623 Q-loop/lid; other site 269482009624 ABC transporter signature motif; other site 269482009625 Walker B; other site 269482009626 D-loop; other site 269482009627 H-loop/switch region; other site 269482009628 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 269482009629 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 269482009630 Protein export membrane protein; Region: SecD_SecF; cl14618 269482009631 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 269482009632 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 269482009633 Putative NADP-dependent oxidoreductases [General function prediction only]; Region: COG2130 269482009634 Prostaglandin dehydrogenases; Region: PGDH; cd05288 269482009635 NAD(P) binding site [chemical binding]; other site 269482009636 substrate binding site [chemical binding]; other site 269482009637 dimer interface [polypeptide binding]; other site 269482009638 Uncharacterized conserved protein [Function unknown]; Region: COG1359 269482009639 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 269482009640 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 269482009641 catalytic loop [active] 269482009642 iron binding site [ion binding]; other site 269482009643 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 269482009644 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 269482009645 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 269482009646 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 269482009647 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 269482009648 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 269482009649 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 269482009650 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 269482009651 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 269482009652 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 269482009653 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 269482009654 tetramerization interface [polypeptide binding]; other site 269482009655 NAD(P) binding site [chemical binding]; other site 269482009656 catalytic residues [active] 269482009657 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 269482009658 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 269482009659 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 269482009660 DNA-binding site [nucleotide binding]; DNA binding site 269482009661 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 269482009662 pyridoxal 5'-phosphate binding site [chemical binding]; other site 269482009663 homodimer interface [polypeptide binding]; other site 269482009664 catalytic residue [active] 269482009665 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 269482009666 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 269482009667 dimer interface [polypeptide binding]; other site 269482009668 ABC-ATPase subunit interface; other site 269482009669 putative PBP binding loops; other site 269482009670 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 269482009671 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 269482009672 Walker A/P-loop; other site 269482009673 ATP binding site [chemical binding]; other site 269482009674 Q-loop/lid; other site 269482009675 ABC transporter signature motif; other site 269482009676 Walker B; other site 269482009677 D-loop; other site 269482009678 H-loop/switch region; other site 269482009679 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 269482009680 NMT1-like family; Region: NMT1_2; pfam13379 269482009681 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 269482009682 Clavaminic acid synthetase (CAS) -like; CAS is a trifunctional Fe(II)/ 2-oxoglutarate (2OG) oxygenase carrying out three reactions in the biosynthesis of clavulanic acid, an inhibitor of class A serine beta-lactamases. In general, Fe(II)-2OG oxygenases...; Region: CAS_like; cl00184 269482009683 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 269482009684 DNA-binding site [nucleotide binding]; DNA binding site 269482009685 RNA-binding motif; other site 269482009686 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 269482009687 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 269482009688 NAD(P) binding site [chemical binding]; other site 269482009689 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 269482009690 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 269482009691 trimer interface [polypeptide binding]; other site 269482009692 eyelet of channel; other site 269482009693 PAS fold; Region: PAS_7; pfam12860 269482009694 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 269482009695 putative active site [active] 269482009696 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 269482009697 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 269482009698 metal binding site [ion binding]; metal-binding site 269482009699 active site 269482009700 I-site; other site 269482009701 ectoine utilization protein EutE; Region: ectoine_eutE; TIGR02994 269482009702 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like; uncharacterized subgroup; Region: M14_ASTE_ASPA_like_2; cd06252 269482009703 putative active site [active] 269482009704 Zn binding site [ion binding]; other site 269482009705 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 269482009706 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 269482009707 Coenzyme A binding pocket [chemical binding]; other site 269482009708 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 269482009709 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 269482009710 substrate binding pocket [chemical binding]; other site 269482009711 membrane-bound complex binding site; other site 269482009712 hinge residues; other site 269482009713 luciferase family oxidoreductase, group 1; Region: oxido_grp_1; TIGR03558 269482009714 probable oxidoreductase, LLM family; Region: LLM_2I7G; TIGR03858 269482009715 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 269482009716 nitrilotriacetate monoxygenase oxidizes nitrilotriacetate utilizing reduced flavin mononucleotide (FMNH2) and oxygen. The FMNH2 is provided by an NADH:flavin mononucleotide (FMN) oxidorductase that uses NADH to reduce FMN to FMNH2; Region: Nitrilotriacetate_monoxgenase; cd01095 269482009717 active site 269482009718 non-prolyl cis peptide bond; other site 269482009719 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 269482009720 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 269482009721 conserved gate region; other site 269482009722 dimer interface [polypeptide binding]; other site 269482009723 putative PBP binding loops; other site 269482009724 ABC-ATPase subunit interface; other site 269482009725 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 269482009726 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 269482009727 Walker A/P-loop; other site 269482009728 ATP binding site [chemical binding]; other site 269482009729 Q-loop/lid; other site 269482009730 ABC transporter signature motif; other site 269482009731 Walker B; other site 269482009732 D-loop; other site 269482009733 H-loop/switch region; other site 269482009734 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 269482009735 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 269482009736 substrate binding pocket [chemical binding]; other site 269482009737 membrane-bound complex binding site; other site 269482009738 hinge residues; other site 269482009739 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 269482009740 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 269482009741 substrate binding pocket [chemical binding]; other site 269482009742 membrane-bound complex binding site; other site 269482009743 hinge residues; other site 269482009744 Predicted alpha/beta hydrolase [General function prediction only]; Region: COG4757 269482009745 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 269482009746 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 269482009747 MarR family; Region: MarR_2; pfam12802 269482009748 BNR repeat-like domain; Region: BNR_2; pfam13088 269482009749 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 269482009750 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD3; cd08297 269482009751 NAD binding site [chemical binding]; other site 269482009752 substrate binding site [chemical binding]; other site 269482009753 catalytic Zn binding site [ion binding]; other site 269482009754 tetramer interface [polypeptide binding]; other site 269482009755 structural Zn binding site [ion binding]; other site 269482009756 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 269482009757 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 269482009758 N-terminal plug; other site 269482009759 ligand-binding site [chemical binding]; other site 269482009760 Initiator tRNA phosphoribosyl transferase; Region: Init_tRNA_PT; pfam04179 269482009761 alpha,alpha-trehalose-phosphate synthase [UDP-forming]; Region: trehalose_OtsA; TIGR02400 269482009762 Trehalose-6-Phosphate Synthase (TPS) is a glycosyltransferase that catalyses the synthesis of alpha,alpha-1,1-trehalose-6-phosphate from glucose-6-phosphate using a UDP-glucose donor. It is a key enzyme in the trehalose synthesis pathway. Trehalose is a...; Region: GT1_TPS; cd03788 269482009763 active site 269482009764 homotetramer interface [polypeptide binding]; other site 269482009765 Phospholipase C [Cell envelope biogenesis, outer membrane]; Region: PlcC; COG3511 269482009766 acid phosphatase, Burkholderia-type; Region: acid_phos_Burk; TIGR03397 269482009767 Phosphoenolpyruvate carboxykinase (PEPCK), a critical gluconeogenic enzyme, catalyzes the first committed step in the diversion of tricarboxylic acid cycle intermediates toward gluconeogenesis. It catalyzes the reversible decarboxylation and...; Region: PEPCK_GTP; cd00819 269482009768 active site 269482009769 substrate-binding site [chemical binding]; other site 269482009770 metal-binding site [ion binding] 269482009771 GTP binding site [chemical binding]; other site 269482009772 Members of the ICL/PEPM enzyme family catalyze either P-C or C-C bond formation/cleavage. Known members are phosphoenolpyruvate mutase (PEPM), phosphonopyruvate hydrolase (PPH), carboxyPEP mutase (CPEP mutase), oxaloacetate hydrolase (OAH), isocitrate...; Region: ICL_PEPM; cd00377 269482009773 tetramer interface [polypeptide binding]; other site 269482009774 active site 269482009775 Mg2+/Mn2+ binding site [ion binding]; other site 269482009776 isocitrate lyase; Region: PLN02892 269482009777 YeaK is an uncharacterized Echerichia coli protein with a YbaK-like domain of unknown function. The YbaK-like domain family includes the INS amino acid-editing domain of the bacterial class II prolyl tRNA synthetase (ProRS), and it's trans-acting...; Region: YeaK; cd04336 269482009778 putative deacylase active site [active] 269482009779 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2964 269482009780 YheO-like PAS domain; Region: PAS_6; pfam08348 269482009781 HTH domain; Region: HTH_22; pfam13309 269482009782 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 269482009783 Threonine dehydratase: The first step in amino acid degradation is the removal of nitrogen. Although the nitrogen atoms of most amino acids are transferred to alpha-ketoglutarate before removal, the alpha-amino group of threonine can be directly...; Region: Thr-dehyd; cd01562 269482009784 tetramer interface [polypeptide binding]; other site 269482009785 pyridoxal 5'-phosphate binding site [chemical binding]; other site 269482009786 catalytic residue [active] 269482009787 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 269482009788 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 269482009789 N-terminal plug; other site 269482009790 ligand-binding site [chemical binding]; other site 269482009791 LysE type translocator; Region: LysE; cl00565 269482009792 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 269482009793 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 269482009794 putative DNA binding site [nucleotide binding]; other site 269482009795 putative Zn2+ binding site [ion binding]; other site 269482009796 AsnC family; Region: AsnC_trans_reg; pfam01037 269482009797 Winged helix-turn helix; Region: HTH_29; pfam13551 269482009798 Homeodomain-like domain; Region: HTH_23; pfam13384 269482009799 Homeodomain-like domain; Region: HTH_32; pfam13565 269482009800 DDE superfamily endonuclease; Region: DDE_3; pfam13358 269482009801 Transposase, Mutator family; Region: Transposase_mut; pfam00872 269482009802 MULE transposase domain; Region: MULE; pfam10551 269482009803 Transposase domain (DUF772); Region: DUF772; pfam05598 269482009804 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 269482009805 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 269482009806 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_3; pfam13640 269482009807 Predicted carbamoyl transferase, NodU family [Posttranslational modification, protein turnover, chaperones]; Region: COG2192 269482009808 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 269482009809 Helix-turn-helix domain; Region: HTH_38; pfam13936 269482009810 Integrase core domain; Region: rve; pfam00665 269482009811 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 269482009812 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 269482009813 H+ Antiporter protein; Region: 2A0121; TIGR00900 269482009814 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 269482009815 putative substrate translocation pore; other site 269482009816 Winged helix-turn helix; Region: HTH_29; pfam13551 269482009817 Homeodomain-like domain; Region: HTH_23; pfam13384 269482009818 Homeodomain-like domain; Region: HTH_32; pfam13565 269482009819 DDE superfamily endonuclease; Region: DDE_3; pfam13358 269482009820 Predicted metal-binding integral membrane protein [Function unknown]; Region: COG5486 269482009821 Predicted metal-binding integral membrane protein (DUF2182); Region: DUF2182; pfam09948 269482009822 Protein of unknown function (DUF1326); Region: DUF1326; cl02375 269482009823 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 269482009824 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 269482009825 putative substrate translocation pore; other site 269482009826 S1_IF1: Translation Initiation Factor IF1, S1-like RNA-binding domain. IF1 contains an S1-like RNA-binding domain, which is found in a wide variety of RNA-associated proteins. Translation initiation includes a number of interrelated steps preceding the...; Region: S1_IF1; cd04451 269482009827 rRNA binding site [nucleotide binding]; other site 269482009828 predicted 30S ribosome binding site; other site 269482009829 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 269482009830 DNA-binding site [nucleotide binding]; DNA binding site 269482009831 RNA-binding motif; other site 269482009832 Choloylglycine hydrolase (CGH) is a bile salt-modifying enzyme that hydrolyzes non-peptide carbon-nitrogen bonds in choloylglycine and choloyltaurine, both of which are present in bile. CGH is present in a number of probiotic microbial organisms that...; Region: Ntn_CGH; cd01902 269482009833 Linear amide C-N hydrolases, choloylglycine hydrolase family; Region: CBAH; pfam02275 269482009834 putative transporter; Provisional; Region: PRK10504 269482009835 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 269482009836 putative substrate translocation pore; other site 269482009837 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 269482009838 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 269482009839 active site 269482009840 metal binding site [ion binding]; metal-binding site 269482009841 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 269482009842 DNA-binding transcriptional regulator CynR; Provisional; Region: PRK11242 269482009843 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 269482009844 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 269482009845 dimerization interface [polypeptide binding]; other site 269482009846 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 269482009847 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 269482009848 dimerization interface [polypeptide binding]; other site 269482009849 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 269482009850 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 269482009851 metal binding site [ion binding]; metal-binding site 269482009852 active site 269482009853 I-site; other site 269482009854 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 269482009855 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 269482009856 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 269482009857 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 269482009858 DNA-binding site [nucleotide binding]; DNA binding site 269482009859 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 269482009860 pyridoxal 5'-phosphate binding site [chemical binding]; other site 269482009861 homodimer interface [polypeptide binding]; other site 269482009862 catalytic residue [active] 269482009863 Type IV secretory pathway, VirJ component [Intracellular trafficking and secretion]; Region: VirJ; COG3946 269482009864 Bacterial virulence protein (VirJ); Region: VirJ; pfam06057 269482009865 Predicted integral membrane protein [Function unknown]; Region: COG0392 269482009866 Uncharacterized conserved protein [Function unknown]; Region: COG2898 269482009867 Uncharacterized conserved protein (DUF2156); Region: DUF2156; pfam09924 269482009868 Nitrate reductases, NapA (Nitrate-R-NapA), NasA, and NarB catalyze the reduction of nitrate to nitrite. Monomeric Nas is located in the cytoplasm and participates in nitrogen assimilation. Dimeric Nap is located in the periplasm and is coupled to quinol...; Region: MopB_Nitrate-R-NapA-like; cd02754 269482009869 formate dehydrogenase, alpha subunit, archaeal-type; Region: Fdh-alpha; TIGR01591 269482009870 [4Fe-4S] binding site [ion binding]; other site 269482009871 molybdopterin cofactor binding site; other site 269482009872 Nitrate reductases, NapA (Nitrate-R-NapA), NasA, and NarB catalyze the reduction of nitrate to nitrite. Monomeric Nas is located in the cytoplasm and participates in nitrogen assimilation. Dimeric Nap is located in the periplasm and is coupled to quinol...; Region: MopB_CT_Nitrate-R-NapA-like; cd02791 269482009873 molybdopterin cofactor binding site; other site 269482009874 Sulfite reductase, alpha subunit (flavoprotein) [Inorganic ion transport and metabolism]; Region: CysJ; COG0369 269482009875 Flavodoxin; Region: Flavodoxin_1; pfam00258 269482009876 Cytochrome p450- like alpha subunits of E. coli sulfite reductase (SiR) multimerize with beta subunits to catalyze the NADPH dependent reduction of sulfite to sulfide. Beta subunits have an Fe4S4 cluster and a siroheme, while the alpha subunits (cysJ...; Region: SiR; cd06199 269482009877 FAD binding pocket [chemical binding]; other site 269482009878 FAD binding motif [chemical binding]; other site 269482009879 catalytic residues [active] 269482009880 NAD binding pocket [chemical binding]; other site 269482009881 phosphate binding motif [ion binding]; other site 269482009882 beta-alpha-beta structure motif; other site 269482009883 Assimilatory nitrite reductase (NirD) family, Rieske domain; Assimilatory nitrate and nitrite reductases convert nitrate through nitrite to ammonium. Members include bacterial and fungal proteins. The bacterial NirD contains a single Rieske domain while...; Region: Rieske_NirD; cd03529 269482009884 nitrite reductase subunit NirD; Provisional; Region: PRK14989 269482009885 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 269482009886 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 269482009887 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 269482009888 nitrite extrusion protein (nitrite facilitator); Region: 2A0108; TIGR00886 269482009889 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 269482009890 active site 269482009891 SAM binding site [chemical binding]; other site 269482009892 homodimer interface [polypeptide binding]; other site 269482009893 Response regulator with putative antiterminator output domain [Signal transduction mechanisms]; Region: AmiR; COG3707 269482009894 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 269482009895 active site 269482009896 phosphorylation site [posttranslational modification] 269482009897 intermolecular recognition site; other site 269482009898 dimerization interface [polypeptide binding]; other site 269482009899 ANTAR domain; Region: ANTAR; pfam03861 269482009900 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 269482009901 NMT1-like family; Region: NMT1_2; pfam13379 269482009902 Uncharacterized subfamily of Uracil-DNA glycosylases; Region: UDG_like_1; cd10033 269482009903 putative uracil binding site [chemical binding]; other site 269482009904 putative active site [active] 269482009905 Flagellin N-methylase; Region: FliB; pfam03692 269482009906 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 269482009907 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 269482009908 2-keto-4-pentenoate hydratase/2-oxohepta-3-ene-1,7-dioic acid hydratase (catechol pathway) [Secondary metabolites biosynthesis, transport, and catabolism]; Region: MhpD; COG0179 269482009909 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 269482009910 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 269482009911 putative substrate translocation pore; other site 269482009912 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 269482009913 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 269482009914 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 269482009915 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 269482009916 protein binding site [polypeptide binding]; other site 269482009917 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 269482009918 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 269482009919 The C-terminal substrate binding domain of LysR-type transcrptional regulator BudR, which is responsible for activation of the expression of the butanediol operon genes; contains the type 2 periplasmic binding fold; Region: PBP2_BudR; cd08451 269482009920 putative dimerization interface [polypeptide binding]; other site 269482009921 putative substrate binding pocket [chemical binding]; other site 269482009922 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 269482009923 putative substrate translocation pore; other site 269482009924 Major Facilitator Superfamily; Region: MFS_1; pfam07690 269482009925 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 269482009926 DNA-binding site [nucleotide binding]; DNA binding site 269482009927 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 269482009928 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 269482009929 pyridoxal 5'-phosphate binding site [chemical binding]; other site 269482009930 homodimer interface [polypeptide binding]; other site 269482009931 catalytic residue [active] 269482009932 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 269482009933 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 269482009934 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 269482009935 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 269482009936 Coenzyme A binding pocket [chemical binding]; other site 269482009937 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 269482009938 (2R,3R)-2,3-butanediol dehydrogenase; Region: butanediol_DH_like; cd08233 269482009939 putative NAD(P) binding site [chemical binding]; other site 269482009940 catalytic Zn binding site [ion binding]; other site 269482009941 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 269482009942 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 269482009943 active site 269482009944 catalytic tetrad [active] 269482009945 MarC family integral membrane protein; Region: MarC; cl00919 269482009946 enoyl-CoA hydratase; Provisional; Region: PRK05995 269482009947 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 269482009948 substrate binding site [chemical binding]; other site 269482009949 oxyanion hole (OAH) forming residues; other site 269482009950 trimer interface [polypeptide binding]; other site 269482009951 Phenylacetate-CoA ligase (also known as PaaK); Region: PaaK; cd05913 269482009952 phenylacetate-CoA ligase; Region: PA_CoA_ligase; TIGR02155 269482009953 active site 269482009954 AMP binding site [chemical binding]; other site 269482009955 homodimer interface [polypeptide binding]; other site 269482009956 acyl-activating enzyme (AAE) consensus motif; other site 269482009957 CoA binding site [chemical binding]; other site 269482009958 3-hydroxy-acyl-CoA dehydrogenase; Validated; Region: PRK08268 269482009959 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 269482009960 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 269482009961 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 269482009962 Ca2+/H+ antiporter [Inorganic ion transport and metabolism]; Region: ChaA; COG0387 269482009963 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 269482009964 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 269482009965 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator similar to regulators involved in the catabolism of aromatic compounds, contains type 2 periplasmic binding fold; Region: PBP2_LTTR_aromatics_like_1; cd08447 269482009966 putative dimerization interface [polypeptide binding]; other site 269482009967 putative substrate binding pocket [chemical binding]; other site 269482009968 transcriptional regulator; Provisional; Region: PRK10632 269482009969 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 269482009970 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 269482009971 putative effector binding pocket; other site 269482009972 dimerization interface [polypeptide binding]; other site 269482009973 CBS-domain-containing membrane protein [Signal transduction mechanisms]; Region: COG3448 269482009974 HPP family; Region: HPP; pfam04982 269482009975 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cl15354 269482009976 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the HPP motif domain. These proteins are integral membrane proteins with four transmembrane spanning helices. The function of these proteins is...; Region: CBS_pair_HPP_assoc; cd04600 269482009977 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 269482009978 MarR family; Region: MarR_2; pfam12802 269482009979 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 269482009980 CLC voltage-gated chloride channel. The ClC chloride channels catalyse the selective flow of Cl- ions across cell membranes, thereby regulating electrical excitation in skeletal muscle and the flow of salt and water across epithelial barriers. This...; Region: Voltage_gated_ClC; cd00400 269482009981 Cl- selectivity filter; other site 269482009982 Cl- binding residues [ion binding]; other site 269482009983 pore gating glutamate residue; other site 269482009984 dimer interface [polypeptide binding]; other site 269482009985 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cl15354 269482009986 FOG: CBS domain [General function prediction only]; Region: COG0517 269482009987 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with either the SpoIVFB domain (sporulation protein, stage IV cell wall formation, F locus, promoter-distal B) or the chloride channel protein EriC; Region: CBS_pair_SpoIVFB_EriC_assoc; cd04612 269482009988 Protein of unknown function (DUF1255); Region: DUF1255; pfam06865 269482009989 putative DNA-binding transcriptional regulator; Provisional; Region: PRK09791 269482009990 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 269482009991 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 269482009992 dimerization interface [polypeptide binding]; other site 269482009993 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 269482009994 metabolite-proton symporter; Region: 2A0106; TIGR00883 269482009995 putative substrate translocation pore; other site 269482009996 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 269482009997 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 269482009998 trimer interface [polypeptide binding]; other site 269482009999 eyelet of channel; other site 269482010000 Predicted membrane protein [Function unknown]; Region: COG2259 269482010001 Cytochrome c; Region: Cytochrom_C; pfam00034 269482010002 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 269482010003 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 269482010004 Cytochrome c; Region: Cytochrom_C; pfam00034 269482010005 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 269482010006 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 269482010007 Membrane bound FAD containing D-sorbitol dehydrogenase; Region: FAD-SLDH; pfam12318 269482010008 Bacterial Ig-like domain; Region: Big_5; pfam13205 269482010009 Large extracellular alpha-helical protein [General function prediction only]; Region: COG2373 269482010010 MG2 domain; Region: A2M_N; pfam01835 269482010011 Alpha-2-macroglobulin family; Region: A2M; pfam00207 269482010012 penicillin-binding protein 1C; Region: PBP_1c; TIGR02073 269482010013 Transglycosylase; Region: Transgly; pfam00912 269482010014 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 269482010015 Penicillin-Binding Protein C-terminus Family; Region: BiPBP_C; pfam06832 269482010016 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 269482010017 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 269482010018 putative substrate translocation pore; other site 269482010019 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 269482010020 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 269482010021 substrate binding pocket [chemical binding]; other site 269482010022 membrane-bound complex binding site; other site 269482010023 hinge residues; other site 269482010024 Peptidase S8 family domain, uncharacterized subfamily 13; Region: Peptidases_S8_13; cd07496 269482010025 active site 269482010026 catalytic triad [active] 269482010027 magnesium-transporting ATPase; Provisional; Region: PRK15122 269482010028 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; smart00831 269482010029 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 269482010030 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 269482010031 Soluble P-type ATPase [General function prediction only]; Region: COG4087 269482010032 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 269482010033 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 269482010034 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 269482010035 The C-terminal substrate binding domain of LysR-type transcriptional regulators involved in the catabolism of aromatic compounds and that of other related regulators, contains type 2 periplasmic binding fold; Region: PBP2_LTTR_aromatics_like; cd08414 269482010036 dimerization interface [polypeptide binding]; other site 269482010037 substrate binding pocket [chemical binding]; other site 269482010038 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 269482010039 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 269482010040 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 269482010041 MarR family; Region: MarR; pfam01047 269482010042 Isochorismatase family; Region: Isochorismatase; pfam00857 269482010043 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cd00431 269482010044 catalytic triad [active] 269482010045 conserved cis-peptide bond; other site 269482010046 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 269482010047 putative substrate translocation pore; other site 269482010048 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 269482010049 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 269482010050 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 269482010051 DNA-binding site [nucleotide binding]; DNA binding site 269482010052 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 269482010053 pyridoxal 5'-phosphate binding site [chemical binding]; other site 269482010054 homodimer interface [polypeptide binding]; other site 269482010055 catalytic residue [active] 269482010056 oxidoreductase alpha (molybdopterin) subunit; Region: Fdhalpha-like; TIGR01701 269482010057 The MopB_ydeP CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative molybdopterin cofactor binding site. These members belong to the molybdopterin_binding (MopB) superfamily of proteins; Region: MopB_ydeP; cd02767 269482010058 putative molybdopterin cofactor binding site [chemical binding]; other site 269482010059 The MopB_CT_ydeP CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative molybdopterin cofactor binding site. This CD is of the conserved molybdopterin_binding C-terminal (MopB_CT) region...; Region: MopB_CT_ydeP; cd02787 269482010060 putative molybdopterin cofactor binding site; other site 269482010061 Bestrophin, RFP-TM, chloride channel; Region: Bestrophin; pfam01062 269482010062 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_7; cd08512 269482010063 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 269482010064 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; cl15845 269482010065 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 269482010066 bicupin, oxalate decarboxylase family; Region: bicupin_oxalic; TIGR03404 269482010067 Cupin; Region: Cupin_1; smart00835 269482010068 Cupin; Region: Cupin_1; smart00835 269482010069 HipA N-terminal domain; Region: Couple_hipA; pfam13657 269482010070 Toxin module HipA, protein kinase of phosphatidylinositol 3/4-kinase superfamily [General function prediction only]; Region: HipA; COG3550 269482010071 HipA-like N-terminal domain; Region: HipA_N; pfam07805 269482010072 HipA-like C-terminal domain; Region: HipA_C; pfam07804 269482010073 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 269482010074 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 269482010075 non-specific DNA binding site [nucleotide binding]; other site 269482010076 salt bridge; other site 269482010077 sequence-specific DNA binding site [nucleotide binding]; other site 269482010078 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 269482010079 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 269482010080 SIS domain. SIS (Sugar ISomerase) domains are found in many phosphosugar isomerases and phosphosugar binding proteins. SIS domains are also found in proteins that regulate the expression of genes involved in synthesis of phosphosugars; Region: SIS; cl00389 269482010081 D-alanyl-D-alanine dipeptidase; Provisional; Region: PRK10178 269482010082 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_7; cd08512 269482010083 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 269482010084 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 269482010085 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 269482010086 dimer interface [polypeptide binding]; other site 269482010087 conserved gate region; other site 269482010088 putative PBP binding loops; other site 269482010089 ABC-ATPase subunit interface; other site 269482010090 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 269482010091 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 269482010092 dimer interface [polypeptide binding]; other site 269482010093 conserved gate region; other site 269482010094 putative PBP binding loops; other site 269482010095 ABC-ATPase subunit interface; other site 269482010096 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 269482010097 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 269482010098 Walker A/P-loop; other site 269482010099 ATP binding site [chemical binding]; other site 269482010100 Q-loop/lid; other site 269482010101 ABC transporter signature motif; other site 269482010102 Walker B; other site 269482010103 D-loop; other site 269482010104 H-loop/switch region; other site 269482010105 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 269482010106 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 269482010107 Walker A/P-loop; other site 269482010108 ATP binding site [chemical binding]; other site 269482010109 Q-loop/lid; other site 269482010110 ABC transporter signature motif; other site 269482010111 Walker B; other site 269482010112 D-loop; other site 269482010113 H-loop/switch region; other site 269482010114 Predicted membrane protein [Function unknown]; Region: COG2261 269482010115 Transcriptional regulator [Transcription]; Region: LysR; COG0583 269482010116 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 269482010117 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 269482010118 putative effector binding pocket; other site 269482010119 dimerization interface [polypeptide binding]; other site 269482010120 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269482010121 NmrA-like family; Region: NmrA; pfam05368 269482010122 NAD(P) binding site [chemical binding]; other site 269482010123 active site 269482010124 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 269482010125 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 269482010126 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 269482010127 substrate binding pocket [chemical binding]; other site 269482010128 dimerization interface [polypeptide binding]; other site 269482010129 Beta-lactamase enzyme family; Region: Beta-lactamase2; pfam13354 269482010130 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 269482010131 Peptidase family M23; Region: Peptidase_M23; pfam01551 269482010132 Transcriptional regulator [Transcription]; Region: LysR; COG0583 269482010133 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 269482010134 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_1; cd08421 269482010135 putative dimerization interface [polypeptide binding]; other site 269482010136 Predicted ester cyclase [General function prediction only]; Region: COG5485 269482010137 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 269482010138 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 269482010139 trimer interface [polypeptide binding]; other site 269482010140 eyelet of channel; other site 269482010141 OpgC protein; Region: OpgC_C; pfam10129 269482010142 S-formylglutathione hydrolase; Region: PLN02442 269482010143 Putative esterase; Region: Esterase; pfam00756 269482010144 Cupin domain; Region: Cupin_2; pfam07883 269482010145 Cache domain; Region: Cache_1; pfam02743 269482010146 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 269482010147 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 269482010148 metal binding site [ion binding]; metal-binding site 269482010149 active site 269482010150 I-site; other site 269482010151 PAAR motif; Region: PAAR_motif; pfam05488 269482010152 Type VI secretion lipoprotein; Region: T6SS-SciN; pfam12790 269482010153 Protein of unknown function (DUF1305); Region: DUF1305; pfam06996 269482010154 Type VI protein secretion system component VasA [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3519 269482010155 Bacterial protein of unknown function (DUF879); Region: DUF879; pfam05947 269482010156 Intracellular multiplication and human macrophage-killing; Region: IcmF-related; pfam06761 269482010157 Protein of unknown function (DUF1215); Region: DUF1215; pfam06744 269482010158 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 269482010159 Rhs element Vgr protein; Region: vgr_GE; TIGR01646 269482010160 Phage-related baseplate assembly protein; Region: Phage_base_V; cl17812 269482010161 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 269482010162 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; pfam10106 269482010163 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3517; cl05484 269482010164 Protein of unknown function (DUF877); Region: DUF877; pfam05943 269482010165 type VI secretion protein, VC_A0114 family; Region: VI_chp_4; TIGR03353 269482010166 Bacterial protein of unknown function (DUF876); Region: DUF876; pfam05936 269482010167 Uncharacterized protein conserved in bacteria (DUF2077); Region: DUF2077; pfam09850 269482010168 type VI secretion system lysozyme-like protein; Region: VI_zyme; TIGR03357 269482010169 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 269482010170 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 269482010171 eyelet of channel; other site 269482010172 trimer interface [polypeptide binding]; other site 269482010173 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 269482010174 threonine dehydratase; Reviewed; Region: PRK09224 269482010175 Threonine dehydratase: The first step in amino acid degradation is the removal of nitrogen. Although the nitrogen atoms of most amino acids are transferred to alpha-ketoglutarate before removal, the alpha-amino group of threonine can be directly...; Region: Thr-dehyd; cd01562 269482010176 tetramer interface [polypeptide binding]; other site 269482010177 pyridoxal 5'-phosphate binding site [chemical binding]; other site 269482010178 catalytic residue [active] 269482010179 First of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_1; cd04906 269482010180 putative Ile/Val binding site [chemical binding]; other site 269482010181 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 269482010182 putative Ile/Val binding site [chemical binding]; other site 269482010183 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; cl08040 269482010184 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 269482010185 Predicted thioesterase involved in non-ribosomal peptide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: GrsT; COG3208 269482010186 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 269482010187 Acetyltransferase (GNAT) domain; Region: Acetyltransf_4; pfam13420 269482010188 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 269482010189 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 269482010190 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; cl17312 269482010191 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 269482010192 The adenylation domain of nonribosomal peptide synthetases (NRPS), including Bacillus subtilis termination module Surfactin (SrfA-C); Region: A_NRPS_Srf_like; cd12117 269482010193 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 269482010194 acyl-activating enzyme (AAE) consensus motif; other site 269482010195 AMP binding site [chemical binding]; other site 269482010196 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 269482010197 Protein involved in propanediol utilization, and related proteins (includes coumermycin biosynthetic protein), possible kinase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: PduX; COG4542 269482010198 Tryptophan synthase beta superfamily (fold type II); this family of pyridoxal phosphate (PLP)-dependent enzymes catalyzes beta-replacement and beta-elimination reactions. This CD corresponds to aminocyclopropane-1-carboxylate deaminase (ACCD), tryptophan...; Region: Trp-synth-beta_II; cl00342 269482010199 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 269482010200 catalytic residue [active] 269482010201 argininosuccinate lyase; Provisional; Region: PRK02186 269482010202 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 269482010203 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 269482010204 active sites [active] 269482010205 tetramer interface [polypeptide binding]; other site 269482010206 Formyltransferase, catalytic core domain; Region: FMT_core; cl00395 269482010207 Formyl transferase catalytic core domain found in a group of proteins with unknown functions; Region: FMT_core_like_3; cd08653 269482010208 putative active site [active] 269482010209 putative cosubstrate binding site; other site 269482010210 putative substrate binding site [chemical binding]; other site 269482010211 catalytic site [active] 269482010212 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 269482010213 D-aminoacyl-tRNA deacylase; Region: tRNA_deacylase; cl00716 269482010214 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 269482010215 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 269482010216 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 269482010217 HAMP domain; Region: HAMP; pfam00672 269482010218 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 269482010219 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 269482010220 dimer interface [polypeptide binding]; other site 269482010221 putative CheW interface [polypeptide binding]; other site 269482010222 Predicted signal transduction protein containing EAL and modified HD-GYP domains [Signal transduction mechanisms]; Region: COG3434 269482010223 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 269482010224 Ion channel; Region: Ion_trans_2; pfam07885 269482010225 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 269482010226 TrkA-N domain; Region: TrkA_N; pfam02254 269482010227 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 269482010228 hydroxyglutarate oxidase; Provisional; Region: PRK11728 269482010229 Manganese catalase, ferritin-like diiron-binding domain; Region: Mn_catalase; cd01051 269482010230 dimanganese center [ion binding]; other site 269482010231 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 269482010232 dinuclear metal binding motif [ion binding]; other site 269482010233 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 269482010234 GroEL_like type I chaperonin. Chaperonins are involved in productive folding of proteins. They share a common general morphology, a double toroid of 2 stacked rings, each composed of 7-9 subunits. The symmetry of type I is seven-fold and they are found...; Region: GroEL; cd03344 269482010235 ring oligomerisation interface [polypeptide binding]; other site 269482010236 ATP/Mg binding site [chemical binding]; other site 269482010237 stacking interactions; other site 269482010238 hinge regions; other site 269482010239 Chaperonin 10 Kd subunit (cpn10 or GroES); Cpn10 cooperates with chaperonin 60 (cpn60 or GroEL), an ATPase, to assist the folding and assembly of proteins and is found in eubacterial cytosol, as well as in the matrix of mitochondria and chloroplasts. It...; Region: cpn10; cd00320 269482010240 oligomerisation interface [polypeptide binding]; other site 269482010241 mobile loop; other site 269482010242 roof hairpin; other site 269482010243 BetR domain; Region: BetR; pfam08667 269482010244 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 269482010245 active site 269482010246 phosphorylation site [posttranslational modification] 269482010247 intermolecular recognition site; other site 269482010248 dimerization interface [polypeptide binding]; other site 269482010249 Part of AAA domain; Region: AAA_19; pfam13245 269482010250 Family description; Region: UvrD_C_2; pfam13538 269482010251 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cd00181 269482010252 dimer interface [polypeptide binding]; other site 269482010253 ligand binding site [chemical binding]; other site 269482010254 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 269482010255 dimerization interface [polypeptide binding]; other site 269482010256 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 269482010257 dimer interface [polypeptide binding]; other site 269482010258 putative CheW interface [polypeptide binding]; other site 269482010259 Major Facilitator Superfamily; Region: MFS_1; pfam07690 269482010260 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 269482010261 putative substrate translocation pore; other site 269482010262 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 269482010263 quinone oxidoreductase, NADPH-dependent; Provisional; Region: PRK10754 269482010264 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 269482010265 NADP binding site [chemical binding]; other site 269482010266 dimer interface [polypeptide binding]; other site 269482010267 Transcriptional regulator [Transcription]; Region: LysR; COG0583 269482010268 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 269482010269 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 269482010270 dimerization interface [polypeptide binding]; other site 269482010271 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 269482010272 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 269482010273 Helix-Turn-Helix DNA binding domain of putative transcription regulators from the MerR superfamily; Region: HTH_MerR-like_sg2; cd04778 269482010274 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 269482010275 DNA binding residues [nucleotide binding] 269482010276 putative dimer interface [polypeptide binding]; other site 269482010277 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 269482010278 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 269482010279 substrate binding pocket [chemical binding]; other site 269482010280 membrane-bound complex binding site; other site 269482010281 hinge residues; other site 269482010282 Agmatinase-like family includes proclavaminic acid amidinohydrolase; Region: Agmatinase_PAH; cd11592 269482010283 oligomer interface [polypeptide binding]; other site 269482010284 putative active site [active] 269482010285 Mn binding site [ion binding]; other site 269482010286 YhhN-like protein; Region: YhhN; pfam07947 269482010287 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 269482010288 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 269482010289 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269482010290 short chain dehydrogenase; Provisional; Region: PRK07832 269482010291 NAD(P) binding site [chemical binding]; other site 269482010292 active site 269482010293 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 269482010294 Urea transporter; Region: UT; cl01829 269482010295 Bacterial NAD-glutamate dehydrogenase; Region: Bac_GDH; pfam05088 269482010296 O-Methyltransferase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3315 269482010297 Leucine carboxyl methyltransferase; Region: LCM; pfam04072 269482010298 N-acetyltransferase; Region: Acetyltransf_2; pfam00797 269482010299 amidase; Provisional; Region: PRK07486 269482010300 Amidase; Region: Amidase; cl11426 269482010301 Plastocyanin [Energy production and conversion]; Region: PetE; COG3794 269482010302 pseudoazurin; Region: pseudoazurin; TIGR02375 269482010303 catalase/hydroperoxidase HPI(I); Provisional; Region: PRK15061 269482010304 Heme-dependent peroxidases similar to plant peroxidases; Region: plant_peroxidase_like; cl00196 269482010305 heme binding site [chemical binding]; other site 269482010306 C-terminal non-catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_2; cd08200 269482010307 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 269482010308 Ligand Binding Site [chemical binding]; other site 269482010309 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; COG1914 269482010310 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 269482010311 Uncharacterized protein conserved in bacteria (DUF2252); Region: DUF2252; pfam10009 269482010312 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4320 269482010313 Domain of unknown function found in archaea, bacteria, and plants; Region: DUF296; cd11378 269482010314 trimer interface [polypeptide binding]; other site 269482010315 putative Zn binding site [ion binding]; other site 269482010316 anthranilate dioxygenase reductase; Provisional; Region: antC; PRK11872 269482010317 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 269482010318 catalytic loop [active] 269482010319 iron binding site [ion binding]; other site 269482010320 Ferredoxin reductase (FNR), an FAD and NAD(P) binding protein, was intially identified as a chloroplast reductase activity, catalyzing the electron transfer from reduced iron-sulfur protein ferredoxin to NADP+ as the final step in the electron transport...; Region: FNR_like; cl06868 269482010321 FAD binding pocket [chemical binding]; other site 269482010322 conserved FAD binding motif [chemical binding]; other site 269482010323 phosphate binding motif [ion binding]; other site 269482010324 beta-alpha-beta structure motif; other site 269482010325 NAD binding pocket [chemical binding]; other site 269482010326 hybrid cluster protein; Provisional; Region: PRK05290 269482010327 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 269482010328 ACS interaction site; other site 269482010329 CODH interaction site; other site 269482010330 Hybrid cluster protein (HCP), formerly known as prismane, is thought to play a role in nitrogen metabolism but its specific function is unknown. HCP has three structural domains, an N-terminal alpha-helical domain, and two similar domains comprising a...; Region: HCP; cd01914 269482010331 hybrid metal cluster; other site 269482010332 Protein of unknown function (DUF3079); Region: DUF3079; pfam11278 269482010333 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 269482010334 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 269482010335 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 269482010336 protein binding site [polypeptide binding]; other site 269482010337 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 269482010338 protein binding site [polypeptide binding]; other site 269482010339 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 269482010340 Putative bacterial sensory transduction regulator; Region: YbjN; pfam10722 269482010341 Gram-negative bacterial tonB protein; Region: TonB; cl10048 269482010342 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 269482010343 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 269482010344 Domain of unknown function (DUF2341); Region: DUF2341; pfam10102 269482010345 Concanavalin A-like lectin/glucanases superfamily; Region: Laminin_G_3; pfam13385 269482010346 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 269482010347 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 269482010348 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 269482010349 Surface antigen; Region: Bac_surface_Ag; pfam01103 269482010350 Type II secretion system (T2SS), protein K; Region: T2SK; pfam03934 269482010351 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 269482010352 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 269482010353 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 269482010354 FecR protein; Region: FecR; pfam04773 269482010355 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 269482010356 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cl17257 269482010357 Secretin and TonB N terminus short domain; Region: STN; smart00965 269482010358 TonB C terminal; Region: TonB_2; pfam13103 269482010359 type II secretion system protein F; Region: GspF; TIGR02120 269482010360 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 269482010361 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 269482010362 PBP superfamily domain; Region: PBP_like_2; cl17296 269482010363 filamentous hemagglutinin family N-terminal domain; Region: adhes_NPXG; TIGR01901 269482010364 Filamentous haemagglutinin family outer membrane protein; Region: DUF3739; pfam12545 269482010365 Tetratricopeptide repeat; Region: TPR_16; pfam13432 269482010366 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 269482010367 TPR motif; other site 269482010368 binding surface 269482010369 TPR repeat; Region: TPR_11; pfam13414 269482010370 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 269482010371 TPR motif; other site 269482010372 binding surface 269482010373 TPR repeat; Region: TPR_11; pfam13414 269482010374 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 269482010375 binding surface 269482010376 TPR motif; other site 269482010377 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 269482010378 TPR motif; other site 269482010379 binding surface 269482010380 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 269482010381 binding surface 269482010382 TPR motif; other site 269482010383 TPR repeat; Region: TPR_11; pfam13414 269482010384 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 269482010385 binding surface 269482010386 TPR motif; other site 269482010387 TPR repeat; Region: TPR_11; pfam13414 269482010388 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 269482010389 TPR motif; other site 269482010390 binding surface 269482010391 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 269482010392 binding surface 269482010393 TPR motif; other site 269482010394 TPR repeat; Region: TPR_11; pfam13414 269482010395 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 269482010396 binding surface 269482010397 TPR motif; other site 269482010398 TPR repeat; Region: TPR_11; pfam13414 269482010399 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 269482010400 TPR motif; other site 269482010401 binding surface 269482010402 TPR repeat; Region: TPR_11; pfam13414 269482010403 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 269482010404 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 269482010405 Type II secretion system (T2SS), protein I; Region: T2SI; pfam02501 269482010406 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_2; pfam13532 269482010407 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 269482010408 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 269482010409 putative active site [active] 269482010410 putative metal binding site [ion binding]; other site 269482010411 Uncharacterized membrane protein [Function unknown]; Region: SapB; COG1285 269482010412 MgtC family; Region: MgtC; pfam02308 269482010413 DNA-binding transcriptional activator SdiA; Provisional; Region: PRK10188 269482010414 Autoinducer binding domain; Region: Autoind_bind; pfam03472 269482010415 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 269482010416 DNA binding residues [nucleotide binding] 269482010417 dimerization interface [polypeptide binding]; other site 269482010418 Autoinducer synthetase; Region: Autoind_synth; cl17404 269482010419 Hydroxymethylglutaryl-coenzyme A (HMG-CoA) reductase (HMGR); Region: HMG-CoA_reductase; cl00205 269482010420 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 269482010421 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 269482010422 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 269482010423 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 269482010424 Helix-turn-helix domain; Region: HTH_38; pfam13936 269482010425 Integrase core domain; Region: rve; pfam00665 269482010426 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 269482010427 GTP cyclohydrolase II (RibA). GTP cyclohydrolase II catalyzes the conversion of GTP to 2,5-diamino-6-ribosylamino-4(3H)-pyrimidinone 5' phosphate, formate, pyrophosphate (APy), and GMP in the biosynthetic pathway of riboflavin. Riboflavin is the...; Region: GTP_cyclohydro2; cd00641 269482010428 dimerization interface [polypeptide binding]; other site 269482010429 active site 269482010430 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair_10; cd04623 269482010431 FOG: CBS domain [General function prediction only]; Region: COG0517 269482010432 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 269482010433 nucleoside diphosphate kinase regulator; Provisional; Region: PRK05753 269482010434 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 269482010435 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 269482010436 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 269482010437 trimer interface [polypeptide binding]; other site 269482010438 eyelet of channel; other site 269482010439 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 269482010440 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 269482010441 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 269482010442 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 269482010443 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 269482010444 putative active site [active] 269482010445 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 269482010446 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 269482010447 Walker A/P-loop; other site 269482010448 ATP binding site [chemical binding]; other site 269482010449 Q-loop/lid; other site 269482010450 ABC transporter signature motif; other site 269482010451 Walker B; other site 269482010452 D-loop; other site 269482010453 H-loop/switch region; other site 269482010454 ABC nitrate/sulfonate/bicarbonate family transporter, ATPase subunit; Region: ABC_transp; pfam09821 269482010455 ABC-type anion transport system, duplicated permease component [Inorganic ion transport and metabolism]; Region: COG4986 269482010456 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 269482010457 dimer interface [polypeptide binding]; other site 269482010458 conserved gate region; other site 269482010459 putative PBP binding loops; other site 269482010460 ABC-ATPase subunit interface; other site 269482010461 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 269482010462 putative PBP binding loops; other site 269482010463 dimer interface [polypeptide binding]; other site 269482010464 ABC-ATPase subunit interface; other site 269482010465 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 269482010466 nucleophile elbow; other site 269482010467 Patatin phospholipase; Region: DUF3734; pfam12536 269482010468 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 269482010469 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269482010470 NAD(P) binding site [chemical binding]; other site 269482010471 active site 269482010472 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 269482010473 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 269482010474 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 269482010475 dimerization interface [polypeptide binding]; other site 269482010476 substrate binding pocket [chemical binding]; other site 269482010477 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 269482010478 dimerization interface [polypeptide binding]; other site 269482010479 putative DNA binding site [nucleotide binding]; other site 269482010480 putative Zn2+ binding site [ion binding]; other site 269482010481 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 269482010482 Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a...; Region: OYE_like_FMN; cd02933 269482010483 FMN binding site [chemical binding]; other site 269482010484 active site 269482010485 substrate binding site [chemical binding]; other site 269482010486 catalytic residue [active] 269482010487 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 269482010488 Coenzyme A binding pocket [chemical binding]; other site 269482010489 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 269482010490 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 269482010491 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 269482010492 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 269482010493 Catalytic domain of Bacillus cereus phosphatidylinositol-specific phospholipases C and similar proteins; Region: PI-PLCc_BcPLC_like; cd08586 269482010494 active site 269482010495 catalytic site [active] 269482010496 putative metal binding site [ion binding]; other site 269482010497 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 269482010498 DNA binding site [nucleotide binding] 269482010499 domain linker motif; other site 269482010500 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors; Region: PBP1_LacI_like_2; cd06278 269482010501 putative dimerization interface [polypeptide binding]; other site 269482010502 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 269482010503 putative ligand binding site [chemical binding]; other site 269482010504 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 269482010505 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 269482010506 dimer interface [polypeptide binding]; other site 269482010507 conserved gate region; other site 269482010508 putative PBP binding loops; other site 269482010509 ABC-ATPase subunit interface; other site 269482010510 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 269482010511 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 269482010512 dimer interface [polypeptide binding]; other site 269482010513 conserved gate region; other site 269482010514 putative PBP binding loops; other site 269482010515 ABC-ATPase subunit interface; other site 269482010516 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 269482010517 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 269482010518 Predicted metalloprotease [General function prediction only]; Region: COG2321 269482010519 Putative neutral zinc metallopeptidase; Region: Zn_peptidase; pfam04228 269482010520 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269482010521 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 269482010522 NAD(P) binding site [chemical binding]; other site 269482010523 active site 269482010524 Transcriptional regulator [Transcription]; Region: LysR; COG0583 269482010525 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 269482010526 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 269482010527 dimerization interface [polypeptide binding]; other site 269482010528 Transcriptional regulator [Transcription]; Region: LysR; COG0583 269482010529 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 269482010530 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 269482010531 dimerization interface [polypeptide binding]; other site 269482010532 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 269482010533 putative substrate translocation pore; other site 269482010534 Oxidoreductase-like protein, N-terminal; Region: Oxidored-like; pfam09791 269482010535 short chain dehydrogenase; Provisional; Region: PRK12828 269482010536 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269482010537 NAD(P) binding site [chemical binding]; other site 269482010538 active site 269482010539 dihydrodipicolinate reductase; Region: dapB_plant; TIGR02130 269482010540 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 269482010541 Helix-turn-helix domain; Region: HTH_18; pfam12833 269482010542 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 269482010543 EamA-like transporter family; Region: EamA; pfam00892 269482010544 EamA-like transporter family; Region: EamA; pfam00892 269482010545 Entericidin EcnA/B family; Region: Entericidin; cl02322 269482010546 aspartate carbamoyltransferase; Provisional; Region: PRK11891 269482010547 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 269482010548 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 269482010549 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 269482010550 metal-binding site 269482010551 putative monovalent cation/H+ antiporter subunit A; Reviewed; Region: PRK12650 269482010552 2-dehydropantoate 2-reductase; Provisional; Region: PRK12921 269482010553 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 269482010554 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 269482010555 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4564 269482010556 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 269482010557 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 269482010558 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 269482010559 dimer interface [polypeptide binding]; other site 269482010560 putative CheW interface [polypeptide binding]; other site 269482010561 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 269482010562 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 269482010563 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 269482010564 Walker A motif; other site 269482010565 ATP binding site [chemical binding]; other site 269482010566 Walker B motif; other site 269482010567 arginine finger; other site 269482010568 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 269482010569 DNA-binding interface [nucleotide binding]; DNA binding site 269482010570 ribonuclease E; Reviewed; Region: rne; PRK10811 269482010571 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 269482010572 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 269482010573 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 269482010574 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 269482010575 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 269482010576 catalytic loop [active] 269482010577 iron binding site [ion binding]; other site 269482010578 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 269482010579 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 269482010580 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 269482010581 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 269482010582 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 269482010583 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 269482010584 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 269482010585 DNA binding site [nucleotide binding] 269482010586 type III secretion system apparatus protein YscQ/HrcQ; Region: SpaO_YscQ; TIGR02551 269482010587 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 269482010588 type III secretion system protein YscR; Provisional; Region: PRK12797 269482010589 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 269482010590 N-acetyl-D-glucosamine binding site [chemical binding]; other site 269482010591 catalytic residue [active] 269482010592 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 269482010593 exosortase A system-associated amidotransferase 1; Region: eps_aminotran_1; TIGR03108 269482010594 Glutamine amidotransferases class-II (GATase) asparagine synthase_B type. Asparagine synthetase B catalyses the ATP-dependent conversion of aspartate to asparagine. This enzyme is a homodimer, with each monomer composed of a glutaminase domain and a...; Region: AsnB; cd00712 269482010595 active site 269482010596 dimer interface [polypeptide binding]; other site 269482010597 The C-terminal domain of Asparagine Synthase B. This domain is always found associated n-terminal amidotransferase domain. Family members that contain this domain catalyse the conversion of aspartate to asparagine. Asparagine synthetase B catalyzes the...; Region: Asn_Synthase_B_C; cd01991 269482010598 Ligand Binding Site [chemical binding]; other site 269482010599 Molecular Tunnel; other site 269482010600 Flagellar biosynthesis pathway, component FlhB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlhB; COG1377 269482010601 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 269482010602 Bacterial export proteins, family 1; Region: Bac_export_1; pfam01311 269482010603 Flagellar biosynthesis/type III secretory pathway ATPase [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FliI; COG1157 269482010604 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 269482010605 Walker A motif; other site 269482010606 ATP binding site [chemical binding]; other site 269482010607 Walker B motif; other site 269482010608 type III secretion system protein; Reviewed; Region: PRK06937 269482010609 Flagellar assembly protein FliH; Region: FliH; pfam02108 269482010610 type III secretion apparatus lipoprotein, YscJ/HrcJ family; Region: III_secr_YscJ; TIGR02544 269482010611 type III secretion apparatus protein, YscD/HrpQ family; Region: type_III_yscD; TIGR02500 269482010612 type III secretion outer membrane pore, YscC/HrcC family; Region: type_III_yscC; TIGR02516 269482010613 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 269482010614 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 269482010615 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 269482010616 Bacterial export proteins, family 3; Region: Bac_export_3; cl00867 269482010617 Flagellar biosynthesis pathway, component FlhA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlhA; cl07980 269482010618 FHIPEP family; Region: FHIPEP; pfam00771 269482010619 Autoinducer binding domain; Region: Autoind_bind; pfam03472 269482010620 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 269482010621 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 269482010622 dimerization interface [polypeptide binding]; other site 269482010623 DNA binding residues [nucleotide binding] 269482010624 Autoinducer binding domain; Region: Autoind_bind; pfam03472 269482010625 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 269482010626 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 269482010627 DNA binding residues [nucleotide binding] 269482010628 dimerization interface [polypeptide binding]; other site 269482010629 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; COG1914 269482010630 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 269482010631 Carbohydrate-selective porin, OprB family; Region: OprB; pfam04966 269482010632 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 269482010633 hydrophobic ligand binding site; other site 269482010634 Neutral trehalase [Carbohydrate transport and metabolism]; Region: TreA; COG1626 269482010635 Trehalase; Region: Trehalase; cl17346 269482010636 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 269482010637 Major Facilitator Superfamily; Region: MFS_1; pfam07690 269482010638 putative substrate translocation pore; other site 269482010639 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3214 269482010640 Protein of unknown function (DUF1006); Region: DUF1006; pfam06224 269482010641 polyhydroxyalkanoate depolymerase, intracellular; Region: PHB_depoly_PhaZ; TIGR01849 269482010642 PHB de-polymerase C-terminus; Region: PHB_depo_C; pfam06850 269482010643 Acetate kinase [Energy production and conversion]; Region: ackA; COG0282 269482010644 propionate/acetate kinase; Provisional; Region: PRK12379 269482010645 phosphate acetyltransferase; Provisional; Region: PRK11890 269482010646 bifunctional enoyl-CoA hydratase/phosphate acetyltransferase; Validated; Region: PRK08190 269482010647 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 269482010648 Helix-turn-helix domain; Region: HTH_38; pfam13936 269482010649 Integrase core domain; Region: rve; pfam00665 269482010650 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 269482010651 core domain interface [polypeptide binding]; other site 269482010652 delta subunit interface [polypeptide binding]; other site 269482010653 epsilon subunit interface [polypeptide binding]; other site 269482010654 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 269482010655 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 269482010656 gamma subunit interface [polypeptide binding]; other site 269482010657 epsilon subunit interface [polypeptide binding]; other site 269482010658 LBP interface [polypeptide binding]; other site 269482010659 Protein of unknown function (DUF1653); Region: DUF1653; pfam07866 269482010660 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 269482010661 Coenzyme A binding pocket [chemical binding]; other site 269482010662 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 269482010663 Domain of unknown function (DUF4142); Region: DUF4142; pfam13628 269482010664 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 269482010665 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 269482010666 DNA-binding transcriptional regulator LysR; Provisional; Region: PRK11013 269482010667 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 269482010668 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 269482010669 dimerization interface [polypeptide binding]; other site 269482010670 diaminopimelate decarboxylase; Provisional; Region: PRK11165 269482010671 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 269482010672 active site 269482010673 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 269482010674 substrate binding site [chemical binding]; other site 269482010675 catalytic residues [active] 269482010676 dimer interface [polypeptide binding]; other site 269482010677 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 269482010678 EamA-like transporter family; Region: EamA; pfam00892 269482010679 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 269482010680 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 269482010681 DNA-binding site [nucleotide binding]; DNA binding site 269482010682 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 269482010683 pyridoxal 5'-phosphate binding site [chemical binding]; other site 269482010684 homodimer interface [polypeptide binding]; other site 269482010685 catalytic residue [active] 269482010686 putative nicotinate phosphoribosyltransferase; Provisional; Region: PRK09198 269482010687 pre-B-cell colony-enhancing factor (PBEF)-like. The mammalian members of this group of nicotinate phosphoribosyltransferases (NAPRTases) were originally identified as genes whose expression is upregulated upon activation in lymphoid cells. In general; Region: PBEF_like; cd01569 269482010688 active site 269482010689 bifunctional nicotinamide mononucleotide adenylyltransferase/ADP-ribose pyrophosphatase; Provisional; Region: PRK05379 269482010690 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 269482010691 active site 269482010692 nucleotide binding site [chemical binding]; other site 269482010693 HIGH motif; other site 269482010694 KMSKS motif; other site 269482010695 ADP-ribose pyrophosphatase [Nucleotide transport and metabolism]; Region: COG1051 269482010696 nudix motif; other site 269482010697 N-acetylmuramoyl-L-alanine amidase or MurNAc-LAA (also known as peptidoglycan aminohydrolase, NAMLA amidase, NAMLAA, Amidase 3, and peptidoglycan amidase; EC 3.5.1.28) is an autolysin that hydrolyzes the amide bond between N-acetylmuramoyl and L-amino...; Region: MurNAc-LAA; cd02696 269482010698 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 269482010699 active site 269482010700 metal binding site [ion binding]; metal-binding site 269482010701 Protein of unknown function (DUF1311); Region: DUF1311; cl01530 269482010702 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 269482010703 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 269482010704 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 269482010705 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 269482010706 non-specific DNA binding site [nucleotide binding]; other site 269482010707 salt bridge; other site 269482010708 sequence-specific DNA binding site [nucleotide binding]; other site 269482010709 Cupin domain; Region: Cupin_2; pfam07883 269482010710 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 269482010711 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 269482010712 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 269482010713 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 269482010714 ATP binding site [chemical binding]; other site 269482010715 Mg2+ binding site [ion binding]; other site 269482010716 G-X-G motif; other site 269482010717 Thioesterase-like superfamily; Region: 4HBT_2; pfam13279 269482010718 active site 2 [active] 269482010719 active site 1 [active] 269482010720 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 269482010721 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 269482010722 active site 269482010723 phosphorylation site [posttranslational modification] 269482010724 intermolecular recognition site; other site 269482010725 dimerization interface [polypeptide binding]; other site 269482010726 2-hydroxy-6-oxo-6-phenylhexa-2,4-dienoate hydrolase; Region: biphenyl_bphD; TIGR03343 269482010727 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 269482010728 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 269482010729 benzoate transport; Region: 2A0115; TIGR00895 269482010730 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 269482010731 putative substrate translocation pore; other site 269482010732 4-hyroxy-2-oxovalerate/4-hydroxy-2-oxopentanoic acid aldolase,; Validated; Region: PRK08195 269482010733 4-hydroxy-2-oxovalerate aldolase, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_HOA; cd07943 269482010734 active site 269482010735 catalytic residues [active] 269482010736 metal binding site [ion binding]; metal-binding site 269482010737 DmpG-like communication domain; Region: DmpG_comm; pfam07836 269482010738 acetaldehyde dehydrogenase; Validated; Region: PRK08300 269482010739 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 269482010740 Prokaryotic acetaldehyde dehydrogenase, dimerisation; Region: AcetDehyd-dimer; pfam09290 269482010741 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 269482010742 3-(2,3-dihydroxyphenyl)propionate dioxygenase; Provisional; Region: mhpB; PRK13370 269482010743 active site 269482010744 metal binding site [ion binding]; metal-binding site 269482010745 FAD binding domain; Region: FAD_binding_3; pfam01494 269482010746 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 269482010747 DNA-binding transcriptional activator MhpR; Provisional; Region: PRK09834 269482010748 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cd00092 269482010749 non-specific DNA interactions [nucleotide binding]; other site 269482010750 DNA binding site [nucleotide binding] 269482010751 sequence specific DNA binding site [nucleotide binding]; other site 269482010752 putative cAMP binding site [chemical binding]; other site 269482010753 sulfur acquisition oxidoreductase, SfnB family; Region: sulfur_SfnB; TIGR04022 269482010754 Dibenzothiophene (DBT) desulfurization enzyme C; Region: DszC; cd01163 269482010755 Flavin binding site [chemical binding]; other site 269482010756 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 269482010757 sulfur acquisition oxidoreductase, SfnB family; Region: sulfur_SfnB; TIGR04022 269482010758 active site 269482010759 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 269482010760 nitrilotriacetate monoxygenase oxidizes nitrilotriacetate utilizing reduced flavin mononucleotide (FMNH2) and oxygen. The FMNH2 is provided by an NADH:flavin mononucleotide (FMN) oxidorductase that uses NADH to reduce FMN to FMNH2; Region: Nitrilotriacetate_monoxgenase; cd01095 269482010761 active site 269482010762 non-prolyl cis peptide bond; other site 269482010763 benzoate transport; Region: 2A0115; TIGR00895 269482010764 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 269482010765 putative substrate translocation pore; other site 269482010766 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 269482010767 Citrate lyase beta subunit [Carbohydrate transport and metabolism]; Region: CitE; COG2301 269482010768 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 269482010769 metabolite-proton symporter; Region: 2A0106; TIGR00883 269482010770 putative substrate translocation pore; other site 269482010771 Uncharacterized conserved protein [Function unknown]; Region: COG3777 269482010772 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 269482010773 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 269482010774 active site 2 [active] 269482010775 active site 1 [active] 269482010776 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 269482010777 CoA-transferase family III; Region: CoA_transf_3; pfam02515 269482010778 Transcriptional regulator [Transcription]; Region: LysR; COG0583 269482010779 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 269482010780 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_1; cd08421 269482010781 putative dimerization interface [polypeptide binding]; other site 269482010782 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 269482010783 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 269482010784 metal binding site [ion binding]; metal-binding site 269482010785 active site 269482010786 I-site; other site 269482010787 copper/silver efflux system outer membrane protein CusC; Provisional; Region: PRK09837 269482010788 Myo-inositol-1-phosphate synthase; Region: NAD_binding_5; cl00554 269482010789 multidrug efflux protein; Reviewed; Region: PRK09579 269482010790 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 269482010791 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 269482010792 HlyD family secretion protein; Region: HlyD_3; pfam13437 269482010793 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 269482010794 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 269482010795 putative substrate translocation pore; other site 269482010796 Thermostable hemolysin; Region: T_hemolysin; pfam12261 269482010797 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 269482010798 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 269482010799 acyl-activating enzyme (AAE) consensus motif; other site 269482010800 AMP binding site [chemical binding]; other site 269482010801 active site 269482010802 CoA binding site [chemical binding]; other site 269482010803 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 269482010804 Taurine catabolism dioxygenase TauD, TfdA family; Region: TauD; pfam02668 269482010805 substrate binding pocket [chemical binding]; other site 269482010806 active site 269482010807 iron coordination sites [ion binding]; other site 269482010808 Transcriptional regulator [Transcription]; Region: LysR; COG0583 269482010809 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 269482010810 The C-terminal substrate binding domain of LysR-type transcriptional regulators that involved in the catabolism of nitroaromatic/naphthalene compounds and that of related regulators; contains the type 2 periplasmic binding fold; Region: PBP2_Nitroaromatics_like; cd08417 269482010811 substrate binding pocket [chemical binding]; other site 269482010812 dimerization interface [polypeptide binding]; other site 269482010813 MarR family; Region: MarR_2; cl17246 269482010814 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 269482010815 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 269482010816 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 269482010817 Flavin Reductases; Region: FlaRed; cl00801 269482010818 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 269482010819 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 269482010820 Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907 269482010821 acyl-activating enzyme (AAE) consensus motif; other site 269482010822 putative AMP binding site [chemical binding]; other site 269482010823 putative active site [active] 269482010824 putative CoA binding site [chemical binding]; other site 269482010825 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 269482010826 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 269482010827 substrate binding site [chemical binding]; other site 269482010828 oxyanion hole (OAH) forming residues; other site 269482010829 trimer interface [polypeptide binding]; other site 269482010830 probable oxidoreductase, LLM family; Region: LLM_2I7G; TIGR03858 269482010831 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 269482010832 Creatinine amidohydrolase; Region: Creatininase; pfam02633 269482010833 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 269482010834 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 269482010835 substrate binding site [chemical binding]; other site 269482010836 oxyanion hole (OAH) forming residues; other site 269482010837 trimer interface [polypeptide binding]; other site 269482010838 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 269482010839 Helix-turn-helix domain; Region: HTH_18; pfam12833 269482010840 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 269482010841 acyl-CoA synthetase; Validated; Region: PRK08162 269482010842 Fatty acyl-CoA synthetases similar to LC-FACS from Thermus thermophiles and Arabidopsis; Region: ttLC_FACS_AEE21_like; cd12118 269482010843 acyl-activating enzyme (AAE) consensus motif; other site 269482010844 putative active site [active] 269482010845 AMP binding site [chemical binding]; other site 269482010846 putative CoA binding site [chemical binding]; other site 269482010847 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II-like protein; Provisional; Region: PRK14019 269482010848 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 269482010849 GTP cyclohydrolase II; Region: GTP_cyclohydro2; pfam00925 269482010850 dimerization interface [polypeptide binding]; other site 269482010851 active site 269482010852 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 269482010853 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 269482010854 putative DNA binding site [nucleotide binding]; other site 269482010855 putative Zn2+ binding site [ion binding]; other site 269482010856 AsnC family; Region: AsnC_trans_reg; pfam01037 269482010857 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 269482010858 E3 interaction surface; other site 269482010859 lipoyl attachment site [posttranslational modification]; other site 269482010860 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06467 269482010861 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 269482010862 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 269482010863 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 269482010864 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 269482010865 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 269482010866 E3 interaction surface; other site 269482010867 lipoyl attachment site [posttranslational modification]; other site 269482010868 e3 binding domain; Region: E3_binding; pfam02817 269482010869 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 269482010870 2-oxoacid dehydrogenase subunit E1; Provisional; Region: PRK13012 269482010871 Thiamine pyrophosphate (TPP) family, E1 of E. coli PDC-like subfamily, TPP-binding module; composed of proteins similar to the E1 component of the Escherichia coli pyruvate dehydrogenase multienzyme complex (PDC). PDC catalyzes the oxidative...; Region: TPP_E1_EcPDC_like; cd02017 269482010872 dimer interface [polypeptide binding]; other site 269482010873 TPP-binding site [chemical binding]; other site 269482010874 Transketolase, pyrimidine binding domain; Region: Transket_pyr; smart00861 269482010875 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 269482010876 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 269482010877 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 269482010878 Probable galacturonosyltransferase; Region: PLN02718 269482010879 benzoate transport; Region: 2A0115; TIGR00895 269482010880 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 269482010881 putative substrate translocation pore; other site 269482010882 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 269482010883 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 269482010884 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 269482010885 trimer interface [polypeptide binding]; other site 269482010886 eyelet of channel; other site 269482010887 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 269482010888 Protein of unknown function (DUF2945); Region: DUF2945; pfam11160 269482010889 Protein of unknown function, DUF488; Region: DUF488; pfam04343 269482010890 hypothetical protein; Provisional; Region: PRK10621 269482010891 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 269482010892 NnrU protein; Region: NnrU; pfam07298 269482010893 TfoX N-terminal domain; Region: TfoX_N; pfam04993 269482010894 putative dehydrogenase; Provisional; Region: PRK10098 269482010895 hypothetical protein; Provisional; Region: PRK07907 269482010896 Uncharacterized M20 Dipeptidases; Region: M20_dipept_like_5; cd05682 269482010897 metal binding site [ion binding]; metal-binding site 269482010898 putative dimer interface [polypeptide binding]; other site 269482010899 arginine:agmatin antiporter; Provisional; Region: PRK10644 269482010900 arginine decarboxylase; Provisional; Region: PRK15029 269482010901 Orn/Lys/Arg decarboxylase, N-terminal domain; Region: OKR_DC_1_N; pfam03709 269482010902 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 269482010903 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 269482010904 catalytic residue [active] 269482010905 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 269482010906 transcriptional activator FtrA; Provisional; Region: ftrA; PRK09393 269482010907 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 269482010908 conserved cys residue [active] 269482010909 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 269482010910 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 269482010911 Member of the Rhodanese Homology Domain superfamily. This CD includes the putative rhodanese-like protein, Psp2, of Yersinia pestis biovar Medievalis and other similar uncharacterized proteins; Region: RHOD_PspE2; cd01521 269482010912 active site residue [active] 269482010913 Superinfection immunity protein; Region: Imm_superinfect; pfam14373 269482010914 Cytochrome P450; Region: p450; cl12078 269482010915 Uncharacterized small protein (DUF2158); Region: DUF2158; pfam09926 269482010916 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 269482010917 Members of the ICL/PEPM enzyme family catalyze either P-C or C-C bond formation/cleavage. Known members are phosphoenolpyruvate mutase (PEPM), phosphonopyruvate hydrolase (PPH), carboxyPEP mutase (CPEP mutase), oxaloacetate hydrolase (OAH), isocitrate...; Region: ICL_PEPM; cd00377 269482010918 tetramer interface [polypeptide binding]; other site 269482010919 active site 269482010920 Mg2+/Mn2+ binding site [ion binding]; other site 269482010921 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 269482010922 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 269482010923 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 269482010924 putative active site [active] 269482010925 Bacterial OB fold (BOF) protein; Region: BOF; cl01196 269482010926 DNA-binding transcriptional regulator BasR; Provisional; Region: PRK10643 269482010927 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 269482010928 active site 269482010929 phosphorylation site [posttranslational modification] 269482010930 intermolecular recognition site; other site 269482010931 dimerization interface [polypeptide binding]; other site 269482010932 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 269482010933 DNA binding site [nucleotide binding] 269482010934 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 269482010935 HAMP domain; Region: HAMP; pfam00672 269482010936 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 269482010937 dimer interface [polypeptide binding]; other site 269482010938 phosphorylation site [posttranslational modification] 269482010939 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 269482010940 ATP binding site [chemical binding]; other site 269482010941 Mg2+ binding site [ion binding]; other site 269482010942 G-X-G motif; other site 269482010943 Protein of unknown function (DUF805); Region: DUF805; cl01224 269482010944 Beta-lactamase enzyme family; Region: Beta-lactamase2; pfam13354 269482010945 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 269482010946 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 269482010947 The C-terminal substrate-binding domain of LysR-type trnascriptional regulator BlaA which involved in control of the beta-lactamase gene expression; contains the type 2 periplasmic binding fold; Region: PBP2_BlaA; cd08487 269482010948 putative dimerization interface [polypeptide binding]; other site 269482010949 putative substrate binding pocket [chemical binding]; other site 269482010950 DnaA N-terminal domain; Region: DnaA_N; pfam11638 269482010951 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 269482010952 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 269482010953 Walker A motif; other site 269482010954 ATP binding site [chemical binding]; other site 269482010955 Walker B motif; other site 269482010956 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl17189 269482010957 arginine finger; other site 269482010958 C-terminal domain of bacterial DnaA proteins. The DNA-binding C-terminal domain of DnaA contains a helix-turn-helix motif that specifically interacts with the DnaA box, a 9-mer motif that occurs repetitively in the replication origin oriC. Multiple...; Region: Bac_DnaA_C; cd06571 269482010959 DnaA box-binding interface [nucleotide binding]; other site 269482010960 DNA polymerase III subunit beta; Validated; Region: PRK05643 269482010961 Beta clamp domain. The beta subunit (processivity factor) of DNA polymerase III holoenzyme, refered to as the beta clamp, forms a ring shaped dimer that encircles dsDNA (sliding clamp) in bacteria. The beta-clamp is structurally similar to the trimeric...; Region: beta_clamp; cd00140 269482010962 putative DNA binding surface [nucleotide binding]; other site 269482010963 dimer interface [polypeptide binding]; other site 269482010964 beta-clamp/clamp loader binding surface; other site 269482010965 beta-clamp/translesion DNA polymerase binding surface; other site 269482010966 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 269482010967 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 269482010968 ATP binding site [chemical binding]; other site 269482010969 Mg2+ binding site [ion binding]; other site 269482010970 G-X-G motif; other site 269482010971 TopoIIA_Trans_DNA_gyrase: Transducer domain, having a ribosomal S5 domain 2-like fold, of the type found in proteins of the type IIA family of DNA topoisomerases similar to the B subunits of E. coli DNA gyrase and E. coli Topoisomerase IV which are; Region: TopoII_Trans_DNA_gyrase; cd00822 269482010972 anchoring element; other site 269482010973 dimer interface [polypeptide binding]; other site 269482010974 ATP binding site [chemical binding]; other site 269482010975 TOPRIM_TopoIIA_GyrB: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in proteins of the type IIA family of DNA topoisomerases similar to the Escherichia coli GyrB subunit. TopoIIA enzymes cut both strands of the...; Region: TOPRIM_TopoIIA_GyrB; cd03366 269482010976 active site 269482010977 putative metal-binding site [ion binding]; other site 269482010978 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 269482010979 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 269482010980 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 269482010981 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 269482010982 ATP binding site [chemical binding]; other site 269482010983 putative Mg++ binding site [ion binding]; other site 269482010984 Domain of unknown function (DUF3387); Region: DUF3387; pfam11867 269482010985 Domain of unknown function (DUF4268); Region: DUF4268; pfam14088 269482010986 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cl17257 269482010987 DNA binding residues [nucleotide binding] 269482010988 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 269482010989 Integrase core domain; Region: rve; pfam00665 269482010990 Integrase core domain; Region: rve_3; cl15866 269482010991 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 269482010992 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 269482010993 IstB-like ATP binding N-terminal; Region: IstB_IS21_ATP; pfam08483 269482010994 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 269482010995 Walker A motif; other site 269482010996 ATP binding site [chemical binding]; other site 269482010997 Walker B motif; other site 269482010998 arginine finger; other site 269482010999 HsdM N-terminal domain; Region: HsdM_N; pfam12161 269482011000 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 269482011001 Methyltransferase domain; Region: Methyltransf_26; pfam13659 269482011002 Transposase; Region: DEDD_Tnp_IS110; pfam01548 269482011003 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 269482011004 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 269482011005 Transposase, Mutator family; Region: Transposase_mut; pfam00872 269482011006 MULE transposase domain; Region: MULE; pfam10551 269482011007 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3415 269482011008 HTH-like domain; Region: HTH_21; pfam13276 269482011009 Integrase core domain; Region: rve; pfam00665 269482011010 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 269482011011 Helix-turn-helix domain; Region: HTH_38; pfam13936 269482011012 Integrase core domain; Region: rve; pfam00665 269482011013 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 269482011014 Catalase-like heme-binding proteins similar to the uncharacterized srpA; Region: srpA_like; cd08153 269482011015 putative heme binding pocket [chemical binding]; other site 269482011016 RNA polymerase sigma factor; Provisional; Region: PRK12511 269482011017 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 269482011018 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 269482011019 DNA binding residues [nucleotide binding] 269482011020 Predicted transmembrane transcriptional regulator (anti-sigma factor) [Transcription]; Region: COG5662 269482011021 RNA polymerase sigma factor SigJ; Provisional; Region: PRK09636 269482011022 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 269482011023 Uncharacterized conserved protein [Function unknown]; Region: COG2128 269482011024 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 269482011025 ergothioneine biosynthesis protein EgtB; Region: egtB_TIGR03440 269482011026 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 269482011027 dimethylhistidine N-methyltransferase; Region: egtD_ergothio; TIGR03438 269482011028 Uncharacterized conserved protein (DUF2260); Region: DUF2260; pfam10017 269482011029 Restriction endonuclease [Defense mechanisms]; Region: COG3587 269482011030 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 269482011031 ATP binding site [chemical binding]; other site 269482011032 putative Mg++ binding site [ion binding]; other site 269482011033 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 269482011034 DNA methylase; Region: N6_N4_Mtase; pfam01555 269482011035 DNA methylase; Region: N6_N4_Mtase; cl17433 269482011036 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 269482011037 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 269482011038 trimer interface [polypeptide binding]; other site 269482011039 eyelet of channel; other site 269482011040 transcriptional regulatory protein TctD; Provisional; Region: PRK15479 269482011041 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 269482011042 active site 269482011043 phosphorylation site [posttranslational modification] 269482011044 intermolecular recognition site; other site 269482011045 dimerization interface [polypeptide binding]; other site 269482011046 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 269482011047 DNA binding site [nucleotide binding] 269482011048 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 269482011049 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 269482011050 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 269482011051 dimer interface [polypeptide binding]; other site 269482011052 phosphorylation site [posttranslational modification] 269482011053 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 269482011054 ATP binding site [chemical binding]; other site 269482011055 Mg2+ binding site [ion binding]; other site 269482011056 G-X-G motif; other site 269482011057 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 269482011058 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 269482011059 dimer interface [polypeptide binding]; other site 269482011060 conserved gate region; other site 269482011061 putative PBP binding loops; other site 269482011062 ABC-ATPase subunit interface; other site 269482011063 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 269482011064 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 269482011065 Walker A/P-loop; other site 269482011066 ATP binding site [chemical binding]; other site 269482011067 Q-loop/lid; other site 269482011068 ABC transporter signature motif; other site 269482011069 Walker B; other site 269482011070 D-loop; other site 269482011071 H-loop/switch region; other site 269482011072 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 269482011073 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cl17432 269482011074 membrane-bound complex binding site; other site 269482011075 hinge residues; other site 269482011076 flagellar biosynthesis protein FliR; Reviewed; Region: fliR; PRK05701 269482011077 flagellar biosynthesis protein FliQ; Validated; Region: fliQ; PRK05700 269482011078 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 269482011079 Flagellar biosynthesis protein, FliO; Region: FliO; pfam04347 269482011080 flagellar motor switch protein; Validated; Region: fliN; PRK05698 269482011081 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 269482011082 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 269482011083 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 269482011084 flagellar basal body-associated protein FliL; Reviewed; Region: fliL; PRK07021 269482011085 Putative effector of murein hydrolase [Cell envelope biogenesis, outer membrane]; Region: LrgB; COG1346 269482011086 LrgA family; Region: LrgA; pfam03788 269482011087 Transcriptional regulator [Transcription]; Region: LysR; COG0583 269482011088 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 269482011089 The C-terminal substrate binding domain of LysR-like transcriptional regulator CidR, contains the type 2 periplasmic binding fold; Region: PBP2_CidR; cd08438 269482011090 putative dimerization interface [polypeptide binding]; other site 269482011091 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 269482011092 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 269482011093 putative substrate translocation pore; other site 269482011094 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 269482011095 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 269482011096 MarR family; Region: MarR_2; cl17246 269482011097 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 269482011098 Type II secretion system (T2SS), protein M; Region: T2SM; pfam04612 269482011099 Type II secretion system (T2SS), protein L; Region: T2SL; pfam05134 269482011100 type II secretion system protein L; Region: typeII_sec_gspL; TIGR01709 269482011101 GspL periplasmic domain; Region: GspL_C; pfam12693 269482011102 Type II secretion system (T2SS), protein K; Region: T2SK; pfam03934 269482011103 type II secretion system protein I; Region: gspI; TIGR01707 269482011104 Type II secretion system (T2SS), protein I; Region: T2SI; pfam02501 269482011105 Type II transport protein GspH; Region: GspH; pfam12019 269482011106 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 269482011107 type II secretion system protein G; Region: typeII_sec_gspG; TIGR01710 269482011108 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 269482011109 Type IV pilus biogenesis; Region: Pilus_PilP; pfam11356 269482011110 type II secretion system protein F; Region: GspF; TIGR02120 269482011111 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 269482011112 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 269482011113 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 269482011114 type II secretion system protein E; Region: type_II_gspE; TIGR02533 269482011115 PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP). It is responsible for the export the majority of Gram-negative bacterial exoenzymes and toxins. PulE is a cytoplasmic protein of the GSP, which...; Region: PulE-GspE; cd01129 269482011116 Walker A motif; other site 269482011117 ATP binding site [chemical binding]; other site 269482011118 Walker B motif; other site 269482011119 type II secretion system protein D; Region: type_II_gspD; TIGR02517 269482011120 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 269482011121 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 269482011122 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 269482011123 pilus (MSHA type) biogenesis protein MshL; Region: pilus_MshL; TIGR02519 269482011124 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 269482011125 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 269482011126 Helix-turn-helix domain; Region: HTH_38; pfam13936 269482011127 Integrase core domain; Region: rve; pfam00665 269482011128 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 269482011129 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 269482011130 N-acetyl-D-glucosamine binding site [chemical binding]; other site 269482011131 catalytic residue [active] 269482011132 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 269482011133 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 269482011134 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; smart00833 269482011135 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cd00591 269482011136 IHF dimer interface [polypeptide binding]; other site 269482011137 IHF - DNA interface [nucleotide binding]; other site 269482011138 bifunctional tRNA (mnm(5)s(2)U34)-methyltransferase/FAD-dependent cmnm(5)s(2)U34 oxidoreductase; Reviewed; Region: mnmC; PRK01747 269482011139 Uncharacterized conserved protein [Function unknown]; Region: COG4121 269482011140 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 269482011141 gamma-glutamyl:cysteine ligase; Provisional; Region: PRK13516 269482011142 carboxylate-amine ligase, YbdK family; Region: gshA_cyan_rel; TIGR02050 269482011143 Transcriptional regulators [Transcription]; Region: MarR; COG1846 269482011144 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 269482011145 putative DNA binding site [nucleotide binding]; other site 269482011146 putative Zn2+ binding site [ion binding]; other site 269482011147 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 269482011148 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 269482011149 catalytic triad [active] 269482011150 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 269482011151 Old yellow enzyme (OYE) YqjM-like FMN binding domain. YqjM is involved in the oxidative stress response of Bacillus subtilis. Like the other OYE members, each monomer of YqjM contains FMN as a non-covalently bound cofactor and uses NADPH as a reducing...; Region: OYE_YqiM_FMN; cd02932 269482011152 active site 269482011153 FMN binding site [chemical binding]; other site 269482011154 substrate binding site [chemical binding]; other site 269482011155 homotetramer interface [polypeptide binding]; other site 269482011156 catalytic residue [active] 269482011157 Proteins containing SET domain [General function prediction only]; Region: COG2940 269482011158 SET domain; Region: SET; pfam00856 269482011159 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 269482011160 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 269482011161 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 269482011162 dimer interface [polypeptide binding]; other site 269482011163 phosphorylation site [posttranslational modification] 269482011164 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 269482011165 ATP binding site [chemical binding]; other site 269482011166 Mg2+ binding site [ion binding]; other site 269482011167 G-X-G motif; other site 269482011168 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 269482011169 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 269482011170 active site 269482011171 phosphorylation site [posttranslational modification] 269482011172 intermolecular recognition site; other site 269482011173 dimerization interface [polypeptide binding]; other site 269482011174 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 269482011175 DNA binding site [nucleotide binding] 269482011176 Protein of unknown function (DUF3717); Region: DUF3717; pfam12512 269482011177 PCD_DCoH: The bifunctional protein pterin-4alpha-carbinolamine dehydratase (PCD), also known as DCoH (dimerization cofactor of hepatocyte nuclear factor-1), is both a transcription activator and a metabolic enzyme. DCoH stimulates gene expression by...; Region: PCD_DCoH_subfamily_b; cd00914 269482011178 aromatic arch; other site 269482011179 DCoH dimer interaction site [polypeptide binding]; other site 269482011180 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 269482011181 DCoH tetramer interaction site [polypeptide binding]; other site 269482011182 substrate binding site [chemical binding]; other site 269482011183 Prokaryotic phenylalanine-4-hydroxylase (pro_PheOH); a member of the biopterin-dependent aromatic amino acid hydroxylase family of non-heme, iron(II)-dependent enzymes that also includes the eukaryotic proteins, phenylalanine-4-hydroxylase (eu_PheOH); Region: pro_PheOH; cd03348 269482011184 cofactor binding site; other site 269482011185 metal binding site [ion binding]; metal-binding site 269482011186 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 269482011187 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 269482011188 putative DNA binding site [nucleotide binding]; other site 269482011189 putative Zn2+ binding site [ion binding]; other site 269482011190 AsnC family; Region: AsnC_trans_reg; pfam01037 269482011191 Adenylyl cyclase (AC) class IV-like, a subgroup of the CYTH-like superfamily; Region: CYTH-like_AC_IV-like; cd07890 269482011192 putative active site [active] 269482011193 putative metal binding residues [ion binding]; other site 269482011194 signature motif; other site 269482011195 putative triphosphate binding site [ion binding]; other site 269482011196 dimer interface [polypeptide binding]; other site 269482011197 Transcriptional regulator [Transcription]; Region: LysR; COG0583 269482011198 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 269482011199 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 269482011200 dimerization interface [polypeptide binding]; other site 269482011201 choline dehydrogenase; Validated; Region: PRK02106 269482011202 lycopene cyclase; Region: lycopene_cycl; TIGR01789 269482011203 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 269482011204 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 269482011205 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 269482011206 Walker A/P-loop; other site 269482011207 ATP binding site [chemical binding]; other site 269482011208 Q-loop/lid; other site 269482011209 ABC transporter signature motif; other site 269482011210 Walker B; other site 269482011211 D-loop; other site 269482011212 H-loop/switch region; other site 269482011213 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 269482011214 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 269482011215 Walker A/P-loop; other site 269482011216 ATP binding site [chemical binding]; other site 269482011217 Q-loop/lid; other site 269482011218 ABC transporter signature motif; other site 269482011219 Walker B; other site 269482011220 D-loop; other site 269482011221 H-loop/switch region; other site 269482011222 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 269482011223 Periplasmic solute-binding domain of active transport proteins that belong to the type I periplasmic binding fold protein family; Region: PBP1_SBP_like_1; cd06327 269482011224 putative ligand binding site [chemical binding]; other site 269482011225 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 269482011226 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 269482011227 TM-ABC transporter signature motif; other site 269482011228 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 269482011229 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 269482011230 TM-ABC transporter signature motif; other site 269482011231 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 269482011232 Type I periplasmic binding component of ABC (ATPase Binding Cassette)-type transport systems that are predicted to be involved in uptake of amino acids; Region: PBP1_ABC-type_HAAT_like; cd06333 269482011233 putative ligand binding site [chemical binding]; other site 269482011234 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 269482011235 TM-ABC transporter signature motif; other site 269482011236 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 269482011237 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 269482011238 TM-ABC transporter signature motif; other site 269482011239 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 269482011240 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 269482011241 Walker A/P-loop; other site 269482011242 ATP binding site [chemical binding]; other site 269482011243 Q-loop/lid; other site 269482011244 ABC transporter signature motif; other site 269482011245 Walker B; other site 269482011246 D-loop; other site 269482011247 H-loop/switch region; other site 269482011248 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 269482011249 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 269482011250 Walker A/P-loop; other site 269482011251 ATP binding site [chemical binding]; other site 269482011252 Q-loop/lid; other site 269482011253 ABC transporter signature motif; other site 269482011254 Walker B; other site 269482011255 D-loop; other site 269482011256 H-loop/switch region; other site 269482011257 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 269482011258 tRNA:m(5)U-54 methyltransferase; Region: gid_trmFO; TIGR00137 269482011259 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 269482011260 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 269482011261 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 269482011262 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 269482011263 S-adenosylmethionine binding site [chemical binding]; other site 269482011264 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 269482011265 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 269482011266 P-loop; other site 269482011267 Magnesium ion binding site [ion binding]; other site 269482011268 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 269482011269 Magnesium ion binding site [ion binding]; other site 269482011270 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 269482011271 ParB-like nuclease domain; Region: ParBc; pfam02195 269482011272 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 269482011273 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 269482011274 transmembrane helices; other site 269482011275 ATP synthase I chain; Region: ATP_synt_I; pfam03899 269482011276 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 269482011277 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 269482011278 F0F1 ATP synthase subunit C; Validated; Region: PRK06876 269482011279 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 269482011280 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 269482011281 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 269482011282 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 269482011283 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 269482011284 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 269482011285 F1 ATP synthase alpha, central domain. The F-ATPase is found in bacterial plasma membranes, mitochondrial inner membranes and in chloroplast thylakoid membranes. It has also been found in the archaea Methanosarcina barkeri. It uses a proton gradient to...; Region: F1_ATPase_alpha; cd01132 269482011286 beta subunit interaction interface [polypeptide binding]; other site 269482011287 Walker A motif; other site 269482011288 ATP binding site [chemical binding]; other site 269482011289 Walker B motif; other site 269482011290 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 269482011291 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 269482011292 core domain interface [polypeptide binding]; other site 269482011293 delta subunit interface [polypeptide binding]; other site 269482011294 epsilon subunit interface [polypeptide binding]; other site 269482011295 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 269482011296 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 269482011297 F1 ATP synthase beta subunit, nucleotide-binding domain. The F-ATPase is found in bacterial plasma membranes, mitochondrial inner membranes and in chloroplast thylakoid membranes. It has also been found in the archaea Methanosarcina barkeri. It uses a...; Region: F1-ATPase_beta; cd01133 269482011298 alpha subunit interaction interface [polypeptide binding]; other site 269482011299 Walker A motif; other site 269482011300 ATP binding site [chemical binding]; other site 269482011301 Walker B motif; other site 269482011302 inhibitor binding site; inhibition site 269482011303 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 269482011304 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 269482011305 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 269482011306 gamma subunit interface [polypeptide binding]; other site 269482011307 epsilon subunit interface [polypeptide binding]; other site 269482011308 LBP interface [polypeptide binding]; other site 269482011309 AMP-binding domain protein; Validated; Region: PRK08315 269482011310 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 269482011311 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_2; cd05917 269482011312 acyl-activating enzyme (AAE) consensus motif; other site 269482011313 putative AMP binding site [chemical binding]; other site 269482011314 putative active site [active] 269482011315 putative CoA binding site [chemical binding]; other site 269482011316 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 269482011317 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 269482011318 substrate binding pocket [chemical binding]; other site 269482011319 membrane-bound complex binding site; other site 269482011320 hinge residues; other site 269482011321 Uroporphyrinogen decarboxylase (URO-D) is a dimeric cytosolic enzyme that decarboxylates the four acetate side chains of uroporphyrinogen III (uro-III) to create coproporphyrinogen III, without requiring any prosthetic groups or cofactors. This reaction...; Region: URO-D; cd00717 269482011322 substrate binding site [chemical binding]; other site 269482011323 active site 269482011324 Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]; Region: PriA; COG1198 269482011325 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 269482011326 ATP binding site [chemical binding]; other site 269482011327 putative Mg++ binding site [ion binding]; other site 269482011328 helicase superfamily c-terminal domain; Region: HELICc; smart00490 269482011329 nucleotide binding region [chemical binding]; other site 269482011330 ATP-binding site [chemical binding]; other site 269482011331 trifunctional transcriptional regulator/proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: putA; PRK11809 269482011332 Predicted transcriptional regulator [Transcription]; Region: COG3905 269482011333 Proline dehydrogenase [Amino acid transport and metabolism]; Region: PutA; COG0506 269482011334 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 269482011335 Glutamate binding site [chemical binding]; other site 269482011336 NAD binding site [chemical binding]; other site 269482011337 catalytic residues [active] 269482011338 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 269482011339 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 269482011340 Type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine); Region: PBP1_ABC_LIVBP_like; cd06342 269482011341 dimerization interface [polypeptide binding]; other site 269482011342 ligand binding site [chemical binding]; other site 269482011343 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 269482011344 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 269482011345 active site 269482011346 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 269482011347 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 269482011348 putative aminotransferase; Provisional; Region: PRK12414 269482011349 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 269482011350 pyridoxal 5'-phosphate binding site [chemical binding]; other site 269482011351 homodimer interface [polypeptide binding]; other site 269482011352 catalytic residue [active] 269482011353 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 269482011354 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 269482011355 substrate binding pocket [chemical binding]; other site 269482011356 membrane-bound complex binding site; other site 269482011357 hinge residues; other site 269482011358 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 269482011359 FAD binding domain; Region: FAD_binding_4; pfam01565 269482011360 Predicted transcriptional regulators [Transcription]; Region: COG1695 269482011361 Transcriptional regulator PadR-like family; Region: PadR; cl17335 269482011362 Cd(II)/Pb(II)-responsive transcriptional regulator; Region: CadR-PbrR; TIGR02047 269482011363 Helix-Turn-Helix DNA binding domain of the CadR and PbrR transcription regulators; Region: HTH_CadR-PbrR; cd04784 269482011364 DNA binding residues [nucleotide binding] 269482011365 dimer interface [polypeptide binding]; other site 269482011366 putative metal binding site [ion binding]; other site 269482011367 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 269482011368 Heavy-metal-associated domain; Region: HMA; pfam00403 269482011369 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 269482011370 Soluble P-type ATPase [General function prediction only]; Region: COG4087 269482011371 Double zinc ribbon; Region: DZR; pfam12773 269482011372 Conserved TM helix; Region: TM_helix; pfam05552 269482011373 ethanolamine permease; Region: 2A0305; TIGR00908 269482011374 hypothetical protein; Provisional; Region: PHA02764 269482011375 ethanolamine ammonia lyase large subunit; Provisional; Region: PRK15067 269482011376 Ethanolamine ammonia lyase large subunit (EutB); Region: EutB; pfam06751 269482011377 ethanolamine ammonia-lyase small subunit; Provisional; Region: PRK05465 269482011378 Transcriptional regulator [Transcription]; Region: LysR; COG0583 269482011379 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 269482011380 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_7; cd08476 269482011381 putative effector binding pocket; other site 269482011382 putative dimerization interface [polypeptide binding]; other site 269482011383 Major Facilitator Superfamily; Region: MFS_1; pfam07690 269482011384 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 269482011385 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 269482011386 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 269482011387 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 269482011388 NAD(P) binding site [chemical binding]; other site 269482011389 catalytic residues [active] 269482011390 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 269482011391 Helix-turn-helix domain; Region: HTH_18; pfam12833 269482011392 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 269482011393 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 269482011394 thiamine pyrophosphate protein; Validated; Region: PRK08199 269482011395 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 269482011396 PYR/PP interface [polypeptide binding]; other site 269482011397 dimer interface [polypeptide binding]; other site 269482011398 TPP binding site [chemical binding]; other site 269482011399 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 269482011400 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cd00568 269482011401 TPP-binding site [chemical binding]; other site 269482011402 Virulence-associated protein and related proteins [Function unknown]; Region: VagC; COG4456 269482011403 PIN domain of ribonucleases (toxins), VapC and FitB, of prokaryotic toxin/antitoxin operons, Pyrococcus horikoshii protein PH0500, and other similar bacterial and archaeal homologs; Region: PIN_VapC-FitB; cd09881 269482011404 oligomeric interface; other site 269482011405 putative active site [active] 269482011406 homodimer interface [polypeptide binding]; other site 269482011407 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 269482011408 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 269482011409 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 269482011410 Alginate lyase; Region: Alginate_lyase; pfam05426 269482011411 glycine dehydrogenase; Provisional; Region: PRK05367 269482011412 Glycine cleavage system P-protein, alpha- and beta-subunits. This family consists of Glycine cleavage system P-proteins EC:1.4.4.2 from bacterial, mammalian and plant sources. The P protein is part of the glycine decarboxylase multienzyme complex EC:2.1; Region: GDC-P; cd00613 269482011413 tetramer interface [polypeptide binding]; other site 269482011414 pyridoxal 5'-phosphate binding site [chemical binding]; other site 269482011415 catalytic residue [active] 269482011416 Glycine cleavage system P-protein, alpha- and beta-subunits. This family consists of Glycine cleavage system P-proteins EC:1.4.4.2 from bacterial, mammalian and plant sources. The P protein is part of the glycine decarboxylase multienzyme complex EC:2.1; Region: GDC-P; cd00613 269482011417 tetramer interface [polypeptide binding]; other site 269482011418 pyridoxal 5'-phosphate binding site [chemical binding]; other site 269482011419 catalytic residue [active] 269482011420 Glycine cleavage H-protein. Glycine cleavage H-proteins are part of the glycine cleavage system (GCS) found in bacteria, archea and the mitochondria of eukaryotes. GCS is a multienzyme complex consisting of 4 different components (P-, H-, T- and...; Region: GCS_H; cd06848 269482011421 lipoyl attachment site [posttranslational modification]; other site 269482011422 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 269482011423 POPLD (NUC188) domain; Region: POPLD; pfam08170 269482011424 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 269482011425 putative oxidoreductase; Provisional; Region: PRK11579 269482011426 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 269482011427 SGNH_hydrolase subfamily, FeeA, FeeB and similar esterases/lipases. FeeA and FeeB are part of a biosynthetic gene cluster and may participate in the biosynthesis of long-chain N-acyltyrosines by providing saturated and unsaturated fatty acids, which it...; Region: FeeA_FeeB_like; cd01836 269482011428 active site 269482011429 catalytic triad [active] 269482011430 oxyanion hole [active] 269482011431 ATP-dependent DNA helicase Rep; Region: rep; TIGR01074 269482011432 Part of AAA domain; Region: AAA_19; pfam13245 269482011433 Family description; Region: UvrD_C_2; pfam13538 269482011434 Cytochrome c5 [Energy production and conversion]; Region: CycB; COG3245 269482011435 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 269482011436 Cytochrome c5 [Energy production and conversion]; Region: CycB; COG3245 269482011437 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 269482011438 TniQ; Region: TniQ; pfam06527 269482011439 AAA domain; Region: AAA_22; pfam13401 269482011440 TnsA endonuclease N terminal; Region: Tn7_Tnp_TnsA_N; pfam08722 269482011441 TnsA endonuclease C terminal; Region: Tn7_Tnp_TnsA_C; pfam08721 269482011442 Integrase core domain; Region: rve; pfam00665 269482011443 Helix-turn-helix domain; Region: HTH_17; cl17695 269482011444 Regulators of stationary/sporulation gene expression [Transcription]; Region: AbrB; COG2002 269482011445 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 269482011446 Prokaryotic homologs of the JAB domain; Region: Prok-JAB; pfam14464 269482011447 Domain of unknown function (DUF1893); Region: TM1506; pfam08973 269482011448 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 2 [Coenzyme metabolism]; Region: ThiF; COG0476 269482011449 Superfamily of activating enzymes (E1) of the ubiquitin-like proteins. This family includes classical ubiquitin-activating enzymes E1, ubiquitin-like (ubl) activating enzymes and other mechanistic homologes, like MoeB, Thif1 and others. The common...; Region: E1_enzyme_family; cd01483 269482011450 ATP binding site [chemical binding]; other site 269482011451 substrate interface [chemical binding]; other site 269482011452 Bacterial multiubiquitin; Region: Bac_multiUb; pfam14452 269482011453 Prokaryotic E2 family E; Region: Prok-E2_E; pfam14462 269482011454 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 269482011455 salt bridge; other site 269482011456 non-specific DNA binding site [nucleotide binding]; other site 269482011457 sequence-specific DNA binding site [nucleotide binding]; other site 269482011458 ABC transporter substrate binding protein; Region: ABC_sub_bind; cl17301 269482011459 Domain of unknown function (DUF955); Region: DUF955; pfam06114 269482011460 Eco57I restriction-modification methylase; Region: Eco57I; pfam07669 269482011461 BsuBI/PstI restriction endonuclease C-terminus; Region: BsuBI_PstI_RE; pfam06616 269482011462 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 269482011463 PLD-like domain; Region: PLDc_2; pfam13091 269482011464 Catalytic domain of type II restriction endonucleases BfiI and NgoFVII, and uncharacterized proteins with a DEAD domain; Region: PLDc_Bfil_DEXD_like; cd09117 269482011465 homodimer interface [polypeptide binding]; other site 269482011466 putative active site [active] 269482011467 putative active site [active] 269482011468 catalytic site [active] 269482011469 catalytic site [active] 269482011470 Putative catalytic domain of uncharacterized hypothetical proteins with one or two copies of the HKD motif; Region: PLDc_unchar6; cd09176 269482011471 putative homodimer interface [polypeptide binding]; other site 269482011472 putative active site [active] 269482011473 catalytic site [active] 269482011474 Domain of unknown function (DUF955); Region: DUF955; pfam06114 269482011475 DNA primase domain-containing protein; Region: PHA02415 269482011476 Phage head completion protein (GPL); Region: Phage_GPL; pfam05926 269482011477 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 269482011478 Integrase core domain; Region: rve; pfam00665 269482011479 Transposase; Region: DEDD_Tnp_IS110; pfam01548 269482011480 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 269482011481 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 269482011482 transposase/IS protein; Provisional; Region: PRK09183 269482011483 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 269482011484 Walker A motif; other site 269482011485 ATP binding site [chemical binding]; other site 269482011486 Walker B motif; other site 269482011487 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 269482011488 DNA-binding interface [nucleotide binding]; DNA binding site 269482011489 Flagellar protein FliT; Region: FliT; pfam05400 269482011490 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 269482011491 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 269482011492 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 269482011493 Transposase; Region: DEDD_Tnp_IS110; pfam01548 269482011494 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 269482011495 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 269482011496 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 269482011497 nucleotide binding site [chemical binding]; other site 269482011498 putative hydrolase; Provisional; Region: PRK10976 269482011499 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 269482011500 active site 269482011501 motif I; other site 269482011502 motif II; other site 269482011503 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 269482011504 Major intrinsic protein (MIP) superfamily. Members of the MIP superfamily function as membrane channels that selectively transport water, small neutral molecules, and ions out of and between cells. The channel proteins share a common fold: the N-terminal...; Region: MIP; cd00333 269482011505 amphipathic channel; other site 269482011506 Asn-Pro-Ala signature motifs; other site 269482011507 H-NS histone family; Region: Histone_HNS; pfam00816 269482011508 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 269482011509 This family is most closely related to the GT1 family of glycosyltransferases. aviGT4 in Streptomyces viridochromogenes has been shown to be involved in biosynthesis of oligosaccharide antibiotic avilamycin A. Inactivation of aviGT4 resulted in a mutant...; Region: GT1_AviGT4_like; cd03802 269482011510 putative ADP-binding pocket [chemical binding]; other site 269482011511 Winged helix-turn helix; Region: HTH_29; pfam13551 269482011512 Homeodomain-like domain; Region: HTH_32; pfam13565 269482011513 Winged helix-turn helix; Region: HTH_33; pfam13592 269482011514 DDE superfamily endonuclease; Region: DDE_3; pfam13358 269482011515 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 269482011516 transcriptional activator FlhD; Provisional; Region: PRK02909 269482011517 transcriptional activator FlhC; Provisional; Region: PRK12722 269482011518 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 269482011519 flagellar motor protein MotA; Validated; Region: PRK09110 269482011520 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 269482011521 Flagellar motor protein [Cell motility and secretion]; Region: MotB; COG1360 269482011522 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 269482011523 ligand binding site [chemical binding]; other site 269482011524 Response regulator receiver domain; Region: Response_reg; pfam00072 269482011525 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 269482011526 active site 269482011527 phosphorylation site [posttranslational modification] 269482011528 intermolecular recognition site; other site 269482011529 dimerization interface [polypeptide binding]; other site 269482011530 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cd00088 269482011531 putative binding surface; other site 269482011532 active site 269482011533 CheY binding; Region: CheY-binding; pfam09078 269482011534 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 269482011535 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 269482011536 ATP binding site [chemical binding]; other site 269482011537 Mg2+ binding site [ion binding]; other site 269482011538 G-X-G motif; other site 269482011539 CheA regulatory domain; CheA is a histidine protein kinase present in bacteria and archea. Activated by the chemotaxis receptor a histidine phosphoryl group from CheA is passed directly to an aspartate in the response regulator CheY. This signalling...; Region: CheA_reg; cd00731 269482011540 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cl00256 269482011541 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cd00181 269482011542 dimer interface [polypeptide binding]; other site 269482011543 ligand binding site [chemical binding]; other site 269482011544 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 269482011545 dimerization interface [polypeptide binding]; other site 269482011546 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 269482011547 dimer interface [polypeptide binding]; other site 269482011548 putative CheW interface [polypeptide binding]; other site 269482011549 chemotaxis methyltransferase CheR; Provisional; Region: PRK10611 269482011550 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 269482011551 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 269482011552 chemoreceptor glutamine deamidase CheD; Provisional; Region: PRK13489 269482011553 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 269482011554 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 269482011555 active site 269482011556 phosphorylation site [posttranslational modification] 269482011557 intermolecular recognition site; other site 269482011558 dimerization interface [polypeptide binding]; other site 269482011559 CheB methylesterase; Region: CheB_methylest; pfam01339 269482011560 chemotaxis regulatory protein CheY; Provisional; Region: PRK10610 269482011561 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 269482011562 active site 269482011563 phosphorylation site [posttranslational modification] 269482011564 intermolecular recognition site; other site 269482011565 dimerization interface [polypeptide binding]; other site 269482011566 chemotaxis regulator CheZ; Provisional; Region: PRK11166 269482011567 Protein of unknown function (DUF2844); Region: DUF2844; pfam11005 269482011568 Protein of unknown function (DUF3443); Region: DUF3443; pfam11925 269482011569 Escherichia coli PhnB and similar proteins; the E. coli phnB gene is found next to an operon involved in the cleavage of carbon-phosphorus bonds in unactivated alkylphosphonates; Region: PhnB_like; cd06588 269482011570 dimer interface [polypeptide binding]; other site 269482011571 Protein of unknown function (DUF805); Region: DUF805; pfam05656 269482011572 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 269482011573 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 269482011574 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 269482011575 FHIPEP family; Region: FHIPEP; pfam00771 269482011576 flagellar biosynthesis regulator FlhF; Provisional; Region: flhF; PRK14722 269482011577 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 269482011578 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 269482011579 flagellar biosynthesis sigma factor; Validated; Region: fliA; PRK06986 269482011580 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 269482011581 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 269482011582 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 269482011583 DNA binding residues [nucleotide binding] 269482011584 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 269482011585 S-Adenosylhomocysteine Hydrolase, NAD-binding and catalytic domains; Region: SAHH; cd00401 269482011586 homotetramer interface [polypeptide binding]; other site 269482011587 ligand binding site [chemical binding]; other site 269482011588 catalytic site [active] 269482011589 NAD binding site [chemical binding]; other site 269482011590 Predicted membrane protein [Function unknown]; Region: COG1950 269482011591 Methylenetetrahydrofolate reductase (MTHFR). 5,10-Methylenetetrahydrofolate is reduced to 5-methyltetrahydrofolate by methylenetetrahydrofolate reductase, a cytoplasmic, NAD(P)-dependent enzyme. 5-methyltetrahydrofolate is utilized by methionine synthase...; Region: MTHFR; cd00537 269482011592 FAD binding site [chemical binding]; other site 269482011593 amidase; Provisional; Region: PRK07869 269482011594 Amidase; Region: Amidase; cl11426 269482011595 Dienelactone hydrolase family; Region: DLH; pfam01738 269482011596 Nitronate monooxygenase; Region: NMO; pfam03060 269482011597 2-Nitropropane dioxygenase (NPD), one of the nitroalkane oxidizing enzyme families, catalyzes oxidative denitrification of nitroalkanes to their corresponding carbonyl compounds and nitrites. NDP is a member of the NAD(P)H-dependent flavin oxidoreductase...; Region: NPD_like; cd04730 269482011598 FMN binding site [chemical binding]; other site 269482011599 substrate binding site [chemical binding]; other site 269482011600 putative catalytic residue [active] 269482011601 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 269482011602 Type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine); Region: PBP1_ABC_LIVBP_like; cd06342 269482011603 dimerization interface [polypeptide binding]; other site 269482011604 ligand binding site [chemical binding]; other site 269482011605 Pyridoxamine 5'-phosphate oxidase; Region: Pyrid_oxidase_2; pfam13883 269482011606 H-NS histone family; Region: Histone_HNS; pfam00816 269482011607 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 269482011608 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 269482011609 Cation efflux family; Region: Cation_efflux; pfam01545 269482011610 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 269482011611 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 269482011612 putative DNA binding site [nucleotide binding]; other site 269482011613 putative Zn2+ binding site [ion binding]; other site 269482011614 AsnC family; Region: AsnC_trans_reg; pfam01037 269482011615 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 269482011616 active site 269482011617 substrate binding site [chemical binding]; other site 269482011618 catalytic site [active] 269482011619 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 269482011620 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 269482011621 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 269482011622 Predicted methyltransferases [General function prediction only]; Region: COG0313 269482011623 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 269482011624 putative SAM binding site [chemical binding]; other site 269482011625 putative homodimer interface [polypeptide binding]; other site 269482011626 hypothetical protein; Provisional; Region: PRK14673 269482011627 Phosphoheptose isomerase is a member of the SIS (Sugar ISomerase) superfamily. Phosphoheptose isomerase catalyzes the isomerization of sedoheptulose 7-phosphate into D-glycero-D-mannoheptose 7-phosphate. This is the first step of the biosynthesis of...; Region: SIS_GmhA; cd05006 269482011628 active site 269482011629 dimer interface [polypeptide binding]; other site 269482011630 outer membrane lipoprotein; Provisional; Region: PRK11023 269482011631 BON domain; Region: BON; pfam04972 269482011632 bacterial OsmY and nodulation domain; Region: BON; smart00749 269482011633 Cytochrome c; Region: Cytochrom_C; cl11414 269482011634 TrfA protein; Region: TrfA; pfam07042 269482011635 Transposase, Mutator family; Region: Transposase_mut; pfam00872 269482011636 MULE transposase domain; Region: MULE; pfam10551 269482011637 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 269482011638 Helix-turn-helix domain; Region: HTH_38; pfam13936 269482011639 Integrase core domain; Region: rve; pfam00665 269482011640 putative transposase OrfB; Reviewed; Region: PHA02517 269482011641 HTH-like domain; Region: HTH_21; pfam13276 269482011642 Integrase core domain; Region: rve; pfam00665 269482011643 Integrase core domain; Region: rve_3; pfam13683 269482011644 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 269482011645 DNA-binding interface [nucleotide binding]; DNA binding site 269482011646 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 269482011647 Helix-turn-helix domain; Region: HTH_38; pfam13936 269482011648 Integrase core domain; Region: rve; pfam00665 269482011649 deoxyguanosinetriphosphate triphosphohydrolase; Provisional; Region: dgt; PRK04926 269482011650 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 269482011651 Zn2+ binding site [ion binding]; other site 269482011652 Mg2+ binding site [ion binding]; other site 269482011653 ATP binding site [chemical binding]; other site 269482011654 ThiF family; Region: ThiF; pfam00899 269482011655 MarR family; Region: MarR_2; pfam12802 269482011656 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 269482011657 multiple promoter invertase; Provisional; Region: mpi; PRK13413 269482011658 catalytic residues [active] 269482011659 catalytic nucleophile [active] 269482011660 Presynaptic Site I dimer interface [polypeptide binding]; other site 269482011661 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 269482011662 Synaptic Flat tetramer interface [polypeptide binding]; other site 269482011663 Synaptic Site I dimer interface [polypeptide binding]; other site 269482011664 DNA binding site [nucleotide binding] 269482011665 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 269482011666 DNA-binding interface [nucleotide binding]; DNA binding site 269482011667 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 269482011668 DEAD-like helicases superfamily; Region: DEXDc; smart00487 269482011669 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 269482011670 ATP binding site [chemical binding]; other site 269482011671 DNA phosphorothioation system restriction enzyme; Region: dnd_restrict_1; TIGR04095 269482011672 putative Mg++ binding site [ion binding]; other site 269482011673 EcoEI R protein C-terminal; Region: EcoEI_R_C; pfam08463 269482011674 Transposase, Mutator family; Region: Transposase_mut; pfam00872 269482011675 MULE transposase domain; Region: MULE; pfam10551 269482011676 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 269482011677 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 269482011678 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 269482011679 active site 269482011680 DNA binding site [nucleotide binding] 269482011681 Int/Topo IB signature motif; other site 269482011682 glucarate dehydratase; Region: glucar-dehydr; TIGR03247 269482011683 Enolase-superfamily, characterized by the presence of an enolate anion intermediate which is generated by abstraction of the alpha-proton of the carboxylate substrate by an active site residue and is stabilized by coordination to the essential Mg2+ ion; Region: enolase_like; cl17188 269482011684 metal binding site [ion binding]; metal-binding site 269482011685 substrate binding pocket [chemical binding]; other site 269482011686 D-galactonate transporter; Region: 2A0114; TIGR00893 269482011687 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 269482011688 putative substrate translocation pore; other site 269482011689 Uncharacterized protein conserved in bacteria (DUF2239); Region: DUF2239; pfam09998 269482011690 Lignostilbene-alpha,beta-dioxygenase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3670 269482011691 Retinal pigment epithelial membrane protein; Region: RPE65; pfam03055 269482011692 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 269482011693 FtsX-like permease family; Region: FtsX; pfam02687 269482011694 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 269482011695 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 269482011696 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 269482011697 Walker A/P-loop; other site 269482011698 ATP binding site [chemical binding]; other site 269482011699 Q-loop/lid; other site 269482011700 ABC transporter signature motif; other site 269482011701 Walker B; other site 269482011702 D-loop; other site 269482011703 H-loop/switch region; other site 269482011704 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 269482011705 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 269482011706 HlyD family secretion protein; Region: HlyD_3; pfam13437 269482011707 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 269482011708 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 269482011709 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 269482011710 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 269482011711 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 269482011712 Transcriptional regulator [Transcription]; Region: LysR; COG0583 269482011713 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 269482011714 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 269482011715 dimerization interface [polypeptide binding]; other site 269482011716 Outer membrane protein W [Cell envelope biogenesis, outer membrane]; Region: OmpW; COG3047 269482011717 Protein of unknown function (DUF2957); Region: DUF2957; pfam11170 269482011718 Protein of unknown function (DUF2957); Region: DUF2957; pfam11170 269482011719 N-acetyl-gamma-glutamyl-phosphate reductase; Provisional; Region: PRK11863 269482011720 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 269482011721 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 269482011722 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 269482011723 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 269482011724 substrate binding site [chemical binding]; other site 269482011725 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 269482011726 active site 269482011727 bifunctional malic enzyme oxidoreductase/phosphotransacetylase; Reviewed; Region: PRK07232 269482011728 Malic enzyme, N-terminal domain; Region: malic; pfam00390 269482011729 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 269482011730 putative NAD(P) binding site [chemical binding]; other site 269482011731 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 269482011732 indolepyruvate ferredoxin oxidoreductase; Validated; Region: PRK09193 269482011733 Pyrimidine (PYR) binding domain of pyruvate ferredoxin oxidoreductase (PFOR), indolepyruvate ferredoxin oxidoreductase alpha subunit (IOR-alpha), and related proteins; Region: TPP_PYR_PFOR_IOR-alpha_like; cd07034 269482011734 dimer interface [polypeptide binding]; other site 269482011735 PYR/PP interface [polypeptide binding]; other site 269482011736 TPP binding site [chemical binding]; other site 269482011737 substrate binding site [chemical binding]; other site 269482011738 Thiamine pyrophosphate (TPP) family, IOR-alpha subfamily, TPP-binding module; composed of proteins similar to indolepyruvate ferredoxin oxidoreductase (IOR) alpha subunit. IOR catalyzes the oxidative decarboxylation of arylpyruvates, such as...; Region: TPP_IOR_alpha; cd02008 269482011739 TPP-binding site; other site 269482011740 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 269482011741 4-hydroxyphenylpyruvate dioxygenase and related hemolysins [Amino acid transport and metabolism / General function prediction only]; Region: COG3185 269482011742 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 269482011743 dimer interface [polypeptide binding]; other site 269482011744 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 269482011745 active site 269482011746 Fe binding site [ion binding]; other site 269482011747 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 269482011748 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 269482011749 putative DNA binding site [nucleotide binding]; other site 269482011750 putative Zn2+ binding site [ion binding]; other site 269482011751 AsnC family; Region: AsnC_trans_reg; pfam01037 269482011752 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 269482011753 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 269482011754 Coenzyme A binding pocket [chemical binding]; other site 269482011755 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 269482011756 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 269482011757 Domain of unknown function (DUF1835); Region: DUF1835; pfam08874 269482011758 Protein of unknown function; Region: DUF3658; pfam12395 269482011759 phenylacetate-CoA oxygenase/reductase, PaaK subunit; Region: PA_CoA_Oxy5; TIGR02160 269482011760 NAD(P) binding domain of ferredoxin reductase like phenylacetic acid (PA) degradation oxidoreductase. PA oxidoreductases of E. coli hydroxylate PA-CoA in the second step of PA degradation. Members of this group typically fuse a ferredoxin reductase-like...; Region: PA_degradation_oxidoreductase_like; cd06214 269482011761 FAD binding pocket [chemical binding]; other site 269482011762 FAD binding motif [chemical binding]; other site 269482011763 phosphate binding motif [ion binding]; other site 269482011764 beta-alpha-beta structure motif; other site 269482011765 NAD(p) ribose binding residues [chemical binding]; other site 269482011766 NAD binding pocket [chemical binding]; other site 269482011767 NAD(P)-pyrophosphate-nicotinamide binding residues [chemical binding]; other site 269482011768 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 269482011769 catalytic loop [active] 269482011770 iron binding site [ion binding]; other site 269482011771 Predicted metal-sulfur cluster biosynthetic enzyme [General function prediction only]; Region: PaaD; COG2151 269482011772 phenylacetate-CoA oxygenase, PaaJ subunit; Region: PA_CoA_Oxy4; TIGR02159 269482011773 Phenylacetic acid catabolic protein; Region: PaaA_PaaC; pfam05138 269482011774 phenylacetate-CoA oxygenase subunit PaaB; Provisional; Region: paaB; PRK13781 269482011775 phenylacetate-CoA oxygenase subunit PaaA; Provisional; Region: paaA; PRK13778 269482011776 phenylacetate-CoA oxygenase, PaaG subunit; Region: PA_CoA_Oxy1; TIGR02156 269482011777 SGNH_hydrolase subfamily, similar to the putative arylesterase/acylhydrolase from the rumen anaerobe Prevotella bryantii XynE. The P. bryantii XynE gene is located in a xylanase gene cluster. SGNH hydrolases are a diverse family of lipases and esterases; Region: XynE_like; cd01830 269482011778 active site 269482011779 catalytic triad [active] 269482011780 oxyanion hole [active] 269482011781 Transposase; Region: DEDD_Tnp_IS110; pfam01548 269482011782 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 269482011783 elongation factor Tu; Reviewed; Region: PRK00049 269482011784 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 269482011785 G1 box; other site 269482011786 GEF interaction site [polypeptide binding]; other site 269482011787 GTP/Mg2+ binding site [chemical binding]; other site 269482011788 Switch I region; other site 269482011789 G2 box; other site 269482011790 G3 box; other site 269482011791 Switch II region; other site 269482011792 G4 box; other site 269482011793 G5 box; other site 269482011794 EFTU_II: Elongation factor Tu domain II. Elongation factors Tu (EF-Tu) are three-domain GTPases with an essential function in the elongation phase of mRNA translation. The GTPase center of EF-Tu is in the N-terminal domain (domain I), also known as the...; Region: EFTU_II; cd03697 269482011795 Domain III of elongation factor (EF) Tu. Ef-Tu consists of three structural domains, designated I, II and III. Domain III adopts a beta barrel structure. Domain III is involved in binding to both charged tRNA and binding to elongation factor Ts (EF-Ts); Region: EFTU_III; cd03707 269482011796 Antibiotic Binding Site [chemical binding]; other site 269482011797 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK05740 269482011798 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 269482011799 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 269482011800 putative homodimer interface [polypeptide binding]; other site 269482011801 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 269482011802 heterodimer interface [polypeptide binding]; other site 269482011803 homodimer interface [polypeptide binding]; other site 269482011804 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 269482011805 Ribosomal protein L11. Ribosomal protein L11, together with proteins L10 and L7/L12, and 23S rRNA, form the L7/L12 stalk on the surface of the large subunit of the ribosome. The homologous eukaryotic cytoplasmic protein is also called 60S ribosomal...; Region: Ribosomal_L11; cd00349 269482011806 23S rRNA interface [nucleotide binding]; other site 269482011807 L7/L12 interface [polypeptide binding]; other site 269482011808 putative thiostrepton binding site; other site 269482011809 L25 interface [polypeptide binding]; other site 269482011810 Ribosomal protein L1. The L1 protein, located near the E-site of the ribosome, forms part of the L1 stalk along with 23S rRNA. In bacteria and archaea, L1 functions both as a ribosomal protein that binds rRNA, and as a translation repressor that binds...; Region: Ribosomal_L1; cd00403 269482011811 mRNA/rRNA interface [nucleotide binding]; other site 269482011812 Ribosomal protein L10 family, L10 subfamily; composed of bacterial 50S ribosomal protein and eukaryotic mitochondrial 39S ribosomal protein, L10. L10 occupies the L7/L12 stalk of the ribosome. The N-terminal domain (NTD) of L10 interacts with L11 protein...; Region: Ribosomal_L10; cd05797 269482011813 23S rRNA interface [nucleotide binding]; other site 269482011814 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 269482011815 Ribosomal protein L7/L12. Ribosomal protein L7/L12 refers to the large ribosomal subunit proteins L7 and L12, which are identical except that L7 is acetylated at the N terminus. It is a component of the L7/L12 stalk, which is located at the surface of...; Region: Ribosomal_L7_L12; cd00387 269482011816 peripheral dimer interface [polypeptide binding]; other site 269482011817 core dimer interface [polypeptide binding]; other site 269482011818 L10 interface [polypeptide binding]; other site 269482011819 L11 interface [polypeptide binding]; other site 269482011820 putative EF-Tu interaction site [polypeptide binding]; other site 269482011821 putative EF-G interaction site [polypeptide binding]; other site 269482011822 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 269482011823 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cl17585 269482011824 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 269482011825 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 269482011826 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cd00653 269482011827 RNA polymerase Rpb2, domain 6; Region: RNA_pol_Rpb2_6; pfam00562 269482011828 RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase...; Region: RNA_pol_B_RPB2; cd00653 269482011829 RPB3 interaction site [polypeptide binding]; other site 269482011830 RPB1 interaction site [polypeptide binding]; other site 269482011831 RPB11 interaction site [polypeptide binding]; other site 269482011832 RPB10 interaction site [polypeptide binding]; other site 269482011833 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 269482011834 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 269482011835 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 269482011836 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 269482011837 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 269482011838 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 269482011839 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 269482011840 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 269482011841 DNA binding site [nucleotide binding] 269482011842 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 269482011843 ATP-dependent DNA helicase RecQ; Region: recQ; TIGR01389 269482011844 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 269482011845 ATP binding site [chemical binding]; other site 269482011846 putative Mg++ binding site [ion binding]; other site 269482011847 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 269482011848 nucleotide binding region [chemical binding]; other site 269482011849 ATP-binding site [chemical binding]; other site 269482011850 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 269482011851 HRDC domain; Region: HRDC; pfam00570 269482011852 S12-like family, 30S ribosomal protein S12 subfamily; S12 is located at the interface of the large and small ribosomal subunits of prokaryotes, chloroplasts and mitochondria, where it plays an important role in both tRNA and ribosomal subunit...; Region: Ribosomal_S12; cd03368 269482011853 S17 interaction site [polypeptide binding]; other site 269482011854 S8 interaction site; other site 269482011855 16S rRNA interaction site [nucleotide binding]; other site 269482011856 streptomycin interaction site [chemical binding]; other site 269482011857 23S rRNA interaction site [nucleotide binding]; other site 269482011858 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 269482011859 30S ribosomal protein S7; Validated; Region: PRK05302 269482011860 elongation factor G; Reviewed; Region: PRK00007 269482011861 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 269482011862 G1 box; other site 269482011863 putative GEF interaction site [polypeptide binding]; other site 269482011864 GTP/Mg2+ binding site [chemical binding]; other site 269482011865 Switch I region; other site 269482011866 G2 box; other site 269482011867 G3 box; other site 269482011868 Switch II region; other site 269482011869 G4 box; other site 269482011870 G5 box; other site 269482011871 EFG_mtEFG_II: this subfamily represents the domain II of elongation factor G (EF-G) in bacteria and, the C-terminus of mitochondrial Elongation factor G1 (mtEFG1) and G2 (mtEFG2)_like proteins found in eukaryotes. During the process of peptide synthesis...; Region: EFG_mtEFG_II; cd04088 269482011872 EFG_mtEFG1_IV: domains similar to domain IV of the bacterial translational elongation factor (EF) EF-G. Included in this group is a domain of mitochondrial Elongation factor G1 (mtEFG1) proteins homologous to domain IV of EF-G. Eukaryotic cells harbor 2...; Region: EFG_mtEFG1_IV; cd01434 269482011873 EFG_mtEFG_C: domains similar to the C-terminal domain of the bacterial translational elongation factor (EF) EF-G. Included in this group is the C-terminus of mitochondrial Elongation factor G1 (mtEFG1) and G2 (mtEFG2) proteins. Eukaryotic cells harbor 2...; Region: EFG_mtEFG_C; cd03713 269482011874 elongation factor Tu; Reviewed; Region: PRK00049 269482011875 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 269482011876 G1 box; other site 269482011877 GEF interaction site [polypeptide binding]; other site 269482011878 GTP/Mg2+ binding site [chemical binding]; other site 269482011879 Switch I region; other site 269482011880 G2 box; other site 269482011881 G3 box; other site 269482011882 Switch II region; other site 269482011883 G4 box; other site 269482011884 G5 box; other site 269482011885 EFTU_II: Elongation factor Tu domain II. Elongation factors Tu (EF-Tu) are three-domain GTPases with an essential function in the elongation phase of mRNA translation. The GTPase center of EF-Tu is in the N-terminal domain (domain I), also known as the...; Region: EFTU_II; cd03697 269482011886 Domain III of elongation factor (EF) Tu. Ef-Tu consists of three structural domains, designated I, II and III. Domain III adopts a beta barrel structure. Domain III is involved in binding to both charged tRNA and binding to elongation factor Ts (EF-Ts); Region: EFTU_III; cd03707 269482011887 Antibiotic Binding Site [chemical binding]; other site 269482011888 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 269482011889 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 269482011890 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 269482011891 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 269482011892 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 269482011893 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 269482011894 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 269482011895 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 269482011896 Ribosomal protein L22/L17e. L22 (L17 in eukaryotes) is a core protein of the large ribosomal subunit. It is the only ribosomal protein that interacts with all six domains of 23S rRNA, and is one of the proteins important for directing the proper...; Region: Ribosomal_L22; cd00336 269482011897 putative translocon binding site; other site 269482011898 protein-rRNA interface [nucleotide binding]; other site 269482011899 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 269482011900 K homology RNA-binding (KH) domain of the prokaryotic 30S small ribosomal subunit protein S3. S3 is part of the head region of the 30S ribosomal subunit and is believed to interact with mRNA as it threads its way from the latch into the channel. The KH...; Region: 30S_S3_KH; cd02412 269482011901 G-X-X-G motif; other site 269482011902 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 269482011903 Ribosomal_L16_L10e: L16 is an essential protein in the large ribosomal subunit of bacteria, mitochondria, and chloroplasts. Large subunits that lack L16 are defective in peptidyl transferase activity, peptidyl-tRNA hydrolysis activity, association with...; Region: Ribosomal_L16_L10e; cd01433 269482011904 23S rRNA interface [nucleotide binding]; other site 269482011905 5S rRNA interface [nucleotide binding]; other site 269482011906 putative antibiotic binding site [chemical binding]; other site 269482011907 L25 interface [polypeptide binding]; other site 269482011908 L27 interface [polypeptide binding]; other site 269482011909 Ribosomal L29 protein/HIP. L29 is a protein of the large ribosomal Subunit. A homolog, called heparin/heparan sulfate interacting protein (HIP), has also been identified in mammals. L29 is located on the surface of the large ribosomal subunit, where it...; Region: Ribosomal_L29_HIP; cd00427 269482011910 23S rRNA interface [nucleotide binding]; other site 269482011911 putative translocon interaction site; other site 269482011912 signal recognition particle (SRP54) interaction site; other site 269482011913 L23 interface [polypeptide binding]; other site 269482011914 trigger factor interaction site; other site 269482011915 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 269482011916 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 269482011917 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 269482011918 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 269482011919 RNA binding site [nucleotide binding]; other site 269482011920 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 269482011921 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 269482011922 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 269482011923 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 269482011924 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 269482011925 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 269482011926 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 269482011927 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 269482011928 Ribosomal L18/L5e: L18 (L5e) is a ribosomal protein found in the central protuberance (CP) of the large subunit. L18 binds 5S rRNA and induces a conformational change that stimulates the binding of L5 to 5S rRNA. Association of 5S rRNA with 23S rRNA...; Region: Ribosomal_L18_L5e; cd00432 269482011929 5S rRNA interface [nucleotide binding]; other site 269482011930 L27 interface [polypeptide binding]; other site 269482011931 23S rRNA interface [nucleotide binding]; other site 269482011932 L5 interface [polypeptide binding]; other site 269482011933 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 269482011934 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 269482011935 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 269482011936 Ribosomal protein L30, which is found in eukaryotes and prokaryotes but not in archaea, is one of the smallest ribosomal proteins with a molecular mass of about 7kDa. L30 binds the 23SrRNA as well as the 5S rRNA and is one of five ribosomal proteins that...; Region: Ribosomal_L30; cd01658 269482011937 23S rRNA binding site [nucleotide binding]; other site 269482011938 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 269482011939 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 269482011940 SecY translocase; Region: SecY; pfam00344 269482011941 S1_IF1: Translation Initiation Factor IF1, S1-like RNA-binding domain. IF1 contains an S1-like RNA-binding domain, which is found in a wide variety of RNA-associated proteins. Translation initiation includes a number of interrelated steps preceding the...; Region: S1_IF1; cd04451 269482011942 rRNA binding site [nucleotide binding]; other site 269482011943 predicted 30S ribosome binding site; other site 269482011944 Ribosomal protein L36; Region: Ribosomal_L36; pfam00444 269482011945 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 269482011946 30S ribosomal protein S13; Region: bact_S13; TIGR03631 269482011947 30S ribosomal protein S11; Validated; Region: PRK05309 269482011948 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 269482011949 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 269482011950 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cd00165 269482011951 RNA binding surface [nucleotide binding]; other site 269482011952 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 269482011953 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 269482011954 alphaNTD homodimer interface [polypeptide binding]; other site 269482011955 alphaNTD - beta interaction site [polypeptide binding]; other site 269482011956 alphaNTD - beta' interaction site [polypeptide binding]; other site 269482011957 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 269482011958 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 269482011959 Uncharacterized protein involved in tolerance to divalent cations [Inorganic ion transport and metabolism]; Region: CutA; COG1324 269482011960 thiol:disulfide interchange protein precursor; Provisional; Region: dipZ; PRK00293 269482011961 Disulphide bond corrector protein DsbC; Region: DsbC; pfam11412 269482011962 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 269482011963 DsbD gamma family; DsbD gamma is the C-terminal periplasmic domain of the bacterial protein DsbD. It contains a CXXC motif in a TRX fold and shuttles the reducing potential from the membrane domain (DsbD beta) to the N-terminal periplasmic domain (DsbD...; Region: DsbDgamma; cd02953 269482011964 DsbD alpha interface [polypeptide binding]; other site 269482011965 catalytic residues [active] 269482011966 Porphobilinogen synthase (PBGS), which is also called delta-aminolevulinic acid dehydratase (ALAD), catalyzes the condensation of two 5-aminolevulinic acid (ALA) molecules to form the pyrrole porphobilinogen (PBG), which is the second step in the...; Region: ALAD_PBGS_aspartate_rich; cd04823 269482011967 dimer interface [polypeptide binding]; other site 269482011968 active site 269482011969 aspartate-rich active site metal binding site; other site 269482011970 allosteric magnesium binding site [ion binding]; other site 269482011971 Schiff base residues; other site 269482011972 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 269482011973 G1 box; other site 269482011974 GTP/Mg2+ binding site [chemical binding]; other site 269482011975 Switch I region; other site 269482011976 G2 box; other site 269482011977 G3 box; other site 269482011978 Switch II region; other site 269482011979 G4 box; other site 269482011980 G5 box; other site 269482011981 Cytochrome c553 [Energy production and conversion]; Region: COG2863 269482011982 Cytochrome c; Region: Cytochrom_C; cl11414 269482011983 ResB protein required for cytochrome c biosynthesis [Posttranslational modification, protein turnover, chaperones]; Region: ResB; cl09125 269482011984 ResB-like family; Region: ResB; pfam05140 269482011985 ResB protein required for cytochrome c biosynthesis [Posttranslational modification, protein turnover, chaperones]; Region: ResB; cl09125 269482011986 ResB-like family; Region: ResB; pfam05140 269482011987 cytochrome c-type biogenesis protein CcsB; Region: cytochr_II_ccsB; TIGR03144 269482011988 TMAO/DMSO reductase; Reviewed; Region: PRK05363 269482011989 Sulfite oxidase (SO) family, molybdopterin binding domain. This molybdopterin cofactor (Moco) binding domain is found in a variety of oxidoreductases, main members of this family are nitrate reductase (NR) and sulfite oxidase (SO). SO catalyzes the...; Region: SO_family_Moco; cl00199 269482011990 Moco binding site; other site 269482011991 metal coordination site [ion binding]; other site 269482011992 putative sulfite oxidase subunit YedZ; Reviewed; Region: PRK05419 269482011993 Prokaryotic lipoprotein-attachment site; Region: LPAM_2; pfam13627 269482011994 frataxin-like protein; Provisional; Region: cyaY; PRK00446 269482011995 putative iron binding site [ion binding]; other site 269482011996 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 269482011997 Transglycosylase; Region: Transgly; pfam00912 269482011998 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 269482011999 type IV pilus secretin (or competence protein) PilQ; Region: IV_pilus_PilQ; TIGR02515 269482012000 Secretin and TonB N terminus short domain; Region: STN; pfam07660 269482012001 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 269482012002 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 269482012003 shikimate kinase; Reviewed; Region: aroK; PRK00131 269482012004 Shikimate kinase (SK) is the fifth enzyme in the shikimate pathway, a seven-step biosynthetic pathway which converts erythrose-4-phosphate to chorismic acid, found in bacteria, fungi and plants. Chorismic acid is a important intermediate in the synthesis...; Region: SK; cd00464 269482012005 ADP binding site [chemical binding]; other site 269482012006 magnesium binding site [ion binding]; other site 269482012007 putative shikimate binding site; other site 269482012008 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 269482012009 active site 269482012010 dimer interface [polypeptide binding]; other site 269482012011 metal binding site [ion binding]; metal-binding site 269482012012 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01286 269482012013 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 269482012014 Zn2+ binding site [ion binding]; other site 269482012015 Mg2+ binding site [ion binding]; other site 269482012016 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 269482012017 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 269482012018 glycerol-3-phosphate transporter periplasmic binding protein; Provisional; Region: PRK10974 269482012019 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 269482012020 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 269482012021 dimer interface [polypeptide binding]; other site 269482012022 conserved gate region; other site 269482012023 putative PBP binding loops; other site 269482012024 ABC-ATPase subunit interface; other site 269482012025 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 269482012026 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 269482012027 dimer interface [polypeptide binding]; other site 269482012028 conserved gate region; other site 269482012029 putative PBP binding loops; other site 269482012030 ABC-ATPase subunit interface; other site 269482012031 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 269482012032 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 269482012033 Walker A/P-loop; other site 269482012034 ATP binding site [chemical binding]; other site 269482012035 Q-loop/lid; other site 269482012036 ABC transporter signature motif; other site 269482012037 Walker B; other site 269482012038 D-loop; other site 269482012039 H-loop/switch region; other site 269482012040 TOBE domain; Region: TOBE_2; pfam08402 269482012041 cytoplasmic glycerophosphodiester phosphodiesterase; Provisional; Region: ugpQ; PRK09454 269482012042 Glycerophosphodiester phosphodiesterase domain in Escherichia coli cytosolic glycerophosphodiester phosphodiesterase UgpQ and similar proteins; Region: GDPD_EcUgpQ_like; cd08562 269482012043 putative active site [active] 269482012044 catalytic site [active] 269482012045 putative metal binding site [ion binding]; other site 269482012046 Outer membrane protein W [Cell envelope biogenesis, outer membrane]; Region: OmpW; COG3047 269482012047 Transposase IS200 like; Region: Y1_Tnp; cl00848 269482012048 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 269482012049 Glutamine amidotransferases class-II (Gn-AT), glutamate synthase (GltS)-type. GltS is a homodimer that synthesizes L-glutamate from 2-oxoglutarate and L-glutamine, an important step in ammonia assimilation in bacteria, cyanobacteria and plants. The...; Region: GltS; cd00713 269482012050 active site 269482012051 dimer interface [polypeptide binding]; other site 269482012052 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 269482012053 Glutamate synthase (GltS) FMN-binding domain. GltS is a complex iron-sulfur flavoprotein that catalyzes the reductive synthesis of L-glutamate from 2-oxoglutarate and L-glutamine via intramolecular channelling of ammonia, a reaction in the plant, yeast...; Region: GltS_FMN; cd02808 269482012054 active site 269482012055 FMN binding site [chemical binding]; other site 269482012056 substrate binding site [chemical binding]; other site 269482012057 3Fe-4S cluster binding site [ion binding]; other site 269482012058 gltb_C. This domain is found at the C-terminus of the large subunit (gltB) of glutamate synthase (GltS). GltS encodes a complex iron-sulfur flavoprotein that catalyzes the synthesis of L-glutamate from L-glutamine and 2-oxoglutarate. It requires the...; Region: gltB_C; cd00982 269482012059 domain interface; other site 269482012060 glutamate synthase subunit beta; Reviewed; Region: gltD; PRK12810 269482012061 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 269482012062 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 269482012063 2'-5' RNA ligase [Translation, ribosomal structure and biogenesis]; Region: LigT; COG1514 269482012064 ABC-type uncharacterized transport system, permease and ATPase components [General function prediction only]; Region: COG4178 269482012065 ABC transporter transmembrane region 2; Region: ABC_membrane_2; cl00549 269482012066 ATP-binding cassette domain of peroxisomal transporter, subfamily D; Region: ABCD_peroxisomal_ALDP; cd03223 269482012067 glycine oxidase ThiO; Region: thiamin_ThiO; TIGR02352 269482012068 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 269482012069 thiS-thiF/thiG interaction site; other site 269482012070 Thiazole synthase (ThiG) is the tetrameric enzyme that is involved in the formation of the thiazole moiety of thiamin pyrophosphate, an essential ubiquitous cofactor that plays an important role in carbohydrate and amino acid metabolism. ThiG catalyzes...; Region: ThiG; cd04728 269482012071 ThiS interaction site; other site 269482012072 putative active site [active] 269482012073 tetramer interface [polypeptide binding]; other site 269482012074 Thiamine monophosphate synthase (TMP synthase)/TenI. TMP synthase catalyzes an important step in the thiamine biosynthesis pathway, the substitution of the pyrophosphate of 2-methyl-4-amino-5- hydroxymethylpyrimidine pyrophosphate by 4-methyl-5-; Region: TMP_TenI; cd00564 269482012075 thiamine phosphate binding site [chemical binding]; other site 269482012076 active site 269482012077 pyrophosphate binding site [ion binding]; other site 269482012078 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 269482012079 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 269482012080 Walker A/P-loop; other site 269482012081 ATP binding site [chemical binding]; other site 269482012082 Q-loop/lid; other site 269482012083 ABC transporter signature motif; other site 269482012084 Walker B; other site 269482012085 D-loop; other site 269482012086 H-loop/switch region; other site 269482012087 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 269482012088 Permease; Region: Permease; pfam02405 269482012089 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 269482012090 mce related protein; Region: MCE; pfam02470 269482012091 VacJ like lipoprotein; Region: VacJ; cl01073 269482012092 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; pfam05494 269482012093 Sulphate Transporter and Anti-Sigma factor antagonist) domain of anti-anti-sigma factors, key regulators of anti-sigma factors by phosphorylation; Region: STAS_anti-anti-sigma_factors; cd07043 269482012094 anti sigma factor interaction site; other site 269482012095 regulatory phosphorylation site [posttranslational modification]; other site 269482012096 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 269482012097 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 269482012098 Walker A/P-loop; other site 269482012099 ATP binding site [chemical binding]; other site 269482012100 Q-loop/lid; other site 269482012101 ABC transporter signature motif; other site 269482012102 Walker B; other site 269482012103 D-loop; other site 269482012104 H-loop/switch region; other site 269482012105 ABC-2 type transporter; Region: ABC2_membrane; cl17235 269482012106 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 269482012107 Predicted transcriptional regulator, BolA superfamily [Transcription]; Region: COG5007 269482012108 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 269482012109 UDP-N-acetylglucosamine enolpyruvyl transferase catalyzes enolpyruvyl transfer as part of the first step in the biosynthesis of peptidoglycan, a component of the bacterial cell wall. The reaction is phosphoenolpyruvate + UDP-N-acetyl-D-glucosamine =...; Region: UdpNAET; cd01555 269482012110 hinge; other site 269482012111 active site 269482012112 ATP phosphoribosyltransferase catalytic subunit; Reviewed; Region: hisG; PRK01686 269482012113 ATP phosphoribosyltransferase [Amino acid transport and metabolism]; Region: HisG; COG0040 269482012114 Histidinol dehydrogenase [Amino acid transport and metabolism]; Region: HisD; COG0141 269482012115 Histidinol dehydrogenase, HisD, E.C 1.1.1.23. Histidinol dehydrogenase catalyzes the last two steps in the L-histidine biosynthesis pathway, which is conserved in bacteria, archaea, fungi, and plants. These last two steps are (i) the NAD-dependent...; Region: Histidinol_dh; cd06572 269482012116 NAD binding site [chemical binding]; other site 269482012117 dimerization interface [polypeptide binding]; other site 269482012118 product binding site; other site 269482012119 substrate binding site [chemical binding]; other site 269482012120 zinc binding site [ion binding]; other site 269482012121 catalytic residues [active] 269482012122 histidinol-phosphate aminotransferase; Provisional; Region: PRK04870 269482012123 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 269482012124 pyridoxal 5'-phosphate binding site [chemical binding]; other site 269482012125 homodimer interface [polypeptide binding]; other site 269482012126 catalytic residue [active] 269482012127 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 269482012128 putative active site pocket [active] 269482012129 4-fold oligomerization interface [polypeptide binding]; other site 269482012130 metal binding residues [ion binding]; metal-binding site 269482012131 3-fold/trimer interface [polypeptide binding]; other site 269482012132 MarC family integral membrane protein; Region: MarC; cl00919 269482012133 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13146 269482012134 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 269482012135 putative active site [active] 269482012136 oxyanion strand; other site 269482012137 catalytic triad [active] 269482012138 HisA. Phosphoribosylformimino-5-aminoimidazole carboxamide ribonucleotide (ProFAR) isomerase catalyzes the fourth step in histidine biosynthesis, an isomerisation of the aminoaldose moiety of ProFAR to the aminoketose of PRFAR (N-(5'-phospho-D-1...; Region: HisA; cd04732 269482012139 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 269482012140 catalytic residues [active] 269482012141 The cyclase subunit of imidazoleglycerol phosphate synthase (HisF). Imidazole glycerol phosphate synthase (IGPS) catalyzes the fifth step of histidine biosynthesis, the formation of the imidazole ring. IGPS converts N1-(5'-phosphoribulosyl)...; Region: HisF; cd04731 269482012142 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 269482012143 substrate binding site [chemical binding]; other site 269482012144 glutamase interaction surface [polypeptide binding]; other site 269482012145 phosphoribosyl-AMP cyclohydrolase; Reviewed; Region: hisI; PRK00051 269482012146 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in Escherichia coli phosphoribosyl-ATP pyrophosphohydrolase (HisIE or PRATP-PH) and its homologs; Region: NTP-PPase_HisIE_like; cd11534 269482012147 metal binding site [ion binding]; metal-binding site 269482012148 Predicted membrane protein [Function unknown]; Region: COG3671 269482012149 Protein Kinase C Interacting protein related (PKCI): PKCI and related proteins belong to the ubiquitous HIT family of hydrolases that act on alpha-phosphates of ribonucleotides. The members of this subgroup have a conserved HxHxHxx motif (x is a...; Region: PKCI_related; cd01276 269482012150 nucleotide binding site/active site [active] 269482012151 HIT family signature motif; other site 269482012152 catalytic residue [active] 269482012153 twin arginine translocase protein A; Provisional; Region: tatA; PRK00442 269482012154 twin arginine translocase protein A; Provisional; Region: tatA; PRK02958 269482012155 sec-independent translocase; Provisional; Region: tatB; PRK01919 269482012156 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 269482012157 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 269482012158 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 269482012159 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 269482012160 protein binding site [polypeptide binding]; other site 269482012161 Uncharacterized conserved protein [Function unknown]; Region: COG0327 269482012162 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 269482012163 Iron-sulfur protein (ISP) component of the bc(1) complex family, Rieske domain; The Rieske domain is a [2Fe-2S] cluster binding domain involved in electron transfer. The bc(1) complex is a multisubunit enzyme found in many different organisms including...; Region: Rieske_cytochrome_bc1; cd03470 269482012164 ubiquinol-cytochrome c reductase, iron-sulfur subunit; Region: Rieske_proteo; TIGR01416 269482012165 [2Fe-2S] cluster binding site [ion binding]; other site 269482012166 Cytochrome b subunit of the bc complex [Energy production and conversion]; Region: QcrB; COG1290 269482012167 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cd00284 269482012168 Qi binding site; other site 269482012169 intrachain domain interface; other site 269482012170 interchain domain interface [polypeptide binding]; other site 269482012171 heme bH binding site [chemical binding]; other site 269482012172 heme bL binding site [chemical binding]; other site 269482012173 Qo binding site; other site 269482012174 interchain domain interface [polypeptide binding]; other site 269482012175 intrachain domain interface; other site 269482012176 Qi binding site; other site 269482012177 Cytochrome b(C-terminal)/b6/petD; Region: Cytochrom_B_C; pfam00032 269482012178 Qo binding site; other site 269482012179 Cytochrome C1 family; Region: Cytochrom_C1; pfam02167 269482012180 stringent starvation protein A; Provisional; Region: sspA; PRK09481 269482012181 GST_N family, Stringent starvation protein A (SspA) subfamily; SspA is a RNA polymerase (RNAP)-associated protein required for the lytic development of phage P1 and for stationary phase-induced acid tolerance of E. coli. It is implicated in survival...; Region: GST_N_SspA; cd03059 269482012182 C-terminal domain interface [polypeptide binding]; other site 269482012183 putative GSH binding site (G-site) [chemical binding]; other site 269482012184 dimer interface [polypeptide binding]; other site 269482012185 C-terminal, alpha helical domain of Stringent starvation protein A; Region: GST_C_SspA; cd03186 269482012186 dimer interface [polypeptide binding]; other site 269482012187 N-terminal domain interface [polypeptide binding]; other site 269482012188 ClpXP protease specificity-enhancing factor; Provisional; Region: PRK11798 269482012189 integrase; Provisional; Region: PRK09692 269482012190 Bacteriophage P4 integrase. P4-like integrases are found in temperate bacteriophages, integrative plasmids, pathogenicity and symbiosis islands, and other mobile genetic elements. They share the same fold in their catalytic domain and the overall...; Region: INT_P4; cd00801 269482012191 active site 269482012192 Int/Topo IB signature motif; other site 269482012193 Primase C terminal 2 (PriCT-2); Region: PriCT_2; pfam08707 269482012194 Domain of unknown function (DUF927); Region: DUF927; pfam06048 269482012195 Predicted transcriptional regulator [Transcription]; Region: AlpA; COG3311 269482012196 Transposase, Mutator family; Region: Transposase_mut; pfam00872 269482012197 MULE transposase domain; Region: MULE; pfam10551 269482012198 Uncharacterized protein conserved in bacteria [Function unknown]; Region: VgrG; COG3501 269482012199 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 269482012200 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 269482012201 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 269482012202 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; pfam10106 269482012203 Domain of unknown function (DUF4123); Region: DUF4123; pfam13503 269482012204 PAAR motif; Region: PAAR_motif; pfam05488 269482012205 Bacterial protein of unknown function (DUF879); Region: DUF879; cl15462 269482012206 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 269482012207 multiple promoter invertase; Provisional; Region: mpi; PRK13413 269482012208 catalytic residues [active] 269482012209 catalytic nucleophile [active] 269482012210 Presynaptic Site I dimer interface [polypeptide binding]; other site 269482012211 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 269482012212 Synaptic Flat tetramer interface [polypeptide binding]; other site 269482012213 Synaptic Site I dimer interface [polypeptide binding]; other site 269482012214 DNA binding site [nucleotide binding] 269482012215 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 269482012216 DNA-binding interface [nucleotide binding]; DNA binding site 269482012217 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 269482012218 non-specific DNA binding site [nucleotide binding]; other site 269482012219 salt bridge; other site 269482012220 sequence-specific DNA binding site [nucleotide binding]; other site 269482012221 Domain of unknown function (DUF955); Region: DUF955; pfam06114 269482012222 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 269482012223 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 269482012224 substrate binding pocket [chemical binding]; other site 269482012225 membrane-bound complex binding site; other site 269482012226 hinge residues; other site 269482012227 Uncharacterized protein conserved in bacteria [Function unknown]; Region: VgrG; COG3501 269482012228 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 269482012229 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 269482012230 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 269482012231 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; pfam10106 269482012232 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 269482012233 RHS Repeat; Region: RHS_repeat; pfam05593 269482012234 RHS Repeat; Region: RHS_repeat; pfam05593 269482012235 RHS Repeat; Region: RHS_repeat; pfam05593 269482012236 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 269482012237 RHS Repeat; Region: RHS_repeat; pfam05593 269482012238 RHS Repeat; Region: RHS_repeat; pfam05593 269482012239 RHS Repeat; Region: RHS_repeat; pfam05593 269482012240 RHS Repeat; Region: RHS_repeat; pfam05593 269482012241 YD repeat (two copies); Region: YD_repeat_2x; TIGR01643 269482012242 RHS protein; Region: RHS; pfam03527 269482012243 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 269482012244 DNase/tRNase domain of colicin-like bacteriocin; Region: Colicin-DNase; cl15861 269482012245 Transposase, Mutator family; Region: Transposase_mut; pfam00872 269482012246 MULE transposase domain; Region: MULE; pfam10551 269482012247 Uncharacterized protein conserved in bacteria (DUF2077); Region: DUF2077; pfam09850 269482012248 type VI secretion protein, VC_A0114 family; Region: VI_chp_4; TIGR03353 269482012249 Bacterial protein of unknown function (DUF876); Region: DUF876; pfam05936 269482012250 Type VI secretion lipoprotein; Region: T6SS-SciN; cl01405 269482012251 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 269482012252 TPR motif; other site 269482012253 binding surface 269482012254 Protein of unknown function (DUF770); Region: DUF770; pfam05591 269482012255 type VI secretion protein, EvpB/VC_A0108 family; Region: VI_chp_2; TIGR03355 269482012256 Protein of unknown function (DUF877); Region: DUF877; pfam05943 269482012257 Protein of unknown function (DUF796); Region: DUF796; pfam05638 269482012258 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3518 269482012259 Type VI protein secretion system component VasA [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3519 269482012260 type VI secretion protein, VC_A0110 family; Region: VI_chp_6; TIGR03359 269482012261 Protein of unknown function (DUF1305); Region: DUF1305; pfam06996 269482012262 type VI secretion ATPase, ClpV1 family; Region: VI_ClpV1; TIGR03345 269482012263 Clp amino terminal domain; Region: Clp_N; pfam02861 269482012264 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 269482012265 Walker A motif; other site 269482012266 ATP binding site [chemical binding]; other site 269482012267 Walker B motif; other site 269482012268 arginine finger; other site 269482012269 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 269482012270 Walker A motif; other site 269482012271 ATP binding site [chemical binding]; other site 269482012272 Walker B motif; other site 269482012273 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 269482012274 type VI secretion-associated protein, ImpA family; Region: VI_chp_8; TIGR03363 269482012275 ImpA-related N-terminal; Region: ImpA-rel_N; pfam06812 269482012276 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 269482012277 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 269482012278 ligand binding site [chemical binding]; other site 269482012279 Uncharacterized protein conserved in bacteria (DUF2094); Region: DUF2094; cl01611 269482012280 ImcF-related N-terminal domain; Region: ImcF-related_N; pfam14331 269482012281 Intracellular multiplication and human macrophage-killing; Region: IcmF-related; pfam06761 269482012282 Intracellular multiplication and human macrophage-killing; Region: IcmF-related; pfam06761 269482012283 Protein of unknown function (DUF1215); Region: DUF1215; pfam06744 269482012284 D-alanyl-D-alanine carboxypeptidase; Region: VanY; pfam02557 269482012285 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_M15_4; pfam13539 269482012286 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 269482012287 Uncharacterized bacterial subgroup of the Salmonella typhimurium Zn2+ transporter ZntB-like subfamily; Region: ZntB_u1; cd12834 269482012288 Cl binding site [ion binding]; other site 269482012289 oligomer interface [polypeptide binding]; other site 269482012290 Peptidase family M1; Region: Peptidase_M1; pfam01433 269482012291 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 269482012292 Zn binding site [ion binding]; other site 269482012293 Water Stress and Hypersensitive response; Region: WHy; smart00769 269482012294 Methylase of polypeptide chain release factors [Translation, ribosomal structure and biogenesis]; Region: HemK; COG2890 269482012295 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 269482012296 Methyltransferase domain; Region: Methyltransf_32; pfam13679 269482012297 Protein of unknown function (DUF1415); Region: DUF1415; pfam07209 269482012298 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 269482012299 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 269482012300 putative substrate translocation pore; other site 269482012301 Major Facilitator Superfamily; Region: MFS_1; pfam07690 269482012302 Nitroreductase-like family 2. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes, nitrofurans and...; Region: Nitroreductase_2; cd02138 269482012303 putative FMN binding site [chemical binding]; other site 269482012304 putative chaperone; Provisional; Region: PRK11678 269482012305 Escherichia coli YegD, a putative chaperone protein, and related proteins; Region: YegD_like; cd10231 269482012306 nucleotide binding site [chemical binding]; other site 269482012307 putative NEF/HSP70 interaction site [polypeptide binding]; other site 269482012308 SBD interface [polypeptide binding]; other site 269482012309 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 269482012310 DNA-binding site [nucleotide binding]; DNA binding site 269482012311 RNA-binding motif; other site 269482012312 amino acid transporter; Region: 2A0306; TIGR00909 269482012313 The Class III extradiol dioxygenase, 4,5-DOPA Dioxygenase, catalyzes the incorporation of both atoms of molecular oxygen into 4,5-dihydroxy-phenylalanine; Region: 45_DOPA_Dioxygenase; cd07363 269482012314 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 269482012315 putative active site [active] 269482012316 metal binding site [ion binding]; metal-binding site 269482012317 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Provisional; Region: PRK06029 269482012318 Flavoprotein; Region: Flavoprotein; pfam02441 269482012319 Glutaredoxin (GRX) family, PKC-interacting cousin of TRX (PICOT)-like subfamily; composed of PICOT and GRX-PICOT-like proteins. The non-PICOT members of this family contain only the GRX-like domain, whereas PICOT contains an N-terminal TRX-like domain...; Region: GRX_PICOT_like; cd03028 269482012320 putative GSH binding site [chemical binding]; other site 269482012321 catalytic residues [active] 269482012322 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 269482012323 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 269482012324 S-adenosylmethionine binding site [chemical binding]; other site 269482012325 peptide chain release factor 1; Validated; Region: prfA; PRK00591 269482012326 This domain is found in peptide chain release factors; Region: PCRF; smart00937 269482012327 RF-1 domain; Region: RF-1; pfam00472 269482012328 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 269482012329 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 269482012330 tRNA; other site 269482012331 putative tRNA binding site [nucleotide binding]; other site 269482012332 putative NADP binding site [chemical binding]; other site 269482012333 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 269482012334 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 269482012335 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 269482012336 active site 269482012337 intermolecular recognition site; other site 269482012338 dimerization interface [polypeptide binding]; other site 269482012339 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 269482012340 DNA binding site [nucleotide binding] 269482012341 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 269482012342 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 269482012343 X-Prolyl Aminopeptidase 2. E.C. 3.4.11.9. Also known as X-Pro aminopeptidase, proline aminopeptidase, aminopeptidase P, and aminoacylproline aminopeptidase. Catalyses release of any N-terminal amino acid, including proline, that is linked with proline; Region: APP; cd01085 269482012344 active site 269482012345 Isochorismatase family; Region: Isochorismatase; pfam00857 269482012346 Nicotinamidase_ related amidohydrolases. Cysteine hydrolases of unknown function that share the catalytic triad with other amidohydrolases, like nicotinamidase, which converts nicotinamide to nicotinic acid and ammonia; Region: nicotinamidase_related; cd01014 269482012347 catalytic triad [active] 269482012348 conserved cis-peptide bond; other site 269482012349 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 269482012350 ?-D-glucose-1-phosphatase; Provisional; Region: PRK09456 269482012351 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 269482012352 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 269482012353 Walker A/P-loop; other site 269482012354 ATP binding site [chemical binding]; other site 269482012355 Q-loop/lid; other site 269482012356 ABC transporter signature motif; other site 269482012357 Walker B; other site 269482012358 D-loop; other site 269482012359 H-loop/switch region; other site 269482012360 ABC transporter; Region: ABC_tran_2; pfam12848 269482012361 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 269482012362 Protein of unknown function (DUF3761); Region: DUF3761; pfam12587 269482012363 gamma-aminobutyrate permease; Region: GABAperm; TIGR01773 269482012364 GTP-binding protein YchF; Reviewed; Region: PRK09601 269482012365 YchF GTPase; Region: YchF; cd01900 269482012366 G1 box; other site 269482012367 GTP/Mg2+ binding site [chemical binding]; other site 269482012368 Switch I region; other site 269482012369 G2 box; other site 269482012370 Switch II region; other site 269482012371 G3 box; other site 269482012372 G4 box; other site 269482012373 G5 box; other site 269482012374 TGS_YchF_C: This subfamily represents TGS domain-containing YchF GTP-binding protein, a universally conserved GTPase whose function is unknown. The N-terminal domain of the YchF protein belongs to the Obg-like family of GTPases, and some members of the...; Region: TGS_YchF_C; cd04867 269482012375 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608 269482012376 Ubiquinone biosynthesis hydroxylase, UbiH/UbiF/VisC/COQ6 family; Region: Ubi-OHases; TIGR01988 269482012377 Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: DsbG; COG1651 269482012378 DsbA family, DsbC and DsbG subfamily; V-shaped homodimeric proteins containing a redox active CXXC motif imbedded in a TRX fold. They function as protein disulfide isomerases and chaperones in the bacterial periplasm to correct non-native disulfide bonds...; Region: DsbA_DsbC_DsbG; cd03020 269482012379 dimerization domain [polypeptide binding]; other site 269482012380 dimer interface [polypeptide binding]; other site 269482012381 catalytic residues [active] 269482012382 Predicted protease with the C-terminal PDZ domain [General function prediction only]; Region: COG3975 269482012383 M61 glycyl aminopeptidase; Region: Peptidase_M61; pfam05299 269482012384 PDZ domain; Region: PDZ_2; pfam13180 269482012385 protein binding site [polypeptide binding]; other site 269482012386 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 269482012387 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 269482012388 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 269482012389 ligand binding site [chemical binding]; other site 269482012390 active site 269482012391 UGI interface [polypeptide binding]; other site 269482012392 catalytic site [active] 269482012393 Uncharacterized subgroup of the CYTH-like superfamily having an associated CHAD domain; Region: CYTH-like_Pase_CHAD; cd07756 269482012394 putative active site [active] 269482012395 putative metal binding residues [ion binding]; other site 269482012396 signature motif; other site 269482012397 putative triphosphate binding site [ion binding]; other site 269482012398 Indole-3-glycerol phosphate synthase (IGPS); an enzyme in the tryptophan biosynthetic pathway, catalyzing the ring closure reaction of 1-(o-carboxyphenylamino)-1-deoxyribulose-5-phosphate (CdRP) to indole-3-glycerol phosphate (IGP), accompanied by the...; Region: IGPS; cd00331 269482012399 active site 269482012400 ribulose/triose binding site [chemical binding]; other site 269482012401 phosphate binding site [ion binding]; other site 269482012402 substrate (anthranilate) binding pocket [chemical binding]; other site 269482012403 product (indole) binding pocket [chemical binding]; other site 269482012404 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 269482012405 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 269482012406 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 269482012407 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 269482012408 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 269482012409 glutamine binding [chemical binding]; other site 269482012410 catalytic triad [active] 269482012411 anthranilate synthase component I; Provisional; Region: PRK13565 269482012412 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 269482012413 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 269482012414 phosphoglycolate phosphatase; Provisional; Region: PRK13222 269482012415 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 269482012416 motif II; other site 269482012417 Ribulose-5-phosphate 3-epimerase (RPE). This enzyme catalyses the interconversion of D-ribulose 5-phosphate (Ru5P) into D-xylulose 5-phosphate, as part of the Calvin cycle (reductive pentose phosphate pathway) in chloroplasts and in the oxidative pentose...; Region: RPE; cd00429 269482012418 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 269482012419 substrate binding site [chemical binding]; other site 269482012420 hexamer interface [polypeptide binding]; other site 269482012421 metal binding site [ion binding]; metal-binding site 269482012422 CO2+/MG2+ efflux protein ApaG; Reviewed; Region: apaG; PRK05461 269482012423 Membrane-bound lytic murein transglycosylase [Cell envelope biogenesis, outer membrane]; Region: MltA; COG2821 269482012424 MltA specific insert domain; Region: MltA; smart00925 269482012425 3D domain; Region: 3D; pfam06725 269482012426 Phenylacetate-CoA ligase (also known as PaaK); Region: PaaK; cd05913 269482012427 phenylacetate-CoA ligase; Region: PA_CoA_ligase; TIGR02155 269482012428 active site 269482012429 AMP binding site [chemical binding]; other site 269482012430 homodimer interface [polypeptide binding]; other site 269482012431 acyl-activating enzyme (AAE) consensus motif; other site 269482012432 CoA binding site [chemical binding]; other site 269482012433 PaaI_thioesterase is a tetrameric acyl-CoA thioesterase with a hot dog fold and one of several proteins responsible for phenylacetic acid (PA) degradation in bacteria. Although orthologs of PaaI exist in archaea and eukaryotes, their function has not...; Region: PaaI_thioesterase; cd03443 269482012434 CoenzymeA binding site [chemical binding]; other site 269482012435 subunit interaction site [polypeptide binding]; other site 269482012436 PHB binding site; other site 269482012437 enoyl-CoA hydratase; Provisional; Region: PRK08140 269482012438 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 269482012439 substrate binding site [chemical binding]; other site 269482012440 oxyanion hole (OAH) forming residues; other site 269482012441 trimer interface [polypeptide binding]; other site 269482012442 beta-ketoadipyl CoA thiolase; Validated; Region: PRK09050 269482012443 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 269482012444 dimer interface [polypeptide binding]; other site 269482012445 active site 269482012446 phenylacetic acid degradation protein paaN; Region: PaaN_2; TIGR02288 269482012447 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 269482012448 NAD(P) binding site [chemical binding]; other site 269482012449 catalytic residues [active] 269482012450 enoyl-CoA hydratase; Provisional; Region: PRK05862 269482012451 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 269482012452 substrate binding site [chemical binding]; other site 269482012453 oxyanion hole (OAH) forming residues; other site 269482012454 trimer interface [polypeptide binding]; other site 269482012455 The MopB_3 CD includes a group of related uncharacterized bacterial and archaeal molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. These members...; Region: MopB_3; cd02766 269482012456 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 269482012457 putative [4Fe-4S] binding site [ion binding]; other site 269482012458 putative molybdopterin cofactor binding site [chemical binding]; other site 269482012459 The MopB_CT_3 CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. This CD is of the...; Region: MopB_CT_3; cd02786 269482012460 putative molybdopterin cofactor binding site; other site 269482012461 Long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07059 269482012462 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 269482012463 acyl-activating enzyme (AAE) consensus motif; other site 269482012464 putative AMP binding site [chemical binding]; other site 269482012465 putative active site [active] 269482012466 putative CoA binding site [chemical binding]; other site 269482012467 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 269482012468 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 269482012469 trimer interface [polypeptide binding]; other site 269482012470 eyelet of channel; other site 269482012471 Demethoxyubiquinone hydroxylase, ferritin-like diiron-binding domain; Region: DMQH; cd01042 269482012472 diiron binding motif [ion binding]; other site 269482012473 cell division protein MraZ; Reviewed; Region: PRK00326 269482012474 MraZ protein; Region: MraZ; pfam02381 269482012475 MraZ protein; Region: MraZ; pfam02381 269482012476 MraW methylase family; Region: Methyltransf_5; cl17771 269482012477 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 269482012478 Cell division protein FtsL; Region: FtsL; cl11433 269482012479 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 269482012480 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 269482012481 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 269482012482 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 269482012483 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 269482012484 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 269482012485 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 269482012486 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 269482012487 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 269482012488 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 269482012489 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 269482012490 Phospho-N-acetylmuramoyl-pentapeptide-transferase (mraY) is an enzyme responsible for the formation of the first lipid intermediate in the synthesis of bacterial cell wall peptidoglycan. It catalyzes the formation of...; Region: GT_MraY; cd06852 269482012491 Mg++ binding site [ion binding]; other site 269482012492 putative catalytic motif [active] 269482012493 putative substrate binding site [chemical binding]; other site 269482012494 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK02006 269482012495 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 269482012496 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 269482012497 cell division protein FtsW; Region: ftsW; TIGR02614 269482012498 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 269482012499 MurG is an N-acetylglucosaminyltransferase, the last enzyme involved in the intracellular phase of peptidoglycan biosynthesis. It transfers N-acetyl-D-glucosamine (GlcNAc) from UDP-GlcNAc to the C4 hydroxyl of a lipid-linked N-acetylmuramoyl pentapeptide...; Region: GT1_MurG; cd03785 269482012500 active site 269482012501 homodimer interface [polypeptide binding]; other site 269482012502 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 269482012503 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 269482012504 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 269482012505 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 269482012506 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 269482012507 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 269482012508 ATP-grasp domain; Region: ATP-grasp_4; cl17255 269482012509 Cell division septal protein [Cell envelope biogenesis, outer membrane]; Region: FtsQ; COG1589 269482012510 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 269482012511 Cell division protein FtsQ; Region: FtsQ; pfam03799 269482012512 cell division protein FtsA; Region: ftsA; TIGR01174 269482012513 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 269482012514 nucleotide binding site [chemical binding]; other site 269482012515 Cell division protein FtsA; Region: FtsA; pfam14450 269482012516 cell division protein FtsZ; Validated; Region: PRK09330 269482012517 FtsZ is a GTPase that is similar to the eukaryotic tubulins and is essential for cell division in prokaryotes. FtsZ is capable of polymerizing in a GTP-driven process into structures similar to those formed by tubulin. FtsZ forms a ring-shaped septum at...; Region: FtsZ_type1; cd02201 269482012518 nucleotide binding site [chemical binding]; other site 269482012519 SulA interaction site; other site 269482012520 Peroxiredoxin (PRX) family, PRX5-like subfamily; members are similar to the human protein, PRX5, a homodimeric TRX peroxidase, widely expressed in tissues and found cellularly in mitochondria, peroxisomes and the cytosol. The cellular location of PRX5...; Region: PRX5_like; cd03013 269482012521 catalytic triad [active] 269482012522 dimer interface [polypeptide binding]; other site 269482012523 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 269482012524 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 269482012525 Protein of unknown function (DUF721); Region: DUF721; pfam05258 269482012526 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 269482012527 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl17251 269482012528 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 269482012529 SEC-C motif; Region: SEC-C; pfam02810 269482012530 Ornithine acetyltransferase (OAT) family; also referred to as ArgJ. OAT catalyzes the first and fifth steps in arginine biosynthesis, coupling acetylation of glutamate with deacetylation of N-acetylornithine, which allows recycling of the acetyl group in...; Region: OAT; cd02152 269482012531 heterotetramer interface [polypeptide binding]; other site 269482012532 active site pocket [active] 269482012533 cleavage site 269482012534 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG2607 269482012535 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 269482012536 Walker A motif; other site 269482012537 ATP binding site [chemical binding]; other site 269482012538 Walker B motif; other site 269482012539 The MutT pyrophosphohydrolase is a prototypical Nudix hydrolase that catalyzes the hydrolysis of nucleoside and deoxynucleoside triphosphates (NTPs and dNTPs) by substitution at a beta-phosphorus to yield a nucleotide monophosphate (NMP) and inorganic...; Region: MutT_pyrophosphohydrolase; cd03425 269482012540 active site 269482012541 8-oxo-dGMP binding site [chemical binding]; other site 269482012542 nudix motif; other site 269482012543 metal binding site [ion binding]; metal-binding site 269482012544 Domain of unknown function (DUF329); Region: DUF329; pfam03884 269482012545 hypothetical protein; Provisional; Region: PRK05287 269482012546 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 269482012547 Dephospho-coenzyme A kinase (DPCK, EC 2.7.1.24) catalyzes the phosphorylation of dephosphocoenzyme A (dCoA) to yield CoA, which is the final step in CoA biosynthesis; Region: DPCK; cd02022 269482012548 CoA-binding site [chemical binding]; other site 269482012549 ATP-binding [chemical binding]; other site 269482012550 Type II secretory pathway, prepilin signal peptidase PulO and related peptidases [Cell motility and secretion / Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: PulO; COG1989 269482012551 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 269482012552 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 269482012553 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 269482012554 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 269482012555 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 269482012556 Type II/IV secretion system protein; Region: T2SE; pfam00437 269482012557 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 269482012558 Walker A motif; other site 269482012559 ATP binding site [chemical binding]; other site 269482012560 Walker B motif; other site 269482012561 Putative Mg2+ and Co2+ transporter CorB [Inorganic ion transport and metabolism]; Region: CorB; COG4536 269482012562 Domain of unknown function DUF21; Region: DUF21; pfam01595 269482012563 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the CorC_HlyC domain. CorC_HlyC is a transporter associated domain. This small domain is found in Na+/H+ antiporters, in proteins involved in...; Region: CBS_pair_CorC_HlyC_assoc; cd04590 269482012564 Transporter associated domain; Region: CorC_HlyC; smart01091 269482012565 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 269482012566 binding surface 269482012567 GSCFA family; Region: GSCFA; pfam08885 269482012568 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 269482012569 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 269482012570 substrate binding pocket [chemical binding]; other site 269482012571 chain length determination region; other site 269482012572 substrate-Mg2+ binding site; other site 269482012573 catalytic residues [active] 269482012574 aspartate-rich region 1; other site 269482012575 active site lid residues [active] 269482012576 aspartate-rich region 2; other site 269482012577 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 269482012578 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 269482012579 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 269482012580 GTPase CgtA; Reviewed; Region: obgE; PRK12298 269482012581 GTP1/OBG; Region: GTP1_OBG; pfam01018 269482012582 Obg GTPase; Region: Obg; cd01898 269482012583 G1 box; other site 269482012584 GTP/Mg2+ binding site [chemical binding]; other site 269482012585 Switch I region; other site 269482012586 G2 box; other site 269482012587 G3 box; other site 269482012588 Switch II region; other site 269482012589 G4 box; other site 269482012590 G5 box; other site 269482012591 gamma-glutamyl kinase; Provisional; Region: PRK05429 269482012592 AAK_G5K_ProB: Glutamate-5-kinase (G5K) catalyzes glutamate-dependent ATP cleavage; G5K transfers the terminal phosphoryl group of ATP to the gamma-carboxyl group of glutamate, in the first and controlling step of proline (and, in mammals, ornithine)...; Region: AAK_G5K_ProB; cd04242 269482012593 nucleotide binding site [chemical binding]; other site 269482012594 homotetrameric interface [polypeptide binding]; other site 269482012595 putative phosphate binding site [ion binding]; other site 269482012596 putative allosteric binding site; other site 269482012597 PUA domain; Region: PUA; pfam01472 269482012598 CNP1-like family; Region: CNP1; pfam08750 269482012599 Diadenosine tetraphosphate (Ap4A) hydrolase is a member of the Nudix hydrolase superfamily. Members of this family are well represented in a variety of prokaryotic and eukaryotic organisms. Phylogenetic analysis reveals two distinct subgroups where plant...; Region: Ap4A_hydrolase_plant_like; cd03671 269482012600 putative active site [active] 269482012601 Ap4A binding site [chemical binding]; other site 269482012602 nudix motif; other site 269482012603 putative metal binding site [ion binding]; other site 269482012604 prolyl-tRNA synthetase; Provisional; Region: PRK09194 269482012605 Prolyl-tRNA synthetase (ProRS) class II core catalytic domain. ProRS is a homodimer. It is responsible for the attachment of proline to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: ProRS_core_prok; cd00779 269482012606 dimer interface [polypeptide binding]; other site 269482012607 motif 1; other site 269482012608 active site 269482012609 motif 2; other site 269482012610 INS is an amino acid-editing domain inserted (INS) into the bacterial class II prolyl-tRNA synthetase (ProRS) however, this CD is not exclusively bacterial. It is also found at the N-terminus of the eukaryotic/archaea-like ProRS's of yeasts and...; Region: ProRS-INS; cd04334 269482012611 putative deacylase active site [active] 269482012612 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 269482012613 active site 269482012614 motif 3; other site 269482012615 ProRS Prolyl-anticodon binding domain, short version found predominantly in bacteria. ProRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding; Region: ProRS_anticodon_short; cd00861 269482012616 anticodon binding site; other site 269482012617 MarC family integral membrane protein; Region: MarC; cl00919 269482012618 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 269482012619 active site 269482012620 signal recognition particle protein; Provisional; Region: PRK10867 269482012621 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 269482012622 The signal recognition particle (SRP) mediates the transport to or across the plasma membrane in bacteria and the endoplasmic reticulum in eukaryotes. SRP recognizes N-terminal sighnal sequences of newly synthesized polypeptides at the ribosome. The...; Region: SRP; cd03115 269482012623 P loop; other site 269482012624 GTP binding site [chemical binding]; other site 269482012625 Signal peptide binding domain; Region: SRP_SPB; pfam02978 269482012626 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 269482012627 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 269482012628 Peptidoglycan recognition proteins (PGRPs) are pattern recognition receptors that bind, and in certain cases, hydrolyze peptidoglycans (PGNs) of bacterial cell walls. PGRPs have been divided into three classes: short PGRPs (PGRP-S), that are small (20...; Region: PGRP; cd06583 269482012629 amidase catalytic site [active] 269482012630 Zn binding residues [ion binding]; other site 269482012631 substrate binding site [chemical binding]; other site 269482012632 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07207 269482012633 ATP cone domain; Region: ATP-cone; pfam03477 269482012634 Class I ribonucleotide reductase; Region: RNR_I; cd01679 269482012635 active site 269482012636 dimer interface [polypeptide binding]; other site 269482012637 catalytic residues [active] 269482012638 effector binding site; other site 269482012639 R2 peptide binding site; other site 269482012640 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 269482012641 dimer interface [polypeptide binding]; other site 269482012642 putative radical transfer pathway; other site 269482012643 diiron center [ion binding]; other site 269482012644 tyrosyl radical; other site 269482012645 Glycine zipper 2TM domain; Region: Rick_17kDa_Anti; cl10470 269482012646 Ribokinase-like subgroup A. Found in bacteria and archaea, this subgroup is part of the ribokinase/pfkB superfamily. Its oligomerization state is unknown at this time; Region: ribokinase_group_A; cd01942 269482012647 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 269482012648 substrate binding site [chemical binding]; other site 269482012649 ATP binding site [chemical binding]; other site 269482012650 Peroxiredoxin (PRX) family, Atypical 2-cys PRX subfamily; composed of PRXs containing peroxidatic and resolving cysteines, similar to the homodimeric thiol specific antioxidant (TSA) protein also known as TRX-dependent thiol peroxidase (Tpx). Tpx is a...; Region: PRX_Atyp2cys; cd03014 269482012651 dimer interface [polypeptide binding]; other site 269482012652 catalytic triad [active] 269482012653 peroxidatic and resolving cysteines [active] 269482012654 MJ0042 family finger-like domain; Region: MJ0042_CXXC; TIGR02098 269482012655 Protein of unknown function (DUF3426); Region: DUF3426; pfam11906 269482012656 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 269482012657 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 269482012658 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 269482012659 S-adenosylmethionine binding site [chemical binding]; other site 269482012660 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 269482012661 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 269482012662 ATP-grasp domain; Region: ATP-grasp_4; cl17255 269482012663 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 269482012664 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 269482012665 The biotinyl-domain or biotin carboxyl carrier protein (BCCP) domain is present in all biotin-dependent enzymes, such as acetyl-CoA carboxylase, pyruvate carboxylase, propionyl-CoA carboxylase, methylcrotonyl-CoA carboxylase, geranyl-CoA carboxylase; Region: biotinyl_domain; cd06850 269482012666 carboxyltransferase (CT) interaction site; other site 269482012667 biotinylation site [posttranslational modification]; other site 269482012668 Dehydroquinase (DHQase), type II. Dehydroquinase (or 3-dehydroquinate dehydratase) catalyzes the reversible dehydration of 3-dehydroquinate to form 3-dehydroshikimate. This reaction is part of two metabolic pathways: the biosynthetic shikimate pathway...; Region: DHQase_II; cd00466 269482012669 Dehydroquinase class II; Region: DHquinase_II; pfam01220 269482012670 active site 269482012671 trimer interface [polypeptide binding]; other site 269482012672 dimer interface [polypeptide binding]; other site 269482012673 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 269482012674 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 269482012675 catalytic residues [active] 269482012676 UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl- meso-diaminopimelate ligase; Region: mpl; TIGR01081 269482012677 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 269482012678 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 269482012679 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 269482012680 Uncharacterized protein family (UPF0227); Region: UPF0227; cl14886 269482012681 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 269482012682 This domain is the catalytic domain of ribonuclease II; Region: RNB; smart00955 269482012683 RNB domain; Region: RNB; pfam00773 269482012684 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 269482012685 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 269482012686 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 269482012687 shikimate binding site; other site 269482012688 NAD(P) binding site [chemical binding]; other site 269482012689 monofunctional biosynthetic peptidoglycan transglycosylase; Provisional; Region: mtgA; PRK00056 269482012690 Transglycosylase; Region: Transgly; cl17702 269482012691 Carboxypeptidase C (cathepsin A) [Amino acid transport and metabolism]; Region: COG2939 269482012692 Serine carboxypeptidase; Region: Peptidase_S10; cl08270 269482012693 EF-hand domain pair; Region: EF_hand_5; pfam13499 269482012694 Transcriptional regulator [Transcription]; Region: IclR; COG1414 269482012695 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 269482012696 Bacterial transcriptional regulator; Region: IclR; pfam01614 269482012697 2-keto-3-deoxy-galactonokinase [Carbohydrate transport and metabolism]; Region: DgoK; COG3734 269482012698 2-keto-3-deoxy-galactonokinase; Region: DGOK; pfam05035 269482012699 2-dehydro-3-deoxy-6-phosphogalactonate aldolase; Reviewed; Region: PRK09140 269482012700 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 269482012701 active site 269482012702 intersubunit interface [polypeptide binding]; other site 269482012703 catalytic residue [active] 269482012704 short chain dehydrogenase; Provisional; Region: PRK07063 269482012705 classical (c) SDRs; Region: SDR_c; cd05233 269482012706 NAD(P) binding site [chemical binding]; other site 269482012707 active site 269482012708 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 269482012709 Periplasmic L-arabinose-binding protein (ABP), a member of a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily; Region: PBP1_arabinose_binding; cd01540 269482012710 ligand binding site [chemical binding]; other site 269482012711 L-arabinose transporter ATP-binding protein; Provisional; Region: araG; PRK11288 269482012712 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 269482012713 Walker A/P-loop; other site 269482012714 ATP binding site [chemical binding]; other site 269482012715 Q-loop/lid; other site 269482012716 ABC transporter signature motif; other site 269482012717 Walker B; other site 269482012718 D-loop; other site 269482012719 H-loop/switch region; other site 269482012720 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 269482012721 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 269482012722 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 269482012723 TM-ABC transporter signature motif; other site 269482012724 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 269482012725 classical (c) SDRs; Region: SDR_c; cd05233 269482012726 NAD(P) binding site [chemical binding]; other site 269482012727 active site 269482012728 aldose 1-epimerase, similar to Escherichia coli YphB; Region: Aldose_epim_Ec_YphB; cd09021 269482012729 active site 269482012730 catalytic residues [active] 269482012731 Orotidine 5'-phosphate decarboxylase (ODCase) is a dimeric enzyme that decarboxylates orotidine 5'-monophosphate (OMP) to form uridine 5'-phosphate (UMP), an essential step in the pyrimidine biosynthetic pathway. In mammals, UMP synthase...; Region: OMP_decarboxylase_like; cd04725 269482012732 active site 269482012733 dimer interface [polypeptide binding]; other site 269482012734 Competence-damaged protein; Region: CinA; pfam02464 269482012735 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 269482012736 tetramer interfaces [polypeptide binding]; other site 269482012737 binuclear metal-binding site [ion binding]; other site 269482012738 thiamine monophosphate kinase; Provisional; Region: PRK05731 269482012739 ThiL (Thiamine-monophosphate kinase) plays a dual role in de novo biosynthesis and in salvage of exogenous thiamine. Thiamine salvage occurs in two steps, with thiamine kinase catalyzing the formation of thiamine phosphate, and ThiL catalyzing the...; Region: ThiL; cd02194 269482012740 ATP binding site [chemical binding]; other site 269482012741 dimerization interface [polypeptide binding]; other site 269482012742 malic enzyme; Reviewed; Region: PRK12862 269482012743 Malic enzyme, N-terminal domain; Region: malic; pfam00390 269482012744 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 269482012745 putative NAD(P) binding site [chemical binding]; other site 269482012746 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 269482012747 RNase_Sa. Ribonucleases first isolated from Streptomyces aureofaciens. In general, ribonucleases cleave phosphodiester bonds in RNA and are essential for both non-specific RNA degradation and for numerous forms of RNA processing. RNAse Sa is a guanylate...; Region: RNase_Sa; cd00607 269482012748 active site 269482012749 barstar interaction site; other site 269482012750 Barstar_evA4336-like contains uncharacterized sequences similar to the uncharacterized, predicted RNAase inhibitor evA4336 found in Azoarcus sp. EvN1. This is a subfamily of the Barstar family of RNAase inhibitors. Barstar is an intracellular inhibitor...; Region: Barstar_evA4336-like; cd05141 269482012751 putative RNAase interaction site [polypeptide binding]; other site 269482012752 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 269482012753 RNA methyltransferase, RsmE family; Region: TIGR00046 269482012754 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_8; cd07246 269482012755 putative dimer interface [polypeptide binding]; other site 269482012756 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 269482012757 spermidine synthase; Provisional; Region: PRK00811 269482012758 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 269482012759 transketolase; Reviewed; Region: PRK12753 269482012760 Thiamine pyrophosphate (TPP) family, Transketolase (TK) subfamily, TPP-binding module; TK catalyzes the transfer of a two-carbon unit from ketose phosphates to aldose phosphates. In heterotrophic organisms, TK provides a link between glycolysis and the...; Region: TPP_TK; cd02012 269482012761 TPP-binding site [chemical binding]; other site 269482012762 dimer interface [polypeptide binding]; other site 269482012763 Pyrimidine (PYR) binding domain of 1-deoxy-D-xylulose-5-phosphate synthase (DXS), transketolase (TK), and related proteins; Region: TPP_PYR_DXS_TK_like; cd07033 269482012764 PYR/PP interface [polypeptide binding]; other site 269482012765 dimer interface [polypeptide binding]; other site 269482012766 TPP binding site [chemical binding]; other site 269482012767 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 269482012768 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 269482012769 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 269482012770 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 269482012771 Transcriptional regulators [Transcription]; Region: FadR; COG2186 269482012772 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 269482012773 DNA-binding site [nucleotide binding]; DNA binding site 269482012774 FCD domain; Region: FCD; pfam07729 269482012775 C4-dicarboxylate transporter DctA; Reviewed; Region: PRK13027 269482012776 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 269482012777 allantoicase; Provisional; Region: PRK13257 269482012778 Allantoicase repeat; Region: Allantoicase; pfam03561 269482012779 Allantoicase repeat; Region: Allantoicase; pfam03561 269482012780 ureidoglycolate hydrolase; Provisional; Region: PRK13395 269482012781 Ureidoglycolate hydrolase [Nucleotide transport and metabolism]; Region: DAL3; COG3194 269482012782 ferric uptake regulator; Provisional; Region: fur; PRK09462 269482012783 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 269482012784 metal binding site 2 [ion binding]; metal-binding site 269482012785 putative DNA binding helix; other site 269482012786 metal binding site 1 [ion binding]; metal-binding site 269482012787 dimer interface [polypeptide binding]; other site 269482012788 structural Zn2+ binding site [ion binding]; other site 269482012789 Outer membrane lipoprotein OmlA (small protein A) [Cell envelope biogenesis, outer membrane]; Region: OlmA; COG2913 269482012790 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 269482012791 dihydrodipicolinate reductase; Provisional; Region: PRK00048 269482012792 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 269482012793 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 269482012794 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; pfam01618 269482012795 TolR protein; Region: tolR; TIGR02801 269482012796 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 269482012797 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 269482012798 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 269482012799 HIGH motif; other site 269482012800 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 269482012801 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 269482012802 active site 269482012803 KMSKS motif; other site 269482012804 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 269482012805 tRNA binding surface [nucleotide binding]; other site 269482012806 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 269482012807 Lipopolysaccharide-assembly; Region: LptE; pfam04390 269482012808 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 269482012809 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 269482012810 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 269482012811 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 269482012812 putative catalytic cysteine [active] 269482012813 Predicted membrane protein [Function unknown]; Region: COG1981 269482012814 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 269482012815 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 269482012816 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 269482012817 putative active site [active] 269482012818 phosphogluconate dehydratase; Validated; Region: PRK09054 269482012819 6-phosphogluconate dehydratase; Region: edd; TIGR01196 269482012820 keto-hydroxyglutarate-aldolase/keto-deoxy- phosphogluconate aldolase; Provisional; Region: PRK05718 269482012821 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 269482012822 active site 269482012823 intersubunit interface [polypeptide binding]; other site 269482012824 catalytic residue [active] 269482012825 fructuronate transporter; Provisional; Region: PRK10034; cl15264 269482012826 GntP family permease; Region: GntP_permease; pfam02447 269482012827 Gluconate kinase (GntK) catalyzes the phosphoryl transfer from ATP to gluconate. The resulting product gluconate-6-phoshate is an important precursor of gluconate metabolism. GntK acts as a dimmer composed of two identical subunits; Region: GntK; cd02021 269482012828 ATP-binding site [chemical binding]; other site 269482012829 Gluconate-6-phosphate binding site [chemical binding]; other site 269482012830 Shikimate kinase; Region: SKI; pfam01202 269482012831 adenylosuccinate lyase; Provisional; Region: PRK09285 269482012832 PurB_like adenylosuccinases (adenylsuccinate lyase, ASL); Region: PurB; cd01598 269482012833 tetramer interface [polypeptide binding]; other site 269482012834 active site 269482012835 Transcriptional regulator [Transcription]; Region: LysR; COG0583 269482012836 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 269482012837 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 269482012838 dimerization interface [polypeptide binding]; other site 269482012839 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 269482012840 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 269482012841 NAD(P) binding domain of glutamate dehydrogenase, subgroup 1; Region: NAD_bind_1_Glu_DH; cd01076 269482012842 NAD(P) binding site [chemical binding]; other site 269482012843 glutamate and aspartate transporter subunit; Provisional; Region: PRK10797 269482012844 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 269482012845 substrate binding pocket [chemical binding]; other site 269482012846 membrane-bound complex binding site; other site 269482012847 hinge residues; other site 269482012848 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 269482012849 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 269482012850 dimer interface [polypeptide binding]; other site 269482012851 conserved gate region; other site 269482012852 putative PBP binding loops; other site 269482012853 ABC-ATPase subunit interface; other site 269482012854 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 269482012855 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 269482012856 dimer interface [polypeptide binding]; other site 269482012857 conserved gate region; other site 269482012858 putative PBP binding loops; other site 269482012859 ABC-ATPase subunit interface; other site 269482012860 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 269482012861 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 269482012862 Walker A/P-loop; other site 269482012863 ATP binding site [chemical binding]; other site 269482012864 Q-loop/lid; other site 269482012865 ABC transporter signature motif; other site 269482012866 Walker B; other site 269482012867 D-loop; other site 269482012868 H-loop/switch region; other site 269482012869 Extended Signal Peptide of Type V secretion system; Region: ESPR; pfam13018 269482012870 Pertactin-like passenger domains (virulence factors), C-terminal, subgroup 2, of autotransporter proteins of the type V secretion system of Gram-negative bacteria. This subgroup includes the passenger domains of the nonprotease autotransporters, Ag43; Region: PL2_Passenger_AT; cd01344 269482012871 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 269482012872 Autotransporter beta-domain; Region: Autotransporter; smart00869 269482012873 Predicted glutamine amidotransferase [General function prediction only]; Region: COG0121 269482012874 Glutamine amidotransferases class-II (Gn-AT)_YafJ-type. YafJ is a glutamine amidotransferase-like protein of unknown function found in prokaryotes, eukaryotes and archaea. YafJ has a conserved structural fold similar to those of other class II...; Region: YafJ; cd01908 269482012875 putative active site [active] 269482012876 putative dimer interface [polypeptide binding]; other site 269482012877 Dihydroorotase (DHOase) catalyzes the reversible interconversion of carbamoyl aspartate to dihydroorotate, a key reaction in the pyrimidine biosynthesis. In contrast to the large polyfunctional CAD proteins of higher organisms, this group of DHOases is...; Region: DHOase; cd01294 269482012878 active site 269482012879 substrate binding pocket [chemical binding]; other site 269482012880 dimer interface [polypeptide binding]; other site 269482012881 Protein of unknown function (DUF3025); Region: DUF3025; pfam11227 269482012882 OsmC-like protein; Region: OsmC; cl00767 269482012883 Ribosomal protein L13. Protein L13, a large ribosomal subunit protein, is one of five proteins required for an early folding intermediate of 23S rRNA in the assembly of the large subunit. L13 is situated on the bottom of the large subunit, near the...; Region: Ribosomal_L13; cd00392 269482012884 23S rRNA interface [nucleotide binding]; other site 269482012885 L3 interface [polypeptide binding]; other site 269482012886 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 269482012887 iron-sulfur cluster insertion protein ErpA; Provisional; Region: PRK13623 269482012888 anhydro-N-acetylmuramic acid kinase; Reviewed; Region: anmK; PRK09585 269482012889 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 269482012890 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 269482012891 active site 269482012892 HIGH motif; other site 269482012893 dimer interface [polypeptide binding]; other site 269482012894 KMSKS motif; other site 269482012895 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cd00165 269482012896 RNA binding surface [nucleotide binding]; other site 269482012897 D-Tyrosyl-tRNAtyr deacylases; a class of tRNA-dependent hydrolases which are capable of hydrolyzing the ester bond of D-Tyrosyl-tRNA reducing the level of cellular D-Tyrosine while recycling the peptidyl-tRNA; found in bacteria and in eukaryotes but not...; Region: Dtyr_deacylase; cd00563 269482012898 putative active site [active] 269482012899 dimerization interface [polypeptide binding]; other site 269482012900 putative tRNAtyr binding site [nucleotide binding]; other site 269482012901 Histidine phosphatase domain found in phosphoglycerate mutases and related proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP_PGM_like; cd07067 269482012902 catalytic core [active] 269482012903 Uncharacterized protein conserved in bacteria (DUF2236); Region: DUF2236; cl01472 269482012904 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 269482012905 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 269482012906 Walker A motif; other site 269482012907 ATP binding site [chemical binding]; other site 269482012908 Walker B motif; other site 269482012909 arginine finger; other site 269482012910 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 269482012911 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 269482012912 RuvA N terminal domain; Region: RuvA_N; pfam01330 269482012913 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 269482012914 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 269482012915 Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD...; Region: RuvC_resolvase; cd00529 269482012916 active site 269482012917 putative DNA-binding cleft [nucleotide binding]; other site 269482012918 dimer interface [polypeptide binding]; other site 269482012919 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 269482012920 Inosine monophosphate cyclohydrolase domain. This is the N-terminal domain in the purine biosynthesis pathway protein ATIC (purH). The bifunctional ATIC protein contains a C-terminal ATIC formylase domain that formylates...; Region: IMPCH; cd01421 269482012921 purine monophosphate binding site [chemical binding]; other site 269482012922 dimer interface [polypeptide binding]; other site 269482012923 putative catalytic residues [active] 269482012924 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 269482012925 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 269482012926 DNA-binding protein Fis; Provisional; Region: PRK01905 269482012927 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 269482012928 Dihydrouridine synthase-like (DUS-like) FMN-binding domain. Members of this family catalyze the reduction of the 5,6-double bond of a uridine residue on tRNA. Dihydrouridine modification of tRNA is widely observed in prokaryotes and eukaryotes, and also...; Region: DUS_like_FMN; cd02801 269482012929 FMN binding site [chemical binding]; other site 269482012930 active site 269482012931 catalytic residues [active] 269482012932 substrate binding site [chemical binding]; other site 269482012933 hypothetical protein; Provisional; Region: PRK06996 269482012934 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 269482012935 Aminopeptidase P, N-terminal domain; Region: AMP_N; pfam05195 269482012936 proline aminopeptidase P II; Provisional; Region: PRK10879 269482012937 Prolidase. E.C. 3.4.13.9. Also known as Xaa-Pro dipeptidase, X-Pro dipeptidase, proline dipeptidase., imidodipeptidase, peptidase D, gamma-peptidase. Catalyses hydrolysis of Xaa-Pro dipeptides; also acts on aminoacyl-hydroxyproline analogs. No action on...; Region: Prolidase; cd01087 269482012938 active site 269482012939 putative glutathione S-transferase; Provisional; Region: PRK10357 269482012940 GST_N family, unknown subfamily 3; composed of uncharacterized bacterial proteins with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of...; Region: GST_N_3; cd03049 269482012941 putative C-terminal domain interface [polypeptide binding]; other site 269482012942 putative GSH binding site (G-site) [chemical binding]; other site 269482012943 putative dimer interface [polypeptide binding]; other site 269482012944 C-terminal, alpha helical domain of an unknown subfamily 6 of Glutathione S-transferases; Region: GST_C_6; cd03205 269482012945 dimer interface [polypeptide binding]; other site 269482012946 N-terminal domain interface [polypeptide binding]; other site 269482012947 putative substrate binding pocket (H-site) [chemical binding]; other site 269482012948 Glutamate synthase domain 2 [Amino acid transport and metabolism]; Region: GltB; COG0069 269482012949 Glutamate synthase (GltS) FMN-binding domain. GltS is a complex iron-sulfur flavoprotein that catalyzes the reductive synthesis of L-glutamate from 2-oxoglutarate and L-glutamine via intramolecular channelling of ammonia, a reaction in the plant, yeast...; Region: GltS_FMN; cd02808 269482012950 active site 269482012951 FMN binding site [chemical binding]; other site 269482012952 substrate binding site [chemical binding]; other site 269482012953 3Fe-4S cluster binding site [ion binding]; other site 269482012954 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 269482012955 tRNA methyl transferase. This family represents tRNA(5-methylaminomethyl-2-thiouridine)-methyltransferase which is involved in the biosynthesis of the modified nucleoside 5-methylaminomethyl-2-thiouridine present in the wobble position of some tRNAs; Region: tRNA_Me_trans; cd01998 269482012956 Contains a crystal structure of the Nudix hydrolase from Nitrosomonas europaea, which has an unknown function. In general, members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes...; Region: Nudix_Hydrolase_2; cd03675 269482012957 nudix motif; other site 269482012958 Transcriptional regulator [Transcription]; Region: LysR; COG0583 269482012959 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 269482012960 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 269482012961 dimerization interface [polypeptide binding]; other site 269482012962 Nitrilases, cyanide hydratase (CH)s, and similar proteins (class 1 nitrilases); Region: nitrilases_CHs; cd07564 269482012963 Predicted amidohydrolase [General function prediction only]; Region: COG0388 269482012964 putative active site [active] 269482012965 catalytic triad [active] 269482012966 putative dimer interface [polypeptide binding]; other site 269482012967 Predicted transcriptional regulator [Transcription]; Region: COG2378 269482012968 HTH domain; Region: HTH_11; pfam08279 269482012969 WYL domain; Region: WYL; pfam13280 269482012970 N-terminal domain of Streptomyces griseus SgaA (suppression of growth disturbance caused by A-factor at a high concentration under high osmolality during early growth phase), and similar domains; Region: SgaA_N_like; cd07247 269482012971 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 269482012972 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 269482012973 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 269482012974 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 269482012975 Site-specific recombinase; Region: SpecificRecomb; pfam10136 269482012976 Protein of unknown function (DUF330); Region: DUF330; pfam03886 269482012977 Paraquat-inducible protein B [General function prediction only]; Region: PqiB; COG3008 269482012978 mce related protein; Region: MCE; pfam02470 269482012979 mce related protein; Region: MCE; pfam02470 269482012980 Uncharacterized paraquat-inducible protein A [Function unknown]; Region: PqiA; COG2995 269482012981 Paraquat-inducible protein A; Region: PqiA; pfam04403 269482012982 Paraquat-inducible protein A; Region: PqiA; pfam04403 269482012983 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 269482012984 YceI-like domain; Region: YceI; smart00867 269482012985 Uncharacterized conserved protein [Function unknown]; Region: COG2353 269482012986 citrate-proton symporter; Provisional; Region: PRK15075 269482012987 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 269482012988 putative substrate translocation pore; other site 269482012989 PDZ domain of C-terminal processing-, tail-specific-, and tricorn proteases, which function in posttranslational protein processing, maturation, and disassembly or degradation, in Bacteria, Archaea, and plant chloroplasts. May be responsible for...; Region: PDZ_CTP_protease; cd00988 269482012990 protein binding site [polypeptide binding]; other site 269482012991 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 269482012992 Active site serine [active] 269482012993 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 269482012994 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 269482012995 Protein export membrane protein; Region: SecD_SecF; pfam02355 269482012996 SecD export protein N-terminal TM region; Region: SecD-TM1; pfam13721 269482012997 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 269482012998 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 269482012999 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 269482013000 preprotein translocase subunit YajC; Validated; Region: yajC; PRK05585 269482013001 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 269482013002 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 269482013003 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 269482013004 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 269482013005 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 269482013006 RecG_wedge_OBF: A subfamily of OB folds corresponding to the OB fold found in the N-terminal (wedge) domain of Escherichia coli RecG. RecG is a branched-DNA-specific helicase, which catalyzes the interconversion of a DNA replication fork to a...; Region: RecG_wedge_OBF; cd04488 269482013007 ssDNA binding site; other site 269482013008 generic binding surface II; other site 269482013009 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 269482013010 ATP binding site [chemical binding]; other site 269482013011 putative Mg++ binding site [ion binding]; other site 269482013012 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 269482013013 nucleotide binding region [chemical binding]; other site 269482013014 ATP-binding site [chemical binding]; other site 269482013015 Transcriptional regulator [Transcription]; Region: LysR; COG0583 269482013016 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 269482013017 The C-terminal substrate-binding domain of the LysR-type transcriptional regulator OxyR, a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_OxyR; cd08411 269482013018 dimerization interface [polypeptide binding]; other site 269482013019 catalase/hydroperoxidase HPI(I); Provisional; Region: PRK15061 269482013020 N-terminal catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_1; cd00649 269482013021 dimer interface [polypeptide binding]; other site 269482013022 active site 269482013023 heme binding site [chemical binding]; other site 269482013024 C-terminal non-catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_2; cd08200 269482013025 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 269482013026 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 269482013027 dimerization interface [polypeptide binding]; other site 269482013028 DPS ferroxidase diiron center [ion binding]; other site 269482013029 ion pore; other site 269482013030 4-hydroxybenzoate octaprenyltransferase; Reviewed; Region: ubiA; PRK12848 269482013031 UbiA prenyltransferase family; Region: UbiA; pfam01040 269482013032 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 269482013033 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 269482013034 Pyridoxal 5-phosphate (PLP)-binding TIM barrel domain of Type III PLP-Dependent Enzymes, Yggs-like proteins; Region: PLPDE_III_Yggs_like; cd06824 269482013035 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 269482013036 catalytic residue [active] 269482013037 glycolate oxidase iron-sulfur subunit; Provisional; Region: glcF; PRK11274 269482013038 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 269482013039 Cysteine-rich domain; Region: CCG; pfam02754 269482013040 Cysteine-rich domain; Region: CCG; pfam02754 269482013041 glycolate oxidase FAD binding subunit; Provisional; Region: glcE; PRK11282 269482013042 FAD binding domain; Region: FAD_binding_4; pfam01565 269482013043 glycolate oxidase subunit GlcD; Provisional; Region: PRK11230 269482013044 FAD binding domain; Region: FAD_binding_4; pfam01565 269482013045 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 269482013046 FAD binding domain; Region: FAD_binding_4; pfam01565 269482013047 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; cl00920 269482013048 bifunctional nitric oxide dioxygenase/dihydropteridine reductase 2; Provisional; Region: PRK13289 269482013049 Globins are heme proteins, which bind and transport oxygen. This family summarizes a diverse set of homologous protein domains, including: (1) tetrameric vertebrate hemoglobins, which are the major protein component of erythrocytes and transport oxygen...; Region: globin; cd01040 269482013050 heme-binding site [chemical binding]; other site 269482013051 FAD_NAD(P)H binding domain of flavohemoglobin. Flavohemoglobins have a globin domain containing a B-type heme fused with a ferredoxin reductase-like FAD/NAD-binding domain. Flavohemoglobins detoxify nitric oxide (NO) via an NO dioxygenase reaction. The...; Region: flavohem_like_fad_nad_binding; cd06184 269482013052 FAD binding pocket [chemical binding]; other site 269482013053 FAD binding motif [chemical binding]; other site 269482013054 phosphate binding motif [ion binding]; other site 269482013055 beta-alpha-beta structure motif; other site 269482013056 NAD binding pocket [chemical binding]; other site 269482013057 Heme binding pocket [chemical binding]; other site 269482013058 phospho-2-dehydro-3-deoxyheptonate aldolase; Validated; Region: PRK09261 269482013059 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 269482013060 protease TldD; Provisional; Region: tldD; PRK10735 269482013061 nitrilase; Region: PLN02798 269482013062 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 269482013063 putative active site [active] 269482013064 catalytic triad [active] 269482013065 dimer interface [polypeptide binding]; other site 269482013066 TIGR02099 family protein; Region: TIGR02099 269482013067 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 269482013068 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Reviewed; Region: PRK11072 269482013069 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 269482013070 metal binding triad; other site 269482013071 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 269482013072 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 269482013073 metal binding triad; other site 269482013074 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 269482013075 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 269482013076 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 269482013077 Walker A/P-loop; other site 269482013078 ATP binding site [chemical binding]; other site 269482013079 Q-loop/lid; other site 269482013080 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 269482013081 ABC transporter signature motif; other site 269482013082 Walker B; other site 269482013083 D-loop; other site 269482013084 H-loop/switch region; other site 269482013085 NAD(+)/NADH kinase family protein; Provisional; Region: ppnK; PRK02155 269482013086 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK02231 269482013087 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 269482013088 Winged helix-turn-helix transcription repressor, HrcA DNA-binding; Region: HrcA_DNA-bdg; pfam03444 269482013089 ferrochelatase; Reviewed; Region: hemH; PRK00035 269482013090 Ferrochelatase, N-terminal domain: Ferrochelatase (protoheme ferrolyase or HemH) is the terminal enzyme of the heme biosynthetic pathway. It catalyzes the insertion of ferrous iron into the protoporphyrin IX ring yielding protoheme. This enzyme is...; Region: Ferrochelatase_N; cd03411 269482013091 C-terminal domain interface [polypeptide binding]; other site 269482013092 active site 269482013093 Ferrochelatase, C-terminal domain: Ferrochelatase (protoheme ferrolyase or HemH) is the terminal enzyme of the heme biosynthetic pathway. It catalyzes the insertion of ferrous iron into the protoporphyrin IX ring yielding protoheme. This enzyme is...; Region: Ferrochelatase_C; cd00419 269482013094 active site 269482013095 N-terminal domain interface [polypeptide binding]; other site 269482013096 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cd00165 269482013097 RNA binding surface [nucleotide binding]; other site 269482013098 GrpE; Region: GrpE; pfam01025 269482013099 GrpE is the adenine nucleotide exchange factor of DnaK (Hsp70)-type ATPases. The GrpE dimer binds to the ATPase domain of Hsp70 catalyzing the dissociation of ADP, which enables rebinding of ATP, one step in the Hsp70 reaction cycle in protein folding; Region: GrpE; cd00446 269482013100 dimer interface [polypeptide binding]; other site 269482013101 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 269482013102 TRX family; composed of two groups: Group I, which includes proteins that exclusively encode a TRX domain; and Group II, which are composed of fusion proteins of TRX and additional domains. Group I TRX is a small ancient protein that alter the redox...; Region: TRX_family; cd02947 269482013103 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 269482013104 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 269482013105 nucleotide binding site [chemical binding]; other site 269482013106 chaperone protein DnaJ; Provisional; Region: PRK10767 269482013107 DnaJ domain or J-domain. DnaJ/Hsp40 (heat shock protein 40) proteins are highly conserved and play crucial roles in protein translation, folding, unfolding, translocation, and degradation. They act primarily by stimulating the ATPase activity of Hsp70s; Region: DnaJ; cd06257 269482013108 HSP70 interaction site [polypeptide binding]; other site 269482013109 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 269482013110 Zn binding sites [ion binding]; other site 269482013111 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 269482013112 dimer interface [polypeptide binding]; other site 269482013113 chorismate binding enzyme; Region: Chorismate_bind; cl10555 269482013114 Anthranilate/para-aminobenzoate synthases component I [Amino acid transport and metabolism / Coenzyme metabolism]; Region: TrpE; COG0147 269482013115 chorismate binding enzyme; Region: Chorismate_bind; cl10555 269482013116 PyridoxaL 5'-Phosphate Dependent Enzymes class IV (PLPDE_IV). This D-amino acid superfamily, one of five classes of PLPDE, consists of branched-chain amino acid aminotransferases (BCAT), D-amino acid transferases (DAAT), and...; Region: PLPDE_IV; cl00224 269482013117 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 269482013118 substrate-cofactor binding pocket; other site 269482013119 pyridoxal 5'-phosphate binding site [chemical binding]; other site 269482013120 catalytic residue [active] 269482013121 Ketopantoate hydroxymethyltransferase (KPHMT) is the first enzyme in the pantothenate biosynthesis pathway. Ketopantoate hydroxymethyltransferase (KPHMT) catalyzes the first committed step in the biosynthesis of pantothenate (vitamin B5), which is a...; Region: KPHMT-like; cd06557 269482013122 oligomerization interface [polypeptide binding]; other site 269482013123 active site 269482013124 metal binding site [ion binding]; metal-binding site 269482013125 Deoxynucleoside kinases [Nucleotide transport and metabolism]; Region: COG1428 269482013126 Deoxyribonucleoside kinase (dNK) catalyzes the phosphorylation of deoxyribonucleosides to yield corresponding monophosphates (dNMPs). This family consists of various deoxynucleoside kinases including deoxyribo- cytidine (EC 2.7.1.74), guanosine (EC 2.7.1; Region: dNK; cd01673 269482013127 Substrate-binding site [chemical binding]; other site 269482013128 Substrate specificity [chemical binding]; other site 269482013129 7,8-dihydro-6-hydroxymethylpterin-pyrophosphokinase (HPPK). Folate derivatives are essential cofactors in the biosynthesis of purines, pyrimidines, and amino acids as well as formyl-tRNA. Mammalian cells are able to utilize pre-formed folates after...; Region: HPPK; cd00483 269482013130 catalytic center binding site [active] 269482013131 ATP binding site [chemical binding]; other site 269482013132 poly(A) polymerase; Region: pcnB; TIGR01942 269482013133 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 269482013134 active site 269482013135 NTP binding site [chemical binding]; other site 269482013136 metal binding triad [ion binding]; metal-binding site 269482013137 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 269482013138 Polymerase A arginine-rich C-terminus; Region: PolyA_pol_arg_C; pfam12626 269482013139 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 269482013140 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 269482013141 DnaA regulatory inactivator Hda; Validated; Region: PRK08903 269482013142 ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]; Region: DnaA; COG0593 269482013143 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 269482013144 PurM (Aminoimidazole Ribonucleotide [AIR] synthetase), one of eleven enzymes required for purine biosynthesis, catalyzes the conversion of formylglycinamide ribonucleotide (FGAM) and ATP to AIR, ADP, and Pi, the fifth step in de novo purine biosynthesis; Region: PurM; cd02196 269482013145 dimerization interface [polypeptide binding]; other site 269482013146 putative ATP binding site [chemical binding]; other site 269482013147 Ketosteroid isomerase homolog [Function unknown]; Region: COG4319 269482013148 SnoaL-like domain; Region: SnoaL_3; pfam13474 269482013149 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 269482013150 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 269482013151 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 269482013152 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 269482013153 ATP binding site [chemical binding]; other site 269482013154 Mg2+ binding site [ion binding]; other site 269482013155 G-X-G motif; other site 269482013156 MutL_Trans_MutL: transducer domain, having a ribosomal S5 domain 2-like fold, found in proteins similar to Escherichia coli MutL. EcMutL belongs to the DNA mismatch repair (MutL/MLH1/PMS2) family. This transducer domain is homologous to the second...; Region: MutL_Trans_MutL; cd03482 269482013157 ATP binding site [chemical binding]; other site 269482013158 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 269482013159 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 269482013160 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 269482013161 Adenosine 5'-phosphosulfate kinase (APSK) catalyzes the phosphorylation of adenosine 5'-phosphosulfate to form 3'-phosphoadenosine 5'-phosphosulfate (PAPS). The end-product PAPS is a biologically "activated" sulfate form...; Region: APSK; cd02027 269482013162 ligand-binding site [chemical binding]; other site 269482013163 ergothioneine biosynthesis protein EgtC; Region: TIGR03442 269482013164 Glutamine amidotransferases class-II (Gn-AT)_YafJ-type. YafJ is a glutamine amidotransferase-like protein of unknown function found in prokaryotes, eukaryotes and archaea. YafJ has a conserved structural fold similar to those of other class II...; Region: YafJ; cd01908 269482013165 putative active site [active] 269482013166 putative dimer interface [polypeptide binding]; other site 269482013167 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 269482013168 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 269482013169 Tetratricopeptide repeat; Region: TPR_6; pfam13174 269482013170 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 269482013171 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 269482013172 ligand binding site [chemical binding]; other site 269482013173 translocation protein TolB; Provisional; Region: tolB; PRK02889 269482013174 TolB amino-terminal domain; Region: TolB_N; pfam04052 269482013175 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 269482013176 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 269482013177 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 269482013178 TolA protein; Region: tolA_full; TIGR02794 269482013179 TonB C terminal; Region: TonB_2; pfam13103 269482013180 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 269482013181 TolR protein; Region: tolR; TIGR02801 269482013182 TolQ protein; Region: tolQ; TIGR02796 269482013183 4-hydroxybenzoyl-CoA thioesterase (4HBT). Catalyzes the final step in the 4-chlorobenzoate degradation pathway in which 4-chlorobenzoate is converted to 4-hydroxybenzoate in certain soil-dwelling bacteria. 4HBT forms a homotetramer with four active sites; Region: 4HBT; cd00586 269482013184 active site 269482013185 malonic semialdehyde reductase; Provisional; Region: PRK10538 269482013186 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269482013187 NAD(P) binding site [chemical binding]; other site 269482013188 active site 269482013189 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 269482013190 Serine-glycine hydroxymethyltransferase (SHMT). This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). SHMT carries out interconversion of serine and glycine; it catalyzes the transfer of hydroxymethyl...; Region: SHMT; cd00378 269482013191 dimer interface [polypeptide binding]; other site 269482013192 active site 269482013193 glycine-pyridoxal phosphate binding site [chemical binding]; other site 269482013194 folate binding site [chemical binding]; other site 269482013195 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 269482013196 ATP cone domain; Region: ATP-cone; pfam03477 269482013197 Type II transport protein GspH; Region: GspH; pfam12019 269482013198 Tfp pilus assembly protein PilE [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilE; COG4968 269482013199 Protein of unknown function (DUF3318); Region: DUF3318; pfam11780 269482013200 Predicted membrane protein [Function unknown]; Region: COG5393 269482013201 Bacterial protein of unknown function (DUF883); Region: DUF883; pfam05957 269482013202 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 269482013203 Peroxiredoxin (PRX) family, 1-cys PRX subfamily; composed of PRXs containing only one conserved cysteine, which serves as the peroxidatic cysteine. They are homodimeric thiol-specific antioxidant (TSA) proteins that confer a protective role in cells by...; Region: PRX_1cys; cd03016 269482013204 dimer interface [polypeptide binding]; other site 269482013205 decamer (pentamer of dimers) interface [polypeptide binding]; other site 269482013206 catalytic triad [active] 269482013207 Glutaryl-CoA dehydrogenase; Region: GCD; cd01151 269482013208 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 269482013209 FAD binding site [chemical binding]; other site 269482013210 substrate binding pocket [chemical binding]; other site 269482013211 catalytic base [active] 269482013212 Transcriptional regulator [Transcription]; Region: IclR; COG1414 269482013213 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 269482013214 Bacterial transcriptional regulator; Region: IclR; pfam01614 269482013215 Uncharacterized conserved protein [Function unknown]; Region: COG3791 269482013216 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cl00290 269482013217 FAD-dependent oxidoreductase; Provisional; Region: PRK08132 269482013218 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 269482013219 Protein of unknown function (DUF2783); Region: DUF2783; pfam10932 269482013220 benzoate transport; Region: 2A0115; TIGR00895 269482013221 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 269482013222 putative substrate translocation pore; other site 269482013223 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 269482013224 putative substrate translocation pore; other site 269482013225 homogentisate 1,2-dioxygenase; Provisional; Region: PRK05341 269482013226 fumarylacetoacetase; Region: PLN02856 269482013227 Domain of unknown function (DUF1969); Region: DUF1969; pfam09298 269482013228 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 269482013229 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 269482013230 Major Facilitator Superfamily; Region: MFS_1; pfam07690 269482013231 putative substrate translocation pore; other site 269482013232 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 269482013233 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 269482013234 putative substrate translocation pore; other site 269482013235 Subfamily of the nitroreductase family that includes BluB protein in Rhodobacter capsulatus is involved in the conversion of cobinamide to cobalamin in Cobalamin (vitamin B12) biosynthesis. Nitroreductases typically reduce their substrates by using NAD(P)...; Region: BluB; cd02145 269482013236 putative FMN binding site [chemical binding]; other site 269482013237 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 269482013238 D-Lactate and related Dehydrogenases, NAD-binding and catalytic domains; Region: LDH_like_2; cd12183 269482013239 putative ligand binding site [chemical binding]; other site 269482013240 putative NAD binding site [chemical binding]; other site 269482013241 catalytic site [active] 269482013242 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 269482013243 Transcriptional regulator [Transcription]; Region: LysR; COG0583 269482013244 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 269482013245 putative effector binding pocket; other site 269482013246 dimerization interface [polypeptide binding]; other site 269482013247 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 269482013248 Helix-turn-helix domain; Region: HTH_38; pfam13936 269482013249 Integrase core domain; Region: rve; pfam00665 269482013250 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 269482013251 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 269482013252 catalytic residue [active] 269482013253 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 269482013254 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 269482013255 EamA-like transporter family; Region: EamA; pfam00892 269482013256 EamA-like transporter family; Region: EamA; pfam00892 269482013257 major facilitator superfamily transporter; Provisional; Region: PRK05122 269482013258 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 269482013259 putative substrate translocation pore; other site 269482013260 xanthine dehydrogenase, small subunit; Region: xanthine_xdhA; TIGR02963 269482013261 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 269482013262 catalytic loop [active] 269482013263 iron binding site [ion binding]; other site 269482013264 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 269482013265 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; pfam03450 269482013266 xanthine dehydrogenase, molybdopterin binding subunit; Region: xanthine_xdhB; TIGR02965 269482013267 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 269482013268 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 269482013269 xanthine dehydrogenase accessory protein XdhC; Region: xanthine_xdhC; TIGR02964 269482013270 XdhC Rossmann domain; Region: XdhC_C; pfam13478 269482013271 Plasmid stability protein [General function prediction only]; Region: StbC; COG4691 269482013272 PIN domain of ribonucleases (toxins), VapC and FitB, of prokaryotic toxin/antitoxin operons, Pyrococcus horikoshii protein PH0500, and other similar bacterial and archaeal homologs; Region: PIN_VapC-FitB; cd09881 269482013273 oligomeric interface; other site 269482013274 putative active site [active] 269482013275 homodimer interface [polypeptide binding]; other site 269482013276 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4460 269482013277 Transcriptional regulator [Transcription]; Region: LysR; COG0583 269482013278 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 269482013279 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 269482013280 dimerization interface [polypeptide binding]; other site 269482013281 DsbA family, 2-hydroxychromene-2-carboxylate (HCCA) isomerase subfamily; HCCA isomerase is a glutathione (GSH) dependent enzyme involved in the naphthalene catabolic pathway. It converts HCCA, a hemiketal formed spontaneously after ring cleavage of 1; Region: DsbA_HCCA_Iso; cd03022 269482013282 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 269482013283 putative catalytic residue [active] 269482013284 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 269482013285 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 269482013286 BON domain; Region: BON; pfam04972 269482013287 3HB-oligomer hydrolase (3HBOH); Region: 3HBOH; pfam10605 269482013288 Carboxypeptidase C (cathepsin A) [Amino acid transport and metabolism]; Region: COG2939 269482013289 Serine carboxypeptidase; Region: Peptidase_S10; cl08270 269482013290 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 269482013291 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 269482013292 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 269482013293 putative substrate translocation pore; other site 269482013294 Predicted dithiol-disulfide isomerase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FrnE; COG2761 269482013295 DsbA family, FrnE subfamily; FrnE is a DsbA-like protein containing a CXXC motif. It is presumed to be a thiol oxidoreductase involved in polyketide biosynthesis, specifically in the production of the aromatic antibiotics frenolicin and nanaomycins; Region: DsbA_FrnE; cd03024 269482013296 catalytic residues [active] 269482013297 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2964 269482013298 YheO-like PAS domain; Region: PAS_6; pfam08348 269482013299 HTH domain; Region: HTH_22; pfam13309 269482013300 Secreted repeat of unknown function; Region: Lipoprotein_15; pfam03640 269482013301 Secreted repeat of unknown function; Region: Lipoprotein_15; pfam03640 269482013302 RNA polymerase sigma factor; Provisional; Region: PRK12511 269482013303 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 269482013304 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 269482013305 DNA binding residues [nucleotide binding] 269482013306 Anti sigma-E protein RseA, N-terminal domain; Region: RseA_N; pfam03872 269482013307 Cupredoxin-like domain; Region: Cupredoxin_1; cl17234 269482013308 Outer membrane lipoprotein-sorting protein [Cell envelope biogenesis, outer membrane]; Region: LolA; COG2834 269482013309 Domain of unknown function (DUF4412); Region: DUF4412; pfam14371 269482013310 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_6; cd07824 269482013311 putative hydrophobic ligand binding site [chemical binding]; other site 269482013312 Chaperonin 10 Kd subunit (cpn10 or GroES); Cpn10 cooperates with chaperonin 60 (cpn60 or GroEL), an ATPase, to assist the folding and assembly of proteins and is found in eubacterial cytosol, as well as in the matrix of mitochondria and chloroplasts. It...; Region: cpn10; cd00320 269482013313 oligomerisation interface [polypeptide binding]; other site 269482013314 mobile loop; other site 269482013315 roof hairpin; other site 269482013316 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 269482013317 GroEL_like type I chaperonin. Chaperonins are involved in productive folding of proteins. They share a common general morphology, a double toroid of 2 stacked rings, each composed of 7-9 subunits. The symmetry of type I is seven-fold and they are found...; Region: GroEL; cd03344 269482013318 ring oligomerisation interface [polypeptide binding]; other site 269482013319 ATP/Mg binding site [chemical binding]; other site 269482013320 stacking interactions; other site 269482013321 hinge regions; other site 269482013322 4-amino-5-hydroxymethyl-2-methyl-pyrimidine phosphate kinase (HMPP-kinase) catalyzes two consecutive phosphorylation steps in the thiamine phosphate biosynthesis pathway, leading to the synthesis of vitamin B1. The first step is the phosphorylation of...; Region: HMPP_kinase; cd01169 269482013323 dimer interface [polypeptide binding]; other site 269482013324 substrate binding site [chemical binding]; other site 269482013325 ATP binding site [chemical binding]; other site 269482013326 Rubredoxin [Energy production and conversion]; Region: COG1773 269482013327 Rubredoxin; nonheme iron binding domains containing a [Fe(SCys)4] center. Rubredoxins are small nonheme iron proteins. The iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc. They are...; Region: rubredoxin; cd00730 269482013328 iron binding site [ion binding]; other site 269482013329 hypothetical protein; Validated; Region: PRK00228 269482013330 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 269482013331 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 269482013332 active site 269482013333 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 269482013334 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 269482013335 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 269482013336 dihydroorotase; Provisional; Region: PRK07627 269482013337 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 269482013338 Dihydroorotase (DHOase), subgroup IIa; DHOases catalyze the reversible interconversion of carbamoyl aspartate to dihydroorotate, a key reaction in pyrimidine biosynthesis. This subgroup also contains proteins that lack the active site, like unc-33, a C; Region: DHOase_IIa; cd01317 269482013339 active site 269482013340 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 269482013341 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 269482013342 putative acyl-acceptor binding pocket; other site 269482013343 diadenosine tetraphosphatase; Reviewed; Region: apaH; PRK00166 269482013344 Escherichia coli ApaH and related proteins, metallophosphatase domain; Region: MPP_ApaH; cd07422 269482013345 active site 269482013346 metal binding site [ion binding]; metal-binding site 269482013347 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 269482013348 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 269482013349 NAD binding site [chemical binding]; other site 269482013350 substrate binding site [chemical binding]; other site 269482013351 homodimer interface [polypeptide binding]; other site 269482013352 active site 269482013353 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 269482013354 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 269482013355 substrate binding site; other site 269482013356 tetramer interface; other site 269482013357 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: dTDP_sugar_isom; cl17405 269482013358 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 269482013359 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 269482013360 NADP binding site [chemical binding]; other site 269482013361 active site 269482013362 putative substrate binding site [chemical binding]; other site 269482013363 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: GT1_like_1; cd04950 269482013364 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 269482013365 putative homodimer interface [polypeptide binding]; other site 269482013366 Bacterial members of the UDP-N-Acetylglucosamine (GlcNAc) 2-Epimerase family are known to catalyze the reversible interconversion of UDP-GlcNAc and UDP-N-acetylmannosamine (UDP-ManNAc). The enzyme serves to produce an activated form of ManNAc residues; Region: GT1_UDP-GlcNAc_2-Epimerase; cd03786 269482013367 UDP-N-acetylglucosamine 2-epimerase; Region: wecB; TIGR00236 269482013368 active site 269482013369 homodimer interface [polypeptide binding]; other site 269482013370 Polysaccharide pyruvyl transferase family protein [Cell wall/membrane/envelope biogenesis]; Region: WcaK; COG2327 269482013371 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; cl09156 269482013372 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl17192 269482013373 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 269482013374 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 269482013375 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 269482013376 Probable Catalytic site; other site 269482013377 metal-binding site 269482013378 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 269482013379 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 269482013380 Walker A/P-loop; other site 269482013381 ATP binding site [chemical binding]; other site 269482013382 Q-loop/lid; other site 269482013383 ABC transporter signature motif; other site 269482013384 Walker B; other site 269482013385 D-loop; other site 269482013386 H-loop/switch region; other site 269482013387 C-Terminal domain of O-antigenic polysaccharide transporter protein Wzt and related proteins; Region: Wzt_C-like; cd10147 269482013388 putative carbohydrate binding site [chemical binding]; other site 269482013389 sugar transferase, PEP-CTERM/EpsH1 system associated; Region: stp1; TIGR03087 269482013390 Glycosyl transferases group 1; Region: Glyco_trans_1_4; pfam13692 269482013391 Acetyltransferase (isoleucine patch superfamily) [General function prediction only]; Region: WbbJ; COG0110 269482013392 Maltose O-acyltransferase (MAT)-like: This family is composed of maltose O-acetyltransferase, galactoside O-acetyltransferase (GAT), xenobiotic acyltransferase (XAT) and similar proteins. MAT and GAT catalyze the CoA-dependent acetylation of the...; Region: LbH_MAT_like; cd04647 269482013393 trimer interface [polypeptide binding]; other site 269482013394 active site 269482013395 substrate binding site [chemical binding]; other site 269482013396 CoA binding site [chemical binding]; other site 269482013397 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 269482013398 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 269482013399 Substrate binding site; other site 269482013400 Mannose-6-phosphate isomerase; Region: MannoseP_isomer; pfam01050 269482013401 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 269482013402 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 269482013403 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 269482013404 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 269482013405 Probable Catalytic site; other site 269482013406 metal-binding site 269482013407 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 269482013408 UDP-glucose 4 epimerase, subgroup 4, extended (e) SDRs; Region: UDP_G4E_4_SDR_e; cd05232 269482013409 putative NAD(P) binding site [chemical binding]; other site 269482013410 active site 269482013411 putative substrate binding site [chemical binding]; other site 269482013412 The members of this subfamily catalyze the formation of a phosphodiester bond between a membrane-associated undecaprenyl-phosphate (Und-P) molecule and N-acetylhexosamine 1-phosphate, which is usually donated by a soluble UDP-N-acetylhexosamine precursor; Region: GT_WbpL_WbcO_like; cd06854 269482013413 Mg++ binding site [ion binding]; other site 269482013414 putative catalytic motif [active] 269482013415 putative substrate binding site [chemical binding]; other site 269482013416 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 269482013417 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cl00160 269482013418 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 269482013419 NAD(P) binding site [chemical binding]; other site 269482013420 homodimer interface [polypeptide binding]; other site 269482013421 substrate binding site [chemical binding]; other site 269482013422 active site 269482013423 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 269482013424 This subfamily is composed of uncharacterized bacterial glycosyltransferases in the MraY-like family. This family contains both eukaryotic and prokaryotic UDP-D-N-acetylhexosamine:polyprenol phosphate D-N-acetylhexosamine-1-phosphate transferases, which...; Region: GT_MraY_like; cd06912 269482013425 Mg++ binding site [ion binding]; other site 269482013426 putative catalytic motif [active] 269482013427 UDP-glucose 4-epimerase; Region: PLN02240 269482013428 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 269482013429 NAD binding site [chemical binding]; other site 269482013430 homodimer interface [polypeptide binding]; other site 269482013431 active site 269482013432 substrate binding site [chemical binding]; other site 269482013433 This family is most closely related to the GT1 family of glycosyltransferases. cap1E in Streptococcus pneumoniae is required for the synthesis of type 1 capsular polysaccharides; Region: GT1_cap1E_like; cd03808 269482013434 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 269482013435 putative ADP-binding pocket [chemical binding]; other site 269482013436 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 269482013437 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 269482013438 active site 269482013439 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 269482013440 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 269482013441 The phosphomannomutase/phosphoglucomutase (PMM/PGM) bifunctional enzyme catalyzes the reversible conversion of 1-phospho to 6-phospho-sugars (e.g. between mannose-1-phosphate and mannose-6-phosphate or glucose-1-phosphate and glucose-6-phosphate) via a...; Region: PMM_PGM; cd03089 269482013442 active site 269482013443 substrate binding site [chemical binding]; other site 269482013444 metal binding site [ion binding]; metal-binding site 269482013445 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 269482013446 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 269482013447 putative active site [active] 269482013448 3-deoxy-D-manno-oct-2-ulosonic acid (Kdo) hydroxylase; Region: Kdo_hydroxy; pfam11004 269482013449 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 269482013450 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 269482013451 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 269482013452 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 269482013453 Urease accessory protein UreF [Posttranslational modification, protein turnover, chaperones]; Region: UreF; COG0830 269482013454 UreF; Region: UreF; pfam01730 269482013455 urease accessory protein UreE; Provisional; Region: ureE; PRK13263 269482013456 UreE urease accessory protein. UreE is a metallochaperone assisting the insertion of a Ni2+ ion in the active site of urease, an important step in the in vivo assembly of urease, an enzyme that hydrolyses urea into ammonia and carbamic acid. The...; Region: UreE; cd00571 269482013457 dimer interface [polypeptide binding]; other site 269482013458 catalytic residues [active] 269482013459 urease subunit alpha; Reviewed; Region: ureC; PRK13207 269482013460 Urease alpha-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, fungi and plants. Their primary role is to allow the use of...; Region: Urease_alpha; cd00375 269482013461 subunit interactions [polypeptide binding]; other site 269482013462 active site 269482013463 flap region; other site 269482013464 Urease beta-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, archaea, fungi and plants. Their primary role is to allow the use of...; Region: Urease_beta; cd00407 269482013465 gamma-beta subunit interface [polypeptide binding]; other site 269482013466 alpha-beta subunit interface [polypeptide binding]; other site 269482013467 Urease gamma-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, archaea, fungi and plants. Their primary role is to allow the use...; Region: Urease_gamma; cd00390 269482013468 alpha-gamma subunit interface [polypeptide binding]; other site 269482013469 beta-gamma subunit interface [polypeptide binding]; other site 269482013470 UreD urease accessory protein; Region: UreD; cl00530 269482013471 urea ABC transporter, ATP-binding protein UrtE; Region: urea_trans_UrtE; TIGR03410 269482013472 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 269482013473 Walker A/P-loop; other site 269482013474 ATP binding site [chemical binding]; other site 269482013475 Q-loop/lid; other site 269482013476 ABC transporter signature motif; other site 269482013477 Walker B; other site 269482013478 D-loop; other site 269482013479 H-loop/switch region; other site 269482013480 urea ABC transporter, ATP-binding protein UrtD; Region: urea_trans_UrtD; TIGR03411 269482013481 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 269482013482 Walker A/P-loop; other site 269482013483 ATP binding site [chemical binding]; other site 269482013484 Q-loop/lid; other site 269482013485 ABC transporter signature motif; other site 269482013486 Walker B; other site 269482013487 D-loop; other site 269482013488 H-loop/switch region; other site 269482013489 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 269482013490 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 269482013491 TM-ABC transporter signature motif; other site 269482013492 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 269482013493 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 269482013494 TM-ABC transporter signature motif; other site 269482013495 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 269482013496 Periplasmic component (FmdD) of an active transport system for short-chain amides and urea (FmdDEF); Region: PBP1_FmdD_like; cd06355 269482013497 putative ligand binding site [chemical binding]; other site 269482013498 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cl00125 269482013499 active site residue [active] 269482013500 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 269482013501 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 269482013502 S-adenosylmethionine binding site [chemical binding]; other site 269482013503 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 269482013504 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 269482013505 FeS/SAM binding site; other site 269482013506 HemN C-terminal domain; Region: HemN_C; pfam06969 269482013507 Flagellin N-methylase; Region: FliB; pfam03692 269482013508 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 269482013509 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 269482013510 S-adenosylmethionine binding site [chemical binding]; other site 269482013511 Predicted enzyme of the cupin superfamily [General function prediction only]; Region: COG3450 269482013512 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 269482013513 Chromate transporter; Region: Chromate_transp; pfam02417 269482013514 Chromate transporter; Region: Chromate_transp; pfam02417 269482013515 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 269482013516 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 269482013517 DNA-binding site [nucleotide binding]; DNA binding site 269482013518 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 269482013519 GDP-mannose pyrophosphatase NudK; Provisional; Region: PRK15009 269482013520 ADP-ribose pyrophosphatase (ADPRase) catalyzes the hydrolysis of ADP-ribose and a variety of additional ADP-sugar conjugates to AMP and ribose-5-phosphate. Like other members of the Nudix hydrolase superfamily, it requires a divalent cation, such as Mg2+; Region: ADPRase_NUDT5; cd03424 269482013521 dimer interface [polypeptide binding]; other site 269482013522 ADP-ribose binding site [chemical binding]; other site 269482013523 active site 269482013524 nudix motif; other site 269482013525 metal binding site [ion binding]; metal-binding site 269482013526 Domain of unknown function (DUF4406); Region: DUF4406; pfam14359 269482013527 NAD-dependent deacetylase; Provisional; Region: PRK00481 269482013528 SIR2 superfamily of proteins includes silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation, where the acetyl group from the lysine epsilon-amino group is transferred to the ADP-ribose moiety of NAD+; Region: SIR2; cl00195 269482013529 Peptidase domain in the S53 family; Region: Peptidases_S53; cd04056 269482013530 active site 269482013531 catalytic triad [active] 269482013532 calcium binding site [ion binding]; other site 269482013533 chromosome condensation membrane protein; Provisional; Region: PRK14196 269482013534 Uncharacterized ACR, COG1993; Region: DUF190; cl00872 269482013535 YGGT family; Region: YGGT; pfam02325 269482013536 YGGT family; Region: YGGT; pfam02325 269482013537 Domain of unknown function (DUF2520); Region: DUF2520; pfam10728 269482013538 LysE type translocator; Region: LysE; cl00565 269482013539 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 269482013540 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 269482013541 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 269482013542 N-acetyl-D-glucosamine binding site [chemical binding]; other site 269482013543 catalytic residue [active] 269482013544 aminotransferase; Validated; Region: PRK07337 269482013545 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 269482013546 pyridoxal 5'-phosphate binding site [chemical binding]; other site 269482013547 homodimer interface [polypeptide binding]; other site 269482013548 catalytic residue [active] 269482013549 transcription antitermination protein NusB; Reviewed; Region: nusB; PRK00202 269482013550 putative RNA binding site [nucleotide binding]; other site 269482013551 lumazine synthase (6,7-dimethyl-8-ribityllumazine synthase, LS), catalyzes the penultimate step in the biosynthesis of riboflavin (vitamin B2); type-I; Region: Lumazine_synthase-I; cd09209 269482013552 homopentamer interface [polypeptide binding]; other site 269482013553 active site 269482013554 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II-like protein; Provisional; Region: PRK14019 269482013555 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 269482013556 GTP cyclohydrolase II; Region: GTP_cyclohydro2; pfam00925 269482013557 dimerization interface [polypeptide binding]; other site 269482013558 active site 269482013559 Domain of unknown function (DUF1993); Region: DUF1993; pfam09351 269482013560 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 269482013561 Riboflavin-specific deaminase. Riboflavin biosynthesis protein RibD (Diaminohydroxyphosphoribosylaminopyrimidine deaminase) catalyzes the deamination of 2,5-diamino-6-ribosylamino-4(3H)-pyrimidinone 5'-phosphate, which is an intermediate step in the...; Region: Riboflavin_deaminase-reductase; cd01284 269482013562 catalytic motif [active] 269482013563 Zn binding site [ion binding]; other site 269482013564 RibD C-terminal domain; Region: RibD_C; cl17279 269482013565 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 269482013566 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 269482013567 inhibitor-cofactor binding pocket; inhibition site 269482013568 pyridoxal 5'-phosphate binding site [chemical binding]; other site 269482013569 catalytic residue [active] 269482013570 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 269482013571 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 269482013572 putative substrate translocation pore; other site 269482013573 bifunctional glucokinase/RpiR family transcriptional regulator; Provisional; Region: PRK14101 269482013574 glucokinase; Provisional; Region: glk; PRK00292 269482013575 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 269482013576 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 269482013577 putative active site [active] 269482013578 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 269482013579 6PGL: 6-Phosphogluconolactonase (6PGL) subfamily; 6PGL catalyzes the second step of the oxidative phase of the pentose phosphate pathway, the hydrolyzation of 6-phosphoglucono-1,5-lactone (delta form) to 6-phosphogluconate. 6PGL is thought to guard...; Region: 6PGL; cd01400 269482013580 putative active site [active] 269482013581 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 269482013582 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 269482013583 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 269482013584 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 269482013585 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 269482013586 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 269482013587 dimer interface [polypeptide binding]; other site 269482013588 conserved gate region; other site 269482013589 putative PBP binding loops; other site 269482013590 ABC-ATPase subunit interface; other site 269482013591 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 269482013592 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 269482013593 dimer interface [polypeptide binding]; other site 269482013594 conserved gate region; other site 269482013595 putative PBP binding loops; other site 269482013596 ABC-ATPase subunit interface; other site 269482013597 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 269482013598 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 269482013599 Walker A/P-loop; other site 269482013600 ATP binding site [chemical binding]; other site 269482013601 Q-loop/lid; other site 269482013602 ABC transporter signature motif; other site 269482013603 Walker B; other site 269482013604 D-loop; other site 269482013605 H-loop/switch region; other site 269482013606 TOBE domain; Region: TOBE_2; pfam08402 269482013607 Predicted membrane protein [Function unknown]; Region: COG2860 269482013608 UPF0126 domain; Region: UPF0126; pfam03458 269482013609 UPF0126 domain; Region: UPF0126; pfam03458 269482013610 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2840 269482013611 Smr domain; Region: Smr; pfam01713 269482013612 thioredoxin reductase; Provisional; Region: PRK10262 269482013613 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 269482013614 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 269482013615 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 269482013616 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 269482013617 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 269482013618 lipoprotein chaperone; Reviewed; Region: lolA; PRK00031 269482013619 Outer membrane lipoprotein carrier protein LolA; Region: LolA; pfam03548 269482013620 recombination factor protein RarA; Reviewed; Region: PRK13342 269482013621 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 269482013622 Walker A motif; other site 269482013623 ATP binding site [chemical binding]; other site 269482013624 Walker B motif; other site 269482013625 arginine finger; other site 269482013626 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 269482013627 Uncharacterized conserved protein (DUF2164); Region: DUF2164; pfam09932 269482013628 seryl-tRNA synthetase; Provisional; Region: PRK05431 269482013629 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 269482013630 Seryl-tRNA synthetase (SerRS) class II core catalytic domain. SerRS is responsible for the attachment of serine to the 3' OH group of ribose of the appropriate tRNA. This domain It is primarily responsible for ATP-dependent formation of the enzyme...; Region: SerRS_core; cd00770 269482013631 dimer interface [polypeptide binding]; other site 269482013632 active site 269482013633 motif 1; other site 269482013634 motif 2; other site 269482013635 motif 3; other site 269482013636 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 269482013637 dimerization interface [polypeptide binding]; other site 269482013638 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 269482013639 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 269482013640 dimer interface [polypeptide binding]; other site 269482013641 putative CheW interface [polypeptide binding]; other site 269482013642 Alkane hydroxylase is a bacterial, integral-membrane di-iron enzyme that shares a requirement for iron and oxygen for activity similar to that of the non-heme integral-membrane acyl coenzyme A (CoA) desaturases and acyl lipid desaturases. The alk genes...; Region: Alkane-hydroxylase; cd03512 269482013643 Fatty acid desaturase; Region: FA_desaturase; pfam00487 269482013644 Di-iron ligands [ion binding]; other site 269482013645 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 269482013646 Coenzyme A binding pocket [chemical binding]; other site 269482013647 septum formation inhibitor; Reviewed; Region: PRK01973 269482013648 Septum formation inhibitor MinC, N-terminal domain; Region: MinC_N; pfam05209 269482013649 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 269482013650 Septum formation inhibitor-activating ATPase [Cell division and chromosome partitioning]; Region: MinD; COG2894 269482013651 Bacterial cell division requires the formation of a septum at mid-cell. The site is determined by the min operon products MinC, MinD and MinE. MinC is a nonspecific inhibitor of the septum protein FtsZ. MinE is the supressor of MinC. MinD plays a pivotal...; Region: MinD; cd02036 269482013652 Switch I; other site 269482013653 Switch II; other site 269482013654 cell division topological specificity factor MinE; Provisional; Region: PRK13989 269482013655 ClC chloride channel family. These protein sequences, closely related to the ClC Eric family, are putative halogen ion (Cl-, Br- and I-) transport proteins found in eubacteria. They belong to the ClC superfamily of chloride ion channels, which share a...; Region: EriC_like; cd01034 269482013656 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 269482013657 putative ion selectivity filter; other site 269482013658 putative pore gating glutamate residue; other site 269482013659 putative H+/Cl- coupling transport residue; other site 269482013660 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 269482013661 Helix-turn-helix domain; Region: HTH_38; pfam13936 269482013662 Integrase core domain; Region: rve; pfam00665 269482013663 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 269482013664 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 269482013665 putative active site [active] 269482013666 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 269482013667 metabolite-proton symporter; Region: 2A0106; TIGR00883 269482013668 putative substrate translocation pore; other site 269482013669 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 269482013670 coproporphyrinogen III oxidase; Provisional; Region: PRK08898 269482013671 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 269482013672 FeS/SAM binding site; other site 269482013673 HemN C-terminal domain; Region: HemN_C; pfam06969 269482013674 NTPase/HAM1. This family consists of the HAM1 protein and pyrophosphate-releasing xanthosine/ inosine triphosphatase. HAM1 protects the cell against mutagenesis by the base analog 6-N-hydroxylaminopurine (HAP) in E. Coli and S. cerevisiae. A...; Region: HAM1; cd00515 269482013675 active site 269482013676 dimerization interface [polypeptide binding]; other site 269482013677 ribonuclease PH; Reviewed; Region: rph; PRK00173 269482013678 Ribonuclease PH; Region: RNase_PH_bact; cd11362 269482013679 hexamer interface [polypeptide binding]; other site 269482013680 active site 269482013681 hypothetical protein; Provisional; Region: PRK11820 269482013682 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 269482013683 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 269482013684 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 269482013685 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 269482013686 Guanosine monophosphate kinase (GMPK, EC 2.7.4.8), also known as guanylate kinase (GKase), catalyzes the reversible phosphoryl transfer from adenosine triphosphate (ATP) to guanosine monophosphate (GMP) to yield adenosine diphosphate (ADP) and guanosine...; Region: GMPK; cd00071 269482013687 catalytic site [active] 269482013688 Walker A/P-loop; other site 269482013689 G-X2-G-X-G-K; other site 269482013690 ATP binding site [chemical binding]; other site 269482013691 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 269482013692 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 269482013693 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 269482013694 Zn2+ binding site [ion binding]; other site 269482013695 Mg2+ binding site [ion binding]; other site 269482013696 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 269482013697 synthetase active site [active] 269482013698 NTP binding site [chemical binding]; other site 269482013699 metal binding site [ion binding]; metal-binding site 269482013700 TGS_RelA_SpoT: The RelA (SpoT) protein, also referred to as ppGpp hydrolase/synthetase, is a ribosome-associated protein that is activated during amino acid starvation and thought to mediate the stringent response. RelA contains a TGS domain, named after...; Region: TGS_RelA_SpoT; cd01668 269482013701 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 269482013702 transcription elongation factor GreB; Reviewed; Region: greB; PRK01885 269482013703 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 269482013704 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 269482013705 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 269482013706 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 269482013707 trimer interface [polypeptide binding]; other site 269482013708 eyelet of channel; other site 269482013709 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 269482013710 Helix-turn-helix domain; Region: HTH_38; pfam13936 269482013711 Integrase core domain; Region: rve; pfam00665 269482013712 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 269482013713 DNA-binding site [nucleotide binding]; DNA binding site 269482013714 RNA-binding motif; other site 269482013715 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 269482013716 active site 269482013717 catalytic site [active] 269482013718 substrate binding site [chemical binding]; other site 269482013719 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 269482013720 GIY-YIG motif/motif A; other site 269482013721 active site 269482013722 catalytic site [active] 269482013723 putative DNA binding site [nucleotide binding]; other site 269482013724 metal binding site [ion binding]; metal-binding site 269482013725 chorismate mutase; Provisional; Region: PRK09269 269482013726 Chorismate mutase type II; Region: CM_2; cl00693 269482013727 Protein of unknown function (DUF2946); Region: DUF2946; pfam11162 269482013728 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 269482013729 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 269482013730 N-terminal plug; other site 269482013731 ligand-binding site [chemical binding]; other site 269482013732 BNR repeat-like domain; Region: BNR_2; pfam13088 269482013733 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 269482013734 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 269482013735 fructose-1,6-bisphosphatase family protein; Region: PLN02628 269482013736 Fructose-1,6-bisphosphatase, an enzyme that catalyzes the hydrolysis of fructose-1,6-biphosphate into fructose-6-phosphate and is critical in gluconeogenesis pathway. The alignment model also includes chloroplastic FBPases and sedoheptulose-1; Region: FBPase; cd00354 269482013737 AMP binding site [chemical binding]; other site 269482013738 metal binding site [ion binding]; metal-binding site 269482013739 active site 269482013740 aminopeptidase N; Provisional; Region: pepN; PRK14015 269482013741 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_1; cd09600 269482013742 active site 269482013743 Zn binding site [ion binding]; other site 269482013744 Domain of unknown function (DUF4136); Region: DUF4136; pfam13590 269482013745 Predicted membrane protein [Function unknown]; Region: COG2119 269482013746 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 269482013747 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 269482013748 guanine deaminase; Provisional; Region: PRK09228 269482013749 Guanine deaminase (GDEase). Guanine deaminase is an aminohydrolase responsible for the conversion of guanine to xanthine and ammonia, the first step to utilize guanine as a nitrogen source. This reaction also removes the guanine base from the pool and...; Region: GDEase; cd01303 269482013750 active site 269482013751 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 269482013752 Adenosine deaminase (ADA) is a monomeric zinc dependent enzyme which catalyzes the irreversible hydrolytic deamination of both adenosine, as well as desoxyadenosine, to ammonia and inosine or desoxyinosine, respectively. ADA plays an important role in...; Region: ADA; cd01320 269482013753 active site 269482013754 purine riboside binding site [chemical binding]; other site 269482013755 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 269482013756 xanthine dehydrogenase accessory protein XdhC; Region: xanthine_xdhC; TIGR02964 269482013757 XdhC Rossmann domain; Region: XdhC_C; pfam13478 269482013758 disulfide bond formation protein B; Provisional; Region: PRK02110 269482013759 amidase; Provisional; Region: PRK07056 269482013760 Amidase; Region: Amidase; cl11426 269482013761 Transcriptional regulators [Transcription]; Region: GntR; COG1802 269482013762 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 269482013763 DNA-binding site [nucleotide binding]; DNA binding site 269482013764 FCD domain; Region: FCD; pfam07729 269482013765 Predicted glutamine amidotransferases [General function prediction only]; Region: COG2071 269482013766 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 269482013767 catalytic triad [active] 269482013768 Protein of unknown function (DUF2968); Region: DUF2968; pfam11180 269482013769 citrate-proton symporter; Provisional; Region: PRK15075 269482013770 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 269482013771 putative substrate translocation pore; other site 269482013772 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 269482013773 TPR motif; other site 269482013774 binding surface 269482013775 TPR repeat; Region: TPR_11; pfam13414 269482013776 TPR repeat; Region: TPR_11; pfam13414 269482013777 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 269482013778 binding surface 269482013779 TPR motif; other site 269482013780 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 269482013781 TPR repeat; Region: TPR_11; pfam13414 269482013782 TPR motif; other site 269482013783 binding surface 269482013784 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 269482013785 hypothetical protein; Provisional; Region: PRK06184 269482013786 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 269482013787 NADH-dependant formate dehydrogenase delta subunit FdsD; Region: FdsD; pfam11390 269482013788 Uncharacterized anaerobic dehydrogenase [General function prediction only]; Region: COG3383 269482013789 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 269482013790 catalytic loop [active] 269482013791 iron binding site [ion binding]; other site 269482013792 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 269482013793 Formate dehydrogenase H (Formate-Dh-H) catalyzes the reversible oxidation of formate to CO2 with the release of a proton and two electrons. It is a component of the anaerobic formate hydrogen lyase complex. The E. coli formate dehydrogenase H (Fdh-H) is...; Region: MopB_Formate-Dh-H; cd02753 269482013794 [4Fe-4S] binding site [ion binding]; other site 269482013795 molybdopterin cofactor binding site; other site 269482013796 This CD includes formate dehydrogenases (Fdh) H and N; nitrate reductases, Nap and Nas; and other related proteins. Formate dehydrogenase H is a component of the anaerobic formate hydrogen lyase complex and catalyzes the reversible oxidation of formate...; Region: MopB_CT_Fdh-Nap-like; cd00508 269482013797 molybdopterin cofactor binding site; other site 269482013798 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NAD-dependent formate dehydrogenase (FDH) beta subunit; composed of proteins similar to the beta subunit of NAD-linked FDH of Ralstonia eutropha, a soluble enzyme that catalyzes the irreversible oxidation of...; Region: TRX_Fd_FDH_beta; cd03063 269482013799 putative dimer interface [polypeptide binding]; other site 269482013800 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 269482013801 SLBB domain; Region: SLBB; pfam10531 269482013802 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 269482013803 formate dehydrogenase subunit gamma; Validated; Region: PRK05988 269482013804 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NADH:ubiquinone oxidoreductase (Nuo) subunit E subfamily, NAD-dependent formate dehydrogenase (FDH) gamma subunit; composed of proteins similar to the gamma subunit of NAD-linked FDH of Ralstonia eutropha, a...; Region: TRX_Fd_NuoE_FDH_gamma; cd03081 269482013805 putative dimer interface [polypeptide binding]; other site 269482013806 [2Fe-2S] cluster binding site [ion binding]; other site 269482013807 N-terminal domain of molybdenum-binding protein [General function prediction only]; Region: ModE; cl17549 269482013808 aminoethylphosphonate catabolism associated LysR family transcriptional regulator; Region: phn_lysR; TIGR03339 269482013809 PBP superfamily domain; Region: PBP_like; pfam12727 269482013810 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 269482013811 phosphoglycolate phosphatase; Provisional; Region: PRK13222 269482013812 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 269482013813 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 269482013814 S-adenosylmethionine binding site [chemical binding]; other site 269482013815 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 269482013816 ligand binding site [chemical binding]; other site 269482013817 DNA gyrase subunit A; Validated; Region: PRK05560 269482013818 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes...; Region: TOP4c; cd00187 269482013819 CAP-like domain; other site 269482013820 active site 269482013821 primary dimer interface [polypeptide binding]; other site 269482013822 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 269482013823 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 269482013824 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 269482013825 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 269482013826 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 269482013827 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 269482013828 Uncharacterized protein conserved in bacteria (DUF2059); Region: DUF2059; pfam09832 269482013829 Phosphoserine aminotransferase (PSAT) family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major group in this CD corresponds to phosphoserine aminotransferase (PSAT). PSAT is active as...; Region: PSAT_like; cd00611 269482013830 homodimer interface [polypeptide binding]; other site 269482013831 substrate-cofactor binding pocket; other site 269482013832 pyridoxal 5'-phosphate binding site [chemical binding]; other site 269482013833 catalytic residue [active] 269482013834 Chorismate mutase type II; Region: CM_2; cl00693 269482013835 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 269482013836 Prephenate dehydratase; Region: PDT; pfam00800 269482013837 C-terminal ACT domain of the bifunctional chorismate mutase-prephenate dehydratase (CM-PDT) enzyme and the prephenate dehydratase (PDT) enzyme; Region: ACT_CM-PDT; cd04905 269482013838 putative L-Phe binding site [chemical binding]; other site 269482013839 cyclohexadienyl dehydrogenase; Validated; Region: PRK07502 269482013840 prephenate dehydrogenase; Validated; Region: PRK08507 269482013841 3-phosphoshikimate 1-carboxyvinyltransferase; Region: PLN02338 269482013842 EPSP synthase domain. 3-phosphoshikimate 1-carboxyvinyltransferase (5-enolpyruvylshikimate-3-phosphate synthase) (EC 2.5.1.19) catalyses the reaction between shikimate-3-phosphate (S3P) and phosphoenolpyruvate (PEP) to form...; Region: EPSP_synthase; cd01556 269482013843 hinge; other site 269482013844 active site 269482013845 cytidylate kinase; Provisional; Region: cmk; PRK00023 269482013846 Cytidine monophosphate kinase (CMPK) catalyzes the reversible phosphorylation of cytidine monophosphate (CMP) to produce cytidine diphosphate (CDP), using ATP as the preferred phosphoryl donor; Region: CMPK; cd02020 269482013847 CMP-binding site; other site 269482013848 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 269482013849 S1_RPS1_repeat_ec1_hs1: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture...; Region: S1_RPS1_repeat_ec1_hs1; cd05687 269482013850 RNA binding site [nucleotide binding]; other site 269482013851 S1_RPS1_repeat_ec2_hs2: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture...; Region: S1_RPS1_repeat_ec2_hs2; cd04465 269482013852 RNA binding site [nucleotide binding]; other site 269482013853 S1_RPS1_repeat_ec3: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec3; cd05688 269482013854 RNA binding site [nucleotide binding]; other site 269482013855 S1_RPS1_repeat_ec4: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec4; cd05689 269482013856 RNA binding site [nucleotide binding]; other site 269482013857 S1_RPS1_repeat_ec5: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec5; cd05690 269482013858 RNA binding site [nucleotide binding]; other site 269482013859 S1_RPS1_repeat_ec6: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec6; cd05691 269482013860 RNA binding site [nucleotide binding]; other site 269482013861 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cd00591 269482013862 IHF dimer interface [polypeptide binding]; other site 269482013863 IHF - DNA interface [nucleotide binding]; other site 269482013864 tetratricopeptide repeat protein; Provisional; Region: PRK11788 269482013865 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 269482013866 binding surface 269482013867 TPR motif; other site 269482013868 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 269482013869 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 269482013870 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 269482013871 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 269482013872 RfaE encodes a bifunctional ADP-heptose synthase involved in the biosynthesis of the lipopolysaccharide (LPS) core precursor ADP-L-glycero-D-manno-heptose. LPS plays an important role in maintaining the structural integrity of the bacterial outer...; Region: RfaE_like; cd01172 269482013873 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 269482013874 putative ribose interaction site [chemical binding]; other site 269482013875 putative ADP binding site [chemical binding]; other site 269482013876 ADP-L-glycero-D-mannoheptose 6-epimerase (GME), extended (e) SDRs; Region: ADP_GME_SDR_e; cd05248 269482013877 ADP-L-glycero-D-manno-heptose-6-epimerase; Region: heptose_epim; TIGR02197 269482013878 NADP binding site [chemical binding]; other site 269482013879 homopentamer interface [polypeptide binding]; other site 269482013880 substrate binding site [chemical binding]; other site 269482013881 active site 269482013882 DNA uptake protein and related DNA-binding proteins [DNA replication, recombination, and repair]; Region: ComEA; COG1555 269482013883 cysteine synthase B; Region: cysM; TIGR01138 269482013884 CBS_like: This subgroup includes Cystathionine beta-synthase (CBS) and Cysteine synthase. CBS is a unique heme-containing enzyme that catalyzes a pyridoxal 5'-phosphate (PLP)-dependent condensation of serine and homocysteine to give cystathionine; Region: CBS_like; cd01561 269482013885 dimer interface [polypeptide binding]; other site 269482013886 pyridoxal 5'-phosphate binding site [chemical binding]; other site 269482013887 catalytic residue [active] 269482013888 Transglycosylase SLT domain; Region: SLT_2; pfam13406 269482013889 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 269482013890 N-acetyl-D-glucosamine binding site [chemical binding]; other site 269482013891 catalytic residue [active] 269482013892 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 269482013893 Histone deacetylases and histone-like deacetylases, classII; Region: HDAC_classII_2; cd11599 269482013894 putative active site [active] 269482013895 Zn binding site [ion binding]; other site 269482013896 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 269482013897 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 269482013898 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 269482013899 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 269482013900 Walker A/P-loop; other site 269482013901 ATP binding site [chemical binding]; other site 269482013902 Q-loop/lid; other site 269482013903 ABC transporter signature motif; other site 269482013904 Walker B; other site 269482013905 D-loop; other site 269482013906 H-loop/switch region; other site 269482013907 This domain is found at the C-terminus of ABC transporter proteins involved in D-methionine transport as well as a number of ferredoxin-like proteins; Region: NIL; smart00930 269482013908 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 269482013909 dimer interface [polypeptide binding]; other site 269482013910 conserved gate region; other site 269482013911 ABC-ATPase subunit interface; other site 269482013912 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 269482013913 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 269482013914 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_beta; cd01714 269482013915 Ligand binding site [chemical binding]; other site 269482013916 Electron transfer flavoprotein domain; Region: ETF; pfam01012 269482013917 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 269482013918 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_alpha; cd01715 269482013919 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 269482013920 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 269482013921 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 269482013922 hydroxyglutarate oxidase; Provisional; Region: PRK11728 269482013923 leucine-responsive transcriptional regulator; Provisional; Region: PRK11169 269482013924 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 269482013925 AsnC family; Region: AsnC_trans_reg; pfam01037 269482013926 DNA repair photolyase [DNA replication, recombination, and repair]; Region: SplB; COG1533 269482013927 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 269482013928 16S rRNA processing protein RimM; Region: 16S_RimM; TIGR02273 269482013929 RimM N-terminal domain; Region: RimM; pfam01782 269482013930 PRC-barrel domain; Region: PRC; pfam05239 269482013931 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 269482013932 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 269482013933 Coenzyme A pyrophosphatase (CoAse), a member of the Nudix hydrolase superfamily, functions to catalyze the elimination of oxidized inactive CoA, which can inhibit CoA-utilizing enzymes. The need of CoAses mainly arises under conditions of oxidative...; Region: CoAse; cd03426 269482013934 putative active site [active] 269482013935 putative CoA binding site [chemical binding]; other site 269482013936 nudix motif; other site 269482013937 metal binding site [ion binding]; metal-binding site 269482013938 CobD/CbiB family protein; Provisional; Region: PRK07630 269482013939 Domain of unknown function (DUF2007); Region: DUF2007; pfam09413 269482013940 GTPase RsgA; Reviewed; Region: PRK00098 269482013941 S1_YloQ_GTPase: YloQ GTase family (also known as YjeQ and CpgA), S1-like RNA-binding domain. Proteins in the YloQ GTase family bind the ribosome and have GTPase activity. The precise role of this family is unknown. The protein structure is composed of...; Region: S1_YloQ_GTPase; cd04466 269482013942 homodimer interface [polypeptide binding]; other site 269482013943 RNA binding site [nucleotide binding]; other site 269482013944 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 269482013945 GTPase/Zn-binding domain interface [polypeptide binding]; other site 269482013946 GTP/Mg2+ binding site [chemical binding]; other site 269482013947 G4 box; other site 269482013948 G5 box; other site 269482013949 G1 box; other site 269482013950 Switch I region; other site 269482013951 G2 box; other site 269482013952 G3 box; other site 269482013953 Switch II region; other site 269482013954 Peptidase family M48; Region: Peptidase_M48; pfam01435 269482013955 DEDDh 3'-5' exonuclease domain of oligoribonuclease and similar proteins; Region: Orn; cd06135 269482013956 catalytic site [active] 269482013957 putative active site [active] 269482013958 putative substrate binding site [chemical binding]; other site 269482013959 dimer interface [polypeptide binding]; other site 269482013960 MogA_MoaB family. Members of this family are involved in biosynthesis of the molybdenum cofactor (MoCF) an essential cofactor of a diverse group of redox enzymes. MoCF biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea; Region: MogA_MoaB; cd00886 269482013961 MPT binding site; other site 269482013962 trimer interface [polypeptide binding]; other site 269482013963 hypothetical protein; Provisional; Region: PRK05255 269482013964 peptidase PmbA; Provisional; Region: PRK11040 269482013965 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 269482013966 Dihydrofolate reductase (DHFR). Reduces 7,8-dihydrofolate to 5,6,7,8-tetrahydrofolate with NADPH as a cofactor. This is an essential step in the biosynthesis of deoxythymidine phosphate since 5,6,7,8-tetrahydrofolate is required to regenerate 5; Region: DHFR; cd00209 269482013967 folate binding site [chemical binding]; other site 269482013968 NADP+ binding site [chemical binding]; other site 269482013969 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 269482013970 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 269482013971 Walker A motif; other site 269482013972 ATP binding site [chemical binding]; other site 269482013973 Walker B motif; other site 269482013974 arginine finger; other site 269482013975 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 269482013976 thymidylate synthase; Provisional; Region: thyA; PRK13821 269482013977 Thymidylate synthase and pyrimidine hydroxymethylase: Thymidylate synthase (TS) and deoxycytidylate hydroxymethylase (dCMP-HMase) are homologs that catalyze analogous alkylation of C5 of pyrimidine nucleotides. Both enzymes are involved in the...; Region: TS_Pyrimidine_HMase; cd00351 269482013978 dimerization interface [polypeptide binding]; other site 269482013979 active site 269482013980 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 269482013981 dimerization interface [polypeptide binding]; other site 269482013982 putative DNA binding site [nucleotide binding]; other site 269482013983 putative Zn2+ binding site [ion binding]; other site 269482013984 Brown fat-inducible thioesterase (BFIT). Brain acyl-CoA hydrolase (BACH). These enzymes deacylate long-chain fatty acids by hydrolyzing acyl-CoA thioesters to free fatty acids and CoA-SH. Eukaryotic members of this family are expressed in brain, testis; Region: BFIT_BACH; cd03442 269482013985 fumarate hydratase; Reviewed; Region: fumC; PRK00485 269482013986 Class II fumarases; Region: Fumarase_classII; cd01362 269482013987 active site 269482013988 tetramer interface [polypeptide binding]; other site 269482013989 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 269482013990 putative efflux protein, MATE family; Region: matE; TIGR00797 269482013991 cation binding site [ion binding]; other site 269482013992 S4 domain; Region: S4_2; pfam13275 269482013993 Protein of unknown function (DUF4088); Region: DUF4088; pfam13317 269482013994 Branched-chain amino acid transport protein (AzlD); Region: AzlD; cl00735 269482013995 Predicted branched-chain amino acid permease (azaleucine resistance) [Amino acid transport and metabolism]; Region: AzlC; COG1296 269482013996 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 269482013997 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 269482013998 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 269482013999 Uncharacterized protein conserved in bacteria [Function unknown]; Region: CreA; COG3045 269482014000 CreA protein; Region: CreA; pfam05981 269482014001 Ferredoxin [Energy production and conversion]; Region: COG1146 269482014002 4Fe-4S binding domain; Region: Fer4; cl02805 269482014003 Domain of unknown function (DUF3470); Region: DUF3470; pfam11953 269482014004 nicotinate phosphoribosyltransferase; Region: NAPRTase; TIGR01514 269482014005 Nicotinate phosphoribosyltransferase (NAPRTase), related to PncB. Nicotinate phosphoribosyltransferase catalyses the formation of NAMN and PPi from 5-phosphoribosy -1-pyrophosphate (PRPP) and nicotinic acid, this is the first, and also rate limiting; Region: PncB_like; cd01401 269482014006 active site 269482014007 Uncharacterized conserved protein [Function unknown]; Region: COG1556 269482014008 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 269482014009 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 269482014010 D-glycerate dehydrogenase/hydroxypyruvate reductase (GDH); Region: GDH; cd05301 269482014011 dimerization interface [polypeptide binding]; other site 269482014012 ligand binding site [chemical binding]; other site 269482014013 NADP binding site [chemical binding]; other site 269482014014 catalytic site [active] 269482014015 Predicted nuclease of restriction endonuclease-like fold, RmuC family [General function prediction only]; Region: COG1322 269482014016 RmuC family; Region: RmuC; pfam02646 269482014017 putative acetyltransferase; Provisional; Region: PRK03624 269482014018 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 269482014019 Coenzyme A binding pocket [chemical binding]; other site 269482014020 molybdopterin biosynthesis protein MoeA; Provisional; Region: PRK10680 269482014021 MoeA family. Members of this family are involved in biosynthesis of the molybdenum cofactor (MoCF), an essential cofactor of a diverse group of redox enzymes. MoCF biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and...; Region: MoeA; cd00887 269482014022 dimer interface [polypeptide binding]; other site 269482014023 putative functional site; other site 269482014024 putative MPT binding site; other site 269482014025 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 269482014026 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 269482014027 GTP binding site; other site 269482014028 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 269482014029 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 269482014030 FeS/SAM binding site; other site 269482014031 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 269482014032 Ribonucleases G and E [Translation, ribosomal structure and biogenesis]; Region: CafA; COG1530 269482014033 S1_RNase_E: RNase E and RNase G, S1-like RNA-binding domain. RNase E is an essential endoribonuclease in the processing and degradation of RNA. In addition to its role in mRNA degradation, RNase E has also been implicated in the processing of rRNA, and...; Region: S1_RNase_E; cd04453 269482014034 homodimer interface [polypeptide binding]; other site 269482014035 oligonucleotide binding site [chemical binding]; other site 269482014036 23S rRNA pseudouridylate synthase C; Provisional; Region: PRK11025 269482014037 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cl09940 269482014038 RNA binding surface [nucleotide binding]; other site 269482014039 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 269482014040 active site 269482014041 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 269482014042 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 269482014043 motif II; other site 269482014044 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cd03467 269482014045 iron-sulfur cluster [ion binding]; other site 269482014046 [2Fe-2S] cluster binding site [ion binding]; other site 269482014047 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 269482014048 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 269482014049 tandem repeat interface [polypeptide binding]; other site 269482014050 oligomer interface [polypeptide binding]; other site 269482014051 active site residues [active] 269482014052 Uncharacterized subfamily of the tetrapyrrole methylase family similar to ribosomal RNA small subunit methyltransferase I (RsmI); Region: RsmI_like; cd11649 269482014053 putative SAM binding site [chemical binding]; other site 269482014054 homodimer interface [polypeptide binding]; other site 269482014055 Maf-like protein; Region: Maf; pfam02545 269482014056 Nucleotide binding protein Maf. Maf has been implicated in inhibition of septum formation in eukaryotes, bacteria and archaea, but homologs in B.subtilis and S.cerevisiae are nonessential for cell division. Maf has been predicted to be a nucleotide- or...; Region: Maf; cd00555 269482014057 active site 269482014058 dimer interface [polypeptide binding]; other site 269482014059 Uncharacterized ACR, COG1399; Region: DUF177; pfam02620 269482014060 50S ribosomal protein L32; Validated; Region: rpmF; PRK01110 269482014061 putative phosphate acyltransferase; Provisional; Region: PRK05331 269482014062 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 269482014063 Ketoacyl-acyl carrier protein synthase III (KASIII) initiates the elongation in type II fatty acid synthase systems. It is found in bacteria and plants. Elongation of fatty acids in the type II systems occurs by Claisen condensation of malonyl-acyl...; Region: KAS_III; cd00830 269482014064 dimer interface [polypeptide binding]; other site 269482014065 active site 269482014066 CoA binding pocket [chemical binding]; other site 269482014067 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 269482014068 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 269482014069 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 269482014070 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 269482014071 NAD(P) binding site [chemical binding]; other site 269482014072 homotetramer interface [polypeptide binding]; other site 269482014073 homodimer interface [polypeptide binding]; other site 269482014074 active site 269482014075 acyl carrier protein; Provisional; Region: acpP; PRK00982 269482014076 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK07314 269482014077 Beta-ketoacyl-acyl carrier protein (ACP) synthase (KAS), type I and II. KASs are responsible for the elongation steps in fatty acid biosynthesis. KASIII catalyses the initial condensation and KAS I and II catalyze further elongation steps by Claisen...; Region: KAS_I_II; cd00834 269482014078 dimer interface [polypeptide binding]; other site 269482014079 active site 269482014080 RNA polymerase sigma factor RpoE; Region: RpoE_Sigma70; TIGR02939 269482014081 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 269482014082 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 269482014083 DNA binding residues [nucleotide binding] 269482014084 Anti sigma-E protein RseA, N-terminal domain; Region: RseA_N; pfam03872 269482014085 anti-sigma E factor; Provisional; Region: rseB; PRK09455 269482014086 Negative regulator of sigma E activity [Signal transduction mechanisms]; Region: RseB; COG3026 269482014087 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 269482014088 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 269482014089 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 269482014090 protein binding site [polypeptide binding]; other site 269482014091 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 269482014092 protein binding site [polypeptide binding]; other site 269482014093 Glutaredoxin-like domain (DUF836); Region: DUF836; pfam05768 269482014094 GTP-binding protein LepA; Provisional; Region: PRK05433 269482014095 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 269482014096 G1 box; other site 269482014097 putative GEF interaction site [polypeptide binding]; other site 269482014098 GTP/Mg2+ binding site [chemical binding]; other site 269482014099 Switch I region; other site 269482014100 G2 box; other site 269482014101 G3 box; other site 269482014102 Switch II region; other site 269482014103 G4 box; other site 269482014104 G5 box; other site 269482014105 lepA_II: This subfamily represents the domain II of LepA, a GTP-binding protein localized in the cytoplasmic membrane. The N-terminal domain of LepA shares regions of homology to translation factors. In terms of interaction with the ribosome, EF-G, EF-Tu...; Region: lepA_II; cd03699 269482014106 lepA_C: This family represents the C-terminal region of LepA, a GTP-binding protein localized in the cytoplasmic membrane. LepA is ubiquitous in Bacteria and Eukaryota (e.g. Saccharomyces cerevisiae GUF1p), but is missing from Archaea. LepA exhibits...; Region: lepA_C; cd03709 269482014107 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 269482014108 signal peptidase I; Provisional; Region: PRK10861 269482014109 The S26 Type I signal peptidase (SPase; LepB; leader peptidase B; leader peptidase I; EC 3.4.21.89) family members are essential membrane-bound serine proteases that function to cleave the amino-terminal signal peptide extension from proteins that are...; Region: S26_SPase_I; cd06530 269482014110 Catalytic site [active] 269482014111 The S26 Type I signal peptidase (SPase; LepB; leader peptidase B; leader peptidase I; EC 3.4.21.89) family members are essential membrane-bound serine proteases that function to cleave the amino-terminal signal peptide extension from proteins that are...; Region: S26_SPase_I; cd06530 269482014112 ribonuclease III; Reviewed; Region: PRK12372 269482014113 RIBOc. Ribonuclease III C terminal domain. This group consists of eukaryotic, bacterial and archeal ribonuclease III (RNAse III) proteins. RNAse III is a double stranded RNA-specific endonuclease. Prokaryotic RNAse III is important in...; Region: RIBOc; cd00593 269482014114 dimerization interface [polypeptide binding]; other site 269482014115 active site 269482014116 metal binding site [ion binding]; metal-binding site 269482014117 Double-stranded RNA binding motif. Binding is not sequence specific but is highly specific for double stranded RNA. Found in a variety of proteins including dsRNA dependent protein kinase PKR, RNA helicases, Drosophila staufen protein, E. coli RNase III; Region: DSRM; cd00048 269482014118 GTPase Era; Reviewed; Region: era; PRK00089 269482014119 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 269482014120 G1 box; other site 269482014121 GTP/Mg2+ binding site [chemical binding]; other site 269482014122 Switch I region; other site 269482014123 G2 box; other site 269482014124 Switch II region; other site 269482014125 G3 box; other site 269482014126 G4 box; other site 269482014127 G5 box; other site 269482014128 KH domain; Region: KH_2; pfam07650 269482014129 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 269482014130 Recombination protein O N terminal; Region: RecO_N; pfam11967 269482014131 Recombination protein O C terminal; Region: RecO_C; pfam02565 269482014132 Pyridoxine 5'-phosphate (PNP) synthase domain; pyridoxal 5'-phosphate is the active form of vitamin B6 that acts as an essential, ubiquitous coenzyme in amino acid metabolism. In bacteria, formation of pyridoxine 5'-phosphate is a step in...; Region: PNPsynthase; cd00003 269482014133 active site 269482014134 hydrophilic channel; other site 269482014135 dimerization interface [polypeptide binding]; other site 269482014136 catalytic residues [active] 269482014137 active site lid [active] 269482014138 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 269482014139 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 269482014140 beta-hexosaminidase; Provisional; Region: PRK05337 269482014141 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 269482014142 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 269482014143 active site 269482014144 phosphorylation site [posttranslational modification] 269482014145 intermolecular recognition site; other site 269482014146 dimerization interface [polypeptide binding]; other site 269482014147 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 269482014148 Walker A motif; other site 269482014149 ATP binding site [chemical binding]; other site 269482014150 Walker B motif; other site 269482014151 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 269482014152 elongation factor P; Validated; Region: PRK00529 269482014153 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 269482014154 S1_EF-P_repeat_1: Translation elongation factor P (EF-P), S1-like RNA-binding domain, repeat 1. EF-P stimulates the peptidyltransferase activity in the prokaryotic 70S ribosome. EF-P enhances the synthesis of certain dipeptides with...; Region: S1_EF-P_repeat_1; cd04470 269482014155 RNA binding site [nucleotide binding]; other site 269482014156 S1_EF-P_repeat_2: Translation elongation factor P (EF-P), S1-like RNA-binding domain, repeat 1. EF-P stimulates the peptidyltransferase activity in the prokaryotic 70S ribosome. EF-P enhances the synthesis of certain dipeptides with...; Region: S1_EF-P_repeat_2; cd05794 269482014157 RNA binding site [nucleotide binding]; other site 269482014158 Uncharacterized protein conserved in bacteria (DUF2331); Region: DUF2331; pfam10093 269482014159 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4394 269482014160 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 269482014161 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 269482014162 GIY-YIG motif/motif A; other site 269482014163 active site 269482014164 catalytic site [active] 269482014165 putative DNA binding site [nucleotide binding]; other site 269482014166 metal binding site [ion binding]; metal-binding site 269482014167 UvrB/uvrC motif; Region: UVR; pfam02151 269482014168 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 269482014169 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 269482014170 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 269482014171 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 269482014172 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 269482014173 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 269482014174 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 269482014175 non-specific DNA binding site [nucleotide binding]; other site 269482014176 salt bridge; other site 269482014177 sequence-specific DNA binding site [nucleotide binding]; other site 269482014178 Cupin domain; Region: Cupin_2; cl17218 269482014179 Protein of unknown function (DUF3423); Region: DUF3423; pfam11903 269482014180 Methionine Aminopeptidase 1. E.C. 3.4.11.18. Also known as methionyl aminopeptidase and Peptidase M. Catalyzes release of N-terminal amino acids, preferentially methionine, from peptides and arylamides; Region: MetAP1; cd01086 269482014181 active site 269482014182 GAF domain-containing protein [Signal transduction mechanisms]; Region: COG1956 269482014183 LysR family transcriptional regulator; Provisional; Region: PRK14997 269482014184 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 269482014185 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_4; cd08473 269482014186 putative effector binding pocket; other site 269482014187 putative dimerization interface [polypeptide binding]; other site 269482014188 Pirin-related protein [General function prediction only]; Region: COG1741 269482014189 Pirin; Region: Pirin; pfam02678 269482014190 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 269482014191 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 269482014192 Coenzyme A binding pocket [chemical binding]; other site 269482014193 Cytochrome c oxidase caa3 assembly factor (Caa3_CtaG); Region: Caa3_CtaG; pfam09678 269482014194 Protein of unknown function (DUF461); Region: DUF461; pfam04314 269482014195 SCO (an acronym for Synthesis of Cytochrome c Oxidase) family; composed of proteins similar to Sco1, a membrane-anchored protein possessing a soluble domain with a TRX fold. Members of this family are required for the proper assembly of cytochrome c...; Region: SCO; cd02968 269482014196 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 269482014197 Cu(I) binding site [ion binding]; other site 269482014198 trehalose-6-phosphate phosphatase; Provisional; Region: PRK10187; cl17105 269482014199 Trehalose-phosphatase; Region: Trehalose_PPase; pfam02358 269482014200 alpha,alpha-trehalose-phosphate synthase [UDP-forming]; Region: trehalose_OtsA; TIGR02400 269482014201 Trehalose-6-Phosphate Synthase (TPS) is a glycosyltransferase that catalyses the synthesis of alpha,alpha-1,1-trehalose-6-phosphate from glucose-6-phosphate using a UDP-glucose donor. It is a key enzyme in the trehalose synthesis pathway. Trehalose is a...; Region: GT1_TPS; cd03788 269482014202 active site 269482014203 homotetramer interface [polypeptide binding]; other site 269482014204 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 269482014205 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 269482014206 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 269482014207 Walker A/P-loop; other site 269482014208 ATP binding site [chemical binding]; other site 269482014209 Q-loop/lid; other site 269482014210 ABC transporter signature motif; other site 269482014211 Walker B; other site 269482014212 D-loop; other site 269482014213 H-loop/switch region; other site 269482014214 This family is most closely related to the GT1 family of glycosyltransferases. aviGT4 in Streptomyces viridochromogenes has been shown to be involved in biosynthesis of oligosaccharide antibiotic avilamycin A. Inactivation of aviGT4 resulted in a mutant...; Region: GT1_AviGT4_like; cd03802 269482014215 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 269482014216 putative ADP-binding pocket [chemical binding]; other site 269482014217 Predicted membrane protein (DUF2214); Region: DUF2214; pfam09980 269482014218 glucarate dehydratase; Region: glucar-dehydr; TIGR03247 269482014219 D-Glucarate dehydratase (GlucD) catalyzes the dehydration of both D-glucarate and L-idarate to form 5-keto-4-deoxy-D-glucarate (5-KDG) , the initial reaction of the catabolic pathway for (D)-glucarate. GlucD belongs to the enolase superfamily of enzymes; Region: D-glucarate_dehydratase; cd03323 269482014220 active site 269482014221 tetramer interface [polypeptide binding]; other site 269482014222 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 269482014223 phosphonate utilization associated transcriptional regulator; Region: phnR_burk; TIGR03338 269482014224 DNA-binding site [nucleotide binding]; DNA binding site 269482014225 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 269482014226 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 269482014227 Type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine); Region: PBP1_ABC_LIVBP_like; cd06342 269482014228 dimerization interface [polypeptide binding]; other site 269482014229 ligand binding site [chemical binding]; other site 269482014230 phospholipase C, phosphocholine-specific, Pseudomonas-type; Region: PC_PLC; TIGR03396 269482014231 Phosphoesterase family; Region: Phosphoesterase; pfam04185 269482014232 Domain of unknown function (DUF756); Region: DUF756; pfam05506 269482014233 Domain of unknown function (DUF756); Region: DUF756; pfam05506 269482014234 pyridoxamine kinase; Validated; Region: PRK05756 269482014235 Pyridoxal kinase plays a key role in the synthesis of the active coenzyme pyridoxal-5'-phosphate (PLP), by catalyzing the phosphorylation of the precursor vitamin B6 in the presence of Zn2+ and ATP. Mammals are unable to synthesize PLP de novo and...; Region: pyridoxal_pyridoxamine_kinase; cd01173 269482014236 dimer interface [polypeptide binding]; other site 269482014237 pyridoxal binding site [chemical binding]; other site 269482014238 ATP binding site [chemical binding]; other site 269482014239 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 269482014240 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 269482014241 luciferase family oxidoreductase, group 1; Region: oxido_grp_1; TIGR03558 269482014242 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 269482014243 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cd00347 269482014244 Glucosylceramide synthase catalyzes the first glycosylation step of glycosphingolipid synthesis; Region: Glucosylceramide_synthase; cd02520 269482014245 ligand binding site; other site 269482014246 Glycosyl transferase family 21; Region: Glyco_transf_21; pfam13506 269482014247 hopanoid biosynthesis associated radical SAM protein HpnJ; Region: HpnJ; TIGR03471 269482014248 B12 binding domain (B12-BD). Most of the members bind different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide. This domain is found in several enzymes, such as glutamate mutase; Region: B12-binding_like; cl00293 269482014249 B12 binding site [chemical binding]; other site 269482014250 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 269482014251 FeS/SAM binding site; other site 269482014252 hopanoid biosynthesis associated protein HpnK and similar proteins; Region: YdjC_HpnK_like; cd10804 269482014253 putative active site [active] 269482014254 YdjC motif; other site 269482014255 Mg binding site [ion binding]; other site 269482014256 putative homodimer interface [polypeptide binding]; other site 269482014257 Uncharacterized protein family (UPF0104); Region: UPF0104; cl04219 269482014258 SmpA / OmlA family; Region: SmpA_OmlA; cl17115 269482014259 SmpA / OmlA family; Region: SmpA_OmlA; cl17115 269482014260 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 269482014261 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 269482014262 dimer interface [polypeptide binding]; other site 269482014263 conserved gate region; other site 269482014264 putative PBP binding loops; other site 269482014265 ABC-ATPase subunit interface; other site 269482014266 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 269482014267 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 269482014268 dimer interface [polypeptide binding]; other site 269482014269 conserved gate region; other site 269482014270 putative PBP binding loops; other site 269482014271 ABC-ATPase subunit interface; other site 269482014272 ABC-type histidine transport system, ATPase component [Amino acid transport and metabolism]; Region: HisP; COG4598 269482014273 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 269482014274 Walker A/P-loop; other site 269482014275 ATP binding site [chemical binding]; other site 269482014276 Q-loop/lid; other site 269482014277 ABC transporter signature motif; other site 269482014278 Walker B; other site 269482014279 D-loop; other site 269482014280 H-loop/switch region; other site 269482014281 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 269482014282 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 269482014283 conserved cys residue [active] 269482014284 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 269482014285 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 269482014286 Transposase, Mutator family; Region: Transposase_mut; pfam00872 269482014287 MULE transposase domain; Region: MULE; pfam10551 269482014288 bifunctional N-succinyldiaminopimelate-aminotransferase/acetylornithine transaminase protein; Reviewed; Region: argD; PRK05093 269482014289 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 269482014290 inhibitor-cofactor binding pocket; inhibition site 269482014291 pyridoxal 5'-phosphate binding site [chemical binding]; other site 269482014292 catalytic residue [active] 269482014293 Arginine N-succinyltransferase beta subunit; Region: AstA; cl11440 269482014294 Arginine/ornithine N-succinyltransferase beta subunit [Amino acid transport and metabolism]; Region: AstA; COG3138 269482014295 Arginine N-succinyltransferase beta subunit; Region: AstA; cl11440 269482014296 succinylglutamic semialdehyde dehydrogenase; Reviewed; Region: astD; PRK09457 269482014297 N-succinylglutamate 5-semialdehyde dehydrogenase, AstD-like; Region: ALDH_SGSD_AstD; cd07095 269482014298 NAD(P) binding site [chemical binding]; other site 269482014299 catalytic residues [active] 269482014300 succinylarginine dihydrolase; Provisional; Region: PRK13281 269482014301 succinylglutamate desuccinylase; Provisional; Region: PRK05324 269482014302 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 269482014303 active site 269482014304 Zn binding site [ion binding]; other site 269482014305 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 269482014306 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 269482014307 substrate binding pocket [chemical binding]; other site 269482014308 membrane-bound complex binding site; other site 269482014309 hinge residues; other site 269482014310 HDOD domain; Region: HDOD; pfam08668 269482014311 PAS domain; Region: PAS_9; pfam13426 269482014312 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 269482014313 putative active site [active] 269482014314 heme pocket [chemical binding]; other site 269482014315 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 269482014316 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 269482014317 metal binding site [ion binding]; metal-binding site 269482014318 active site 269482014319 I-site; other site 269482014320 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 269482014321 Peroxiredoxin (PRX) family, Bacterioferritin comigratory protein (BCP) subfamily; composed of thioredoxin-dependent thiol peroxidases, widely expressed in pathogenic bacteria, that protect cells against toxicity from reactive oxygen species by reducing...; Region: PRX_BCP; cd03017 269482014322 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 269482014323 catalytic triad [active] 269482014324 atypical (a) SDRs, subgroup 5; Region: SDR_a5; cd05243 269482014325 NADH(P)-binding; Region: NAD_binding_10; pfam13460 269482014326 NAD(P) binding site [chemical binding]; other site 269482014327 putative active site [active] 269482014328 NYN domain; Region: NYN; pfam01936 269482014329 putative metal binding site [ion binding]; other site 269482014330 Uncharacterized conserved protein [Function unknown]; Region: COG1432 269482014331 C-terminal domain of LabA_like proteins; Region: LabA_like_C; cd10146 269482014332 multidrug efflux system subunit MdtC; Provisional; Region: PRK10614 269482014333 Protein export membrane protein; Region: SecD_SecF; cl14618 269482014334 multidrug efflux system subunit MdtB; Provisional; Region: PRK10503 269482014335 Protein export membrane protein; Region: SecD_SecF; cl14618 269482014336 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 269482014337 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 269482014338 HlyD family secretion protein; Region: HlyD_3; pfam13437 269482014339 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 269482014340 Transcriptional regulator [Transcription]; Region: IclR; COG1414 269482014341 Bacterial transcriptional regulator; Region: IclR; pfam01614 269482014342 Bacterial protein of unknown function (DUF839); Region: DUF839; pfam05787 269482014343 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 269482014344 Predicted transcriptional regulator [Transcription]; Region: COG1959 269482014345 Transcriptional regulator; Region: Rrf2; pfam02082 269482014346 biliverdin IX beta reductase (BVR-B, aka flavin reductase)-like proteins; atypical (a) SDRs; Region: BVR-B_like_SDR_a; cd05244 269482014347 NADH(P)-binding; Region: NAD_binding_10; pfam13460 269482014348 NAD binding site [chemical binding]; other site 269482014349 substrate binding site [chemical binding]; other site 269482014350 putative active site [active] 269482014351 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 269482014352 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 269482014353 putative DNA binding site [nucleotide binding]; other site 269482014354 putative Zn2+ binding site [ion binding]; other site 269482014355 AsnC family; Region: AsnC_trans_reg; pfam01037 269482014356 integral membrane protein, YccS/YhfK family; Region: YCCS_YHJK; TIGR01667 269482014357 FUSC-like inner membrane protein yccS; Region: FUSC-like; pfam12805 269482014358 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 269482014359 exonuclease V subunit gamma; Provisional; Region: recC; PRK11069 269482014360 Exodeoxyribonuclease V, gamma subunit; Region: Exonuc_V_gamma; pfam04257 269482014361 UvrD/REP helicase N-terminal domain; Region: UvrD-helicase; pfam00580 269482014362 UvrD-like helicase C-terminal domain; Region: UvrD_C; pfam13361 269482014363 Family description; Region: UvrD_C_2; pfam13538 269482014364 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 269482014365 AAA domain; Region: AAA_30; pfam13604 269482014366 Family description; Region: UvrD_C_2; pfam13538 269482014367 hypothetical protein; Provisional; Region: PRK09256 269482014368 Protein chain release factor B [Translation, ribosomal structure and biogenesis]; Region: PrfB; COG1186 269482014369 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 269482014370 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 269482014371 EamA-like transporter family; Region: EamA; pfam00892 269482014372 EamA-like transporter family; Region: EamA; pfam00892 269482014373 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 269482014374 ThiC-associated domain; Region: ThiC-associated; pfam13667 269482014375 Thiamine biosynthesis protein ThiC [Coenzyme metabolism]; Region: ThiC; COG0422 269482014376 Cytochrome b(N-terminal)/b6/petB; Region: Cytochrom_B_N; pfam00033 269482014377 Sulfite oxidase and related enzymes [General function prediction only]; Region: COG2041 269482014378 Sulfite oxidase (SO) family, molybdopterin binding domain. This molybdopterin cofactor (Moco) binding domain is found in a variety of oxidoreductases, main members of this family are nitrate reductase (NR) and sulfite oxidase (SO). SO catalyzes the...; Region: SO_family_Moco; cl00199 269482014379 Moco binding site; other site 269482014380 metal coordination site [ion binding]; other site 269482014381 putative DMT superfamily transporter inner membrane protein; Provisional; Region: PRK11272 269482014382 EamA-like transporter family; Region: EamA; pfam00892 269482014383 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 269482014384 putative substrate translocation pore; other site 269482014385 Enterobacter aerogenes GpdQ and related proteins, metallophosphatase domain; Region: MPP_GpdQ; cd07402 269482014386 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 269482014387 active site 269482014388 metal binding site [ion binding]; metal-binding site 269482014389 hexamer interface [polypeptide binding]; other site 269482014390 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 269482014391 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 269482014392 Walker A/P-loop; other site 269482014393 ATP binding site [chemical binding]; other site 269482014394 Q-loop/lid; other site 269482014395 ABC transporter signature motif; other site 269482014396 Walker B; other site 269482014397 D-loop; other site 269482014398 H-loop/switch region; other site 269482014399 TOBE domain; Region: TOBE_2; pfam08402 269482014400 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 269482014401 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 269482014402 dimer interface [polypeptide binding]; other site 269482014403 conserved gate region; other site 269482014404 putative PBP binding loops; other site 269482014405 ABC-ATPase subunit interface; other site 269482014406 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 269482014407 dimer interface [polypeptide binding]; other site 269482014408 conserved gate region; other site 269482014409 ABC-ATPase subunit interface; other site 269482014410 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 269482014411 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 269482014412 Transcriptional regulators [Transcription]; Region: PurR; COG1609 269482014413 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 269482014414 DNA binding site [nucleotide binding] 269482014415 domain linker motif; other site 269482014416 Ligand-binding domain of putative DNA transcription repressors highly similar to that of the repressor specific for gluconate (GntR) which is a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_GntR_like_2; cd06282 269482014417 putative dimerization interface [polypeptide binding]; other site 269482014418 putative ligand binding site [chemical binding]; other site 269482014419 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 269482014420 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 269482014421 active site 269482014422 DNA binding site [nucleotide binding] 269482014423 Int/Topo IB signature motif; other site 269482014424 Protein of unknown function (DUF551); Region: DUF551; pfam04448 269482014425 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 269482014426 restriction alleviation protein, Lar family; Region: anti_R_Lar; TIGR03655 269482014427 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 269482014428 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 269482014429 cofactor binding site; other site 269482014430 substrate interaction site [chemical binding]; other site 269482014431 RecT family; Region: RecT; cl04285 269482014432 exonuclease VIII; Reviewed; Region: PRK09709 269482014433 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 269482014434 non-specific DNA binding site [nucleotide binding]; other site 269482014435 salt bridge; other site 269482014436 sequence-specific DNA binding site [nucleotide binding]; other site 269482014437 Predicted transcriptional regulator [Transcription]; Region: COG2932 269482014438 Peptidase S24 LexA-like proteins are involved in the SOS response leading to the repair of single-stranded DNA within the bacterial cell. This family includes: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC...; Region: S24_LexA-like; cd06529 269482014439 Catalytic site [active] 269482014440 Uncharacterized protein conserved in bacteria, prophage-related [Function unknown]; Region: COG4197 269482014441 Meiotically up-regulated gene 113; Region: MUG113; pfam13455 269482014442 replicative DNA helicase; Region: DnaB; TIGR00665 269482014443 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 269482014444 DnaB helicase C terminal domain. The hexameric helicase DnaB unwinds the DNA duplex at the chromosome replication fork. Although the mechanism by which DnaB both couples ATP hydrolysis to translocation along DNA and denatures the duplex is unknown, a...; Region: DnaB_C; cd00984 269482014445 Walker A motif; other site 269482014446 ATP binding site [chemical binding]; other site 269482014447 Walker B motif; other site 269482014448 DNA binding loops [nucleotide binding] 269482014449 NinB protein; Region: NinB; pfam05772 269482014450 NUMOD4 motif; Region: NUMOD4; pfam07463 269482014451 HNH endonuclease; Region: HNH_3; pfam13392 269482014452 putative transcriptional regulator; Provisional; Region: tfx; cl17550 269482014453 Bacteriophage Lambda NinG protein; Region: NinG; pfam05766 269482014454 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cl17393 269482014455 DNA-binding interface [nucleotide binding]; DNA binding site 269482014456 Terminase-like family; Region: Terminase_6; pfam03237 269482014457 Phage terminase large subunit; Region: Terminase_3; cl12054 269482014458 Uncharacterized conserved protein [Function unknown]; Region: COG5323 269482014459 P22 coat protein - gene protein 5; Region: P22_CoatProtein; pfam11651 269482014460 Aspartyl/Asparaginyl beta-hydroxylase; Region: Asp_Arg_Hydrox; cl17820 269482014461 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 269482014462 Coenzyme A binding pocket [chemical binding]; other site 269482014463 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 269482014464 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 269482014465 N-acetyl-D-glucosamine binding site [chemical binding]; other site 269482014466 catalytic residue [active] 269482014467 Pectate lyase superfamily protein; Region: Pectate_lyase_3; pfam12708 269482014468 Catalytic domain of bacteriophage endosialidase; Region: End_tail_spike; pfam12219 269482014469 Chaperone of endosialidase; Region: Peptidase_S74; pfam13884 269482014470 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 269482014471 Helix-turn-helix domain; Region: HTH_38; pfam13936 269482014472 Integrase core domain; Region: rve; pfam00665 269482014473 Glycosyl hydrolase 108; Region: Glyco_hydro_108; pfam05838 269482014474 Predicted Peptidoglycan domain; Region: PG_binding_3; pfam09374 269482014475 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cd00229 269482014476 active site 269482014477 catalytic triad [active] 269482014478 oxyanion hole [active] 269482014479 Domain of unknown function (DUF932); Region: DUF932; cl12129 269482014480 Uncharacterized protein conserved in bacteria [Function unknown]; Region: VgrG; COG3501 269482014481 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 269482014482 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 269482014483 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 269482014484 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; pfam10106 269482014485 Domain of unknown function (DUF4123); Region: DUF4123; pfam13503 269482014486 Transposase domain (DUF772); Region: DUF772; pfam05598 269482014487 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 269482014488 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 269482014489 PAAR motif; Region: PAAR_motif; pfam05488 269482014490 Type VI protein secretion system component VasA [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3519 269482014491 Bacterial protein of unknown function (DUF879); Region: DUF879; pfam05947 269482014492 Transposase, Mutator family; Region: Transposase_mut; pfam00872 269482014493 MULE transposase domain; Region: MULE; pfam10551 269482014494 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 269482014495 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 269482014496 trimer interface [polypeptide binding]; other site 269482014497 eyelet of channel; other site 269482014498 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 269482014499 Uncharacterized ACR, COG2135; Region: DUF159; pfam02586 269482014500 Purine-cytosine permease and related proteins [Nucleotide transport and metabolism]; Region: CodB; COG1457 269482014501 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 269482014502 Na binding site [ion binding]; other site 269482014503 Transcriptional regulator [Transcription]; Region: LysR; COG0583 269482014504 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 269482014505 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 269482014506 dimerization interface [polypeptide binding]; other site 269482014507 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 269482014508 metabolite-proton symporter; Region: 2A0106; TIGR00883 269482014509 putative substrate translocation pore; other site 269482014510 allantoate amidohydrolase; Reviewed; Region: PRK12893 269482014511 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 269482014512 active site 269482014513 metal binding site [ion binding]; metal-binding site 269482014514 dimer interface [polypeptide binding]; other site 269482014515 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 269482014516 Histone deacetylase class IIa; Region: HDAC_classII_APAH; cd10001 269482014517 active site 269482014518 Zn binding site [ion binding]; other site 269482014519 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 269482014520 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 269482014521 putative substrate translocation pore; other site 269482014522 Transcriptional regulator [Transcription]; Region: LysR; COG0583 269482014523 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 269482014524 The C-terminal substrate binding domain of LysR-type transcriptional regulators involved in the catabolism of aromatic compounds and that of other related regulators, contains type 2 periplasmic binding fold; Region: PBP2_LTTR_aromatics_like; cd08414 269482014525 dimerization interface [polypeptide binding]; other site 269482014526 substrate binding pocket [chemical binding]; other site 269482014527 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 269482014528 Tryptophan synthase beta superfamily (fold type II); this family of pyridoxal phosphate (PLP)-dependent enzymes catalyzes beta-replacement and beta-elimination reactions. This CD corresponds to aminocyclopropane-1-carboxylate deaminase (ACCD), tryptophan...; Region: Trp-synth-beta_II; cl00342 269482014529 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 269482014530 catalytic residue [active] 269482014531 transcriptional activator NhaR; Provisional; Region: nhaR; PRK11062 269482014532 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 269482014533 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 269482014534 dimerization interface [polypeptide binding]; other site 269482014535 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 269482014536 Transcription factor zinc-finger; Region: zf-TFIIB; cl01565 269482014537 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 269482014538 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are generally...; Region: ACD_sHsps-like; cd06464 269482014539 putative dimer interface [polypeptide binding]; other site 269482014540 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 269482014541 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are generally...; Region: ACD_sHsps-like; cd06464 269482014542 putative dimer interface [polypeptide binding]; other site 269482014543 putative choline sulfate-utilization transcription factor; Region: chol_sulf_TF; TIGR03418 269482014544 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 269482014545 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 269482014546 dimerization interface [polypeptide binding]; other site 269482014547 Malonate transporter MadL subunit; Region: MadL; cl04273 269482014548 Malonate/sodium symporter MadM subunit; Region: MadM; cl04274 269482014549 malonate decarboxylase, alpha subunit; Region: mdcA; TIGR01110 269482014550 Coenzyme A transferase; Region: CoA_trans; cl17247 269482014551 malonate decarboxylase subunit delta; Provisional; Region: PRK02103 269482014552 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189 269482014553 malonate decarboxylase, gamma subunit; Region: malonate_gamma; TIGR03134 269482014554 phosphoribosyl-dephospho-CoA transferase; Provisional; Region: PRK02098 269482014555 Phosphoribosyl-dephospho-CoA transferase MdcG; Region: MdcG; pfam10620 269482014556 triphosphoribosyl-dephospho-CoA synthase MdcB; Region: malonate_mdcB; TIGR03132 269482014557 Acyl transferase domain; Region: Acyl_transf_1; cl08282 269482014558 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 269482014559 putative active site [active] 269482014560 catalytic site [active] 269482014561 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 269482014562 active site 269482014563 Poly-beta-hydroxyalkanoate depolymerase [Lipid metabolism]; Region: DepA; COG4553 269482014564 PHB de-polymerase C-terminus; Region: PHB_depo_C; pfam06850 269482014565 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 269482014566 Glutathione S-transferase (GST) family, N-terminal domain; a large, diverse group of cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic...; Region: GST_N_family; cd00570 269482014567 C-terminal domain interface [polypeptide binding]; other site 269482014568 GSH binding site (G-site) [chemical binding]; other site 269482014569 dimer interface [polypeptide binding]; other site 269482014570 C-terminal, alpha helical domain of an unknown subfamily 6 of Glutathione S-transferases; Region: GST_C_6; cd03205 269482014571 dimer interface [polypeptide binding]; other site 269482014572 N-terminal domain interface [polypeptide binding]; other site 269482014573 putative substrate binding pocket (H-site) [chemical binding]; other site 269482014574 proline/glycine betaine transporter; Provisional; Region: PRK10642 269482014575 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 269482014576 putative substrate translocation pore; other site 269482014577 hypothetical protein; Provisional; Region: PRK02237 269482014578 DNA polymerase III, epsilon subunit, Proteobacterial; Region: dnaQ_proteo; TIGR01406 269482014579 DEDDh 3'-5' exonuclease domain of the epsilon subunit of Escherichia coli DNA polymerase III and similar proteins; Region: DNA_pol_III_epsilon_Ecoli_like; cd06131 269482014580 active site 269482014581 catalytic site [active] 269482014582 substrate binding site [chemical binding]; other site 269482014583 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 269482014584 RNA/DNA hybrid binding site [nucleotide binding]; other site 269482014585 active site 269482014586 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 269482014587 hydroxyacylglutathione hydrolase; Region: GSH_gloB; TIGR03413 269482014588 membrane-bound lytic murein transglycosylase D; Provisional; Region: mltD; PRK10783 269482014589 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 269482014590 N-acetyl-D-glucosamine binding site [chemical binding]; other site 269482014591 catalytic residue [active] 269482014592 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cl00107 269482014593 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 269482014594 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 269482014595 Major Facilitator Superfamily; Region: MFS_1; pfam07690 269482014596 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 269482014597 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 269482014598 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 269482014599 catalytic site [active] 269482014600 subunit interface [polypeptide binding]; other site 269482014601 leucine export protein LeuE; Provisional; Region: PRK10958 269482014602 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 269482014603 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 269482014604 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 269482014605 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 269482014606 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 269482014607 ATP-grasp domain; Region: ATP-grasp_4; cl17255 269482014608 Methylglyoxal synthase-like domain from type II glutamine-dependent carbamoyl phosphate synthetase (CSP). CSP, a CarA and CarB heterodimer, catalyzes the production of carbamoyl phosphate which is subsequently employed in the metabolic pathways...; Region: MGS_CPS_II; cd01424 269482014609 IMP binding site; other site 269482014610 dimer interface [polypeptide binding]; other site 269482014611 interdomain contacts; other site 269482014612 partial ornithine binding site; other site 269482014613 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 269482014614 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 269482014615 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 269482014616 Domain of unknown function (DUF4149); Region: DUF4149; pfam13664 269482014617 Escherichia coli YhbY is associated with pre-50S ribosomal subunits, which implies a function in ribosome assembly; Region: CRS1_YhbY; smart01103 269482014618 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 269482014619 FtsJ-like methyltransferase; Region: FtsJ; cl17430 269482014620 ATP-dependent Zn proteases [Posttranslational modification, protein turnover, chaperones]; Region: HflB; COG0465 269482014621 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 269482014622 Walker A motif; other site 269482014623 ATP binding site [chemical binding]; other site 269482014624 Walker B motif; other site 269482014625 arginine finger; other site 269482014626 Peptidase family M41; Region: Peptidase_M41; pfam01434 269482014627 DHPS subgroup of Pterin binding enzymes. DHPS (dihydropteroate synthase), a functional homodimer, catalyzes the condensation of p-aminobenzoic acid (pABA) in the de novo biosynthesis of folate, which is an essential cofactor in both nucleic acid and...; Region: DHPS; cd00739 269482014628 dihydropteroate synthase; Region: DHPS; TIGR01496 269482014629 substrate binding pocket [chemical binding]; other site 269482014630 dimer interface [polypeptide binding]; other site 269482014631 inhibitor binding site; inhibition site 269482014632 phosphoglucosamine mutase; Provisional; Region: glmM; PRK10887 269482014633 GlmM is a bacterial phosphoglucosamine mutase (PNGM) that belongs to the alpha-D-phosphohexomutase superfamily. It is required for the interconversion of glucosamine-6-phosphate and glucosamine-1-phosphate in the biosynthetic pathway of...; Region: GlmM; cd05802 269482014634 active site 269482014635 substrate binding site [chemical binding]; other site 269482014636 metal binding site [ion binding]; metal-binding site 269482014637 PBP superfamily domain; Region: PBP_like_2; cl17296 269482014638 phosphate transporter permease subunit PstC; Provisional; Region: pstC; PRK11275 269482014639 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 269482014640 dimer interface [polypeptide binding]; other site 269482014641 conserved gate region; other site 269482014642 putative PBP binding loops; other site 269482014643 ABC-ATPase subunit interface; other site 269482014644 phosphate transporter permease subunit PtsA; Provisional; Region: pstA; PRK11268 269482014645 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 269482014646 dimer interface [polypeptide binding]; other site 269482014647 conserved gate region; other site 269482014648 putative PBP binding loops; other site 269482014649 ABC-ATPase subunit interface; other site 269482014650 phosphate transporter ATP-binding protein; Provisional; Region: pstB; PRK10744 269482014651 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 269482014652 Walker A/P-loop; other site 269482014653 ATP binding site [chemical binding]; other site 269482014654 Q-loop/lid; other site 269482014655 ABC transporter signature motif; other site 269482014656 Walker B; other site 269482014657 D-loop; other site 269482014658 H-loop/switch region; other site 269482014659 transcriptional regulator PhoU; Provisional; Region: PRK11115 269482014660 PhoU domain; Region: PhoU; pfam01895 269482014661 PhoU domain; Region: PhoU; pfam01895 269482014662 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 269482014663 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 269482014664 active site 269482014665 phosphorylation site [posttranslational modification] 269482014666 intermolecular recognition site; other site 269482014667 dimerization interface [polypeptide binding]; other site 269482014668 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 269482014669 DNA binding site [nucleotide binding] 269482014670 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 269482014671 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 269482014672 dimer interface [polypeptide binding]; other site 269482014673 phosphorylation site [posttranslational modification] 269482014674 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 269482014675 ATP binding site [chemical binding]; other site 269482014676 Mg2+ binding site [ion binding]; other site 269482014677 G-X-G motif; other site 269482014678 polyphosphate kinase; Provisional; Region: PRK05443 269482014679 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 269482014680 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 269482014681 Catalytic C-terminal domain, first repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C1_like; cd09165 269482014682 putative domain interface [polypeptide binding]; other site 269482014683 putative active site [active] 269482014684 catalytic site [active] 269482014685 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 269482014686 putative domain interface [polypeptide binding]; other site 269482014687 putative active site [active] 269482014688 catalytic site [active] 269482014689 Exopolyphosphatase [Nucleotide transport and metabolism / Inorganic ion transport and metabolism]; Region: GppA; COG0248 269482014690 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 269482014691 Protein of unknown function (DUF1804); Region: DUF1804; pfam08822 269482014692 Mor transcription activator family; Region: Mor; cl02360 269482014693 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 269482014694 Helix-turn-helix domain; Region: HTH_38; pfam13936 269482014695 Integrase core domain; Region: rve; pfam00665 269482014696 Mu-like prophage I protein; Region: Mu-like_Pro; pfam10123 269482014697 Histidine phosphatase domain found in a functionally diverse set of proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP; cd07040 269482014698 catalytic core [active] 269482014699 Acetyltransferase (GNAT) domain; Region: Acetyltransf_5; cl17496 269482014700 DinF and similar proteins, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_DinF_like; cd13136 269482014701 DNA-damage-inducible SOS response protein; Provisional; Region: PRK10367 269482014702 Protein of unknown function (DUF2288); Region: DUF2288; pfam10052 269482014703 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 269482014704 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 269482014705 Peptidase family M23; Region: Peptidase_M23; pfam01551 269482014706 aldose 1-epimerase superfamily; Region: Aldose_epim; cl14648 269482014707 active site 269482014708 catalytic residues [active] 269482014709 Winged helix-turn helix; Region: HTH_29; pfam13551 269482014710 Homeodomain-like domain; Region: HTH_32; pfam13565 269482014711 Winged helix-turn helix; Region: HTH_33; pfam13592 269482014712 DDE superfamily endonuclease; Region: DDE_3; pfam13358 269482014713 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 269482014714 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK12554 269482014715 Glycosyl hydrolases family 35; Region: Glyco_hydro_35; pfam01301 269482014716 Uncharacterized protein conserved in bacteria (DUF2313); Region: DUF2313; pfam10076 269482014717 Uncharacterized homolog of phage Mu protein gp47 [Function unknown]; Region: XkdT; COG3299 269482014718 Phage protein GP46; Region: GP46; cl01814 269482014719 Bacteriophage Mu Gp45 protein; Region: Phage_Mu_Gp45; cl15410 269482014720 phage baseplate assembly protein V; Region: phage_P2_V; TIGR01644 269482014721 Mu-like prophage tail protein gpP [General function prediction only]; Region: COG4379 269482014722 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 269482014723 Mu-like prophage DNA circulation protein [General function prediction only]; Region: COG4228 269482014724 DNA circulation protein N-terminus; Region: DNA_circ_N; pfam07157 269482014725 Phage-related minor tail protein; Region: PhageMin_Tail; pfam10145 269482014726 Mu-like prophage tail sheath protein gpL [General function prediction only]; Region: COG4386 269482014727 Phage tail sheath protein; Region: Phage_sheath_1; pfam04984 269482014728 Domain of unknown function (DUF1834); Region: DUF1834; pfam08873 269482014729 Protein of unknown function (DUF1320); Region: DUF1320; pfam07030 269482014730 Mu-like prophage major head subunit gpT; Region: Mu-like_gpT; pfam10124 269482014731 Mu-like prophage I protein; Region: Mu-like_Pro; pfam10123 269482014732 Phage virion morphogenesis family; Region: Phage_tail_S; cl02089 269482014733 Phage Mu protein F like protein; Region: Phage_Mu_F; pfam04233 269482014734 Protein of unknown function (DUF935); Region: DUF935; pfam06074 269482014735 Mu-like prophage protein gp29 [Function unknown]; Region: COG4383 269482014736 Phage-related terminase [General function prediction only]; Region: COG5362; cl02216 269482014737 Protein of unknown function (DUF1804); Region: DUF1804; pfam08822 269482014738 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 269482014739 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 269482014740 catalytic residue [active] 269482014741 Mor transcription activator family; Region: Mor; pfam08765 269482014742 Protein of unknown function (DUF1018); Region: DUF1018; pfam06252 269482014743 Protein of unknown function (DUF2786); Region: DUF2786; pfam10979 269482014744 Protein of unknown function (DUF3164); Region: DUF3164; pfam11363 269482014745 Diacylglycerol kinase accessory domain; Region: DAGK_acc; cl02440 269482014746 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 269482014747 DNA binding site [nucleotide binding] 269482014748 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 269482014749 AAA domain; Region: AAA_22; pfam13401 269482014750 Mu DNA-binding domain; Region: HTH_Tnp_Mu_1; pfam02316 269482014751 Integrase core domain; Region: rve; pfam00665 269482014752 Mu transposase, C-terminal; Region: Mu-transpos_C; pfam09299 269482014753 Winged helix-turn-helix DNA-binding; Region: HTH_35; cl17423 269482014754 Predicted transcriptional regulator [Transcription]; Region: COG2932 269482014755 Peptidase S24 LexA-like proteins are involved in the SOS response leading to the repair of single-stranded DNA within the bacterial cell. This family includes: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC...; Region: S24_LexA-like; cd06529 269482014756 Catalytic site [active] 269482014757 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 269482014758 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 269482014759 WYL domain; Region: WYL; pfam13280 269482014760 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 269482014761 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 269482014762 dimerization interface [polypeptide binding]; other site 269482014763 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 269482014764 dimer interface [polypeptide binding]; other site 269482014765 phosphorylation site [posttranslational modification] 269482014766 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 269482014767 ATP binding site [chemical binding]; other site 269482014768 Mg2+ binding site [ion binding]; other site 269482014769 G-X-G motif; other site 269482014770 DNA-binding transcriptional regulator RstA; Provisional; Region: PRK10701 269482014771 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 269482014772 active site 269482014773 phosphorylation site [posttranslational modification] 269482014774 intermolecular recognition site; other site 269482014775 dimerization interface [polypeptide binding]; other site 269482014776 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 269482014777 DNA binding site [nucleotide binding] 269482014778 Outer membrane protein V [Cell envelope biogenesis, outer membrane]; Region: OmpV; COG3713 269482014779 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 269482014780 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 269482014781 N-acetyl-D-glucosamine binding site [chemical binding]; other site 269482014782 catalytic residue [active] 269482014783 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 269482014784 VirB7 interaction site; other site 269482014785 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 269482014786 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 269482014787 trimer interface [polypeptide binding]; other site 269482014788 eyelet of channel; other site 269482014789 Predicted CDP-diglyceride synthetase/phosphatidate cytidylyltransferase [General function prediction only]; Region: COG4589 269482014790 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 269482014791 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 269482014792 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 269482014793 putative acyl-acceptor binding pocket; other site 269482014794 Phosphatidylglycerophosphate synthase [Lipid metabolism]; Region: PgsA; COG0558 269482014795 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 269482014796 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 269482014797 Putative methyltransferase; Region: Methyltransf_20; pfam12147 269482014798 PAP2_like proteins, Aur1_like subfamily. Yeast Aur1p or Ipc1p is necessary for the addition of inositol phosphate to ceramide, an essential step in yeast sphingolipid synthesis, and is the target of several antifungal compounds such as aureobasidin; Region: PAP2_Aur1_like; cd03386 269482014799 active site 269482014800 Protein tyrosine phosphatases (PTP) catalyze the dephosphorylation of phosphotyrosine peptides; they regulate phosphotyrosine levels in signal transduction pathways. The depth of the active site cleft renders the enzyme specific for phosphorylated Tyr; Region: PTPc; cl00053 269482014801 active site 269482014802 catalytic residues [active] 269482014803 cellulose synthase regulator protein; Provisional; Region: PRK11114 269482014804 endo-1,4-D-glucanase; Provisional; Region: PRK11097 269482014805 Cellulose synthase operon protein C C-terminus (BCSC_C); Region: BCSC_C; pfam05420 269482014806 cellulose biosynthesis protein BcsE; Region: cellulose_bcsE; TIGR03369 269482014807 cellulose synthase operon protein YhjQ; Region: cellulose_yhjQ; TIGR03371 269482014808 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 269482014809 cellulose synthase catalytic subunit (UDP-forming); Region: CelA; TIGR03030 269482014810 CESA_CelA_like are involved in the elongation of the glucan chain of cellulose; Region: CESA_CelA_like; cd06421 269482014811 DXD motif; other site 269482014812 PilZ domain; Region: PilZ; pfam07238 269482014813 cellulose synthase operon protein YhjU; Region: cellulose_yhjU; TIGR03368 269482014814 Pirin-related protein [General function prediction only]; Region: COG1741 269482014815 Pirin; Region: Pirin; pfam02678 269482014816 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 269482014817 Predicted redox protein, regulator of disulfide bond formation [Posttranslational modification, protein turnover, chaperones]; Region: COG1765 269482014818 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 269482014819 Protein of unknown function (DUF1427); Region: DUF1427; pfam07235 269482014820 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 269482014821 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 269482014822 Protein of unknown function (DUF1275); Region: DUF1275; pfam06912 269482014823 Phospholipase C [Cell envelope biogenesis, outer membrane]; Region: PlcC; COG3511 269482014824 acid phosphatase, Burkholderia-type; Region: acid_phos_Burk; TIGR03397 269482014825 Di-haem cytochrome c peroxidase; Region: CCP_MauG; pfam03150 269482014826 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cd02883 269482014827 nudix motif; other site 269482014828 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 269482014829 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 269482014830 active site 269482014831 HIGH motif; other site 269482014832 nucleotide binding site [chemical binding]; other site 269482014833 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 269482014834 KMSKS motif; other site 269482014835 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 269482014836 Serine hydrolase; Region: Ser_hydrolase; pfam06821 269482014837 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 269482014838 CoA-transferase family III; Region: CoA_transf_3; pfam02515 269482014839 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 269482014840 Alanyl-tRNA synthetase (AlaRS) class II core catalytic domain. AlaRS is a homodimer. It is responsible for the attachment of alanine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: AlaRS_core; cd00673 269482014841 motif 1; other site 269482014842 active site 269482014843 motif 2; other site 269482014844 motif 3; other site 269482014845 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 269482014846 DHHA1 domain; Region: DHHA1; pfam02272 269482014847 Transcriptional regulator [Transcription]; Region: LysR; COG0583 269482014848 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 269482014849 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 269482014850 dimerization interface [polypeptide binding]; other site 269482014851 Protein of unknown function (DUF1228); Region: DUF1228; pfam06779 269482014852 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 269482014853 nudix motif; other site 269482014854 4-hydroxybenzoyl-CoA thioesterase (4HBT). Catalyzes the final step in the 4-chlorobenzoate degradation pathway in which 4-chlorobenzoate is converted to 4-hydroxybenzoate in certain soil-dwelling bacteria. 4HBT forms a homotetramer with four active sites; Region: 4HBT; cd00586 269482014855 active site 269482014856 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 269482014857 TM-ABC transporter signature motif; other site 269482014858 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 269482014859 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 269482014860 TM-ABC transporter signature motif; other site 269482014861 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 269482014862 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 269482014863 Walker A/P-loop; other site 269482014864 ATP binding site [chemical binding]; other site 269482014865 Q-loop/lid; other site 269482014866 ABC transporter signature motif; other site 269482014867 Walker B; other site 269482014868 D-loop; other site 269482014869 H-loop/switch region; other site 269482014870 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 269482014871 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 269482014872 Walker A/P-loop; other site 269482014873 ATP binding site [chemical binding]; other site 269482014874 Q-loop/lid; other site 269482014875 ABC transporter signature motif; other site 269482014876 Walker B; other site 269482014877 D-loop; other site 269482014878 H-loop/switch region; other site 269482014879 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 269482014880 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269482014881 NAD(P) binding site [chemical binding]; other site 269482014882 active site 269482014883 Uncharacterized enzyme involved in inositol metabolism [Carbohydrate transport and metabolism]; Region: IolB; COG3718 269482014884 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 269482014885 Acetolactate synthase [Amino acid transport and metabolism]; Region: COG3962 269482014886 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 269482014887 dimer interface [polypeptide binding]; other site 269482014888 PYR/PP interface [polypeptide binding]; other site 269482014889 TPP binding site [chemical binding]; other site 269482014890 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 269482014891 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cl01629 269482014892 TPP-binding site [chemical binding]; other site 269482014893 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 269482014894 2-keto-3-deoxygluconate kinase (KdgK) phosphorylates 2-keto-3-deoxygluconate (KDG) to form 2-keto-3-deoxy-6-phosphogluconate (KDGP). KDG is the common intermediate product, that allows organisms to channel D-glucuronate and/or D-galacturinate into the...; Region: KdgK; cd01166 269482014895 substrate binding site [chemical binding]; other site 269482014896 ATP binding site [chemical binding]; other site 269482014897 Uncharacterized protein conserved in bacteria (DUF2090); Region: DUF2090; pfam09863 269482014898 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3892 269482014899 Periplasmic binding proteins specific to rhizopines; Region: PBP1_rhizopine_binding_like; cd06301 269482014900 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 269482014901 putative ligand binding site [chemical binding]; other site 269482014902 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 269482014903 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 269482014904 Walker A/P-loop; other site 269482014905 ATP binding site [chemical binding]; other site 269482014906 Q-loop/lid; other site 269482014907 ABC transporter signature motif; other site 269482014908 Walker B; other site 269482014909 D-loop; other site 269482014910 H-loop/switch region; other site 269482014911 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 269482014912 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 269482014913 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 269482014914 TM-ABC transporter signature motif; other site 269482014915 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 269482014916 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 269482014917 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 269482014918 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 269482014919 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 269482014920 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 269482014921 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 269482014922 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 269482014923 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 269482014924 putative active site [active] 269482014925 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 269482014926 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 269482014927 tetrameric interface [polypeptide binding]; other site 269482014928 NAD binding site [chemical binding]; other site 269482014929 catalytic residues [active] 269482014930 Transcriptional regulator [Transcription]; Region: LysR; COG0583 269482014931 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 269482014932 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 269482014933 putative effector binding pocket; other site 269482014934 dimerization interface [polypeptide binding]; other site 269482014935 SirA, YedF, and YeeD. Two-layered alpha/beta sandwich domain. SirA (also known as UvrY, and YhhP) belongs to a family of bacterial two-component response regulators that controls secondary metabolism and virulence. The other member of this...; Region: SirA_YedF_YeeD; cd00291 269482014936 CPxP motif; other site 269482014937 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 269482014938 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 269482014939 active site 269482014940 phosphorylation site [posttranslational modification] 269482014941 intermolecular recognition site; other site 269482014942 dimerization interface [polypeptide binding]; other site 269482014943 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 269482014944 DNA binding site [nucleotide binding] 269482014945 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4254 269482014946 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 269482014947 FecR protein; Region: FecR; pfam04773 269482014948 CHASE2 domain; Region: CHASE2; pfam05226 269482014949 Predicted transmembrane sensor domain [Signal transduction mechanisms]; Region: COG4252 269482014950 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 269482014951 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 269482014952 dimer interface [polypeptide binding]; other site 269482014953 phosphorylation site [posttranslational modification] 269482014954 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 269482014955 ATP binding site [chemical binding]; other site 269482014956 Mg2+ binding site [ion binding]; other site 269482014957 G-X-G motif; other site 269482014958 Domain of unknown function (DUF4136); Region: DUF4136; pfam13590 269482014959 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 269482014960 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 269482014961 active site 269482014962 tetramer interface; other site 269482014963 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 269482014964 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 269482014965 HIGH motif; other site 269482014966 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 269482014967 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 269482014968 active site 269482014969 KMSKS motif; other site 269482014970 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 269482014971 tRNA binding surface [nucleotide binding]; other site 269482014972 anticodon binding site; other site 269482014973 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 269482014974 DNA-dependent helicase II; Provisional; Region: uvrD; PRK11773 269482014975 Part of AAA domain; Region: AAA_19; pfam13245 269482014976 Family description; Region: UvrD_C_2; pfam13538 269482014977 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Validated; Region: PRK05584 269482014978 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Region: MTA/SAH-Nsdase; TIGR01704 269482014979 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 269482014980 Major Facilitator Superfamily; Region: MFS_1; pfam07690 269482014981 putative substrate translocation pore; other site 269482014982 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 269482014983 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 269482014984 dimer interface [polypeptide binding]; other site 269482014985 putative CheW interface [polypeptide binding]; other site 269482014986 p-hydroxybenzoic acid efflux subunit AaeA; Provisional; Region: PRK10559 269482014987 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 269482014988 HlyD family secretion protein; Region: HlyD_3; pfam13437 269482014989 Protein of unknown function (DUF1656); Region: DUF1656; pfam07869 269482014990 Fusaric acid resistance protein family; Region: FUSC; pfam04632 269482014991 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 269482014992 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 269482014993 Transcriptional regulator [Transcription]; Region: LysR; COG0583 269482014994 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 269482014995 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 269482014996 putative effector binding pocket; other site 269482014997 dimerization interface [polypeptide binding]; other site 269482014998 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 269482014999 Microscilla MS158 and related proteins, metallophosphatase domain; Region: MPP_MS158; cd07404 269482015000 putative active site [active] 269482015001 putative metal binding site [ion binding]; other site 269482015002 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 269482015003 FAD binding domain; Region: FAD_binding_4; pfam01565 269482015004 Predicted membrane protein (DUF2069); Region: DUF2069; pfam09842 269482015005 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 269482015006 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 269482015007 Virulence factor BrkB; Region: Virul_fac_BrkB; cl07918 269482015008 Protein of unknown function (DUF962); Region: DUF962; cl01879 269482015009 FOG: CBS domain [General function prediction only]; Region: COG0517 269482015010 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cl15354 269482015011 acylglycerophosphoethanolamine acyltransferase; Provisional; Region: PRK06814 269482015012 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 269482015013 putative acyl-acceptor binding pocket; other site 269482015014 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 269482015015 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 269482015016 Tetramer interface [polypeptide binding]; other site 269482015017 active site 269482015018 FMN-binding site [chemical binding]; other site 269482015019 Transcriptional regulators [Transcription]; Region: PurR; COG1609 269482015020 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 269482015021 DNA binding site [nucleotide binding] 269482015022 domain linker motif; other site 269482015023 This group includes the ligand-binding domain of putative DNA transcription repressors which are highly similar to that of the repressor specific for gluconate (GntR), a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_GntR_like_1; cd06273 269482015024 putative dimerization interface [polypeptide binding]; other site 269482015025 putative ligand binding site [chemical binding]; other site 269482015026 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 269482015027 Ribokinase catalyses the phosphorylation of ribose to ribose-5-phosphate using ATP. This reaction is the first step in the ribose metabolism. It traps ribose within the cell after uptake and also prepares the sugar for use in the synthesis of nucleotides...; Region: ribokinase; cd01174 269482015028 substrate binding site [chemical binding]; other site 269482015029 dimer interface [polypeptide binding]; other site 269482015030 ATP binding site [chemical binding]; other site 269482015031 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 269482015032 D-galactonate transporter; Region: 2A0114; TIGR00893 269482015033 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 269482015034 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 269482015035 inhibitor site; inhibition site 269482015036 active site 269482015037 dimer interface [polypeptide binding]; other site 269482015038 catalytic residue [active] 269482015039 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 269482015040 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 269482015041 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 269482015042 short chain dehydrogenase; Provisional; Region: PRK06949 269482015043 classical (c) SDRs; Region: SDR_c; cd05233 269482015044 NAD(P) binding site [chemical binding]; other site 269482015045 active site 269482015046 4-hydroxybenzoyl-CoA thioesterase (4HBT). Catalyzes the final step in the 4-chlorobenzoate degradation pathway in which 4-chlorobenzoate is converted to 4-hydroxybenzoate in certain soil-dwelling bacteria. 4HBT forms a homotetramer with four active sites; Region: 4HBT; cd00586 269482015047 active site 269482015048 PAS domain; Region: PAS_9; pfam13426 269482015049 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 269482015050 putative active site [active] 269482015051 heme pocket [chemical binding]; other site 269482015052 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 269482015053 DNA binding residues [nucleotide binding] 269482015054 dimerization interface [polypeptide binding]; other site 269482015055 Acyl CoA:acetate/3-ketoacid CoA transferase, alpha subunit [Lipid metabolism]; Region: AtoD; COG1788 269482015056 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 269482015057 short chain dehydrogenase; Provisional; Region: PRK07041 269482015058 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269482015059 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269482015060 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 269482015061 putative urate catabolism protein; Region: uraD_N-term-dom; TIGR03212 269482015062 SnoaL-like polyketide cyclase; Region: SnoaL; pfam07366 269482015063 Transcriptional regulator [Transcription]; Region: LysR; COG0583 269482015064 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 269482015065 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 269482015066 putative effector binding pocket; other site 269482015067 dimerization interface [polypeptide binding]; other site 269482015068 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 269482015069 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 269482015070 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_2; cd06150 269482015071 homotrimer interaction site [polypeptide binding]; other site 269482015072 putative active site [active] 269482015073 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 269482015074 HD domain; Region: HD_4; pfam13328 269482015075 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 269482015076 synthetase active site [active] 269482015077 NTP binding site [chemical binding]; other site 269482015078 metal binding site [ion binding]; metal-binding site 269482015079 TGS_RelA_SpoT: The RelA (SpoT) protein, also referred to as ppGpp hydrolase/synthetase, is a ribosome-associated protein that is activated during amino acid starvation and thought to mediate the stringent response. RelA contains a TGS domain, named after...; Region: TGS_RelA_SpoT; cd01668 269482015080 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 269482015081 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 269482015082 TGS _ThrRS_N: ThrRS (threonyl-tRNA Synthetase) is a class II tRNA synthetase that couples threonine to its cognate tRNA. In addition to its catalytic and anticodon-binding domains, ThrRS has an N-terminal TGS domain, named after the ThrRS, GTPase, and...; Region: TGS_ThrRS_N; cd01667 269482015083 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 269482015084 Threonyl-tRNA synthetase (ThrRS) class II core catalytic domain. ThrRS is a homodimer. It is responsible for the attachment of threonine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: ThrRS_core; cd00771 269482015085 active site 269482015086 dimer interface [polypeptide binding]; other site 269482015087 motif 1; other site 269482015088 motif 2; other site 269482015089 motif 3; other site 269482015090 ThrRS Threonyl-anticodon binding domain. ThrRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding, so that the activated amino acid is...; Region: ThrRS_anticodon; cd00860 269482015091 anticodon binding site; other site 269482015092 translation initiation factor IF-3; Region: infC; TIGR00168 269482015093 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 269482015094 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 269482015095 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 269482015096 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 269482015097 23S rRNA binding site [nucleotide binding]; other site 269482015098 L21 binding site [polypeptide binding]; other site 269482015099 L13 binding site [polypeptide binding]; other site 269482015100 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 269482015101 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 269482015102 Phenylalanyl-tRNA synthetase (PheRS) alpha chain catalytic core domain. PheRS belongs to class II aminoacyl-tRNA synthetases (aaRS) based upon its structure and the presence of three characteristic sequence motifs. This domain is primarily responsible...; Region: PheRS_alpha_core; cd00496 269482015103 dimer interface [polypeptide binding]; other site 269482015104 motif 1; other site 269482015105 active site 269482015106 motif 2; other site 269482015107 motif 3; other site 269482015108 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 269482015109 tRNA-binding-domain-containing prokaryotic phenylalanly tRNA synthetase (PheRS) beta chain. PheRS aminoacylate phenylalanine transfer RNAs (tRNAphe). PheRSs belong structurally to class II aminoacyl tRNA synthetases (aaRSs) but, as they aminoacylate...; Region: tRNA_bind_bactPheRS; cd02796 269482015110 putative tRNA-binding site [nucleotide binding]; other site 269482015111 B3/4 domain; Region: B3_4; pfam03483 269482015112 tRNA synthetase B5 domain; Region: B5; smart00874 269482015113 Phenylalanyl-tRNA synthetase (PheRS) beta chain core domain. PheRS belongs to class II aminoacyl-tRNA synthetases (aaRS) based upon its structure. While class II aaRSs generally aminoacylate the 3'-OH ribose of the appropriate tRNA, PheRS is an...; Region: PheRS_beta_core; cd00769 269482015114 dimer interface [polypeptide binding]; other site 269482015115 motif 1; other site 269482015116 motif 3; other site 269482015117 motif 2; other site 269482015118 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 269482015119 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cd00591 269482015120 IHF dimer interface [polypeptide binding]; other site 269482015121 IHF - DNA interface [nucleotide binding]; other site 269482015122 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 269482015123 Helix-Turn-Helix DNA binding domain of putative MlrA-like transcription regulators; Region: HTH_MlrA-like_sg2; cd04765 269482015124 DNA binding residues [nucleotide binding] 269482015125 Methyltransferase domain; Region: Methyltransf_23; pfam13489 269482015126 Methyltransferase domain; Region: Methyltransf_12; pfam08242 269482015127 Arylsulfotransferase (ASST); Region: Arylsulfotran_2; pfam14269 269482015128 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 269482015129 Uncharacterized lipoprotein [Cell envelope biogenesis, outer membrane]; Region: NlpB; COG3317 269482015130 NlpB/DapX lipoprotein; Region: Lipoprotein_18; pfam06804 269482015131 Uncharacterized conserved protein [Function unknown]; Region: COG1434 269482015132 YdcF-like. YdcF-like is a large family of mainly bacterial proteins, with a few members found in fungi, plants, and archaea. Escherichia coli YdcF has been shown to bind S-adenosyl-L-methionine (AdoMet), but a biochemical function has not been...; Region: YdcF-like; cd06259 269482015133 putative active site [active] 269482015134 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 269482015135 Transcriptional regulator [Transcription]; Region: LysR; COG0583 269482015136 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 269482015137 TThe C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_4; cd08440 269482015138 putative dimerization interface [polypeptide binding]; other site 269482015139 Putative transcriptional regulators (Ypuh-like); Region: DUF387; pfam04079 269482015140 23S rRNA pseudouridylate synthase B; Provisional; Region: PRK10700 269482015141 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cd00165 269482015142 RNA binding surface [nucleotide binding]; other site 269482015143 Pseudouridine synthase, Escherichia coli RluB like; Region: PseudoU_synth_RluB; cd02556 269482015144 probable active site [active] 269482015145 ribosome maturation protein RimP; Reviewed; Region: PRK00092 269482015146 Sm and related proteins; Region: Sm_like; cl00259 269482015147 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 269482015148 putative oligomer interface [polypeptide binding]; other site 269482015149 putative RNA binding site [nucleotide binding]; other site 269482015150 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 269482015151 NusA N-terminal domain; Region: NusA_N; pfam08529 269482015152 S1_NusA: N-utilizing substance A protein (NusA), S1-like RNA-binding domain. S1-like RNA-binding domains are found in a wide variety of RNA-associated proteins. NusA is a transcription elongation factor containing an N-terminal catalytic domain and three...; Region: S1_NusA; cd04455 269482015153 RNA binding site [nucleotide binding]; other site 269482015154 homodimer interface [polypeptide binding]; other site 269482015155 NusA-like KH domain; Region: KH_5; pfam13184 269482015156 NusA_K homology RNA-binding domain (KH). NusA is an essential multifunctional transcription elongation factor that is universally conserved among prokaryotes and archaea. NusA anti-termination function plays an important role in the expression of...; Region: NusA_KH; cd02134 269482015157 G-X-X-G motif; other site 269482015158 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 269482015159 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 269482015160 Bacterial translation initiation factor IF-2 associated region; Region: IF2_assoc; pfam08364 269482015161 translation initiation factor IF-2; Region: IF-2; TIGR00487 269482015162 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 269482015163 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 269482015164 G1 box; other site 269482015165 putative GEF interaction site [polypeptide binding]; other site 269482015166 GTP/Mg2+ binding site [chemical binding]; other site 269482015167 Switch I region; other site 269482015168 G2 box; other site 269482015169 G3 box; other site 269482015170 Switch II region; other site 269482015171 G4 box; other site 269482015172 G5 box; other site 269482015173 This family represents the domain II of bacterial Initiation Factor 2 (IF2) and its eukaryotic mitochondrial homologue mtIF2. IF2, the largest initiation factor is an essential GTP binding protein. In E. coli three natural forms of IF2 exist in the cell; Region: IF2_mtIF2_II; cd03702 269482015174 Translation-initiation factor 2; Region: IF-2; pfam11987 269482015175 mtIF2_IVc: this family represents the C2 subdomain of domain IV of mitochondrial translation initiation factor 2 (mtIF2) which adopts a beta-barrel fold displaying a high degree of structural similarity with domain II of the translation elongation factor...; Region: mtIF2_IVc; cd03692 269482015176 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 269482015177 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK01851 269482015178 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 269482015179 RNA binding site [nucleotide binding]; other site 269482015180 active site 269482015181 Pseudouridine synthase II TruB, C-terminal; Region: TruB-C_2; pfam09157 269482015182 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 269482015183 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 269482015184 putative substrate translocation pore; other site 269482015185 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 269482015186 multidrug efflux system protein EmrA; Provisional; Region: PRK15136 269482015187 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 269482015188 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 269482015189 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 269482015190 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 269482015191 MarR family; Region: MarR_2; cl17246 269482015192 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 269482015193 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 269482015194 G1 box; other site 269482015195 putative GEF interaction site [polypeptide binding]; other site 269482015196 GTP/Mg2+ binding site [chemical binding]; other site 269482015197 Switch I region; other site 269482015198 G2 box; other site 269482015199 G3 box; other site 269482015200 Switch II region; other site 269482015201 G4 box; other site 269482015202 G5 box; other site 269482015203 BipA_TypA_II: domain II of BipA (also called TypA) having homology to domain II of the elongation factors (EFs) EF-G and EF-Tu. BipA is a highly conserved protein with global regulatory properties in Escherichia coli. BipA is phosphorylated on a...; Region: BipA_TypA_II; cd03691 269482015204 BipA_TypA_C: a C-terminal portion of BipA or TypA having homology to the C terminal domains of the elongation factors EF-G and EF-2. A member of the ribosome binding GTPase superfamily, BipA is widely distributed in bacteria and plants. BipA is a highly...; Region: BipA_TypA_C; cd03710 269482015205 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 269482015206 Thiamine pyrophosphate (TPP) family, E1 of OGDC-like subfamily, TPP-binding module; composed of proteins similar to the E1 component of the 2-oxoglutarate dehydrogenase multienzyme complex (OGDC). OGDC catalyzes the oxidative decarboxylation of...; Region: TPP_E1_OGDC_like; cd02016 269482015207 TPP-binding site [chemical binding]; other site 269482015208 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 269482015209 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 269482015210 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 269482015211 E3 interaction surface; other site 269482015212 lipoyl attachment site [posttranslational modification]; other site 269482015213 e3 binding domain; Region: E3_binding; pfam02817 269482015214 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 269482015215 dihydrolipoamide dehydrogenase; Validated; Region: PRK06327 269482015216 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 269482015217 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 269482015218 Predicted ATPase [General function prediction only]; Region: COG1485 269482015219 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 269482015220 Walker B; other site 269482015221 D-loop; other site 269482015222 H-loop/switch region; other site 269482015223 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 269482015224 Uncharacterized protein conserved in bacteria (DUF2147); Region: DUF2147; pfam09917 269482015225 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 269482015226 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 269482015227 Haemolysin secretion/activation protein ShlB/FhaC/HecB; Region: ShlB; pfam03865 269482015228 Flp pilus assembly protein, pilin Flp [Intracellular trafficking and secretion]; Region: Flp; COG3847 269482015229 Flp pilus assembly protein, protease CpaA [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: CpaA; COG4960 269482015230 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 269482015231 TadE-like protein; Region: TadE; pfam07811 269482015232 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 269482015233 Flp pilus assembly protein CpaB [Intracellular trafficking and secretion]; Region: CpaB; COG3745 269482015234 Flp pilus assembly protein, secretin CpaC [Intracellular trafficking and secretion]; Region: CpaC; COG4964 269482015235 Pilus formation protein N terminal region; Region: T2SS-T3SS_pil_N; pfam13629 269482015236 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 269482015237 AAA domain; Region: AAA_31; pfam13614 269482015238 This protein family consists of proteins similar to the cpaE protein of the Caulobacter pilus assembly and the orf4 protein of Actinobacillus pilus formation gene cluster. The function of these proteins are unkown. The Caulobacter pilus assembly contains...; Region: CpaE_like; cd03111 269482015239 This protein family consists of proteins similar to the cpaE protein of the Caulobacter pilus assembly and the orf4 protein of Actinobacillus pilus formation gene cluster. The function of these proteins are unkown. The Caulobacter pilus assembly contains...; Region: CpaE_like; cd03111 269482015240 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 269482015241 Type IV secretory pathway component VirB11, and related ATPases. The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to...; Region: VirB11-like_ATPase; cd01130 269482015242 ATP binding site [chemical binding]; other site 269482015243 Walker A motif; other site 269482015244 hexamer interface [polypeptide binding]; other site 269482015245 Walker B motif; other site 269482015246 Flp pilus assembly protein TadB [Intracellular trafficking and secretion]; Region: TadB; COG4965 269482015247 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 269482015248 Flp pilus assembly protein TadC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: TadC; COG2064 269482015249 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 269482015250 TPR repeat; Region: TPR_11; pfam13414 269482015251 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 269482015252 binding surface 269482015253 TPR motif; other site 269482015254 Protein of unknown function (DUF3613); Region: DUF3613; pfam12266 269482015255 Predicted membrane protein [Function unknown]; Region: COG4655 269482015256 Putative Flp pilus-assembly TadE/G-like; Region: Tad; pfam13400 269482015257 Transcriptional regulators containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]; Region: PspF; COG1221 269482015258 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 269482015259 Walker A motif; other site 269482015260 ATP binding site [chemical binding]; other site 269482015261 Walker B motif; other site 269482015262 arginine finger; other site 269482015263 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 269482015264 Protein of unknown function (DUF2968); Region: DUF2968; pfam11180 269482015265 bacterial Hfq-like; Region: Hfq; cd01716 269482015266 hexamer interface [polypeptide binding]; other site 269482015267 Sm1 motif; other site 269482015268 RNA binding site [nucleotide binding]; other site 269482015269 Sm2 motif; other site 269482015270 Protein of unknown function (DUF1571); Region: DUF1571; pfam07608 269482015271 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK08974 269482015272 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 269482015273 acyl-activating enzyme (AAE) consensus motif; other site 269482015274 putative AMP binding site [chemical binding]; other site 269482015275 putative active site [active] 269482015276 putative CoA binding site [chemical binding]; other site 269482015277 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 269482015278 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 269482015279 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 269482015280 Putative ParB-like nuclease; Region: ParBc_2; cl17538 269482015281 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 269482015282 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 269482015283 Sulfate transporter family; Region: Sulfate_transp; pfam00916 269482015284 Sulphate Transporter and Anti-Sigma factor antagonist domain of SulP-like sulfate transporters, plays a role in the function and regulation of the transport activity, proposed general NTP binding function; Region: STAS_SulP_like_sulfate_transporter; cd07042 269482015285 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_11; cd06321 269482015286 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 269482015287 putative ligand binding site [chemical binding]; other site 269482015288 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 269482015289 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 269482015290 TM-ABC transporter signature motif; other site 269482015291 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 269482015292 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 269482015293 Walker A/P-loop; other site 269482015294 ATP binding site [chemical binding]; other site 269482015295 Q-loop/lid; other site 269482015296 ABC transporter signature motif; other site 269482015297 Walker B; other site 269482015298 D-loop; other site 269482015299 H-loop/switch region; other site 269482015300 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 269482015301 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 269482015302 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 269482015303 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 269482015304 ribonuclease R; Region: RNase_R; TIGR02063 269482015305 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 269482015306 RNB domain; Region: RNB; pfam00773 269482015307 S1_RNase_R: RNase R C-terminal S1 domain. RNase R is a processive 3' to 5' exoribonuclease, which is a homolog of RNase II. RNase R degrades RNA with secondary structure having a 3' overhang of at least 7 nucleotides. RNase R and PNPase...; Region: S1_RNase_R; cd04471 269482015308 RNA binding site [nucleotide binding]; other site 269482015309 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 269482015310 23S rRNA (guanosine-2'-O-)-methyltransferase; Provisional; Region: PRK11181 269482015311 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 269482015312 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 269482015313 Peptidoglycan recognition proteins (PGRPs) are pattern recognition receptors that bind, and in certain cases, hydrolyze peptidoglycans (PGNs) of bacterial cell walls. PGRPs have been divided into three classes: short PGRPs (PGRP-S), that are small (20...; Region: PGRP; cd06583 269482015314 amidase catalytic site [active] 269482015315 Zn binding residues [ion binding]; other site 269482015316 substrate binding site [chemical binding]; other site 269482015317 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 269482015318 RPI_A: Ribose 5-phosphate isomerase type A (RPI_A) subfamily; RPI catalyzes the reversible conversion of ribose-5-phosphate to ribulose 5-phosphate, the first step of the non-oxidative branch of the pentose phosphate pathway. This reaction leads to the...; Region: RPI_A; cd01398 269482015319 tetramer (dimer of dimers) interface [polypeptide binding]; other site 269482015320 active site 269482015321 dimer interface [polypeptide binding]; other site 269482015322 Transcriptional regulators [Transcription]; Region: FadR; COG2186 269482015323 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 269482015324 DNA-binding site [nucleotide binding]; DNA binding site 269482015325 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 269482015326 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 269482015327 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 269482015328 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 269482015329 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 269482015330 dimer interface [polypeptide binding]; other site 269482015331 conserved gate region; other site 269482015332 putative PBP binding loops; other site 269482015333 ABC-ATPase subunit interface; other site 269482015334 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 269482015335 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 269482015336 substrate binding pocket [chemical binding]; other site 269482015337 membrane-bound complex binding site; other site 269482015338 hinge residues; other site 269482015339 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 269482015340 Dihydroorotate dehydrogenase (DHOD) class 2. DHOD catalyzes the oxidation of (S)-dihydroorotate to orotate. This is the fourth step and the only redox reaction in the de novo biosynthesis of UMP, the precursor of all pyrimidine nucleotides. DHOD requires...; Region: DHOD_2_like; cd04738 269482015341 quinone interaction residues [chemical binding]; other site 269482015342 active site 269482015343 catalytic residues [active] 269482015344 FMN binding site [chemical binding]; other site 269482015345 substrate binding site [chemical binding]; other site 269482015346 arginyl-tRNA-protein transferase; Provisional; Region: PRK01305 269482015347 Arginine-tRNA-protein transferase, N terminus; Region: ATE_N; pfam04376 269482015348 Arginine-tRNA-protein transferase, C terminus; Region: ATE_C; pfam04377 269482015349 leucyl/phenylalanyl-tRNA--protein transferase; Reviewed; Region: aat; PRK00301 269482015350 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_4; cd04511 269482015351 nudix motif; other site 269482015352 hypothetical protein; Provisional; Region: PRK02487 269482015353 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 269482015354 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 269482015355 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 269482015356 substrate binding site [chemical binding]; other site 269482015357 oxyanion hole (OAH) forming residues; other site 269482015358 trimer interface [polypeptide binding]; other site 269482015359 2-enoyl-CoA Hydratase C-terminal region; Region: ECH_C; pfam13766 269482015360 alkanesulfonate monooxygenase; Provisional; Region: PRK00719 269482015361 Alkanesulfonate monoxygenase is the monoxygenase of a two-component system that catalyzes the conversion of alkanesulfonates to the corresponding aldehyde and sulfite. Alkanesulfonate monoxygenase (SsuD) has an absolute requirement for reduced flavin...; Region: Alkanesulfonate_monoxygenase; cd01094 269482015362 active site 269482015363 dimer interface [polypeptide binding]; other site 269482015364 non-prolyl cis peptide bond; other site 269482015365 insertion regions; other site 269482015366 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 269482015367 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 269482015368 dimer interface [polypeptide binding]; other site 269482015369 conserved gate region; other site 269482015370 putative PBP binding loops; other site 269482015371 ABC-ATPase subunit interface; other site 269482015372 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 269482015373 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 269482015374 Walker A/P-loop; other site 269482015375 ATP binding site [chemical binding]; other site 269482015376 Q-loop/lid; other site 269482015377 ABC transporter signature motif; other site 269482015378 Walker B; other site 269482015379 D-loop; other site 269482015380 H-loop/switch region; other site 269482015381 Molybdopterin-binding protein [Coenzyme metabolism]; Region: MopI; COG3585 269482015382 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 269482015383 Dihydrouridine synthase-like (DUS-like) FMN-binding domain. Members of this family catalyze the reduction of the 5,6-double bond of a uridine residue on tRNA. Dihydrouridine modification of tRNA is widely observed in prokaryotes and eukaryotes, and also...; Region: DUS_like_FMN; cd02801 269482015384 FMN binding site [chemical binding]; other site 269482015385 active site 269482015386 catalytic residues [active] 269482015387 substrate binding site [chemical binding]; other site 269482015388 Protein of unknown function (DUF1311); Region: DUF1311; pfam07007 269482015389 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 269482015390 PAS domain; Region: PAS_9; pfam13426 269482015391 putative active site [active] 269482015392 heme pocket [chemical binding]; other site 269482015393 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 269482015394 PAS domain; Region: PAS_9; pfam13426 269482015395 putative active site [active] 269482015396 heme pocket [chemical binding]; other site 269482015397 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 269482015398 Histidine kinase; Region: HisKA_3; pfam07730 269482015399 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 269482015400 ATP binding site [chemical binding]; other site 269482015401 Mg2+ binding site [ion binding]; other site 269482015402 G-X-G motif; other site 269482015403 Family of unknown function (DUF695); Region: DUF695; pfam05117 269482015404 Protein of unknown function (DUF1260); Region: DUF1260; pfam06877 269482015405 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_8; cd07246 269482015406 putative dimer interface [polypeptide binding]; other site 269482015407 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 269482015408 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 269482015409 GAF domain; Region: GAF; pfam01590 269482015410 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 269482015411 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 269482015412 metal binding site [ion binding]; metal-binding site 269482015413 active site 269482015414 I-site; other site 269482015415 Catalytic domain of EDTA-resistant nuclease Nuc from Salmonella typhimurium and similar proteins; Region: PLDc_Nuc; cd09170 269482015416 PLD-like domain; Region: PLDc_2; pfam13091 269482015417 putative active site [active] 269482015418 catalytic site [active] 269482015419 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 269482015420 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 269482015421 active site 269482015422 catalytic tetrad [active] 269482015423 tRNA 2-selenouridine synthase; Provisional; Region: PRK11784 269482015424 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cl00125 269482015425 active site residue [active] 269482015426 Predicted permease; Region: DUF318; cl17795 269482015427 Bacterial protein of unknown function (DUF905); Region: DUF905; pfam06006 269482015428 ABC-2 type transporter; Region: ABC2_membrane; cl17235 269482015429 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 269482015430 nodulation ABC transporter NodI; Provisional; Region: PRK13537 269482015431 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 269482015432 Walker A/P-loop; other site 269482015433 ATP binding site [chemical binding]; other site 269482015434 Q-loop/lid; other site 269482015435 ABC transporter signature motif; other site 269482015436 Walker B; other site 269482015437 D-loop; other site 269482015438 H-loop/switch region; other site 269482015439 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 269482015440 Ligand Binding Site [chemical binding]; other site 269482015441 Protein of unknown function (DUF2939); Region: DUF2939; pfam11159 269482015442 LexA repressor; Validated; Region: PRK00215 269482015443 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 269482015444 Peptidase S24 LexA-like proteins are involved in the SOS response leading to the repair of single-stranded DNA within the bacterial cell. This family includes: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC...; Region: S24_LexA-like; cd06529 269482015445 Catalytic site [active] 269482015446 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 269482015447 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 269482015448 substrate binding pocket [chemical binding]; other site 269482015449 membrane-bound complex binding site; other site 269482015450 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 269482015451 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 269482015452 dimer interface [polypeptide binding]; other site 269482015453 conserved gate region; other site 269482015454 putative PBP binding loops; other site 269482015455 ABC-ATPase subunit interface; other site 269482015456 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 269482015457 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 269482015458 dimer interface [polypeptide binding]; other site 269482015459 conserved gate region; other site 269482015460 putative PBP binding loops; other site 269482015461 ABC-ATPase subunit interface; other site 269482015462 ABC-type sulfate/molybdate transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: CysA; COG1118 269482015463 ATP-binding cassette domain of the sulfate transporter; Region: ABC_CysA_sulfate_importer; cd03296 269482015464 Walker A/P-loop; other site 269482015465 ATP binding site [chemical binding]; other site 269482015466 Q-loop/lid; other site 269482015467 ABC transporter signature motif; other site 269482015468 Walker B; other site 269482015469 D-loop; other site 269482015470 H-loop/switch region; other site 269482015471 TOBE-like domain; Region: TOBE_3; pfam12857 269482015472 transcriptional regulator CysB-like protein; Reviewed; Region: PRK12683 269482015473 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 269482015474 The C-terminal substrate domain of LysR-type transcriptional regulators CysB-like contains type 2 periplasmic binding fold; Region: PBP2_CysB_like; cd08413 269482015475 substrate binding site [chemical binding]; other site 269482015476 dimerization interface [polypeptide binding]; other site 269482015477 Periplasmic sugar-binding domain of active transport systems that are members of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_sugar_binding_like; cd01536 269482015478 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 269482015479 ligand binding site [chemical binding]; other site 269482015480 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 269482015481 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 269482015482 Walker A/P-loop; other site 269482015483 ATP binding site [chemical binding]; other site 269482015484 Q-loop/lid; other site 269482015485 ABC transporter signature motif; other site 269482015486 Walker B; other site 269482015487 D-loop; other site 269482015488 H-loop/switch region; other site 269482015489 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 269482015490 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 269482015491 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 269482015492 TM-ABC transporter signature motif; other site 269482015493 Transcriptional regulators [Transcription]; Region: PurR; COG1609 269482015494 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 269482015495 DNA binding site [nucleotide binding] 269482015496 domain linker motif; other site 269482015497 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 269482015498 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 269482015499 Ribokinase catalyses the phosphorylation of ribose to ribose-5-phosphate using ATP. This reaction is the first step in the ribose metabolism. It traps ribose within the cell after uptake and also prepares the sugar for use in the synthesis of nucleotides...; Region: ribokinase; cd01174 269482015500 substrate binding site [chemical binding]; other site 269482015501 dimer interface [polypeptide binding]; other site 269482015502 ATP binding site [chemical binding]; other site 269482015503 Tar ligand binding domain homologue; Region: TarH; pfam02203 269482015504 HAMP domain; Region: HAMP; pfam00672 269482015505 dimerization interface [polypeptide binding]; other site 269482015506 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 269482015507 dimer interface [polypeptide binding]; other site 269482015508 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 269482015509 putative CheW interface [polypeptide binding]; other site 269482015510 PrkA family serine protein kinase; Provisional; Region: PRK15455 269482015511 AAA ATPase domain; Region: AAA_16; pfam13191 269482015512 Walker A motif; other site 269482015513 ATP binding site [chemical binding]; other site 269482015514 PrkA serine protein kinase C-terminal domain; Region: PrkA; pfam06798 269482015515 hypothetical protein; Provisional; Region: PRK05325 269482015516 SpoVR family protein; Provisional; Region: PRK11767 269482015517 Uncharacterized conserved protein [Function unknown]; Region: SpoVR; COG2719 269482015518 alpha-ketoglutarate transporter; Provisional; Region: PRK10406 269482015519 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 269482015520 putative substrate translocation pore; other site 269482015521 Rhomboid family; Region: Rhomboid; pfam01694 269482015522 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 269482015523 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 269482015524 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 269482015525 substrate binding pocket [chemical binding]; other site 269482015526 membrane-bound complex binding site; other site 269482015527 hinge residues; other site 269482015528 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 269482015529 dimer interface [polypeptide binding]; other site 269482015530 conserved gate region; other site 269482015531 putative PBP binding loops; other site 269482015532 ABC-ATPase subunit interface; other site 269482015533 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 269482015534 dimer interface [polypeptide binding]; other site 269482015535 conserved gate region; other site 269482015536 putative PBP binding loops; other site 269482015537 ABC-ATPase subunit interface; other site 269482015538 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 269482015539 Peptidase family M23; Region: Peptidase_M23; pfam01551 269482015540 DNA-binding transcriptional regulator EnvR; Provisional; Region: PRK09975 269482015541 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 269482015542 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 269482015543 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 269482015544 HlyD family secretion protein; Region: HlyD_3; pfam13437 269482015545 multidrug efflux protein; Reviewed; Region: PRK09577 269482015546 Protein export membrane protein; Region: SecD_SecF; cl14618 269482015547 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 269482015548 extracytoplasmic-function sigma-70 factor; Validated; Region: PRK07037 269482015549 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 269482015550 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cl17257 269482015551 MbtH-like protein; Region: MbtH; cl01279 269482015552 Clavaminic acid synthetase (CAS) -like; CAS is a trifunctional Fe(II)/ 2-oxoglutarate (2OG) oxygenase carrying out three reactions in the biosynthesis of clavulanic acid, an inhibitor of class A serine beta-lactamases. In general, Fe(II)-2OG oxygenases...; Region: CAS_like; cl00184 269482015553 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 269482015554 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 269482015555 Walker A/P-loop; other site 269482015556 ATP binding site [chemical binding]; other site 269482015557 Q-loop/lid; other site 269482015558 ABC transporter signature motif; other site 269482015559 Walker B; other site 269482015560 D-loop; other site 269482015561 H-loop/switch region; other site 269482015562 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 269482015563 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cl00462 269482015564 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 269482015565 ABC-ATPase subunit interface; other site 269482015566 dimer interface [polypeptide binding]; other site 269482015567 putative PBP binding regions; other site 269482015568 siderophore-iron reductase FhuF; Region: Fe_III_red_FhuF; TIGR03951 269482015569 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 269482015570 FhuF 2Fe-2S C-terminal domain; Region: FhuF_C; pfam11575 269482015571 Fe3+-siderophore binding domain FhuD. These proteins have been shown to function as initial receptors in ABC transport of Fe3+-siderophores in many eubacterial species. They belong to the TroA-like superfamily of helical backbone metal receptor proteins...; Region: FhuD; cd01146 269482015572 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 269482015573 siderophore binding site; other site 269482015574 cyclic peptide transporter; Region: cyc_pep_trnsptr; TIGR01194 269482015575 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 269482015576 Walker A/P-loop; other site 269482015577 ATP binding site [chemical binding]; other site 269482015578 Q-loop/lid; other site 269482015579 ABC transporter signature motif; other site 269482015580 Walker B; other site 269482015581 D-loop; other site 269482015582 H-loop/switch region; other site 269482015583 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 269482015584 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 269482015585 acyl-activating enzyme (AAE) consensus motif; other site 269482015586 AMP binding site [chemical binding]; other site 269482015587 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 269482015588 Condensation domain; Region: Condensation; pfam00668 269482015589 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 269482015590 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 269482015591 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 269482015592 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 269482015593 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 269482015594 acyl-activating enzyme (AAE) consensus motif; other site 269482015595 AMP binding site [chemical binding]; other site 269482015596 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 269482015597 non-ribosomal peptide synthase domain TIGR01720; Region: NRPS-para261 269482015598 Condensation domain; Region: Condensation; pfam00668 269482015599 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 269482015600 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 269482015601 acyl-activating enzyme (AAE) consensus motif; other site 269482015602 AMP binding site [chemical binding]; other site 269482015603 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 269482015604 Condensation domain; Region: Condensation; pfam00668 269482015605 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 269482015606 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 269482015607 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 269482015608 acyl-activating enzyme (AAE) consensus motif; other site 269482015609 AMP binding site [chemical binding]; other site 269482015610 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 269482015611 Condensation domain; Region: Condensation; pfam00668 269482015612 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 269482015613 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 269482015614 L-lysine 6-monooxygenase (NADPH-requiring); Region: K_oxygenase; pfam13434 269482015615 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 269482015616 ferrichrome outer membrane transporter; Provisional; Region: PRK10044 269482015617 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 269482015618 N-terminal plug; other site 269482015619 ligand-binding site [chemical binding]; other site 269482015620 Formyltransferase, catalytic core domain; Region: FMT_core; cl00395 269482015621 catalytic site [active] 269482015622 Acetyltransferase (GNAT) domain; Region: Acetyltransf_8; pfam13523 269482015623 Siderophore biosynthesis protein domain; Region: AlcB; smart01006 269482015624 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 269482015625 Helix-turn-helix domain; Region: HTH_38; pfam13936 269482015626 Integrase core domain; Region: rve; pfam00665 269482015627 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 269482015628 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 269482015629 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 269482015630 metal binding site [ion binding]; metal-binding site 269482015631 putative dimer interface [polypeptide binding]; other site 269482015632 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 269482015633 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 269482015634 catalytic triad [active] 269482015635 ATP:corrinoid adenosyltransferase [Coenzyme metabolism]; Region: BtuR; COG2109 269482015636 ATP:corrinoid adenosyltransferase BtuR/CobO/CobP. This family consists of the BtuR, CobO, CobP proteins all of which are Cob(I)alamin (vitamin B12) adenosyltransferase, which is involved in cobalamin (vitamin B12) biosynthesis. This enzyme is a homodimer; Region: CobA_CobO_BtuR; cd00561 269482015637 homodimer interface [polypeptide binding]; other site 269482015638 Walker A motif; other site 269482015639 ATP binding site [chemical binding]; other site 269482015640 hydroxycobalamin binding site [chemical binding]; other site 269482015641 Walker B motif; other site 269482015642 cobalamin biosynthesis protein CbiG; Provisional; Region: PRK07027 269482015643 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 269482015644 active site 269482015645 SAM binding site [chemical binding]; other site 269482015646 homodimer interface [polypeptide binding]; other site 269482015647 High-affinity nickel permease [Inorganic ion transport and metabolism]; Region: HoxN; COG3376 269482015648 cobalamin biosynthesis protein CobW; Region: CobW; TIGR02475 269482015649 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 269482015650 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 269482015651 cobaltochelatase subunit CobN; Reviewed; Region: cobN; PRK05989 269482015652 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 269482015653 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 269482015654 Mg-protoporyphyrin IX chelatase; Region: chlI; CHL00081 269482015655 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 269482015656 Walker A motif; other site 269482015657 ATP binding site [chemical binding]; other site 269482015658 Walker B motif; other site 269482015659 arginine finger; other site 269482015660 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cl00057 269482015661 metal ion-dependent adhesion site (MIDAS); other site 269482015662 Uncharacterized BCR, YaiI/YqxD family COG1671; Region: DUF188; pfam02639 269482015663 Domain of unknown function (DUF1993); Region: DUF1993; pfam09351 269482015664 Cobalamin biosynthesis protein CbiG [Coenzyme metabolism]; Region: CbiG; COG2073 269482015665 Cobalamin synthesis G N-terminal; Region: CbiG_N; pfam11760 269482015666 Precorrin-3B C(17)-methyltransferase (CobJ/CbiH); Region: Precorrin_3B_C17_MT; cd11646 269482015667 active site 269482015668 SAM binding site [chemical binding]; other site 269482015669 homodimer interface [polypeptide binding]; other site 269482015670 Precorrin-2 C20-methyltransferase, also named CobI or CbiL; Region: Precorrin_2_C20_MT; cd11645 269482015671 active site 269482015672 SAM binding site [chemical binding]; other site 269482015673 homodimer interface [polypeptide binding]; other site 269482015674 precorrin-8X methylmutase; Reviewed; Region: cobH; PRK08285 269482015675 Precorrin-8X methylmutase; Region: CbiC; pfam02570 269482015676 precorrin-3B synthase; Region: CobG; TIGR02435 269482015677 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 269482015678 Precorrin-6Y methyltransferase, the cobalamin biosynthesis enzyme CbiE; Region: Precorrin-6Y-methylase; cd11644 269482015679 active site 269482015680 putative homodimer interface [polypeptide binding]; other site 269482015681 SAM binding site [chemical binding]; other site 269482015682 Precorrin-6B methylase 2 [Coenzyme metabolism]; Region: CobL; COG2242 269482015683 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 269482015684 S-adenosylmethionine binding site [chemical binding]; other site 269482015685 cobalt-precorrin-6A synthase; Reviewed; Region: cbiD; PRK00075 269482015686 Precorrin-6x reductase [Coenzyme metabolism]; Region: CobK; COG2099 269482015687 cobalt-precorrin-6x reductase; Reviewed; Region: PRK08057 269482015688 Precorrin-4 C11-methyltransferase (CbiF/CobM); Region: Precorrin-4_C11-MT; cd11641 269482015689 active site 269482015690 SAM binding site [chemical binding]; other site 269482015691 homodimer interface [polypeptide binding]; other site 269482015692 Cyanate permease [Inorganic ion transport and metabolism]; Region: CynX; COG2807 269482015693 MarR family; Region: MarR_2; cl17246 269482015694 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 269482015695 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 269482015696 GST_N family, Ure2p-like subfamily; composed of the Saccharomyces cerevisiae Ure2p and related GSTs. Ure2p is a regulator for nitrogen catabolism in yeast. It represses the expression of several gene products involved in the use of poor nitrogen sources...; Region: GST_N_Ure2p_like; cd03048 269482015697 C-terminal domain interface [polypeptide binding]; other site 269482015698 GSH binding site (G-site) [chemical binding]; other site 269482015699 dimer interface [polypeptide binding]; other site 269482015700 C-terminal, alpha helical domain of Ure2p and related Glutathione S-transferase-like proteins; Region: GST_C_Ure2p_like; cd03178 269482015701 dimer interface [polypeptide binding]; other site 269482015702 N-terminal domain interface [polypeptide binding]; other site 269482015703 Nitronate monooxygenase; Region: NMO; pfam03060 269482015704 2-Nitropropane dioxygenase (NPD), one of the nitroalkane oxidizing enzyme families, catalyzes oxidative denitrification of nitroalkanes to their corresponding carbonyl compounds and nitrites. NDP is a member of the NAD(P)H-dependent flavin oxidoreductase...; Region: NPD_like; cd04730 269482015705 FMN binding site [chemical binding]; other site 269482015706 substrate binding site [chemical binding]; other site 269482015707 putative catalytic residue [active] 269482015708 Uncharacterized conserved protein [Function unknown]; Region: COG3791 269482015709 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 269482015710 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 269482015711 DNA binding residues [nucleotide binding] 269482015712 dimerization interface [polypeptide binding]; other site 269482015713 Predicted amidohydrolase [General function prediction only]; Region: COG0388 269482015714 Pseudomonas sp. MCI3434 R-amidase and related proteins (putative class 13 nitrilases); Region: R-amidase_like; cd07576 269482015715 putative active site [active] 269482015716 catalytic triad [active] 269482015717 putative dimer interface [polypeptide binding]; other site 269482015718 amino acid transporter; Region: 2A0306; TIGR00909 269482015719 Transcriptional regulator [Transcription]; Region: LysR; COG0583 269482015720 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 269482015721 The C-terminal substsrate binding domain of NodD family of LysR-type transcriptional regulators that regulates the expression of nodulation (nod) genes; contains the type 2 periplasmic binding fold; Region: PBP2_NodD; cd08462 269482015722 putative substrate binding pocket [chemical binding]; other site 269482015723 putative dimerization interface [polypeptide binding]; other site 269482015724 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; cl01768 269482015725 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 269482015726 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 269482015727 C-terminal domain of Burkholderia sp. NF100 MhqB and similar proteins; MhqB is a type I extradiol dioxygenase involved in the catabolism of methylhydroquinone, an intermediate in the degradation of fenitrothion; Region: MhqB_like_C; cd08360 269482015728 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 269482015729 putative active site [active] 269482015730 putative metal binding site [ion binding]; other site 269482015731 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cd03467 269482015732 iron-sulfur cluster [ion binding]; other site 269482015733 [2Fe-2S] cluster binding site [ion binding]; other site 269482015734 hypothetical protein; Provisional; Region: PRK06847 269482015735 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 269482015736 Putative cyclase; Region: Cyclase; pfam04199 269482015737 Cupin domain; Region: Cupin_2; pfam07883 269482015738 2-keto-4-pentenoate hydratase/2-oxohepta-3-ene-1,7-dioic acid hydratase (catechol pathway) [Secondary metabolites biosynthesis, transport, and catabolism]; Region: MhpD; COG0179 269482015739 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 269482015740 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 269482015741 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269482015742 NAD(P) binding site [chemical binding]; other site 269482015743 active site 269482015744 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 269482015745 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 269482015746 Phage integrase, N-terminal SAM-like domain; Region: Phage_integr_N; cl12235 269482015747 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 269482015748 active site 269482015749 DNA binding site [nucleotide binding] 269482015750 Int/Topo IB signature motif; other site 269482015751 Domain of unknown function (DUF4158); Region: DUF4158; pfam13700 269482015752 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; pfam01526 269482015753 High-affinity nickel-transport protein; Region: NicO; cl00964 269482015754 High-affinity nickel-transport protein; Region: NicO; cl00964 269482015755 Alcaligenes xylosoxidans NreA and related domains; this domain family was previously known as part of DUF156; Region: NreA-like_DUF156; cd10154 269482015756 putative homodimer interface [polypeptide binding]; other site 269482015757 putative homotetramer interface [polypeptide binding]; other site 269482015758 putative metal binding site [ion binding]; other site 269482015759 putative homodimer-homodimer interface [polypeptide binding]; other site 269482015760 putative allosteric switch controlling residues; other site 269482015761 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 269482015762 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 269482015763 dimer interface [polypeptide binding]; other site 269482015764 conserved gate region; other site 269482015765 putative PBP binding loops; other site 269482015766 ABC-ATPase subunit interface; other site 269482015767 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 269482015768 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 269482015769 Walker A/P-loop; other site 269482015770 ATP binding site [chemical binding]; other site 269482015771 Q-loop/lid; other site 269482015772 ABC transporter signature motif; other site 269482015773 Walker B; other site 269482015774 D-loop; other site 269482015775 H-loop/switch region; other site 269482015776 tungstate ABC transporter binding protein WtpA; Region: tungstate_WtpA; TIGR03730 269482015777 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 269482015778 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 269482015779 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 269482015780 active site 269482015781 metal binding site [ion binding]; metal-binding site 269482015782 cytochrome c-type biogenesis protein CcsB; Region: cytochr_II_ccsB; TIGR03144 269482015783 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cl00125 269482015784 active site residue [active] 269482015785 Chromate resistance exported protein; Region: Chrome_Resist; pfam09828 269482015786 Chromate transport protein ChrA [Inorganic ion transport and metabolism]; Region: ChrA; COG2059 269482015787 chromate transporter, chromate ion transporter (CHR) family; Region: 2A51; TIGR00937 269482015788 Chromate transporter; Region: Chromate_transp; pfam02417 269482015789 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 269482015790 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 269482015791 Chromate transport protein ChrA [Inorganic ion transport and metabolism]; Region: ChrA; COG2059 269482015792 Chromate transporter; Region: Chromate_transp; pfam02417 269482015793 Protein of unknown function (DUF2874); Region: DUF2874; pfam11396 269482015794 Chromate resistance exported protein; Region: Chrome_Resist; pfam09828 269482015795 Domain of Unknown Function (DUF1259); Region: DUF1529; pfam07485 269482015796 Domain of Unknown Function (DUF1259); Region: DUF1529; pfam07485 269482015797 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 269482015798 Laminin G domain; Laminin G-like domains are usually Ca++ mediated receptors that can have binding sites for steroids, beta1 integrins, heparin, sulfatides, fibulin-1, and alpha-dystroglycans. Proteins that contain LamG domains serve a variety of...; Region: LamG; cl17353 269482015799 YbaK-like. The YbaK family of deacylase domains includes the INS amino acid-editing domain of the bacterial class II prolyl tRNA synthetase (ProRS), and it's trans-acting homologs, YbaK, ProX, and PrdX. The primary function of INS is to hydrolyze...; Region: YbaK_like; cd04332 269482015800 putative deacylase active site [active] 269482015801 YciI-like protein; Reviewed; Region: PRK12866 269482015802 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 269482015803 Mycobacterium tuberculosis CorA-like subfamily; Region: MtCorA-like; cd12830 269482015804 oligomer interface [polypeptide binding]; other site 269482015805 metal binding site [ion binding]; metal-binding site 269482015806 metal binding site [ion binding]; metal-binding site 269482015807 putative Cl binding site [ion binding]; other site 269482015808 basic sphincter; other site 269482015809 hydrophobic gate; other site 269482015810 periplasmic entrance; other site 269482015811 AAA domain; Region: AAA_33; pfam13671 269482015812 Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates...; Region: NK; cl17190 269482015813 active site 269482015814 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 269482015815 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269482015816 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 269482015817 AsnC family; Region: AsnC_trans_reg; pfam01037 269482015818 LTXXQ motif family protein; Region: LTXXQ; pfam07813 269482015819 PGDYG protein; Region: PGDYG; pfam14083 269482015820 Protein of unknown function (DUF3022); Region: DUF3022; pfam11226 269482015821 Putative membrane peptidase family (DUF2324); Region: DUF2324; pfam10086 269482015822 Transcriptional regulators [Transcription]; Region: PurR; COG1609 269482015823 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 269482015824 DNA binding site [nucleotide binding] 269482015825 domain linker motif; other site 269482015826 Ligand-binding domain of DNA transcription repressor RegR and other putative regulators such as KdgR and EndR; Region: PBP1_RegR_EndR_KdgR_like; cd06283 269482015827 putative ligand binding site [chemical binding]; other site 269482015828 putative dimerization interface [polypeptide binding]; other site 269482015829 bifunctional glyoxylate/hydroxypyruvate reductase B; Provisional; Region: PRK15409 269482015830 D-glycerate dehydrogenase/hydroxypyruvate reductase (GDH); Region: GDH; cd05301 269482015831 dimerization interface [polypeptide binding]; other site 269482015832 ligand binding site [chemical binding]; other site 269482015833 NADP binding site [chemical binding]; other site 269482015834 catalytic site [active] 269482015835 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 269482015836 D-galactonate transporter; Region: 2A0114; TIGR00893 269482015837 putative substrate translocation pore; other site 269482015838 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 269482015839 2-keto-3-deoxygluconate kinase (KdgK) phosphorylates 2-keto-3-deoxygluconate (KDG) to form 2-keto-3-deoxy-6-phosphogluconate (KDGP). KDG is the common intermediate product, that allows organisms to channel D-glucuronate and/or D-galacturinate into the...; Region: KdgK; cd01166 269482015840 substrate binding site [chemical binding]; other site 269482015841 ATP binding site [chemical binding]; other site 269482015842 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 269482015843 aminoethylphosphonate catabolism associated LysR family transcriptional regulator; Region: phn_lysR; TIGR03339 269482015844 C-terminal substrate binding domain of LysR-type transcriptional regulator CysL, which activates the transcription of the cysJI operon encoding sulfite reductase, contains the type 2 periplasmic binding fold; Region: PBP2_CysL_like; cd08420 269482015845 putative dimerization interface [polypeptide binding]; other site 269482015846 Predicted membrane protein [Function unknown]; Region: COG2855 269482015847 putative voltage-gated ClC-type chloride channel ClcB; Provisional; Region: PRK01862 269482015848 CLC voltage-gated chloride channel. The ClC chloride channels catalyse the selective flow of Cl- ions across cell membranes, thereby regulating electrical excitation in skeletal muscle and the flow of salt and water across epithelial barriers. This...; Region: Voltage_gated_ClC; cd00400 269482015849 Cl- selectivity filter; other site 269482015850 Cl- binding residues [ion binding]; other site 269482015851 pore gating glutamate residue; other site 269482015852 dimer interface [polypeptide binding]; other site 269482015853 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cd02205 269482015854 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 269482015855 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 269482015856 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 269482015857 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 269482015858 HlyD family secretion protein; Region: HlyD_3; pfam13437 269482015859 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 269482015860 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 269482015861 Helix-Turn-Helix DNA binding domain of the transcription regulators NolA and AlbR; Region: HTH_NolA-AlbR; cd04788 269482015862 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 269482015863 DNA binding residues [nucleotide binding] 269482015864 putative dimer interface [polypeptide binding]; other site 269482015865 TipAS antibiotic-recognition domain; Region: TipAS; pfam07739 269482015866 TipAS antibiotic-recognition domain; Region: TipAS; pfam07739 269482015867 PAS fold; Region: PAS_4; pfam08448 269482015868 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 269482015869 putative active site [active] 269482015870 heme pocket [chemical binding]; other site 269482015871 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 269482015872 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 269482015873 Walker A motif; other site 269482015874 ATP binding site [chemical binding]; other site 269482015875 Walker B motif; other site 269482015876 arginine finger; other site 269482015877 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 269482015878 Putative phosphatase (DUF442); Region: DUF442; cl17385 269482015879 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 269482015880 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 269482015881 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 269482015882 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 269482015883 dimer interface [polypeptide binding]; other site 269482015884 conserved gate region; other site 269482015885 putative PBP binding loops; other site 269482015886 ABC-ATPase subunit interface; other site 269482015887 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 269482015888 dimer interface [polypeptide binding]; other site 269482015889 conserved gate region; other site 269482015890 putative PBP binding loops; other site 269482015891 ABC-ATPase subunit interface; other site 269482015892 putrescine transporter ATP-binding subunit; Provisional; Region: potG; PRK11607 269482015893 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 269482015894 Walker A/P-loop; other site 269482015895 ATP binding site [chemical binding]; other site 269482015896 Q-loop/lid; other site 269482015897 ABC transporter signature motif; other site 269482015898 Walker B; other site 269482015899 D-loop; other site 269482015900 H-loop/switch region; other site 269482015901 TOBE domain; Region: TOBE_2; pfam08402 269482015902 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 269482015903 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 269482015904 Predicted Fe-S protein [General function prediction only]; Region: COG3313 269482015905 Outer membrane protein W [Cell envelope biogenesis, outer membrane]; Region: OmpW; COG3047 269482015906 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 269482015907 2-Nitropropane dioxygenase (NPD), one of the nitroalkane oxidizing enzyme families, catalyzes oxidative denitrification of nitroalkanes to their corresponding carbonyl compounds and nitrites. NDP is a member of the NAD(P)H-dependent flavin oxidoreductase...; Region: NPD_like; cd04730 269482015908 FMN binding site [chemical binding]; other site 269482015909 substrate binding site [chemical binding]; other site 269482015910 putative catalytic residue [active] 269482015911 Rhodococcus ruber 6-oxolauric acid dehydrogenase-like; Region: ALDH_CddD_SSP0762; cd07138 269482015912 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 269482015913 NAD binding site [chemical binding]; other site 269482015914 catalytic residues [active] 269482015915 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 269482015916 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 269482015917 putative DNA binding site [nucleotide binding]; other site 269482015918 putative Zn2+ binding site [ion binding]; other site 269482015919 AsnC family; Region: AsnC_trans_reg; pfam01037 269482015920 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 269482015921 Alcohol dehydrogenases of the MDR family; Region: Zn_ADH6; cd08260 269482015922 putative NAD(P) binding site [chemical binding]; other site 269482015923 catalytic Zn binding site [ion binding]; other site 269482015924 structural Zn binding site [ion binding]; other site 269482015925 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 269482015926 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 269482015927 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 269482015928 ABC transporter; Region: ABC_tran_2; pfam12848 269482015929 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 269482015930 Uncharacterized protein involved in outer membrane biogenesis [Cell envelope biogenesis, outer membrane]; Region: AsmA; COG2982 269482015931 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 269482015932 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4619 269482015933 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 269482015934 Walker A/P-loop; other site 269482015935 ATP binding site [chemical binding]; other site 269482015936 Q-loop/lid; other site 269482015937 ABC transporter signature motif; other site 269482015938 Walker B; other site 269482015939 D-loop; other site 269482015940 H-loop/switch region; other site 269482015941 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG0390 269482015942 Arginate lyase and other MDR family members; Region: AL_MDR; cd08252 269482015943 zinc-binding alcohol dehydrogenase family protein; Region: adh_fam_1; TIGR02817 269482015944 putative NAD(P) binding site [chemical binding]; other site 269482015945 dimer interface [polypeptide binding]; other site 269482015946 Transcriptional regulator [Transcription]; Region: LysR; COG0583 269482015947 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 269482015948 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 269482015949 putative effector binding pocket; other site 269482015950 dimerization interface [polypeptide binding]; other site 269482015951 Domain of unknown function (DUF4072); Region: DUF4072; pfam13284 269482015952 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 269482015953 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 269482015954 motif II; other site 269482015955 cystathionine beta-lyase; Provisional; Region: PRK07050 269482015956 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 269482015957 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 269482015958 catalytic residue [active] 269482015959 2-keto-3-deoxygluconate kinase (KdgK) phosphorylates 2-keto-3-deoxygluconate (KDG) to form 2-keto-3-deoxy-6-phosphogluconate (KDGP). KDG is the common intermediate product, that allows organisms to channel D-glucuronate and/or D-galacturinate into the...; Region: KdgK; cd01166 269482015960 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 269482015961 substrate binding site [chemical binding]; other site 269482015962 ATP binding site [chemical binding]; other site 269482015963 ribosomal protein S12 methylthiotransferase; Provisional; Region: rimO; PRK14862 269482015964 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 269482015965 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 269482015966 FeS/SAM binding site; other site 269482015967 TRAM domain; Region: TRAM; pfam01938 269482015968 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5394 269482015969 PHB/PHA accumulation regulator DNA-binding domain; Region: PHB_acc_N; pfam07879 269482015970 PHB accumulation regulatory domain; Region: PHB_acc; pfam05233 269482015971 acetyacetyl-CoA reductase; Provisional; Region: PRK12938 269482015972 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 269482015973 NAD(P) binding site [chemical binding]; other site 269482015974 homotetramer interface [polypeptide binding]; other site 269482015975 homodimer interface [polypeptide binding]; other site 269482015976 active site 269482015977 putative acyltransferase; Provisional; Region: PRK05790 269482015978 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 269482015979 dimer interface [polypeptide binding]; other site 269482015980 active site 269482015981 poly(R)-hydroxyalkanoic acid synthase, class I; Region: PHA_synth_I; TIGR01838 269482015982 Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; Region: PhaC_N; pfam07167 269482015983 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; cl00650 269482015984 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 269482015985 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 269482015986 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cd00165 269482015987 RNA binding surface [nucleotide binding]; other site 269482015988 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 269482015989 active site 269482015990 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 269482015991 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 269482015992 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl17251 269482015993 DEAD_2; Region: DEAD_2; pfam06733 269482015994 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 269482015995 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 269482015996 Protein of unknown function (DUF465); Region: DUF465; pfam04325 269482015997 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 269482015998 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 269482015999 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 269482016000 S1_Tex: The C-terminal S1 domain of a transcription accessory factor called Tex, which has been characterized in Bordetella pertussis and Pseudomonas aeruginosa. The tex gene is essential in Bortella pertusis and is named for its role in toxin expression; Region: S1_Tex; cd05685 269482016001 RNA binding site [nucleotide binding]; other site 269482016002 K+ transporter [Inorganic ion transport and metabolism]; Region: Kup; COG3158 269482016003 potassium uptake protein; Region: kup; TIGR00794 269482016004 Predicted phosphoribosyltransferases [General function prediction only]; Region: COG2236 269482016005 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 269482016006 active site 269482016007 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 269482016008 Adenylosuccinate synthetase (AdSS) catalyzes the first step in the de novo biosynthesis of AMP. IMP and L-aspartate are conjugated in a two-step reaction accompanied by the hydrolysis of GTP to GDP in the presence of Mg2+. In the first step, the...; Region: AdSS; cd03108 269482016009 GDP-binding site [chemical binding]; other site 269482016010 ACT binding site; other site 269482016011 IMP binding site; other site 269482016012 ATP phosphoribosyltransferase regulatory subunit; Provisional; Region: PRK12421 269482016013 Class II Histidinyl-tRNA synthetase (HisRS)-like catalytic core domain. HisRS is a homodimer. It is responsible for the attachment of histidine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for...; Region: HisRS-like_core; cd00773 269482016014 dimer interface [polypeptide binding]; other site 269482016015 motif 1; other site 269482016016 active site 269482016017 motif 2; other site 269482016018 motif 3; other site 269482016019 Uncharacterized protein conserved in bacteria (DUF2065); Region: DUF2065; pfam09838 269482016020 Band_7_HflC: The band 7 domain of flotillin (reggie) like proteins. This group includes proteins similar to prokaryotic HlfC (High frequency of lysogenization C). Although many members of the band 7 family are lipid raft associated, prokaryote plasma...; Region: Band_7_HflC; cd03405 269482016021 Band_7_HflK: The band 7 domain of flotillin (reggie) like proteins. This group includes proteins similar to prokaryotic HlfK (High frequency of lysogenization K). Although many members of the band 7 family are lipid raft associated, prokaryote plasma...; Region: Band_7_HflK; cd03404 269482016022 HflK protein; Region: hflK; TIGR01933 269482016023 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 269482016024 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 269482016025 HflX GTPase family; Region: HflX; cd01878 269482016026 G1 box; other site 269482016027 GTP/Mg2+ binding site [chemical binding]; other site 269482016028 Switch I region; other site 269482016029 G2 box; other site 269482016030 G3 box; other site 269482016031 Switch II region; other site 269482016032 G4 box; other site 269482016033 G5 box; other site 269482016034 bacterial Hfq-like; Region: Hfq; cd01716 269482016035 hexamer interface [polypeptide binding]; other site 269482016036 Sm1 motif; other site 269482016037 RNA binding site [nucleotide binding]; other site 269482016038 Sm2 motif; other site 269482016039 GTP-binding protein Der; Reviewed; Region: PRK00093 269482016040 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 269482016041 G1 box; other site 269482016042 GTP/Mg2+ binding site [chemical binding]; other site 269482016043 Switch I region; other site 269482016044 G2 box; other site 269482016045 Switch II region; other site 269482016046 G3 box; other site 269482016047 G4 box; other site 269482016048 G5 box; other site 269482016049 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 269482016050 G1 box; other site 269482016051 GTP/Mg2+ binding site [chemical binding]; other site 269482016052 Switch I region; other site 269482016053 G2 box; other site 269482016054 G3 box; other site 269482016055 Switch II region; other site 269482016056 G4 box; other site 269482016057 G5 box; other site 269482016058 outer membrane assembly lipoprotein YfgL; Region: assembly_YfgL; TIGR03300 269482016059 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 269482016060 Trp docking motif [polypeptide binding]; other site 269482016061 active site 269482016062 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2976 269482016063 Uncharacterized protein conserved in bacteria (DUF2133); Region: DUF2133; pfam09976 269482016064 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 269482016065 Class II Histidinyl-tRNA synthetase (HisRS)-like catalytic core domain. HisRS is a homodimer. It is responsible for the attachment of histidine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for...; Region: HisRS-like_core; cd00773 269482016066 dimer interface [polypeptide binding]; other site 269482016067 motif 1; other site 269482016068 active site 269482016069 motif 2; other site 269482016070 motif 3; other site 269482016071 HisRS Histidyl-anticodon binding domain. HisRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding, so that the activated amino acid is...; Region: HisRS_anticodon; cd00859 269482016072 anticodon binding site; other site 269482016073 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 269482016074 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 269482016075 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 269482016076 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 269482016077 non-specific DNA binding site [nucleotide binding]; other site 269482016078 salt bridge; other site 269482016079 sequence-specific DNA binding site [nucleotide binding]; other site 269482016080 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 269482016081 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK11194 269482016082 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 269482016083 FeS/SAM binding site; other site 269482016084 Nucleoside diphosphate kinase Group I (NDPk_I)-like: NDP kinase domains are present in a large family of structurally and functionally conserved proteins from bacteria to humans that generally catalyze the transfer of gamma-phosphates of a nucleoside...; Region: NDPk_I; cd04413 269482016085 active site 269482016086 multimer interface [polypeptide binding]; other site 269482016087 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 269482016088 YccA-like proteins; Region: YccA_like; cd10433 269482016089 23S rRNA m(5)U1939 methyltransferase; Reviewed; Region: rumA; PRK13168 269482016090 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 269482016091 S-adenosylmethionine binding site [chemical binding]; other site 269482016092 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 269482016093 putative catalytic site [active] 269482016094 putative metal binding site [ion binding]; other site 269482016095 putative phosphate binding site [ion binding]; other site 269482016096 putative catalytic site [active] 269482016097 putative phosphate binding site [ion binding]; other site 269482016098 putative metal binding site [ion binding]; other site 269482016099 Uncharacterized bacterial subgroup of the DEDDy 3'-5' exonuclease domain of family-B DNA polymerases; Region: DNA_polB_like1_exo; cd05782 269482016100 active site 269482016101 catalytic site [active] 269482016102 substrate binding site [chemical binding]; other site 269482016103 Predicted 3'-5' exonuclease related to the exonuclease domain of PolB; Region: DNA_pol_B_exo2; pfam10108 269482016104 RNA polymerase sigma factor RpoS; Region: rpoS_proteo; TIGR02394 269482016105 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 269482016106 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 269482016107 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 269482016108 DNA binding residues [nucleotide binding] 269482016109 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 269482016110 Peptidase family M23; Region: Peptidase_M23; pfam01551 269482016111 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 269482016112 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 269482016113 S-adenosylmethionine binding site [chemical binding]; other site 269482016114 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 269482016115 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 269482016116 CoA-transferase family III; Region: CoA_transf_3; pfam02515 269482016117 recombination protein RecR; Reviewed; Region: recR; PRK00076 269482016118 RecR protein; Region: RecR; pfam02132 269482016119 TOPRIM_recR: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in Escherichia coli RecR. RecR participates in the RecFOR pathway of homologous recombinational repair in prokaryotes. This pathway provides a...; Region: TOPRIM_recR; cd01025 269482016120 putative active site [active] 269482016121 putative metal-binding site [ion binding]; other site 269482016122 tetramer interface [polypeptide binding]; other site 269482016123 hypothetical protein; Validated; Region: PRK00153 269482016124 DNA polymerase III, subunit gamma and tau; Region: dnaX_nterm; TIGR02397 269482016125 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 269482016126 Walker A motif; other site 269482016127 ATP binding site [chemical binding]; other site 269482016128 Walker B motif; other site 269482016129 arginine finger; other site 269482016130 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 269482016131 TRX family; composed of two groups: Group I, which includes proteins that exclusively encode a TRX domain; and Group II, which are composed of fusion proteins of TRX and additional domains. Group I TRX is a small ancient protein that alter the redox...; Region: TRX_family; cd02947 269482016132 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 269482016133 catalytic residues [active] 269482016134 transcription termination factor Rho; Provisional; Region: rho; PRK09376 269482016135 Rho termination factor, N-terminal domain; Region: Rho_N; pfam07498 269482016136 Rho_CSD: Rho protein cold-shock domain (CSD). Rho protein is a transcription termination factor in most bacteria. In bacteria, there are two distinct mechanisms for mRNA transcription termination. In intrinsic termination, RNA polymerase and nascent mRNA...; Region: Rho_CSD; cd04459 269482016137 RNA binding site [nucleotide binding]; other site 269482016138 Transcription termination factor rho is a bacterial ATP-dependent RNA/DNA helicase. It is a homohexamer. Each monomer consists of an N-terminal domain of the OB fold, which is responsible for binding to cysteine rich nucleotides. This alignment is of the...; Region: rho_factor; cd01128 269482016139 multimer interface [polypeptide binding]; other site 269482016140 Walker A motif; other site 269482016141 ATP binding site [chemical binding]; other site 269482016142 Walker B motif; other site 269482016143 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 269482016144 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 269482016145 DNA binding residues [nucleotide binding] 269482016146 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 269482016147 putative substrate translocation pore; other site 269482016148 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 269482016149 Phosphoenolpyruvate:glucose-phosphotransferase regulator; Region: MtfA; pfam06167 269482016150 50S ribosomal protein L31 type B; Reviewed; Region: rpmE2; PRK01678 269482016151 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 269482016152 multidrug efflux protein; Reviewed; Region: PRK01766 269482016153 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 269482016154 cation binding site [ion binding]; other site 269482016155 lipoyl synthase; Provisional; Region: PRK12928 269482016156 acetoin dehydrogenase E2 subunit dihydrolipoyllysine-residue acetyltransferase; Provisional; Region: PRK14875 269482016157 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 269482016158 E3 interaction surface; other site 269482016159 lipoyl attachment site [posttranslational modification]; other site 269482016160 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 269482016161 Pyrimidine (PYR) binding domain of the beta subunits of the E1 components of human pyruvate dehydrogenase complex (E1- PDHc) and related proteins; Region: TPP_PYR_E1-PDHc-beta_like; cd07036 269482016162 alpha subunit interface [polypeptide binding]; other site 269482016163 TPP binding site [chemical binding]; other site 269482016164 heterodimer interface [polypeptide binding]; other site 269482016165 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 269482016166 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_y; TIGR03182 269482016167 Thiamine pyrophosphate (TPP) family, E1 of PDC_ADC_BCADC subfamily, TPP-binding module; composed of proteins similar to the E1 components of the human pyruvate dehydrogenase complex (PDC), the acetoin dehydrogenase complex (ADC) and the branched chain...; Region: TPP_E1_PDC_ADC_BCADC; cd02000 269482016168 tetramer interface [polypeptide binding]; other site 269482016169 TPP-binding site [chemical binding]; other site 269482016170 heterodimer interface [polypeptide binding]; other site 269482016171 phosphorylation loop region [posttranslational modification] 269482016172 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 269482016173 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269482016174 NAD(P) binding site [chemical binding]; other site 269482016175 active site 269482016176 Predicted inorganic polyphosphate/ATP-NAD kinase [General function prediction only]; Region: COG3199 269482016177 ATP-NAD kinase; Region: NAD_kinase; pfam01513 269482016178 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 269482016179 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 269482016180 Walker A motif; other site 269482016181 ATP binding site [chemical binding]; other site 269482016182 Walker B motif; other site 269482016183 arginine finger; other site 269482016184 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 269482016185 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 269482016186 Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB; Region: HTH_YyaN; cd01109 269482016187 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 269482016188 DNA binding residues [nucleotide binding] 269482016189 putative dimer interface [polypeptide binding]; other site 269482016190 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 269482016191 Bacterial protein of unknown function (DUF937); Region: DUF937; cl01528 269482016192 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 269482016193 Clp amino terminal domain; Region: Clp_N; pfam02861 269482016194 Clp amino terminal domain; Region: Clp_N; pfam02861 269482016195 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 269482016196 Walker A motif; other site 269482016197 ATP binding site [chemical binding]; other site 269482016198 Walker B motif; other site 269482016199 arginine finger; other site 269482016200 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 269482016201 Walker A motif; other site 269482016202 ATP binding site [chemical binding]; other site 269482016203 Walker B motif; other site 269482016204 arginine finger; other site 269482016205 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 269482016206 Transcriptional regulator; Region: Rrf2; cl17282 269482016207 Rrf2 family protein; Region: rrf2_super; TIGR00738 269482016208 Truncated hemoglobins (trHbs) are a family of oxygen-binding heme proteins found in cyanobacteria, eubacteria, unicellular eukaryotes, and plants. The truncated hemoglobins have a characteristic two-over-two alpha helical folding pattern that is distinct...; Region: Trunc_globin; cd00454 269482016209 apolar tunnel; other site 269482016210 heme binding site [chemical binding]; other site 269482016211 dimerization interface [polypeptide binding]; other site 269482016212 MoaE family. Members of this family are involved in biosynthesis of the molybdenum cofactor (Moco), an essential cofactor for a diverse group of redox enzymes. Moco biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and...; Region: MoaE; cd00756 269482016213 MoaE homodimer interface [polypeptide binding]; other site 269482016214 MoaD interaction [polypeptide binding]; other site 269482016215 active site residues [active] 269482016216 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 269482016217 MoaE interaction surface [polypeptide binding]; other site 269482016218 MoeB interaction surface [polypeptide binding]; other site 269482016219 thiocarboxylated glycine; other site 269482016220 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 269482016221 MoeA family. Members of this family are involved in biosynthesis of the molybdenum cofactor (MoCF), an essential cofactor of a diverse group of redox enzymes. MoCF biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and...; Region: MoeA; cd00887 269482016222 dimer interface [polypeptide binding]; other site 269482016223 putative functional site; other site 269482016224 putative MPT binding site; other site 269482016225 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 269482016226 Threonine synthase catalyzes the final step of threonine biosynthesis. The conversion of O-phosphohomoserine into threonine and inorganic phosphate is pyridoxal 5'-phosphate dependent. The Thr-synth_1 CD includes members from higher plants; Region: Thr-synth_2; cd01560 269482016227 pyridoxal 5'-phosphate binding site [chemical binding]; other site 269482016228 catalytic residue [active] 269482016229 homoserine dehydrogenase; Provisional; Region: PRK06349 269482016230 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 269482016231 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 269482016232 ACT_HSDH_Hom CD includes the C-terminal ACT domain of the NAD(P)H-dependent, homoserine dehydrogenase (HSDH) and related domains; Region: ACT_HSDH-Hom; cd04881 269482016233 aminotransferase AlaT; Validated; Region: PRK09265 269482016234 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 269482016235 pyridoxal 5'-phosphate binding site [chemical binding]; other site 269482016236 homodimer interface [polypeptide binding]; other site 269482016237 catalytic residue [active] 269482016238 Xcc1710_like family, specific to proteobacteria. Xcc1710 is a hypothetical protein from Xanthomonas campestris pv. campestris str. ATCC 33913, similar to Mth938, a hypothetical protein encoded by the Methanobacterium thermoautotrophicum (Mth) genome; Region: Xcc1710_like; cd05560 269482016239 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 269482016240 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl17364 269482016241 4-amino-4-deoxy-L-arabinose-phosphoundecaprenol flippase subunit ArnF; Provisional; Region: PRK02971 269482016242 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 269482016243 3-amino-5-hydroxybenzoic acid synthase family (AHBA_syn). AHBA_syn family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The members of this CD are involved in various biosynthetic pathways for secondary...; Region: AHBA_syn; cd00616 269482016244 inhibitor-cofactor binding pocket; inhibition site 269482016245 pyridoxal 5'-phosphate binding site [chemical binding]; other site 269482016246 catalytic residue [active] 269482016247 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 269482016248 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 269482016249 Ligand binding site; other site 269482016250 Putative Catalytic site; other site 269482016251 DXD motif; other site 269482016252 putative formyltransferase; Provisional; Region: PRK06988 269482016253 Formyltransferase, catalytic core domain; Region: FMT_core; cl00395 269482016254 active site 269482016255 substrate binding site [chemical binding]; other site 269482016256 cosubstrate binding site; other site 269482016257 catalytic site [active] 269482016258 C-terminal subdomain of the formyltransferase domain on ArnA, which modifies lipid A with 4-amino-4-deoxy-l-arabinose; Region: Arna_FMT_C; cd08702 269482016259 active site 269482016260 NAD-dependent epimerase/dehydratase family protein; Provisional; Region: PRK11908 269482016261 Arna decarboxylase_like, extended (e) SDRs; Region: Arna_like_SDR_e; cd05257 269482016262 NAD binding site [chemical binding]; other site 269482016263 substrate binding site [chemical binding]; other site 269482016264 active site 269482016265 4-deoxy-4-formamido-L-arabinose-phosphoundecaprenol deformylase ArnD; Provisional; Region: PRK15394 269482016266 Catalytic domain of Escherichia coli 4-deoxy-4-formamido-L-arabinose-phosphoundecaprenol deformylase ArnD and other bacterial homologs; Region: CE4_ArnD; cd10939 269482016267 putative active site [active] 269482016268 putative catalytic site [active] 269482016269 putative Zn binding site [ion binding]; other site 269482016270 Peroxiredoxin (PRX) family, Bacterioferritin comigratory protein (BCP) subfamily; composed of thioredoxin-dependent thiol peroxidases, widely expressed in pathogenic bacteria, that protect cells against toxicity from reactive oxygen species by reducing...; Region: PRX_BCP; cd03017 269482016271 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 269482016272 catalytic triad [active] 269482016273 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]; Region: COG1875 269482016274 PIN domain of bacterial Smg6-like homologs with PhoH-like ATPase domains; Region: PIN_PhoHL-ATPase; cd09883 269482016275 putative active site [active] 269482016276 PhoH-like protein; Region: PhoH; pfam02562 269482016277 outer membrane lipoprotein; Provisional; Region: spr; PRK10838 269482016278 NlpC/P60 family; Region: NLPC_P60; pfam00877 269482016279 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 269482016280 Phosphate transport regulator (distant homolog of PhoU) [Inorganic ion transport and metabolism]; Region: COG1392 269482016281 replicative DNA helicase; Provisional; Region: PRK07004 269482016282 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 269482016283 DnaB helicase C terminal domain. The hexameric helicase DnaB unwinds the DNA duplex at the chromosome replication fork. Although the mechanism by which DnaB both couples ATP hydrolysis to translocation along DNA and denatures the duplex is unknown, a...; Region: DnaB_C; cd00984 269482016284 Walker A motif; other site 269482016285 ATP binding site [chemical binding]; other site 269482016286 Walker B motif; other site 269482016287 DNA binding loops [nucleotide binding] 269482016288 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 269482016289 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 269482016290 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 269482016291 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 269482016292 Replication protein A, class 2b aminoacyl-tRNA synthetases, and related proteins with oligonucleotide/oligosaccharide (OB) fold; Region: RPA_2b-aaRSs_OBF_like; cl09930 269482016293 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 269482016294 Transcriptional regulator [Transcription]; Region: LysR; COG0583 269482016295 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 269482016296 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 269482016297 putative effector binding pocket; other site 269482016298 dimerization interface [polypeptide binding]; other site 269482016299 glyoxylate carboligase; Provisional; Region: PRK11269 269482016300 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 269482016301 PYR/PP interface [polypeptide binding]; other site 269482016302 dimer interface [polypeptide binding]; other site 269482016303 TPP binding site [chemical binding]; other site 269482016304 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 269482016305 Thiamine pyrophosphate (TPP) family, Gcl subfamily, TPP-binding module; composed of proteins similar to Escherichia coli glyoxylate carboligase (Gcl). E. coli glyoxylate carboligase, plays a key role in glyoxylate metabolism where it catalyzes the...; Region: TPP_Gcl; cd02006 269482016306 TPP-binding site [chemical binding]; other site 269482016307 hydroxypyruvate isomerase; Region: OH-pyruv-isom; TIGR03234 269482016308 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 269482016309 tartronate semialdehyde reductase; Provisional; Region: PRK15059 269482016310 LysM domain/BON superfamily protein; Provisional; Region: PRK11198 269482016311 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 269482016312 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 269482016313 active site 269482016314 homodimer interface [polypeptide binding]; other site 269482016315 homotetramer interface [polypeptide binding]; other site 269482016316 psiF repeat; Region: PsiF_repeat; pfam07769 269482016317 psiF repeat; Region: PsiF_repeat; pfam07769 269482016318 The SYLF domain (also called DUF500), a novel lipid-binding module; Region: SYLF; cd11524 269482016319 This family is most closely related to the GT1 family of glycosyltransferases. aviGT4 in Streptomyces viridochromogenes has been shown to be involved in biosynthesis of oligosaccharide antibiotic avilamycin A. Inactivation of aviGT4 resulted in a mutant...; Region: GT1_AviGT4_like; cd03802 269482016320 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 269482016321 putative ADP-binding pocket [chemical binding]; other site 269482016322 Predicted ATPase [General function prediction only]; Region: COG4637 269482016323 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 269482016324 Walker A/P-loop; other site 269482016325 ATP binding site [chemical binding]; other site 269482016326 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 269482016327 Mechanosensitive ion channel; Region: MS_channel; pfam00924 269482016328 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 269482016329 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 269482016330 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 269482016331 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 269482016332 active site 269482016333 DNA polymerase III subunit delta'; Validated; Region: PRK06964 269482016334 DNA polymerase III subunit delta'; Validated; Region: PRK08485 269482016335 thymidylate kinase; Validated; Region: tmk; PRK00698 269482016336 Thymidine monophosphate kinase (TMPK), also known as thymidylate kinase, catalyzes the phosphorylation of thymidine monophosphate (TMP) to thymidine diphosphate (TDP) utilizing ATP as its preferred phophoryl donor. TMPK represents the rate-limiting step...; Region: TMPK; cd01672 269482016337 TMP-binding site; other site 269482016338 ATP-binding site [chemical binding]; other site 269482016339 YceG-like family; Region: YceG; pfam02618 269482016340 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 269482016341 dimerization interface [polypeptide binding]; other site 269482016342 Predicted aminomethyltransferase related to GcvT [General function prediction only]; Region: COG0354 269482016343 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 269482016344 NRDE protein; Region: NRDE; cl01315 269482016345 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 269482016346 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 269482016347 Coenzyme A binding pocket [chemical binding]; other site 269482016348 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cd00312 269482016349 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 269482016350 substrate binding pocket [chemical binding]; other site 269482016351 Transposase, Mutator family; Region: Transposase_mut; pfam00872 269482016352 MULE transposase domain; Region: MULE; pfam10551 269482016353 PaaI_thioesterase is a tetrameric acyl-CoA thioesterase with a hot dog fold and one of several proteins responsible for phenylacetic acid (PA) degradation in bacteria. Although orthologs of PaaI exist in archaea and eukaryotes, their function has not...; Region: PaaI_thioesterase; cd03443 269482016354 CoenzymeA binding site [chemical binding]; other site 269482016355 subunit interaction site [polypeptide binding]; other site 269482016356 PHB binding site; other site 269482016357 Stress responsive A/B Barrel Domain; Region: Dabb; smart00886 269482016358 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 269482016359 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 269482016360 Sugar-specific transcriptional regulator TrmB; Region: TrmB; cl17775 269482016361 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 269482016362 putative active site [active] 269482016363 catalytic site [active] 269482016364 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_6; cd06154 269482016365 homotrimer interaction site [polypeptide binding]; other site 269482016366 putative active site [active] 269482016367 Major Facilitator Superfamily; Region: MFS_1; pfam07690 269482016368 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 269482016369 Right handed beta helix region; Region: Beta_helix; pfam13229 269482016370 Right handed beta helix region; Region: Beta_helix; pfam13229 269482016371 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 269482016372 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 269482016373 metal binding site [ion binding]; metal-binding site 269482016374 active site 269482016375 I-site; other site 269482016376 acetyl-CoA acetyltransferase; Provisional; Region: PRK07108 269482016377 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 269482016378 dimer interface [polypeptide binding]; other site 269482016379 active site 269482016380 Nicotinamidase/pyrazinamidase (PZase). Nicotinamidase, a ubiquitous enzyme in prokaryotes, converts nicotinamide to nicotinic acid (niacin) and ammonia, which in turn can be recycled to make nicotinamide adenine dinucleotide (NAD). The same enzyme is...; Region: nicotinamidase; cd01011 269482016381 catalytic triad [active] 269482016382 metal binding site [ion binding]; metal-binding site 269482016383 conserved cis-peptide bond; other site 269482016384 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 269482016385 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 269482016386 substrate binding site [chemical binding]; other site 269482016387 oxyanion hole (OAH) forming residues; other site 269482016388 trimer interface [polypeptide binding]; other site 269482016389 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 269482016390 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 269482016391 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 269482016392 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07008 269482016393 Fatty acyl-CoA synthetases similar to LC-FACS from Thermus thermophiles; Region: ttLC_FACS_AlkK_like; cd12119 269482016394 dimer interface [polypeptide binding]; other site 269482016395 acyl-activating enzyme (AAE) consensus motif; other site 269482016396 putative active site [active] 269482016397 AMP binding site [chemical binding]; other site 269482016398 putative CoA binding site [chemical binding]; other site 269482016399 Uncharacterized conserved protein [Function unknown]; Region: COG0397 269482016400 hypothetical protein; Validated; Region: PRK00029 269482016401 methionine sulfoxide reductase B; Provisional; Region: PRK00222 269482016402 SelR domain; Region: SelR; pfam01641 269482016403 intracellular septation protein A; Reviewed; Region: PRK00259 269482016404 BolA-like protein; Region: BolA; pfam01722 269482016405 SurA N-terminal domain; Region: SurA_N_3; cl07813 269482016406 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 269482016407 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 269482016408 Coenzyme A binding pocket [chemical binding]; other site 269482016409 phosphoribosylformylglycinamidine synthase; Provisional; Region: PRK05297 269482016410 PurL subunit of the formylglycinamide ribonucleotide amidotransferase (FGAR-AT), first repeat. FGAR-AT catalyzes the ATP-dependent conversion of formylglycinamide ribonucleotide (FGAR) and glutamine to formylglycinamidine ribonucleotide (FGAM), ADP; Region: PurL_repeat1; cd02203 269482016411 dimerization interface [polypeptide binding]; other site 269482016412 ATP binding site [chemical binding]; other site 269482016413 PurL subunit of the formylglycinamide ribonucleotide amidotransferase (FGAR-AT), second repeat. FGAR-AT catalyzes the ATP-dependent conversion of formylglycinamide ribonucleotide (FGAR) and glutamine to formylglycinamidine ribonucleotide (FGAM), ADP; Region: PurL_repeat2; cd02204 269482016414 dimerization interface [polypeptide binding]; other site 269482016415 ATP binding site [chemical binding]; other site 269482016416 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 269482016417 putative active site [active] 269482016418 catalytic triad [active] 269482016419 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 269482016420 YjeF-related protein N-terminus; Region: YjeF_N; pfam03853 269482016421 B.subtilis YXKO protein of unknown function and related proteins. Based on the conservation of the ATP binding site, the substrate binding site and the Mg2+binding site and structural homology this group is a member of the ribokinase-like superfamily; Region: YXKO-related; cd01171 269482016422 putative substrate binding site [chemical binding]; other site 269482016423 putative ATP binding site [chemical binding]; other site 269482016424 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 269482016425 Phosphoglucose isomerase (PGI) contains two SIS (Sugar ISomerase) domains. This classification is based on the alignment of the first SIS domain. PGI is a multifunctional enzyme which as an intracellular dimer catalyzes the reversible isomerization of...; Region: SIS_PGI_1; cd05015 269482016426 active site 269482016427 dimer interface [polypeptide binding]; other site 269482016428 Phosphoglucose isomerase (PGI) contains two SIS (Sugar ISomerase) domains. This classification is based on the alignment of the second SIS domain. PGI is a multifunctional enzyme which as an intracellular dimer catalyzes the reversible isomerization of...; Region: SIS_PGI_2; cd05016 269482016429 dimer interface [polypeptide binding]; other site 269482016430 active site 269482016431 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG4181 269482016432 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 269482016433 Walker A/P-loop; other site 269482016434 ATP binding site [chemical binding]; other site 269482016435 Q-loop/lid; other site 269482016436 ABC transporter signature motif; other site 269482016437 Walker B; other site 269482016438 D-loop; other site 269482016439 H-loop/switch region; other site 269482016440 Lysophospholipase L1-like subgroup of SGNH-hydrolases. The best characterized member in this family is TesA, an E. coli periplasmic protein with thioesterase, esterase, arylesterase, protease and lysophospholipase activity; Region: Lysophospholipase_L1_like; cd01822 269482016441 active site 269482016442 catalytic triad [active] 269482016443 oxyanion hole [active] 269482016444 switch loop; other site 269482016445 SurA N-terminal domain; Region: SurA_N_3; cl07813 269482016446 periplasmic folding chaperone; Provisional; Region: PRK10788 269482016447 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 269482016448 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 269482016449 Found in ATP-dependent protease La (LON); Region: LON; smart00464 269482016450 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 269482016451 Walker A motif; other site 269482016452 ATP binding site [chemical binding]; other site 269482016453 Walker B motif; other site 269482016454 arginine finger; other site 269482016455 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 269482016456 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 269482016457 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 269482016458 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 269482016459 Walker A motif; other site 269482016460 ATP binding site [chemical binding]; other site 269482016461 Walker B motif; other site 269482016462 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 269482016463 Clp protease; Region: CLP_protease; pfam00574 269482016464 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 269482016465 oligomer interface [polypeptide binding]; other site 269482016466 active site residues [active] 269482016467 trigger factor; Provisional; Region: tig; PRK01490 269482016468 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 269482016469 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 269482016470 Glycerate kinase [Carbohydrate transport and metabolism]; Region: COG1929 269482016471 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 269482016472 MarR family; Region: MarR_2; pfam12802 269482016473 MarR family; Region: MarR_2; cl17246 269482016474 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 269482016475 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 269482016476 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 269482016477 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 269482016478 active site lid residues [active] 269482016479 substrate binding pocket [chemical binding]; other site 269482016480 catalytic residues [active] 269482016481 substrate-Mg2+ binding site; other site 269482016482 aspartate-rich region 1; other site 269482016483 aspartate-rich region 2; other site 269482016484 Protein of unknown function (DUF1501); Region: DUF1501; pfam07394 269482016485 Protein of unknown function (DUF1800); Region: DUF1800; pfam08811 269482016486 osmolarity response regulator; Provisional; Region: ompR; PRK09468 269482016487 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 269482016488 active site 269482016489 phosphorylation site [posttranslational modification] 269482016490 intermolecular recognition site; other site 269482016491 dimerization interface [polypeptide binding]; other site 269482016492 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 269482016493 DNA binding site [nucleotide binding] 269482016494 osmolarity sensor protein; Provisional; Region: envZ; PRK09467 269482016495 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 269482016496 dimer interface [polypeptide binding]; other site 269482016497 phosphorylation site [posttranslational modification] 269482016498 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 269482016499 ATP binding site [chemical binding]; other site 269482016500 Mg2+ binding site [ion binding]; other site 269482016501 G-X-G motif; other site 269482016502 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 269482016503 Peroxiredoxin (PRX) family, Typical 2-Cys PRX subfamily; PRXs are thiol-specific antioxidant (TSA) proteins, which confer a protective role in cells through its peroxidase activity by reducing hydrogen peroxide, peroxynitrite, and organic hydroperoxides; Region: PRX_Typ2cys; cd03015 269482016504 dimer interface [polypeptide binding]; other site 269482016505 decamer (pentamer of dimers) interface [polypeptide binding]; other site 269482016506 catalytic triad [active] 269482016507 peroxidatic and resolving cysteines [active] 269482016508 alkylhydroperoxidase, AhpD family; Region: ahpD; TIGR00777 269482016509 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 269482016510 MECDP_synthase (2-C-methyl-D-erythritol-2,4-cyclodiphosphate synthase), encoded by the ispF gene, catalyzes the formation of 2-C-methyl-D-erythritol 2,4-cyclodiphosphate (MEC) in the non-mevalonate deoxyxylulose (DOXP) pathway for isoprenoid biosynthesis; Region: MECDP_synthase; cd00554 269482016511 homotrimer interaction site [polypeptide binding]; other site 269482016512 zinc binding site [ion binding]; other site 269482016513 CDP-binding sites; other site 269482016514 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 269482016515 substrate binding site; other site 269482016516 dimer interface; other site 269482016517 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 269482016518 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 269482016519 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 269482016520 ATP binding site [chemical binding]; other site 269482016521 putative Mg++ binding site [ion binding]; other site 269482016522 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 269482016523 nucleotide binding region [chemical binding]; other site 269482016524 ATP-binding site [chemical binding]; other site 269482016525 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 269482016526 acetylornithine deacetylase; Provisional; Region: PRK07522 269482016527 M20 Peptidase acetylornithine deacetylase; Region: M20_ArgE; cd03894 269482016528 metal binding site [ion binding]; metal-binding site 269482016529 putative dimer interface [polypeptide binding]; other site 269482016530 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 269482016531 Threonine dehydratase: The first step in amino acid degradation is the removal of nitrogen. Although the nitrogen atoms of most amino acids are transferred to alpha-ketoglutarate before removal, the alpha-amino group of threonine can be directly...; Region: Thr-dehyd; cd01562 269482016532 tetramer interface [polypeptide binding]; other site 269482016533 pyridoxal 5'-phosphate binding site [chemical binding]; other site 269482016534 catalytic residue [active] 269482016535 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 269482016536 Transglycosylase; Region: Transgly; pfam00912 269482016537 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 269482016538 Phage shock protein A (IM30), suppresses sigma54-dependent transcription [Transcription / Signal transduction mechanisms]; Region: PspA; COG1842 269482016539 Tetratricopeptide repeat; Region: TPR_16; pfam13432 269482016540 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 269482016541 TPR motif; other site 269482016542 large-conductance mechanosensitive channel; Provisional; Region: mscL; PRK13952 269482016543 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 269482016544 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 269482016545 NAD binding domain of 6-phosphogluconate dehydrogenase; Region: NAD_binding_2; pfam03446 269482016546 Dodecin; Region: Dodecin; pfam07311 269482016547 Transcriptional regulator [Transcription]; Region: LysR; COG0583 269482016548 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 269482016549 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator similar to DntR, which is involved in the catabolism of dinitrotoluene; contains the type 2 periplasmic binding fold; Region: PBP2_DntR_like_4; cd08463 269482016550 putative substrate binding pocket [chemical binding]; other site 269482016551 putative dimerization interface [polypeptide binding]; other site 269482016552 hydroxydechloroatrazine ethylaminohydrolase; Reviewed; Region: PRK08203 269482016553 TRZ/ATZ family contains enzymes from the atrazine degradation pathway and related hydrolases. Atrazine, a chlorinated herbizide, can be catabolized by a variety of different bacteria. The first three steps of the atrazine dehalogenation pathway are...; Region: ATZ_TRZ_like; cd01298 269482016554 active site 269482016555 putative substrate binding pocket [chemical binding]; other site 269482016556 HIUase (5-hydroxyisourate hydrolase) catalyzes the second step in a three-step ureide pathway in which 5-hydroxyisourate (HIU), a product of the uricase (urate oxidase) reaction, is hydrolyzed to 2-oxo-4-hydroxy-4-carboxy-5-ureidoimidazoline (OHCU); Region: TLP_HIUase; cd05822 269482016557 active site 269482016558 homotetramer interface [polypeptide binding]; other site 269482016559 Predicted membrane protein [Function unknown]; Region: COG3748 269482016560 Protein of unknown function (DUF989); Region: DUF989; pfam06181 269482016561 Cytochrome c; Region: Cytochrom_C; pfam00034 269482016562 ureidoglycolate hydrolase; Provisional; Region: PRK03606 269482016563 Ureidoglycolate hydrolase [Nucleotide transport and metabolism]; Region: DAL3; COG3194 269482016564 allantoicase; Provisional; Region: PRK13257 269482016565 Allantoicase repeat; Region: Allantoicase; pfam03561 269482016566 Allantoicase repeat; Region: Allantoicase; pfam03561 269482016567 OHCU decarboxylase; Region: UHCUDC; TIGR03164 269482016568 putative urate catabolism protein; Region: uraD_N-term-dom; TIGR03212 269482016569 Catalytic domain of bacterial PuuE allantoinases, Schizosaccharomyces pombe chitin deacetylase 1 (SpCDA1), and similar proteins; Region: CE4_PuuE_SpCDA1; cd10977 269482016570 active site 269482016571 catalytic site [active] 269482016572 tetramer interface [polypeptide binding]; other site 269482016573 Hydantoin racemase [Amino acid transport and metabolism]; Region: COG4126 269482016574 uncharacterized nucleobase-cation-symport-1 (NCS1) transporter subfamily; solute-binding domain; Region: SLC-NCS1sbd_u1; cd11555 269482016575 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 269482016576 Na binding site [ion binding]; other site 269482016577 putative substrate binding site [chemical binding]; other site 269482016578 Transcriptional regulators [Transcription]; Region: GntR; COG1802 269482016579 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 269482016580 DNA-binding site [nucleotide binding]; DNA binding site 269482016581 FCD domain; Region: FCD; pfam07729 269482016582 LD-Carboxypeptidase, a serine protease, includes microcin C7 self immunity protein; Region: Peptidase_S66; cd07025 269482016583 dimer interface [polypeptide binding]; other site 269482016584 catalytic triad [active] 269482016585 Nucleoside deaminases include adenosine, guanine and cytosine deaminases. These enzymes are Zn dependent and catalyze the deamination of nucleosides. The zinc ion in the active site plays a central role in the proposed catalytic mechanism, activating a...; Region: nucleoside_deaminase; cd01285 269482016586 nucleoside/Zn binding site; other site 269482016587 dimer interface [polypeptide binding]; other site 269482016588 catalytic motif [active] 269482016589 Domain of unknown function (DUF1992); Region: DUF1992; cl08096 269482016590 GMP synthase; Reviewed; Region: guaA; PRK00074 269482016591 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 269482016592 AMP/PPi binding site [chemical binding]; other site 269482016593 candidate oxyanion hole; other site 269482016594 catalytic triad [active] 269482016595 potential glutamine specificity residues [chemical binding]; other site 269482016596 The C-terminal domain of GMP synthetase. It contains two subdomains; the ATP pyrophosphatase domain which closes to the N-termial and the dimerization domain at C-terminal end. The ATP-PPase is a twisted, five-stranded parallel beta-sheet sandwiched...; Region: GMP_synthase_C; cd01997 269482016597 ATP Binding subdomain [chemical binding]; other site 269482016598 Ligand Binding sites [chemical binding]; other site 269482016599 Dimerization subdomain; other site 269482016600 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 269482016601 TIM barrel proteins share a structurally conserved phosphate binding motif and in general share an eight beta/alpha closed barrel structure. Specific for this family is the conserved phosphate binding site at the edges of strands 7 and 8. The phosphate...; Region: TIM_phosphate_binding; cl17186 269482016602 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in the inosine 5' monophosphate dehydrogenase (IMPDH) protein. IMPDH is an essential enzyme that catalyzes the first step unique to GTP synthesis, playing a...; Region: CBS_pair_IMPDH; cd04601 269482016603 IMPDH: The catalytic domain of the inosine monophosphate dehydrogenase. IMPDH catalyzes the NAD-dependent oxidation of inosine 5'-monophosphate (IMP) to xanthosine 5' monophosphate (XMP). It is a rate-limiting step in the de novo synthesis of...; Region: IMPDH; cd00381 269482016604 active site 269482016605 Predicted metal-binding integral membrane protein (DUF2182); Region: DUF2182; pfam09948 269482016606 Bacterial protein of unknown function (DUF899); Region: DUF899; pfam05988 269482016607 Glutamine cyclotransferase [Posttranslational modification, protein turnover, chaperones]; Region: COG3823 269482016608 Streptogramin lyase [Defense mechanisms]; Region: Vgb; COG4257 269482016609 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 269482016610 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2914 269482016611 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 269482016612 putative coenzyme Q binding site [chemical binding]; other site 269482016613 Small protein B (SmpB) is a component of the trans-translation system in prokaryotes for releasing stalled ribosome from damaged messenger RNAs; Region: SmpB; cd09294 269482016614 SmpB-tmRNA interface; other site 269482016615 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 269482016616 Band_7_stomatin_like: A subgroup of the band 7 domain of flotillin (reggie) like proteins similar to stomatin and podicin (two lipid raft-associated integral membrane proteins). Individual proteins of this band 7 domain family may cluster to form...; Region: Band_7_stomatin_like; cd03403 269482016617 Membrane protein implicated in regulation of membrane protease activity [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: COG1585 269482016618 phosphoenolpyruvate synthase; Validated; Region: PRK06464 269482016619 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 269482016620 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 269482016621 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 269482016622 PEP synthetase regulatory protein; Provisional; Region: PRK05339 269482016623 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 269482016624 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 269482016625 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 269482016626 RNA/DNA hybrid binding site [nucleotide binding]; other site 269482016627 active site 269482016628 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 269482016629 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 269482016630 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 269482016631 UDP-N-acetylglucosamine O-acyltransferase (UDP-GlcNAc acyltransferase): Proteins in this family catalyze the transfer of (R)-3-hydroxymyristic acid from its acyl carrier protein thioester to UDP-GlcNAc. It is the first enzyme in the lipid A biosynthetic...; Region: LbH_UDP-GlcNAc_AT; cd03351 269482016632 active site 269482016633 FabZ is a 17kD beta-hydroxyacyl-acyl carrier protein (ACP) dehydratase that primarily catalyzes the dehydration of beta-hydroxyacyl-ACP to trans-2-acyl-ACP, the third step in the elongation phase of the bacterial/ plastid, type II, fatty-acid...; Region: FabZ; cd01288 269482016634 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 269482016635 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 269482016636 UDP-3-O-acyl-glucosamine N-acyltransferase (LpxD): The enzyme catalyzes the transfer of 3-hydroxymyristic acid or 3-hydroxy-arachidic acid, depending on the organism, from the acyl carrier protein (ACP) to UDP-3-O-acyl-glucosamine to produce UDP-2; Region: LbH_LpxD; cd03352 269482016637 trimer interface [polypeptide binding]; other site 269482016638 active site 269482016639 UDP-GlcNAc binding site [chemical binding]; other site 269482016640 lipid binding site [chemical binding]; lipid-binding site 269482016641 periplasmic chaperone; Provisional; Region: PRK10780 269482016642 Outer membrane protein (OmpH-like); Region: OmpH; smart00935 269482016643 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 269482016644 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 269482016645 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 269482016646 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 269482016647 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 269482016648 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 269482016649 Surface antigen; Region: Bac_surface_Ag; pfam01103 269482016650 zinc metallopeptidase RseP; Provisional; Region: PRK10779 269482016651 RseP-like Site-2 proteases (S2P), zinc metalloproteases (MEROPS family M50A), cleave transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. In Escherichia coli, the S2P homolog...; Region: S2P-M50_PDZ_RseP-like; cd06163 269482016652 active site 269482016653 PDZ domain of bacterial and plant zinc metalloprotases, presumably membrane-associated or integral membrane proteases, which may be involved in signalling and regulatory mechanisms. May be responsible for substrate recognition and/or binding, as most PDZ...; Region: PDZ_metalloprotease; cd00989 269482016654 protein binding site [polypeptide binding]; other site 269482016655 RseP-like Site-2 proteases (S2P), zinc metalloproteases (MEROPS family M50A), cleave transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. In Escherichia coli, the S2P homolog...; Region: S2P-M50_PDZ_RseP-like; cd06163 269482016656 putative substrate binding region [chemical binding]; other site 269482016657 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 269482016658 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK12464 269482016659 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 269482016660 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 269482016661 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 269482016662 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 269482016663 Cis (Z)-Isoprenyl Diphosphate Synthases (cis-IPPS); homodimers which catalyze the successive 1'-4 condensation of the isopentenyl diphosphate (IPP) molecule to trans,trans-farnesyl diphosphate (FPP) or to cis,trans-FPP to form long-chain polyprenyl...; Region: CIS_IPPS; cl00230 269482016664 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 269482016665 catalytic residue [active] 269482016666 putative FPP diphosphate binding site; other site 269482016667 putative FPP binding hydrophobic cleft; other site 269482016668 dimer interface [polypeptide binding]; other site 269482016669 putative IPP diphosphate binding site; other site 269482016670 ribosome recycling factor; Reviewed; Region: frr; PRK00083 269482016671 Ribosome recycling factor (RRF). Ribosome recycling factor dissociates the posttermination complex, composed of the ribosome, deacylated tRNA, and mRNA, after termination of translation. Thus ribosomes are "recycled" and ready for another...; Region: RRF; cd00520 269482016672 hinge region; other site 269482016673 UMP kinase (UMPK)-Ec, the microbial/chloroplast uridine monophosphate kinase (uridylate kinase) enzyme that catalyzes UMP phosphorylation and plays a key role in pyrimidine nucleotide biosynthesis; regulation of this process is via feed-back control and...; Region: AAK_UMPK-PyrH-Ec; cd04254 269482016674 putative nucleotide binding site [chemical binding]; other site 269482016675 uridine monophosphate binding site [chemical binding]; other site 269482016676 homohexameric interface [polypeptide binding]; other site 269482016677 elongation factor Ts; Provisional; Region: tsf; PRK09377 269482016678 UBA/TS-N domain; Region: UBA; pfam00627 269482016679 Elongation factor TS; Region: EF_TS; pfam00889 269482016680 Elongation factor TS; Region: EF_TS; pfam00889 269482016681 Ribosomal protein S2 (RPS2), involved in formation of the translation initiation complex, where it might contact the messenger RNA and several components of the ribosome. It has been shown that in Escherichia coli RPS2 is essential for the binding of...; Region: RPS2; cd01425 269482016682 rRNA interaction site [nucleotide binding]; other site 269482016683 S8 interaction site; other site 269482016684 putative laminin-1 binding site; other site 269482016685 Methionine Aminopeptidase 1. E.C. 3.4.11.18. Also known as methionyl aminopeptidase and Peptidase M. Catalyzes release of N-terminal amino acids, preferentially methionine, from peptides and arylamides; Region: MetAP1; cd01086 269482016686 active site 269482016687 PII uridylyl-transferase; Provisional; Region: PRK03059 269482016688 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 269482016689 metal binding triad; other site 269482016690 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 269482016691 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 269482016692 Zn2+ binding site [ion binding]; other site 269482016693 Mg2+ binding site [ion binding]; other site 269482016694 ACT domain family, ACT_UUR-like_1, includes the first of two C-terminal ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD and related domains; Region: ACT_UUR-like_1; cd04900 269482016695 C-terminal ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD and related domains; Region: ACT_ACR-UUR-like_2; cd04899 269482016696 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 269482016697 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cd00165 269482016698 RNA binding surface [nucleotide binding]; other site 269482016699 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 269482016700 active site 269482016701 Polypeptide or peptide deformylase; a family of metalloenzymes that catalyzes the removal of the N-terminal formyl group in a growing polypeptide chain following translation initiation during protein synthesis in prokaryotes. These enzymes utilize Fe(II)...; Region: Pep_deformylase; cd00487 269482016702 active site 269482016703 catalytic residues [active] 269482016704 metal binding site [ion binding]; metal-binding site 269482016705 NAD+ dependent DNA ligase adenylation domain. DNA ligases catalyze the crucial step of joining the breaks in duplex DNA during DNA replication, repair and recombination, utilizing either ATP or NAD(+) as a cofactor, but using the same basic reaction...; Region: LIGANc; cd00114 269482016706 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 269482016707 nucleotide binding pocket [chemical binding]; other site 269482016708 K-X-D-G motif; other site 269482016709 catalytic site [active] 269482016710 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 269482016711 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 269482016712 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 269482016713 Breast Cancer Suppressor Protein (BRCA1), carboxy-terminal domain. The BRCT domain is found within many DNA damage repair and cell cycle checkpoint proteins. The unique diversity of this domain superfamily allows BRCT modules to interact forming homo...; Region: BRCT; cd00027 269482016714 Dimer interface [polypeptide binding]; other site 269482016715 BRCT sequence motif; other site 269482016716 ZipA, C-terminal domain (FtsZ-binding); Region: ZipA_C; smart00771 269482016717 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 269482016718 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 269482016719 Walker A/P-loop; other site 269482016720 ATP binding site [chemical binding]; other site 269482016721 Q-loop/lid; other site 269482016722 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; cl05797 269482016723 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 269482016724 Q-loop/lid; other site 269482016725 ABC transporter signature motif; other site 269482016726 Walker B; other site 269482016727 D-loop; other site 269482016728 H-loop/switch region; other site 269482016729 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 269482016730 EamA-like transporter family; Region: EamA; pfam00892 269482016731 succinyldiaminopimelate transaminase; Provisional; Region: PRK09147 269482016732 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 269482016733 pyridoxal 5'-phosphate binding site [chemical binding]; other site 269482016734 homodimer interface [polypeptide binding]; other site 269482016735 catalytic residue [active] 269482016736 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 269482016737 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate (THDP) N-succinyltransferase (also called THP succinyltransferase): THDP N-succinyltransferase catalyzes the conversion of tetrahydrodipicolinate and succinyl-CoA to N-succinyltetrahydrodipicolinate and CoA; Region: LbH_THP_succinylT; cd03350 269482016738 trimer interface [polypeptide binding]; other site 269482016739 active site 269482016740 substrate binding site [chemical binding]; other site 269482016741 CoA binding site [chemical binding]; other site 269482016742 Arsenate Reductase (ArsC) family, Yffb subfamily; Yffb is an uncharacterized bacterial protein encoded by the yffb gene, related to the thioredoxin-fold arsenic reductases, ArsC. The structure of Yffb and the conservation of the catalytic cysteine...; Region: ArsC_Yffb; cd03035 269482016743 ArsC family; Region: ArsC; pfam03960 269482016744 putative catalytic residues [active] 269482016745 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 269482016746 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 269482016747 metal binding site [ion binding]; metal-binding site 269482016748 dimer interface [polypeptide binding]; other site 269482016749 HemK family putative methylases; Region: hemK_fam; TIGR00536 269482016750 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 269482016751 S-adenosylmethionine binding site [chemical binding]; other site 269482016752 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 269482016753 Putative catalytic domain, repeat 1, of Pseudomonas aeruginosa cardiolipin synthase and similar proteins; Region: PLDc_PaCLS_like_1; cd09155 269482016754 putative active site [active] 269482016755 catalytic site [active] 269482016756 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 269482016757 putative active site [active] 269482016758 catalytic site [active] 269482016759 Glutathione (GSH) peroxidase family; tetrameric selenoenzymes that catalyze the reduction of a variety of hydroperoxides including lipid peroxidases, using GSH as a specific electron donor substrate. GSH peroxidase contains one selenocysteine residue per...; Region: GSH_Peroxidase; cd00340 269482016760 catalytic residues [active] 269482016761 dimer interface [polypeptide binding]; other site 269482016762 putative ABC transporter ATP-binding protein; Provisional; Region: PRK10636 269482016763 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 269482016764 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 269482016765 ABC transporter; Region: ABC_tran_2; pfam12848 269482016766 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 269482016767 Protein of unknown function (DUF2866); Region: DUF2866; pfam11065 269482016768 DNA repair protein RadA; Provisional; Region: PRK11823 269482016769 Sms (bacterial radA) DNA repair protein. This protein is not related to archael radA any more than is to other RecA-like NTPases. Sms has a role in recombination and recombinational repair and is responsible for the stabilization or processing of...; Region: Sms; cd01121 269482016770 Walker A motif/ATP binding site; other site 269482016771 ATP binding site [chemical binding]; other site 269482016772 Walker B motif; other site 269482016773 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 269482016774 alanine racemase; Reviewed; Region: dadX; PRK03646 269482016775 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 269482016776 active site 269482016777 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 269482016778 substrate binding site [chemical binding]; other site 269482016779 catalytic residues [active] 269482016780 dimer interface [polypeptide binding]; other site 269482016781 lysophospholipid transporter LplT; Provisional; Region: PRK11195 269482016782 4-amino-5-hydroxymethyl-2-methyl-pyrimidine phosphate kinase (HMPP-kinase) catalyzes two consecutive phosphorylation steps in the thiamine phosphate biosynthesis pathway, leading to the synthesis of vitamin B1. The first step is the phosphorylation of...; Region: HMPP_kinase; cd01169 269482016783 dimer interface [polypeptide binding]; other site 269482016784 substrate binding site [chemical binding]; other site 269482016785 ATP binding site [chemical binding]; other site 269482016786 Domain of unknown function (DUF1853); Region: DUF1853; pfam08907 269482016787 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 269482016788 Fe-S cluster binding site [ion binding]; other site 269482016789 active site 269482016790 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 269482016791 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 269482016792 Coenzyme A binding pocket [chemical binding]; other site 269482016793 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 269482016794 Glycoprotease family; Region: Peptidase_M22; pfam00814 269482016795 Acyl CoA binding protein (ACBP) binds thiol esters of long fatty acids and coenzyme A in a one-to-one binding mode with high specificity and affinity. Acyl-CoAs are important intermediates in fatty lipid synthesis and fatty acid degradation and play a...; Region: ACBP; cl00221 269482016796 acyl-CoA binding pocket [chemical binding]; other site 269482016797 CoA binding site [chemical binding]; other site 269482016798 DEAD-box helicases. A diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif; Region: DEADc; cd00268 269482016799 DEAD-like helicases superfamily; Region: DEXDc; smart00487 269482016800 ATP binding site [chemical binding]; other site 269482016801 Mg++ binding site [ion binding]; other site 269482016802 motif III; other site 269482016803 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 269482016804 nucleotide binding region [chemical binding]; other site 269482016805 ATP-binding site [chemical binding]; other site 269482016806 isocitrate lyase; Provisional; Region: PRK15063 269482016807 Members of the ICL/PEPM enzyme family catalyze either P-C or C-C bond formation/cleavage. Known members are phosphoenolpyruvate mutase (PEPM), phosphonopyruvate hydrolase (PPH), carboxyPEP mutase (CPEP mutase), oxaloacetate hydrolase (OAH), isocitrate...; Region: ICL_PEPM; cd00377 269482016808 tetramer interface [polypeptide binding]; other site 269482016809 active site 269482016810 Mg2+/Mn2+ binding site [ion binding]; other site 269482016811 Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to...; Region: USP_Like; cd00293 269482016812 Ligand Binding Site [chemical binding]; other site 269482016813 Transcriptional regulator [Transcription]; Region: LysR; COG0583 269482016814 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 269482016815 putative effector binding pocket; other site 269482016816 dimerization interface [polypeptide binding]; other site 269482016817 2-haloalkanoic acid dehalogenase, type II; Region: HAD_type_II; TIGR01428 269482016818 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 269482016819 motif II; other site 269482016820 malate synthase A; Region: malate_syn_A; TIGR01344 269482016821 Malate synthase A (MSA), present in some bacteria, plants and fungi. Prokaryotic MSAs tend to be monomeric, whereas eukaryotic enzymes are homomultimers. In general, malate synthase catalyzes the Claisen condensation of glyoxylate and acetyl-CoA to...; Region: malate_synt_A; cd00727 269482016822 active site 269482016823 GGCT-like domains, also called AIG2-like family. Gamma-glutamyl cyclotransferase (GGCT) catalyzes the formation of pyroglutamic acid (5-oxoproline) from dipeptides containing gamma-glutamyl, and is a dimeric protein. In Homo sapiens, the protein is...; Region: GGCT_like; cd06661 269482016824 putative active site pocket [active] 269482016825 dimerization interface [polypeptide binding]; other site 269482016826 putative catalytic residue [active] 269482016827 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 269482016828 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 269482016829 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 269482016830 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 269482016831 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 269482016832 Coenzyme A binding pocket [chemical binding]; other site 269482016833 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 269482016834 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 269482016835 active site 269482016836 HIGH motif; other site 269482016837 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 269482016838 active site 269482016839 KMSKS motif; other site 269482016840 hypothetical protein; Provisional; Region: PRK10279 269482016841 Patatin-like phospholipase domain containing protein 6, protein 7, and fungal NTE1; Region: Pat_PNPLA6_PNPLA7_NTE1_like; cd07205 269482016842 nucleophile elbow; other site 269482016843 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 269482016844 NlpC/P60 family; Region: NLPC_P60; pfam00877 269482016845 ABC-type uncharacterized transport system, duplicated ATPase component [General function prediction only]; Region: COG4172 269482016846 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 269482016847 Walker A/P-loop; other site 269482016848 ATP binding site [chemical binding]; other site 269482016849 Q-loop/lid; other site 269482016850 ABC transporter signature motif; other site 269482016851 Walker B; other site 269482016852 D-loop; other site 269482016853 H-loop/switch region; other site 269482016854 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 269482016855 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 269482016856 Walker A/P-loop; other site 269482016857 ATP binding site [chemical binding]; other site 269482016858 Q-loop/lid; other site 269482016859 ABC transporter signature motif; other site 269482016860 Walker B; other site 269482016861 D-loop; other site 269482016862 H-loop/switch region; other site 269482016863 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 269482016864 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4239 269482016865 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 269482016866 dimer interface [polypeptide binding]; other site 269482016867 conserved gate region; other site 269482016868 putative PBP binding loops; other site 269482016869 ABC-ATPase subunit interface; other site 269482016870 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4174 269482016871 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 269482016872 dimer interface [polypeptide binding]; other site 269482016873 conserved gate region; other site 269482016874 putative PBP binding loops; other site 269482016875 ABC-ATPase subunit interface; other site 269482016876 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 269482016877 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_14; cd08497 269482016878 cytochrome o ubiquinol oxidase subunit IV; Region: CyoD; TIGR02847 269482016879 Ubiquinol oxidase subunit III subfamily. Ubiquinol oxidase, the terminal oxidase in the respiratory chains of aerobic bacteria, is a multi-chain transmembrane protein located in the cell membrane. It catalyzes the reduction of O2 and simultaneously...; Region: Ubiquinol_oxidase_III; cd02863 269482016880 Subunit I/III interface [polypeptide binding]; other site 269482016881 Subunit III/IV interface [polypeptide binding]; other site 269482016882 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 269482016883 Ubiquinol oxidase subunit I. Ubiquinol oxidase, the terminal oxidase in the respiratory chains of aerobic bacteria, is a multi-chain transmembrane protein located in the cell membrane. It catalyzes the reduction of O2 and simultaneously pumps protons...; Region: Ubiquinol_Oxidase_I; cd01662 269482016884 D-pathway; other site 269482016885 Putative ubiquinol binding site [chemical binding]; other site 269482016886 Low-spin heme (heme b) binding site [chemical binding]; other site 269482016887 Putative water exit pathway; other site 269482016888 Binuclear center (heme o3/CuB) [ion binding]; other site 269482016889 K-pathway; other site 269482016890 Putative proton exit pathway; other site 269482016891 cytochrome o ubiquinol oxidase subunit II; Region: CyoA; TIGR01433 269482016892 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 269482016893 COX Aromatic Rich Motif; Region: COX_ARM; pfam06481 269482016894 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 269482016895 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 269482016896 galactosyl transferase GMA12/MNN10 family; Region: Glyco_transf_34; cl05288 269482016897 aspartate kinase; Reviewed; Region: PRK06635 269482016898 AAK_AKii-LysC-BS: Amino Acid Kinase Superfamily (AAK), AKii; this CD includes the N-terminal catalytic aspartokinase (AK) domain of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis 168, and the lysine plus threonine-sensitive...; Region: AAK_AKii-LysC-BS; cd04261 269482016899 putative nucleotide binding site [chemical binding]; other site 269482016900 putative catalytic residues [active] 269482016901 putative Mg ion binding site [ion binding]; other site 269482016902 putative aspartate binding site [chemical binding]; other site 269482016903 ACT domains of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related proteins; Region: ACT_AKii-LysC-BS-like_1; cd04913 269482016904 putative allosteric regulatory site; other site 269482016905 ACT domains of the lysine-sensitive, aspartokinase (AK) isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related domains; Region: ACT_AKii-LysC-BS-like_2; cd04936 269482016906 N-terminal domain of predicted ATPase of the PP-loop faimly implicated in cell cycle control [Cell division and chromosome partitioning]. This is a subfamily of Adenine nucleotide alpha hydrolases superfamily.Adeninosine nucleotide alpha hydrolases...; Region: PP-ATPase; cd01992 269482016907 Ligand Binding Site [chemical binding]; other site 269482016908 TilS substrate binding domain; Region: TilS; pfam09179 269482016909 TilS substrate C-terminal domain; Region: TilS_C; pfam11734 269482016910 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 269482016911 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 269482016912 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 269482016913 endonuclease III; Region: ENDO3c; smart00478 269482016914 minor groove reading motif; other site 269482016915 helix-hairpin-helix signature motif; other site 269482016916 substrate binding pocket [chemical binding]; other site 269482016917 active site 269482016918 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 269482016919 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 269482016920 active site 269482016921 HIGH motif; other site 269482016922 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 269482016923 KMSKS motif; other site 269482016924 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 269482016925 tRNA binding surface [nucleotide binding]; other site 269482016926 anticodon binding site; other site 269482016927 TPR repeat; Region: TPR_11; pfam13414 269482016928 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 269482016929 binding surface 269482016930 TPR motif; other site 269482016931 cyclophilin_EcCYP_like: cyclophilin-type A-like peptidylprolyl cis- trans isomerase (PPIase) domain similar to the cytosolic E. coli cyclophilin A and Streptomyces antibioticus SanCyp18. Compared to the archetypal cyclophilin Human cyclophilin A, these...; Region: cyclophilin_EcCYP_like; cd01920 269482016932 substrate binding site [chemical binding]; other site 269482016933 cyclophilin_EcCYP_like: cyclophilin-type A-like peptidylprolyl cis- trans isomerase (PPIase) domain similar to the cytosolic E. coli cyclophilin A and Streptomyces antibioticus SanCyp18. Compared to the archetypal cyclophilin Human cyclophilin A, these...; Region: cyclophilin_EcCYP_like; cd01920 269482016934 substrate binding site [chemical binding]; other site 269482016935 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 269482016936 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 269482016937 putative active site [active] 269482016938 putative metal binding site [ion binding]; other site 269482016939 serine O-acetyltransferase; Region: cysE; TIGR01172 269482016940 Serine acetyltransferase (SAT): SAT catalyzes the CoA-dependent acetylation of the side chain hydroxyl group of L-serine to form O-acetylserine, as the first step of a two-step biosynthetic pathway in bacteria and plants leading to the formation of...; Region: LbH_SAT; cd03354 269482016941 trimer interface [polypeptide binding]; other site 269482016942 active site 269482016943 substrate binding site [chemical binding]; other site 269482016944 CoA binding site [chemical binding]; other site 269482016945 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 269482016946 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 269482016947 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 269482016948 IMPase, inositol monophosphatase and related domains. A family of Mg++ dependent phosphatases, inhibited by lithium, many of which may act on inositol monophosphate substrate. They dephosphorylate inositol phosphate to generate inositol, which may be...; Region: IMPase; cd01639 269482016949 active site 269482016950 dimerization interface [polypeptide binding]; other site 269482016951 Uncharacterized FAD-dependent dehydrogenases [General function prediction only]; Region: COG2509 269482016952 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 269482016953 Domain of unknown function (DUF4365); Region: DUF4365; pfam14280 269482016954 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 269482016955 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 269482016956 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 269482016957 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 269482016958 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 269482016959 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 269482016960 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 269482016961 Transposase; Region: DEDD_Tnp_IS110; pfam01548 269482016962 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 269482016963 Protein of unknown function DUF91; Region: DUF91; cl00709 269482016964 PAAR motif; Region: PAAR_motif; pfam05488 269482016965 This model contains proteins with the VRR-NUC domain; Region: VRR_NUC; smart00990 269482016966 Protein of unknown function (DUF3396); Region: DUF3396; pfam11876 269482016967 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 269482016968 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 269482016969 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 269482016970 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 269482016971 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 269482016972 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 269482016973 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 269482016974 error-prone DNA polymerase; Validated; Region: dnaE2; PRK05672 269482016975 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III at DnaE2 gene; Region: PHP_PolIIIA_DnaE2; cd07434 269482016976 putative active site [active] 269482016977 putative PHP Thumb interface [polypeptide binding]; other site 269482016978 DnaE_OBF: A subfamily of OB folds corresponding to the C-terminal OB-fold nucleic acid binding domain of Thermus aquaticus and Escherichia coli type C replicative DNA polymerase III alpha subunit (DnaE). The DNA polymerase holoenzyme of E. coli contains...; Region: DnaE_OBF; cd04485 269482016979 generic binding surface II; other site 269482016980 generic binding surface I; other site 269482016981 DNA Polymerase Y-family; Region: PolY_like; cd03468 269482016982 active site 269482016983 DNA binding site [nucleotide binding] 269482016984 Uncharacterized conserved protein [Function unknown]; Region: COG4544 269482016985 conserved hypothetical protein; Region: Lon_rel_chp; TIGR02653 269482016986 Putative ATP-dependent Lon protease; Region: Lon_2; pfam13337 269482016987 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 269482016988 TIGR02687 family protein; Region: TIGR02687 269482016989 PglZ domain; Region: PglZ; pfam08665 269482016990 Winged helix-turn helix; Region: HTH_29; pfam13551 269482016991 Homeodomain-like domain; Region: HTH_32; pfam13565 269482016992 Winged helix-turn helix; Region: HTH_33; pfam13592 269482016993 DDE superfamily endonuclease; Region: DDE_3; pfam13358 269482016994 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 269482016995 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 269482016996 Helix-turn-helix domain; Region: HTH_38; pfam13936 269482016997 Integrase core domain; Region: rve; pfam00665 269482016998 Domain of unknown function (DUF1788); Region: DUF1788; pfam08747 269482016999 Putative inner membrane protein (DUF1819); Region: DUF1819; pfam08849 269482017000 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 269482017001 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 269482017002 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 269482017003 Domain of unknown function (DUF927); Region: DUF927; pfam06048 269482017004 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 269482017005 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 269482017006 YabG peptidase U57; Region: Peptidase_U57; cl05250 269482017007 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 269482017008 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 269482017009 Caspase domain; Region: Peptidase_C14; pfam00656 269482017010 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 269482017011 SCP_bacterial: SCP-like extracellular protein domain, as found in bacteria and archaea. The wider family of SCP containing proteins includes plant pathogenesis-related protein 1 (PR-1), CRISPs, mammalian cysteine-rich secretory proteins, and allergen 5...; Region: SCP_bacterial; cd05379 269482017012 SCP_bacterial: SCP-like extracellular protein domain, as found in bacteria and archaea. The wider family of SCP containing proteins includes plant pathogenesis-related protein 1 (PR-1), CRISPs, mammalian cysteine-rich secretory proteins, and allergen 5...; Region: SCP_bacterial; cd05379 269482017013 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 269482017014 Domain of unknown function (DUF1738); Region: DUF1738; pfam08401 269482017015 Antirestriction protein [DNA replication, recombination, and repair]; Region: COG4227 269482017016 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 269482017017 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 269482017018 TraM recognition site of TraD and TraG; Region: TraG-D_C; cl17375 269482017019 Transposase domain (DUF772); Region: DUF772; pfam05598 269482017020 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 269482017021 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 269482017022 RNA recognition motif (RRM) superfamily; Region: RRM_SF; cl17169 269482017023 Protein of unknown function (DUF3584); Region: DUF3584; pfam12128 269482017024 TrwC relaxase; Region: TrwC; pfam08751 269482017025 conjugative relaxase domain, TrwC/TraI family; Region: relax_trwC; TIGR02686 269482017026 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 269482017027 Walker A motif; other site 269482017028 ATP binding site [chemical binding]; other site 269482017029 Walker B motif; other site 269482017030 Family description; Region: UvrD_C_2; pfam13538 269482017031 AAA-like domain; Region: AAA_10; pfam12846 269482017032 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 269482017033 Walker A motif; other site 269482017034 ATP binding site [chemical binding]; other site 269482017035 Walker B motif; other site 269482017036 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 269482017037 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 269482017038 Walker A motif; other site 269482017039 ATP binding site [chemical binding]; other site 269482017040 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 269482017041 Integrase core domain; Region: rve; pfam00665 269482017042 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 269482017043 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 269482017044 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 269482017045 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 269482017046 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 269482017047 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 269482017048 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 269482017049 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 269482017050 Homeodomain-like domain; Region: HTH_23; pfam13384 269482017051 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 269482017052 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 269482017053 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 269482017054 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 269482017055 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 269482017056 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 269482017057 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 269482017058 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 269482017059 Homeodomain-like domain; Region: HTH_23; cl17451 269482017060 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 269482017061 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 269482017062 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 269482017063 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 269482017064 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 269482017065 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 269482017066 FOG: Ankyrin repeat [General function prediction only]; Region: Arp; COG0666 269482017067 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 269482017068 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 269482017069 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 269482017070 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 269482017071 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 269482017072 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 269482017073 AAA domain; Region: AAA_30; pfam13604 269482017074 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 269482017075 Family description; Region: UvrD_C_2; pfam13538 269482017076 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 269482017077 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cl02529 269482017078 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 269482017079 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 269482017080 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 269482017081 FOG: Ankyrin repeat [General function prediction only]; Region: Arp; COG0666 269482017082 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 269482017083 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 269482017084 RNA/DNA hybrid binding site [nucleotide binding]; other site 269482017085 active site 269482017086 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 269482017087 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 269482017088 Abortive infection C-terminus; Region: Abi_C; pfam14355 269482017089 Uncharacterized subfamily of Uracil-DNA glycosylases; Region: UDG_like_3; cd10035 269482017090 putative uracil binding site [chemical binding]; other site 269482017091 putative active site [active] 269482017092 Uncharacterized ACR, COG2135; Region: DUF159; pfam02586 269482017093 Uncharacterized ACR, COG2135; Region: DUF159; cl03646 269482017094 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 269482017095 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 269482017096 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 269482017097 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 269482017098 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 269482017099 Methyltransferase domain; Region: Methyltransf_27; pfam13708 269482017100 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cl17257 269482017101 Eco57I restriction-modification methylase; Region: Eco57I; pfam07669 269482017102 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 269482017103 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 269482017104 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 269482017105 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 269482017106 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 269482017107 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 269482017108 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 269482017109 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 269482017110 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 269482017111 DNA topoisomerase III; Provisional; Region: PRK07726 269482017112 TOPRIM_TopoIA_TopoIII: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to topoisomerase III. Type IA DNA topoisomerases remove (relax) negative supercoils in the DNA by: cleaving...; Region: TOPRIM_TopoIA_TopoIII; cd03362 269482017113 active site 269482017114 putative interdomain interaction site [polypeptide binding]; other site 269482017115 putative metal-binding site [ion binding]; other site 269482017116 putative nucleotide binding site [chemical binding]; other site 269482017117 DNA Topoisomerase, subtype IA; DNA-binding, ATP-binding and catalytic domain of bacterial DNA topoisomerases I and III, and eukaryotic DNA topoisomerase III and eubacterial and archael reverse gyrases. Topoisomerases clevage single or double stranded DNA...; Region: TOP1Ac; cd00186 269482017118 domain I; other site 269482017119 DNA binding groove [nucleotide binding] 269482017120 phosphate binding site [ion binding]; other site 269482017121 domain II; other site 269482017122 domain III; other site 269482017123 nucleotide binding site [chemical binding]; other site 269482017124 catalytic site [active] 269482017125 domain IV; other site 269482017126 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 269482017127 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 269482017128 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 269482017129 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 269482017130 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 269482017131 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 269482017132 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 269482017133 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 269482017134 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 269482017135 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 269482017136 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 269482017137 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 269482017138 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 269482017139 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 269482017140 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 269482017141 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 269482017142 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 269482017143 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 269482017144 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 269482017145 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 269482017146 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 269482017147 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 269482017148 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 269482017149 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 269482017150 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 269482017151 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 269482017152 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 269482017153 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 269482017154 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 269482017155 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 269482017156 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 269482017157 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 269482017158 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 269482017159 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 269482017160 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 269482017161 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 269482017162 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 269482017163 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 269482017164 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 269482017165 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 269482017166 cofactor binding site; other site 269482017167 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 269482017168 DNA binding site [nucleotide binding] 269482017169 substrate interaction site [chemical binding]; other site 269482017170 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 269482017171 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 269482017172 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 269482017173 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 269482017174 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 269482017175 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 269482017176 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 269482017177 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 269482017178 Transposase domain (DUF772); Region: DUF772; pfam05598 269482017179 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 269482017180 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 269482017181 virion protein; Provisional; Region: V; PHA02564 269482017182 DNA N-6-adenine-methyltransferase (Dam); Region: Dam; cl05442 269482017183 Topoisomerase-primase domain. This is a nucleotidyl transferase/hydrolase domain found in type IA, type IIA and type IIB topoisomerases, bacterial DnaG-type primases, small primase-like proteins from bacteria and archaea, OLD family nucleases from...; Region: TOPRIM; cl00718 269482017184 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 269482017185 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 269482017186 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 269482017187 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 269482017188 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 269482017189 Pilin (bacterial filament); Region: Pilin; pfam00114 269482017190 putative major pilin subunit; Provisional; Region: PRK10574 269482017191 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; pfam08843 269482017192 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 269482017193 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 269482017194 cofactor binding site; other site 269482017195 DNA binding site [nucleotide binding] 269482017196 substrate interaction site [chemical binding]; other site 269482017197 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 269482017198 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 269482017199 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 269482017200 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 269482017201 Helix-turn-helix domain; Region: HTH_17; cl17695 269482017202 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 269482017203 active site 269482017204 catalytic residues [active] 269482017205 DNA binding site [nucleotide binding] 269482017206 Int/Topo IB signature motif; other site 269482017207 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 269482017208 MutS domain I; Region: MutS_I; pfam01624 269482017209 MutS domain II; Region: MutS_II; pfam05188 269482017210 MutS domain III; Region: MutS_III; pfam05192 269482017211 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 269482017212 Walker A/P-loop; other site 269482017213 ATP binding site [chemical binding]; other site 269482017214 Q-loop/lid; other site 269482017215 ABC transporter signature motif; other site 269482017216 Walker B; other site 269482017217 D-loop; other site 269482017218 H-loop/switch region; other site 269482017219 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cd00838 269482017220 active site 269482017221 metal binding site [ion binding]; metal-binding site 269482017222 FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]; Region: SlpA; COG1047 269482017223 Uncharacterized conserved protein [Function unknown]; Region: COG2850 269482017224 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 269482017225 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 269482017226 Uncharacterized lipoprotein [Cell envelope biogenesis, outer membrane]; Region: NlpB; COG3317 269482017227 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 269482017228 dihydrodipicolinate synthase; Region: dapA; TIGR00674 269482017229 dimer interface [polypeptide binding]; other site 269482017230 active site 269482017231 catalytic residue [active] 269482017232 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 269482017233 active site 269482017234 HIGH motif; other site 269482017235 dimer interface [polypeptide binding]; other site 269482017236 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 269482017237 active site 269482017238 KMSKS motif; other site 269482017239 Uncharacterized homologs of Site-2 protease (S2P), zinc metalloproteases (MEROPS family M50) which cleave transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of the...; Region: S2P-M50_like_1; cd06158 269482017240 Peptidase family M50; Region: Peptidase_M50; pfam02163 269482017241 active site 269482017242 putative substrate binding region [chemical binding]; other site 269482017243 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 269482017244 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 269482017245 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 269482017246 active site 269482017247 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 269482017248 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 269482017249 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 269482017250 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 269482017251 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 269482017252 dinuclear metal binding motif [ion binding]; other site 269482017253 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 269482017254 Gamma carbonic anhydrase-like: This family is composed of gamma carbonic anhydrase (CA), Ferripyochelin Binding Protein (FBP), E. coli paaY protein, and similar proteins. CAs are zinc-containing enzymes that catalyze the reversible hydration of carbon...; Region: LbH_gamma_CA_like; cd04645 269482017255 trimer interface [polypeptide binding]; other site 269482017256 putative metal binding site [ion binding]; other site 269482017257 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 269482017258 Heat shock protein 33 (Hsp33): Cytosolic protein that acts as a molecular chaperone under oxidative conditions. In normal (reducing) cytosolic conditions, four conserved Cys residues are coordinated by a Zn ion. Under oxidative stress (such as heat...; Region: Hsp33; cd00498 269482017259 dimerization interface [polypeptide binding]; other site 269482017260 domain crossover interface; other site 269482017261 redox-dependent activation switch; other site 269482017262 cell division protein FtsB; Reviewed; Region: ftsB; PRK00888 269482017263 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 269482017264 enolase; Provisional; Region: eno; PRK00077 269482017265 Enolase: Enolases are homodimeric enzymes that catalyse the reversible dehydration of 2-phospho-D-glycerate to phosphoenolpyruvate as part of the glycolytic and gluconeogenesis pathways. The reaction is facilitated by the presence of metal ions; Region: enolase; cd03313 269482017266 dimer interface [polypeptide binding]; other site 269482017267 metal binding site [ion binding]; metal-binding site 269482017268 substrate binding pocket [chemical binding]; other site 269482017269 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 269482017270 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 269482017271 CTP synthetase; Validated; Region: pyrG; PRK05380 269482017272 CTP synthetase (CTPs) is a two-domain protein, which consists of an N-terminal synthetase domain and C-terminal glutaminase domain. The enzymes hydrolyze the amide bond of glutamine to ammonia and glutamate at the glutaminase domains and transfer nascent...; Region: CTGs; cd03113 269482017273 Catalytic site [active] 269482017274 active site 269482017275 UTP binding site [chemical binding]; other site 269482017276 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 269482017277 active site 269482017278 putative oxyanion hole; other site 269482017279 catalytic triad [active] 269482017280 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 269482017281 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 269482017282 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 269482017283 DNA internalization-related competence protein ComEC/Rec2; Region: ComEC_Rec2; TIGR00361 269482017284 Competence protein; Region: Competence; pfam03772 269482017285 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 269482017286 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 269482017287 active site 269482017288 lipoprotein releasing system, ATP-binding protein; Region: LolD_lipo_ex; TIGR02211 269482017289 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 269482017290 Walker A/P-loop; other site 269482017291 ATP binding site [chemical binding]; other site 269482017292 Q-loop/lid; other site 269482017293 ABC transporter signature motif; other site 269482017294 Walker B; other site 269482017295 D-loop; other site 269482017296 H-loop/switch region; other site 269482017297 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 269482017298 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 269482017299 FtsX-like permease family; Region: FtsX; pfam02687 269482017300 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4255 269482017301 ssDNA exonuclease RecJ; Provisional; Region: PRK11070 269482017302 DHH family; Region: DHH; pfam01368 269482017303 DHHA1 domain; Region: DHHA1; pfam02272 269482017304 This domain is found in peptide chain release factors; Region: PCRF; smart00937 269482017305 Protein chain release factor B [Translation, ribosomal structure and biogenesis]; Region: PrfB; COG1186 269482017306 RF-1 domain; Region: RF-1; pfam00472 269482017307 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 269482017308 LysRS_N: N-terminal, anticodon recognition domain of lysyl-tRNA synthetases (LysRS). These enzymes are homodimeric class 2b aminoacyl-tRNA synthetases (aaRSs). This domain is a beta-barrel domain (OB fold) involved in binding the tRNA anticodon stem-loop; Region: LysRS_N; cd04322 269482017309 dimer interface [polypeptide binding]; other site 269482017310 putative anticodon binding site; other site 269482017311 Lys_tRNA synthetase (LysRS) class II core domain. Class II LysRS is a dimer which attaches a lysine to the 3' OH group of ribose of the appropriate tRNA. Its assignment to class II aaRS is based upon its structure and the presence of three...; Region: LysRS_core; cd00775 269482017312 motif 1; other site 269482017313 active site 269482017314 motif 2; other site 269482017315 motif 3; other site 269482017316 Iron-sulphur cluster assembly; Region: Fe-S_assembly; pfam04384 269482017317 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 269482017318 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 269482017319 catalytic loop [active] 269482017320 iron binding site [ion binding]; other site 269482017321 chaperone protein HscA; Provisional; Region: hscA; PRK05183 269482017322 Nucleotide-binding domain of HscA and similar proteins; Region: HscA_like_NBD; cd10236 269482017323 nucleotide binding site [chemical binding]; other site 269482017324 putative NEF/HSP70 interaction site [polypeptide binding]; other site 269482017325 SBD interface [polypeptide binding]; other site 269482017326 co-chaperone HscB; Provisional; Region: hscB; PRK03578 269482017327 DnaJ domain; Region: DnaJ; pfam00226 269482017328 HSP70 interaction site [polypeptide binding]; other site 269482017329 HSCB C-terminal oligomerisation domain; Region: HSCB_C; pfam07743 269482017330 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 269482017331 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 269482017332 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 269482017333 trimerization site [polypeptide binding]; other site 269482017334 active site 269482017335 cysteine desulfurase; Provisional; Region: PRK14012 269482017336 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 269482017337 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 269482017338 catalytic residue [active] 269482017339 Predicted transcriptional regulator [Transcription]; Region: COG1959 269482017340 iron-sulfur cluster assembly transcription factor IscR; Region: IscR; TIGR02010 269482017341 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 269482017342 Low molecular weight phosphatase family; Region: LMWPc; cd00115 269482017343 active site 269482017344 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]; Region: COG1139 269482017345 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 269482017346 4Fe-4S binding domain; Region: Fer4; pfam00037 269482017347 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 269482017348 Cysteine-rich domain; Region: CCG; pfam02754 269482017349 Cysteine-rich domain; Region: CCG; pfam02754 269482017350 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 269482017351 Transcriptional regulator [Transcription]; Region: IclR; COG1414 269482017352 Bacterial transcriptional regulator; Region: IclR; pfam01614 269482017353 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 269482017354 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 269482017355 Phasin protein; Region: Phasin_2; pfam09361 269482017356 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 269482017357 E3 interaction surface; other site 269482017358 lipoyl attachment site [posttranslational modification]; other site 269482017359 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06467 269482017360 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 269482017361 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 269482017362 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 269482017363 dihydrolipoamide acetyltransferase; Reviewed; Region: PRK11855 269482017364 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 269482017365 E3 interaction surface; other site 269482017366 lipoyl attachment site [posttranslational modification]; other site 269482017367 Lipoyl domain of the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases. 2-oxo acid dehydrogenase multienzyme complexes, like pyruvate dehydrogenase (PDH), 2-oxoglutarate dehydrogenase (OGDH) and branched-chain 2-oxo acid...; Region: lipoyl_domain; cd06849 269482017368 E3 interaction surface; other site 269482017369 lipoyl attachment site [posttranslational modification]; other site 269482017370 e3 binding domain; Region: E3_binding; pfam02817 269482017371 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 269482017372 pyruvate dehydrogenase subunit E1; Reviewed; Region: aceE; PRK09405 269482017373 Thiamine pyrophosphate (TPP) family, E1 of E. coli PDC-like subfamily, TPP-binding module; composed of proteins similar to the E1 component of the Escherichia coli pyruvate dehydrogenase multienzyme complex (PDC). PDC catalyzes the oxidative...; Region: TPP_E1_EcPDC_like; cd02017 269482017374 dimer interface [polypeptide binding]; other site 269482017375 TPP-binding site [chemical binding]; other site 269482017376 PAS domain S-box; Region: sensory_box; TIGR00229 269482017377 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 269482017378 putative active site [active] 269482017379 heme pocket [chemical binding]; other site 269482017380 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 269482017381 dimer interface [polypeptide binding]; other site 269482017382 phosphorylation site [posttranslational modification] 269482017383 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 269482017384 ATP binding site [chemical binding]; other site 269482017385 Mg2+ binding site [ion binding]; other site 269482017386 G-X-G motif; other site 269482017387 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 269482017388 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 269482017389 active site 269482017390 phosphorylation site [posttranslational modification] 269482017391 intermolecular recognition site; other site 269482017392 dimerization interface [polypeptide binding]; other site 269482017393 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 269482017394 DNA binding residues [nucleotide binding] 269482017395 dimerization interface [polypeptide binding]; other site 269482017396 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14189 269482017397 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 269482017398 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 269482017399 homodimer interface [polypeptide binding]; other site 269482017400 NADP binding site [chemical binding]; other site 269482017401 substrate binding site [chemical binding]; other site 269482017402 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 269482017403 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 269482017404 active site 269482017405 Zn binding site [ion binding]; other site 269482017406 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 269482017407 active site 269482017408 DNA polymerase IV; Validated; Region: PRK02406 269482017409 DNA binding site [nucleotide binding] 269482017410 aspartate racemase; Region: asp_race; TIGR00035 269482017411 Aspartate racemase [Cell envelope biogenesis, outer membrane]; Region: RacX; COG1794 269482017412 Escherichia coli exonuclease III (ExoIII) and Neisseria meningitides NExo-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: ExoIII-like_AP-endo; cd09086 269482017413 putative catalytic site [active] 269482017414 putative phosphate binding site [ion binding]; other site 269482017415 active site 269482017416 metal binding site A [ion binding]; metal-binding site 269482017417 DNA binding site [nucleotide binding] 269482017418 putative AP binding site [nucleotide binding]; other site 269482017419 putative metal binding site B [ion binding]; other site 269482017420 Serine proteases of the peptidase family S9A [Amino acid transport and metabolism]; Region: COG1505 269482017421 Serine proteases of the peptidase family S9A [Amino acid transport and metabolism]; Region: COG1505 269482017422 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 269482017423 nitrogen regulation protein NR(I); Region: ntrC; TIGR01818 269482017424 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 269482017425 active site 269482017426 phosphorylation site [posttranslational modification] 269482017427 intermolecular recognition site; other site 269482017428 dimerization interface [polypeptide binding]; other site 269482017429 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 269482017430 Walker A motif; other site 269482017431 ATP binding site [chemical binding]; other site 269482017432 Walker B motif; other site 269482017433 arginine finger; other site 269482017434 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 269482017435 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 269482017436 PAS domain; Region: PAS; smart00091 269482017437 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 269482017438 dimer interface [polypeptide binding]; other site 269482017439 phosphorylation site [posttranslational modification] 269482017440 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 269482017441 ATP binding site [chemical binding]; other site 269482017442 Mg2+ binding site [ion binding]; other site 269482017443 G-X-G motif; other site 269482017444 glutamine synthetase; Provisional; Region: glnA; PRK09469 269482017445 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 269482017446 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 269482017447 Member of the Rhodanese Homology Domain superfamily, subgroup 1. This CD includes the putative rhodanese-related sulfurtransferases of several uncharacterized proteins; Region: RHOD_1; cd01522 269482017448 active site residue [active] 269482017449 Predicted nucleotide-utilizing enzyme related to molybdopterin-biosynthesis enzyme MoeA [General function prediction only]; Region: CinA; COG1058 269482017450 Competence-damaged protein. CinA is the first gene in the competence- inducible (cin) operon and is thought to be specifically required at some stage in the process of transformation. This domain is closely related to a domain, found in a variety of...; Region: cinA; cd00885 269482017451 putative MPT binding site; other site 269482017452 Etoposide-induced protein 2.4 (EI24); Region: EI24; pfam07264 269482017453 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 269482017454 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 269482017455 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 269482017456 HrpA-like helicases [DNA replication, recombination, and repair]; Region: HrpA; COG1643 269482017457 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 269482017458 ATP binding site [chemical binding]; other site 269482017459 putative Mg++ binding site [ion binding]; other site 269482017460 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 269482017461 nucleotide binding region [chemical binding]; other site 269482017462 ATP-binding site [chemical binding]; other site 269482017463 Helicase associated domain (HA2); Region: HA2; pfam04408 269482017464 Oligonucleotide/oligosaccharide-binding (OB)-fold; Region: OB_NTP_bind; pfam07717 269482017465 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 269482017466 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 269482017467 N-acetylglutamate synthase; Validated; Region: PRK05279 269482017468 AAK_NAGS-ABP: N-acetylglutamate (NAG) kinase-like domain of the NAG Synthase (NAGS) of the arginine-biosynthesis pathway (ABP) found in gamma- and beta-proteobacteria and higher plant chloroplasts. Domain architecture of these NAGS consisted of an...; Region: AAK_NAGS-ABP; cd04237 269482017469 putative feedback inhibition sensing region; other site 269482017470 putative nucleotide binding site [chemical binding]; other site 269482017471 putative substrate binding site [chemical binding]; other site 269482017472 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 269482017473 Coenzyme A binding pocket [chemical binding]; other site 269482017474 oxidative damage protection protein; Provisional; Region: PRK05408 269482017475 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 269482017476 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 269482017477 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 269482017478 Peptidase C26; Region: Peptidase_C26; pfam07722 269482017479 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 269482017480 catalytic triad [active] 269482017481 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 269482017482 Helix-turn-helix domain; Region: HTH_38; pfam13936 269482017483 Integrase core domain; Region: rve; pfam00665 269482017484 N-formylglutamate amidohydrolase; Region: FGase; cl01522 269482017485 N-formimino-L-glutamate deiminase; Validated; Region: PRK09229 269482017486 Metallo-dependent hydrolases, subgroup D is part of the superfamily of metallo-dependent hydrolases, a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the...; Region: Met_dep_hydrolase_E; cd01313 269482017487 active site 269482017488 imidazolonepropionase; Validated; Region: PRK09356 269482017489 Imidazolonepropionase/imidazolone-5-propionate hydrolase (Imidazolone-5PH) catalyzes the third step in the histidine degradation pathway, the hydrolysis of (S)-3-(5-oxo-4,5-dihydro-3H-imidazol-4-yl)propanoate to N-formimidoyl-L-glutamate. In bacteria; Region: Imidazolone-5PH; cd01296 269482017490 active site 269482017491 HutD; Region: HutD; pfam05962 269482017492 urocanate hydratase; Provisional; Region: PRK05414 269482017493 histidine utilization repressor, proteobacterial; Region: his_ut_repres; TIGR02018 269482017494 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 269482017495 DNA-binding site [nucleotide binding]; DNA binding site 269482017496 UTRA domain; Region: UTRA; pfam07702 269482017497 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 269482017498 active sites [active] 269482017499 tetramer interface [polypeptide binding]; other site 269482017500 Phosphopantetheinyl transferase [Coenzyme metabolism]; Region: Sfp; COG2091 269482017501 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 269482017502 Predicted alpha/beta hydrolase [General function prediction only]; Region: COG4757 269482017503 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 269482017504 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 269482017505 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 269482017506 dimerization interface [polypeptide binding]; other site 269482017507 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 269482017508 putative substrate translocation pore; other site 269482017509 Major Facilitator Superfamily; Region: MFS_1; pfam07690 269482017510 Lactonase, 7-bladed beta-propeller; Region: Lactonase; pfam10282 269482017511 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 269482017512 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 269482017513 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 269482017514 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 269482017515 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 269482017516 Uncharacterized proteins involved in stress response, homologs of TerZ and putative cAMP-binding protein CABP1 [Signal transduction mechanisms]; Region: TerZ; COG2310 269482017517 Uncharacterized proteins involved in stress response, similar to tellurium resistance terD; Region: TerD_like; cd06974 269482017518 putative metal binding site [ion binding]; other site 269482017519 hypothetical protein; Provisional; Region: PRK14013 269482017520 Toxic anion resistance protein (TelA); Region: TelA; pfam05816 269482017521 Phage integrase, N-terminal SAM-like domain; Region: Phage_integr_N; cl12235 269482017522 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 269482017523 active site 269482017524 DNA binding site [nucleotide binding] 269482017525 Int/Topo IB signature motif; other site 269482017526 Plasmid recombination enzyme; Region: Mob_Pre; pfam01076 269482017527 Uncharacterized protein conserved in bacteria [Function unknown]; Region: VgrG; COG3501 269482017528 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 269482017529 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 269482017530 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 269482017531 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; pfam10106 269482017532 Glycosyl hydrolase 108; Region: Glyco_hydro_108; pfam05838 269482017533 Predicted Peptidoglycan domain; Region: PG_binding_3; pfam09374 269482017534 PAAR motif; Region: PAAR_motif; pfam05488 269482017535 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 269482017536 probable sodium:solute symporter, VC_2705 subfamily; Region: Na_symport_lg; TIGR03648 269482017537 Domain of unknown function (DUF4212); Region: DUF4212; pfam13937 269482017538 acetyl-CoA synthetase; Provisional; Region: PRK00174 269482017539 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 269482017540 active site 269482017541 CoA binding site [chemical binding]; other site 269482017542 acyl-activating enzyme (AAE) consensus motif; other site 269482017543 AMP binding site [chemical binding]; other site 269482017544 acetate binding site [chemical binding]; other site 269482017545 EamA-like transporter family; Region: EamA; pfam00892 269482017546 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 269482017547 EamA-like transporter family; Region: EamA; pfam00892 269482017548 hypothetical protein; Provisional; Region: PRK05208 269482017549 Fumarate hydratase (Fumerase); Region: Fumerase; pfam05681 269482017550 Fumarase C-terminus; Region: Fumerase_C; pfam05683 269482017551 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 269482017552 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 269482017553 heme binding site [chemical binding]; other site 269482017554 ferroxidase pore; other site 269482017555 ferroxidase diiron center [ion binding]; other site 269482017556 glutamate racemase; Provisional; Region: PRK00865 269482017557 Bacterioferritin-associated ferredoxin [Inorganic ion transport and metabolism]; Region: Bfd; COG2906 269482017558 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 269482017559 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 269482017560 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 269482017561 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 269482017562 LysR family transcriptional regulator; Provisional; Region: PRK14997 269482017563 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 269482017564 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_4; cd08473 269482017565 putative effector binding pocket; other site 269482017566 putative dimerization interface [polypeptide binding]; other site 269482017567 Pirin-related protein [General function prediction only]; Region: COG1741 269482017568 Pirin; Region: Pirin; pfam02678 269482017569 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 269482017570 DUF1857, an uncharacterized ligand-binding domain of the SRPBCC domain superfamily; Region: SRPBCC_DUF1857; cd08863 269482017571 putative hydrophobic ligand binding site [chemical binding]; other site 269482017572 Hemin uptake protein hemP; Region: hemP; pfam10636 269482017573 Polyferredoxin [Energy production and conversion]; Region: NapH; COG0348 269482017574 4Fe-4S binding domain; Region: Fer4_5; pfam12801 269482017575 Iron permease FTR1 family; Region: FTR1; cl00475 269482017576 Cupredoxin-like domain; Region: Cupredoxin_1; pfam13473 269482017577 Fe2+ transport protein; Region: Iron_transport; pfam10634 269482017578 excinuclease ABC subunit B; Provisional; Region: PRK05298 269482017579 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 269482017580 ATP binding site [chemical binding]; other site 269482017581 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 269482017582 nucleotide binding region [chemical binding]; other site 269482017583 ATP-binding site [chemical binding]; other site 269482017584 Ultra-violet resistance protein B; Region: UvrB; pfam12344 269482017585 UvrB/uvrC motif; Region: UVR; pfam02151 269482017586 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 269482017587 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 269482017588 pyridoxal 5'-phosphate binding site [chemical binding]; other site 269482017589 homodimer interface [polypeptide binding]; other site 269482017590 catalytic residue [active] 269482017591 3-hydroxybutyrate dehydrogenase; Provisional; Region: PRK13394 269482017592 classical (c) SDRs; Region: SDR_c; cd05233 269482017593 NAD(P) binding site [chemical binding]; other site 269482017594 active site 269482017595 voltage-dependent potassium channel beta subunit, animal; Region: Kv_beta; TIGR01293 269482017596 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 269482017597 active site 269482017598 catalytic tetrad [active] 269482017599 Protein involved in catabolism of external DNA [General function prediction only]; Region: ComJ; COG2961 269482017600 Protein of unknown function (DUF3563); Region: DUF3563; pfam12086 269482017601 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 269482017602 Helix-Turn-Helix DNA binding domain of CueR-like transcription regulators; Region: HTH_CueR; cd01108 269482017603 DNA binding residues [nucleotide binding] 269482017604 dimer interface [polypeptide binding]; other site 269482017605 copper binding site [ion binding]; other site 269482017606 Protein of unknown function (DUF2863); Region: DUF2863; pfam11062 269482017607 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 269482017608 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 269482017609 DNA binding residues [nucleotide binding] 269482017610 Predicted membrane protein [Function unknown]; Region: COG3235 269482017611 Predicted carboxypeptidase [Amino acid transport and metabolism]; Region: COG2866 269482017612 Peptidase M14-like domain of ATP/GTP binding proteins and cytosolic carboxypeptidases; uncharacterized bacterial subgroup; Region: M14_Nna1_like_1; cd06234 269482017613 putative active site [active] 269482017614 Zn binding site [ion binding]; other site 269482017615 hypothetical protein; Validated; Region: PRK02101 269482017616 PIN domain; Region: PIN_3; pfam13470 269482017617 methionine aminotransferase; Validated; Region: PRK09082 269482017618 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 269482017619 pyridoxal 5'-phosphate binding site [chemical binding]; other site 269482017620 homodimer interface [polypeptide binding]; other site 269482017621 catalytic residue [active] 269482017622 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 269482017623 Glutathione S-transferase (GST) family, N-terminal domain; a large, diverse group of cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic...; Region: GST_N_family; cd00570 269482017624 C-terminal domain interface [polypeptide binding]; other site 269482017625 GSH binding site (G-site) [chemical binding]; other site 269482017626 dimer interface [polypeptide binding]; other site 269482017627 C-terminal, alpha helical domain of an unknown subfamily 9 of Glutathione S-transferases; Region: GST_C_9; cd10424 269482017628 putative N-terminal domain interface [polypeptide binding]; other site 269482017629 putative dimer interface [polypeptide binding]; other site 269482017630 putative substrate binding pocket (H-site) [chemical binding]; other site 269482017631 enoyl-CoA hydratase; Provisional; Region: PRK07511 269482017632 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 269482017633 substrate binding site [chemical binding]; other site 269482017634 oxyanion hole (OAH) forming residues; other site 269482017635 trimer interface [polypeptide binding]; other site 269482017636 GSH-dependent disulfide bond oxidoreductase; Provisional; Region: PRK13972 269482017637 GST_N family, Ure2p-like subfamily; composed of the Saccharomyces cerevisiae Ure2p and related GSTs. Ure2p is a regulator for nitrogen catabolism in yeast. It represses the expression of several gene products involved in the use of poor nitrogen sources...; Region: GST_N_Ure2p_like; cd03048 269482017638 C-terminal domain interface [polypeptide binding]; other site 269482017639 GSH binding site (G-site) [chemical binding]; other site 269482017640 dimer interface [polypeptide binding]; other site 269482017641 C-terminal, alpha helical domain of Escherichia coli YfcG Glutathione S-transferases and related uncharacterized proteins; Region: GST_C_YfcG_like; cd10291 269482017642 N-terminal domain interface [polypeptide binding]; other site 269482017643 putative dimer interface [polypeptide binding]; other site 269482017644 active site 269482017645 NodN (nodulation factor N) contains a single hot dog fold similar to those of the peroxisomal Hydratase-Dehydrogenase-Epimerase (HDE) protein, and the fatty acid synthase beta subunit. Rhizobium and related species form nodules on the roots of their...; Region: NodN; cd03450 269482017646 putative active site [active] 269482017647 putative catalytic site [active] 269482017648 YdeM is a Bacillus subtilis protein that belongs to a family of prokaryotic proteins of unkown function. YdeM has sequence similarity to the hot-dog fold of (R)-specific enoyl-CoA hydratase. Other enzymes with this fold include the peroxisomal...; Region: YdeM; cd03454 269482017649 putative active site [active] 269482017650 putative catalytic site [active] 269482017651 pimeloyl-CoA dehydrogenase, small subunit; Region: pimD_small; TIGR03203 269482017652 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 269482017653 active site 269482017654 pimeloyl-CoA dehydrogenase, large subunit; Region: pimC_large; TIGR03204 269482017655 Putative acyl-CoA dehydrogenases similar to fadE6, fadE17, and fadE26; Region: ACAD_fadE6_17_26; cd01152 269482017656 FAD binding site [chemical binding]; other site 269482017657 substrate binding site [chemical binding]; other site 269482017658 catalytic base [active] 269482017659 Protein of unknown function (DUF1178); Region: DUF1178; pfam06676 269482017660 nudix-type nucleoside diphosphatase, YffH/AdpP family; Region: TIGR00052 269482017661 ADP-ribose pyrophosphatase (ADPRase) catalyzes the hydrolysis of ADP-ribose and a variety of additional ADP-sugar conjugates to AMP and ribose-5-phosphate. Like other members of the Nudix hydrolase superfamily, it requires a divalent cation, such as Mg2+; Region: ADPRase_NUDT5; cd03424 269482017662 dimer interface [polypeptide binding]; other site 269482017663 ADP-ribose binding site [chemical binding]; other site 269482017664 active site 269482017665 nudix motif; other site 269482017666 metal binding site [ion binding]; metal-binding site 269482017667 Protein of unknown function (DUF2818); Region: DUF2818; pfam10993 269482017668 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 269482017669 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 269482017670 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 269482017671 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 269482017672 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 269482017673 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 269482017674 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 269482017675 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 269482017676 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 269482017677 NADH dehydrogenase subunit J; Provisional; Region: PRK06433 269482017678 NADH-quinone oxidoreductase, chain I; Region: NuoI; TIGR01971 269482017679 4Fe-4S binding domain; Region: Fer4; pfam00037 269482017680 4Fe-4S binding domain; Region: Fer4; pfam00037 269482017681 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 269482017682 NADH dehydrogenase subunit G; Validated; Region: PRK09129 269482017683 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 269482017684 catalytic loop [active] 269482017685 iron binding site [ion binding]; other site 269482017686 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 269482017687 MopB_NDH-1_NuoG2: The second domain of the NuoG subunit of the NADH-quinone oxidoreductase/NADH dehydrogenase-1 (NDH-1), found in beta- and gammaproteobacteria. The NDH-1 is the first energy-transducting complex in the respiratory chain and functions as...; Region: MopB_NDH-1_NuoG2; cd02772 269482017688 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 269482017689 SLBB domain; Region: SLBB; pfam10531 269482017690 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 269482017691 NADH dehydrogenase subunit E; Validated; Region: PRK07539 269482017692 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NADH:ubiquinone oxidoreductase (Nuo) subunit E subfamily; Nuo, also called respiratory chain Complex 1, is the entry point for electrons into the respiratory chains of bacteria and the mitochondria of eukaryotes; Region: TRX_Fd_NuoE; cd03064 269482017693 putative dimer interface [polypeptide binding]; other site 269482017694 [2Fe-2S] cluster binding site [ion binding]; other site 269482017695 NADH:ubiquinone oxidoreductase 49 kD subunit 7 [Energy production and conversion]; Region: NuoD; COG0649 269482017696 NADH dehydrogenase subunit D; Validated; Region: PRK06075 269482017697 NADH dehydrogenase subunit C; Provisional; Region: PRK06074 269482017698 NADH (or F420H2) dehydrogenase, subunit C; Region: NuoC_fam; TIGR01961 269482017699 NADH dehydrogenase subunit B; Validated; Region: PRK06411 269482017700 NADH:ubiquinone oxidoreductase subunit A; Validated; Region: PRK06602 269482017701 Preprotein translocase SecG subunit; Region: SecG; pfam03840 269482017702 triosephosphate isomerase; Provisional; Region: PRK14567 269482017703 Triosephosphate isomerase (TIM) is a glycolytic enzyme that catalyzes the interconversion of dihydroxyacetone phosphate and D-glyceraldehyde-3-phosphate. The reaction is very efficient and requires neither cofactors nor metal ions. TIM, usually...; Region: TIM; cd00311 269482017704 substrate binding site [chemical binding]; other site 269482017705 dimer interface [polypeptide binding]; other site 269482017706 catalytic triad [active] 269482017707 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 269482017708 PIG3 p53-inducible quinone oxidoreductase; Region: p53_inducible_oxidoreductase; cd05276 269482017709 NAD(P) binding site [chemical binding]; other site 269482017710 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 269482017711 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 269482017712 RNase E interface [polypeptide binding]; other site 269482017713 trimer interface [polypeptide binding]; other site 269482017714 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 269482017715 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 269482017716 RNase E interface [polypeptide binding]; other site 269482017717 trimer interface [polypeptide binding]; other site 269482017718 active site 269482017719 Polynucleotide phosphorylase (PNPase) K homology RNA-binding domain (KH). PNPase is a polyribonucleotide nucleotidyl transferase that degrades mRNA in prokaryotes and plant chloroplasts. The C-terminal region of PNPase contains domains homologous to...; Region: PNPase_KH; cd02393 269482017720 putative nucleic acid binding region [nucleotide binding]; other site 269482017721 G-X-X-G motif; other site 269482017722 S1_PNPase: Polynucleotide phosphorylase (PNPase), ), S1-like RNA-binding domain. PNPase is a polyribonucleotide nucleotidyl transferase that degrades mRNA. It is a trimeric multidomain protein. The C-terminus contains the S1 domain which binds ssRNA; Region: S1_PNPase; cd04472 269482017723 RNA binding site [nucleotide binding]; other site 269482017724 domain interface; other site 269482017725 Ribosomal protein S15 (prokaryotic)_S13 (eukaryotic) binds the central domain of 16S rRNA and is required for assembly of the small ribosomal subunit and for intersubunit association, thus representing a key element in the assembly of the whole ribosome; Region: Ribosomal_S15p_S13e; cd00353 269482017726 16S/18S rRNA binding site [nucleotide binding]; other site 269482017727 S13e-L30e interaction site [polypeptide binding]; other site 269482017728 25S rRNA binding site [nucleotide binding]; other site 269482017729 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 269482017730 Periplasmic solute-binding domain of active transport proteins; Region: PBP1_SBP_like_3; cd06329 269482017731 putative ligand binding site [chemical binding]; other site 269482017732 Carbonic anhydrases (CA) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism in which the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide is followed by the regeneration of an...; Region: beta_CA_cladeA; cd00883 269482017733 active site clefts [active] 269482017734 zinc binding site [ion binding]; other site 269482017735 dimer interface [polypeptide binding]; other site 269482017736 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 269482017737 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 269482017738 Sulfate transporter family; Region: Sulfate_transp; pfam00916 269482017739 2-isopropylmalate synthase; Validated; Region: PRK00915 269482017740 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 269482017741 active site 269482017742 catalytic residues [active] 269482017743 metal binding site [ion binding]; metal-binding site 269482017744 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 269482017745 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 269482017746 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 269482017747 phosphatidylserine decarboxylase; Provisional; Region: PRK05305 269482017748 ketol-acid reductoisomerase; Provisional; Region: PRK05479 269482017749 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 269482017750 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 269482017751 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 269482017752 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 269482017753 putative valine binding site [chemical binding]; other site 269482017754 dimer interface [polypeptide binding]; other site 269482017755 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 269482017756 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK06965 269482017757 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 269482017758 PYR/PP interface [polypeptide binding]; other site 269482017759 dimer interface [polypeptide binding]; other site 269482017760 TPP binding site [chemical binding]; other site 269482017761 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 269482017762 Thiamine pyrophosphate (TPP) family, Acetohydroxyacid synthase (AHAS) subfamily, TPP-binding module; composed of proteins similar to the large catalytic subunit of AHAS. AHAS catalyzes the condensation of two molecules of pyruvate to give the...; Region: TPP_AHAS; cd02015 269482017763 TPP-binding site [chemical binding]; other site 269482017764 dimer interface [polypeptide binding]; other site 269482017765 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 269482017766 RNA polymerase factor sigma-70; Validated; Region: PRK09047 269482017767 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 269482017768 DNA binding residues [nucleotide binding] 269482017769 Protein of unknown function (DUF3619); Region: DUF3619; pfam12279 269482017770 Protein of unknown function (DUF3106); Region: DUF3106; pfam11304 269482017771 RDD family; Region: RDD; pfam06271 269482017772 Transposase, Mutator family; Region: Transposase_mut; pfam00872 269482017773 MULE transposase domain; Region: MULE; pfam10551 269482017774 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 269482017775 putative active site [active] 269482017776 putative metal binding site [ion binding]; other site 269482017777 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 269482017778 This family is most closely related to the GT1 family of glycosyltransferases. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can...; Region: GT1_like_2; cd03814 269482017779 Diacylglycerol kinase [Cell envelope biogenesis, outer membrane]; Region: DgkA; COG0818 269482017780 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 269482017781 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 269482017782 Bacterial transcriptional repressor; Region: TetR; pfam13972 269482017783 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 269482017784 glucose-1-dehydrogenase; Provisional; Region: PRK06947 269482017785 classical (c) SDRs; Region: SDR_c; cd05233 269482017786 NAD(P) binding site [chemical binding]; other site 269482017787 active site 269482017788 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 269482017789 Bacterial protein of unknown function (DUF924); Region: DUF924; pfam06041 269482017790 Predicted metal-dependent hydrolases related to alanyl-tRNA synthetase HxxxH domain [General function prediction only]; Region: COG2872 269482017791 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 269482017792 Truncated hemoglobins (trHbs) are a family of oxygen-binding heme proteins found in cyanobacteria, eubacteria, unicellular eukaryotes, and plants. The truncated hemoglobins have a characteristic two-over-two alpha helical folding pattern that is distinct...; Region: Trunc_globin; cd00454 269482017793 apolar tunnel; other site 269482017794 heme binding site [chemical binding]; other site 269482017795 dimerization interface [polypeptide binding]; other site 269482017796 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 269482017797 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 269482017798 Domain of unknown function (DUF4126); Region: DUF4126; pfam13548 269482017799 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 269482017800 Putative hemolysin [General function prediction only]; Region: Hlx; COG3042 269482017801 Domain of unknown function (DUF333); Region: DUF333; pfam03891 269482017802 DNA-binding transcriptional activator KdpE; Provisional; Region: PRK10529 269482017803 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 269482017804 active site 269482017805 phosphorylation site [posttranslational modification] 269482017806 intermolecular recognition site; other site 269482017807 dimerization interface [polypeptide binding]; other site 269482017808 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 269482017809 DNA binding site [nucleotide binding] 269482017810 Osmosensitive K+ channel histidine kinase [Signal transduction mechanisms]; Region: KdpD; COG2205 269482017811 Osmosensitive K+ channel His kinase sensor domain; Region: KdpD; pfam02702 269482017812 USP domain is located between the N-terminal sensor domain and C-terminal catalytic domain of this Osmosensitive K+ channel histidine kinase family. The family of KdpD sensor kinase proteins regulates the kdpFABC operon responsible for potassium...; Region: USP_OKCHK; cd01987 269482017813 Ligand Binding Site [chemical binding]; other site 269482017814 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 269482017815 GAF domain; Region: GAF_3; pfam13492 269482017816 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 269482017817 dimer interface [polypeptide binding]; other site 269482017818 phosphorylation site [posttranslational modification] 269482017819 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 269482017820 ATP binding site [chemical binding]; other site 269482017821 Mg2+ binding site [ion binding]; other site 269482017822 G-X-G motif; other site 269482017823 potassium-transporting ATPase subunit C; Reviewed; Region: PRK00315 269482017824 potassium-transporting ATPase subunit B; Provisional; Region: PRK01122 269482017825 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 269482017826 potassium-transporting ATPase subunit A; Provisional; Region: PRK05482 269482017827 quinone oxidoreductase, NADPH-dependent; Provisional; Region: PRK10754 269482017828 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 269482017829 NADP binding site [chemical binding]; other site 269482017830 dimer interface [polypeptide binding]; other site 269482017831 methylglyoxal synthase; Validated; Region: mgsA; PRK05234 269482017832 substrate binding site [chemical binding]; other site 269482017833 short chain dehydrogenase; Provisional; Region: PRK08339 269482017834 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR)-like, SDR; Region: BKR_like_SDR_like; cd05344 269482017835 putative NAD(P) binding site [chemical binding]; other site 269482017836 putative active site [active] 269482017837 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 269482017838 active site 269482017839 hypothetical protein; Validated; Region: PRK00110 269482017840 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 269482017841 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 269482017842 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 269482017843 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 269482017844 coproporphyrinogen III oxidase; Provisional; Region: PRK05330 269482017845 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; pfam01218 269482017846 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 269482017847 active site 269482017848 iojap-like ribosome-associated protein; Region: iojap_ybeB; TIGR00090 269482017849 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 269482017850 Maf-like protein; Region: Maf; pfam02545 269482017851 Nucleotide binding protein Maf. Maf has been implicated in inhibition of septum formation in eukaryotes, bacteria and archaea, but homologs in B.subtilis and S.cerevisiae are nonessential for cell division. Maf has been predicted to be a nucleotide- or...; Region: Maf; cd00555 269482017852 active site 269482017853 dimer interface [polypeptide binding]; other site 269482017854 ribonuclease G; Provisional; Region: PRK11712 269482017855 S1_RNase_E: RNase E and RNase G, S1-like RNA-binding domain. RNase E is an essential endoribonuclease in the processing and degradation of RNA. In addition to its role in mRNA degradation, RNase E has also been implicated in the processing of rRNA, and...; Region: S1_RNase_E; cd04453 269482017856 homodimer interface [polypeptide binding]; other site 269482017857 oligonucleotide binding site [chemical binding]; other site 269482017858 Pentapeptide repeats (9 copies); Region: Pentapeptide_3; pfam13576 269482017859 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 269482017860 PAAR motif; Region: PAAR_motif; pfam05488 269482017861 Peptidase M35-like domain of uncharacterized proteins; Region: M35_like_1; cd11007 269482017862 putative active site [active] 269482017863 putative Zn binding site [ion binding]; other site 269482017864 Protein with unknown function (DUF469); Region: DUF469; pfam04320 269482017865 PRC-barrel domain; Region: PRC; pfam05239 269482017866 Major Facilitator Superfamily; Region: MFS_1; pfam07690 269482017867 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cl17904 269482017868 Domain of unknown function (DUF3315); Region: DUF3315; pfam11776 269482017869 lipid A export permease/ATP-binding protein MsbA; Region: MsbA_lipidA; TIGR02203 269482017870 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 269482017871 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 269482017872 Walker A/P-loop; other site 269482017873 ATP binding site [chemical binding]; other site 269482017874 Q-loop/lid; other site 269482017875 ABC transporter signature motif; other site 269482017876 Walker B; other site 269482017877 D-loop; other site 269482017878 H-loop/switch region; other site 269482017879 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 269482017880 putative metal binding site; other site 269482017881 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 269482017882 Glycosyl transferase family 2; Region: Glycos_transf_2; pfam00535 269482017883 active site 269482017884 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 269482017885 O-Antigen ligase; Region: Wzy_C; pfam04932 269482017886 lipopolysaccharide core biosynthesis protein; Provisional; Region: PRK10422 269482017887 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 269482017888 putative active site [active] 269482017889 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 269482017890 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 269482017891 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 269482017892 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 269482017893 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE1; Region: PHP_PolIIIA_DnaE1; cd07433 269482017894 putative active site [active] 269482017895 putative PHP Thumb interface [polypeptide binding]; other site 269482017896 DnaE_OBF: A subfamily of OB folds corresponding to the C-terminal OB-fold nucleic acid binding domain of Thermus aquaticus and Escherichia coli type C replicative DNA polymerase III alpha subunit (DnaE). The DNA polymerase holoenzyme of E. coli contains...; Region: DnaE_OBF; cd04485 269482017897 generic binding surface II; other site 269482017898 generic binding surface I; other site 269482017899 rhodanese superfamily protein; Provisional; Region: PRK05320 269482017900 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 269482017901 active site residue [active] 269482017902 glutamyl-queuosine tRNA(Asp) synthetase; Region: queuosine_YadB; TIGR03838 269482017903 active site 269482017904 HIGH motif; other site 269482017905 nucleotide binding site [chemical binding]; other site 269482017906 active site 269482017907 KMSKS motif; other site 269482017908 ATP-dependent RNA helicase RhlB; Provisional; Region: PRK04837 269482017909 DEAD-box helicases. A diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif; Region: DEADc; cd00268 269482017910 ATP binding site [chemical binding]; other site 269482017911 Mg++ binding site [ion binding]; other site 269482017912 motif III; other site 269482017913 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 269482017914 nucleotide binding region [chemical binding]; other site 269482017915 ATP-binding site [chemical binding]; other site 269482017916 Membrane-bound lysozyme-inhibitor of c-type lysozyme; Region: MliC; pfam09864 269482017917 phosphoribosylglycinamide formyltransferase 2; Validated; Region: purT; PRK09288 269482017918 Formate/glycerate dehydrogenases, D-specific 2-hydroxy acid dehydrogenases and related dehydrogenases; Region: FDH_GDH_like; cl17240 269482017919 NAD binding site [chemical binding]; other site 269482017920 ATP-grasp domain; Region: ATP-grasp; pfam02222 269482017921 META domain; Region: META; pfam03724 269482017922 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 269482017923 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 269482017924 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 269482017925 Lactonase, 7-bladed beta-propeller; Region: Lactonase; pfam10282 269482017926 Glucoamylase and related glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: SGA1; COG3387 269482017927 Glycosyl hydrolases family 15; Region: Glyco_hydro_15; pfam00723 269482017928 Poly-beta-hydroxyalkanoate depolymerase [Lipid metabolism]; Region: DepA; COG4553 269482017929 PHB de-polymerase C-terminus; Region: PHB_depo_C; pfam06850 269482017930 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 269482017931 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 269482017932 ferredoxin; Provisional; Region: PRK08764 269482017933 Putative Fe-S cluster; Region: FeS; pfam04060 269482017934 4Fe-4S binding domain; Region: Fer4; pfam00037 269482017935 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 269482017936 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 269482017937 minor groove reading motif; other site 269482017938 helix-hairpin-helix signature motif; other site 269482017939 substrate binding pocket [chemical binding]; other site 269482017940 active site 269482017941 EamA-like transporter family; Region: EamA; pfam00892 269482017942 EamA-like transporter family; Region: EamA; pfam00892 269482017943 Insertion element 4 transposase N-terminal; Region: Nterm_IS4; pfam13006 269482017944 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 269482017945 Domain of unknown function (DUF1841); Region: DUF1841; pfam08897 269482017946 Cytochrome c553 [Energy production and conversion]; Region: COG2863 269482017947 Cytochrome c; Region: Cytochrom_C; cl11414 269482017948 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 269482017949 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 269482017950 Walker A motif; other site 269482017951 ATP binding site [chemical binding]; other site 269482017952 Walker B motif; other site 269482017953 arginine finger; other site 269482017954 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3825 269482017955 Benzoate membrane transport protein; Region: BenE; pfam03594 269482017956 benzoate transporter; Region: benE; TIGR00843 269482017957 transaldolase-like protein; Provisional; Region: PTZ00411 269482017958 Transaldolases including both TalA and TalB; Region: Transaldolase_TalAB; cd00957 269482017959 active site 269482017960 dimer interface [polypeptide binding]; other site 269482017961 catalytic residue [active] 269482017962 Escherichia coli PhnB and similar proteins; the E. coli phnB gene is found next to an operon involved in the cleavage of carbon-phosphorus bonds in unactivated alkylphosphonates; Region: PhnB_like; cd06588 269482017963 dimer interface [polypeptide binding]; other site 269482017964 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 269482017965 Na+/proline symporter [Amino acid transport and metabolism / General function prediction only]; Region: PutP; COG0591 269482017966 Na binding site [ion binding]; other site 269482017967 Protein of unknown function (DUF3311); Region: DUF3311; pfam11755 269482017968 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 269482017969 Plasmid stabilisation system protein; Region: Plasmid_stabil; pfam05016 269482017970 MUG-like Uracil-DNA glycosylase enzyme family; Region: UDG_MUG_like; cd10032 269482017971 putative active site [active] 269482017972 Chorismate lyase; Region: Chor_lyase; cl01230 269482017973 heat shock protein 90; Provisional; Region: PRK05218 269482017974 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 269482017975 ATP binding site [chemical binding]; other site 269482017976 Mg2+ binding site [ion binding]; other site 269482017977 G-X-G motif; other site 269482017978 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 269482017979 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 269482017980 DNA-binding site [nucleotide binding]; DNA binding site 269482017981 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 269482017982 pyridoxal 5'-phosphate binding site [chemical binding]; other site 269482017983 homodimer interface [polypeptide binding]; other site 269482017984 catalytic residue [active] 269482017985 Glyoxalase-like domain; Region: Glyoxalase_3; pfam13468 269482017986 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 269482017987 EamA-like transporter family; Region: EamA; pfam00892 269482017988 EamA-like transporter family; Region: EamA; pfam00892 269482017989 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 269482017990 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 269482017991 pyridoxal 5'-phosphate binding site [chemical binding]; other site 269482017992 homodimer interface [polypeptide binding]; other site 269482017993 catalytic residue [active] 269482017994 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_1; cd02199 269482017995 homotrimer interaction site [polypeptide binding]; other site 269482017996 putative active site [active] 269482017997 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 269482017998 hydroxyproline-2-epimerase; Provisional; Region: PRK13971 269482017999 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 269482018000 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 269482018001 metal binding site [ion binding]; metal-binding site 269482018002 active site 269482018003 I-site; other site 269482018004 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 269482018005 Chromate transporter; Region: Chromate_transp; pfam02417 269482018006 chromate transporter, chromate ion transporter (CHR) family; Region: 2A51; TIGR00937 269482018007 Chromate transporter; Region: Chromate_transp; pfam02417 269482018008 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 269482018009 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 269482018010 Transcriptional regulator [Transcription]; Region: LysR; COG0583 269482018011 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 269482018012 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 269482018013 dimerization interface [polypeptide binding]; other site 269482018014 Predicted integral membrane protein [Function unknown]; Region: COG5615 269482018015 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 269482018016 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes...; Region: TOP4c; cd00187 269482018017 CAP-like domain; other site 269482018018 active site 269482018019 primary dimer interface [polypeptide binding]; other site 269482018020 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 269482018021 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 269482018022 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 269482018023 ATP binding site [chemical binding]; other site 269482018024 Mg2+ binding site [ion binding]; other site 269482018025 G-X-G motif; other site 269482018026 TopoIIA_Trans_DNA_gyrase: Transducer domain, having a ribosomal S5 domain 2-like fold, of the type found in proteins of the type IIA family of DNA topoisomerases similar to the B subunits of E. coli DNA gyrase and E. coli Topoisomerase IV which are; Region: TopoII_Trans_DNA_gyrase; cd00822 269482018027 anchoring element; other site 269482018028 dimer interface [polypeptide binding]; other site 269482018029 ATP binding site [chemical binding]; other site 269482018030 Topoisomerase-primase domain. This is a nucleotidyl transferase/hydrolase domain found in type IA, type IIA and type IIB topoisomerases, bacterial DnaG-type primases, small primase-like proteins from bacteria and archaea, OLD family nucleases from...; Region: TOPRIM; cl00718 269482018031 active site 269482018032 metal binding site [ion binding]; metal-binding site 269482018033 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 269482018034 ABC transporter ATPase component; Reviewed; Region: PRK11147 269482018035 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 269482018036 Walker A/P-loop; other site 269482018037 ATP binding site [chemical binding]; other site 269482018038 Q-loop/lid; other site 269482018039 ABC transporter signature motif; other site 269482018040 Walker B; other site 269482018041 D-loop; other site 269482018042 H-loop/switch region; other site 269482018043 ABC transporter; Region: ABC_tran_2; pfam12848 269482018044 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 269482018045 Domain of unknown function (DUF4399); Region: DUF4399; pfam14347 269482018046 Rubredoxin; nonheme iron binding domains containing a [Fe(SCys)4] center. Rubredoxins are small nonheme iron proteins. The iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc. They are...; Region: rubredoxin; cd00730 269482018047 Rubredoxin; Region: Rubredoxin; pfam00301 269482018048 iron binding site [ion binding]; other site 269482018049 integrase; Provisional; Region: PRK09692 269482018050 Bacteriophage P4 integrase. P4-like integrases are found in temperate bacteriophages, integrative plasmids, pathogenicity and symbiosis islands, and other mobile genetic elements. They share the same fold in their catalytic domain and the overall...; Region: INT_P4; cd00801 269482018051 active site 269482018052 Int/Topo IB signature motif; other site 269482018053 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 269482018054 Helix-turn-helix domain; Region: HTH_38; pfam13936 269482018055 Integrase core domain; Region: rve; pfam00665 269482018056 Prophage CP4-57 regulatory protein (AlpA); Region: Phage_AlpA; cl17523 269482018057 Phage regulatory protein Rha (Phage_pRha); Region: Phage_pRha; pfam09669 269482018058 Transcriptional Coactivator p15 (PC4); Region: PC4; pfam02229 269482018059 Primase C terminal 2 (PriCT-2); Region: PriCT_2; pfam08707 269482018060 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4643 269482018061 TOPRIM_primases: The topoisomerase-primase (TORPIM) nucleotidyl transferase/hydrolase domain found in the active site regions of bacterial DnaG-type primases and their homologs. Primases synthesize RNA primers for the initiation of DNA replication. DnaG...; Region: TOPRIM_primases; cd01029 269482018062 active site 269482018063 metal binding site [ion binding]; metal-binding site 269482018064 interdomain interaction site; other site 269482018065 AAA domain; Region: AAA_25; pfam13481 269482018066 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 269482018067 Walker A motif; other site 269482018068 ATP binding site [chemical binding]; other site 269482018069 Walker B motif; other site 269482018070 SSB_OBF: A subfamily of OB folds similar to the OB fold of ssDNA-binding protein (SSB). SSBs bind with high affinity to ssDNA. They bind to and protect ssDNA intermediates during DNA metabolic pathways. All bacterial and eukaryotic SSBs studied to date...; Region: SSB_OBF; cd04496 269482018071 dimer interface [polypeptide binding]; other site 269482018072 ssDNA binding site [nucleotide binding]; other site 269482018073 tetramer (dimer of dimers) interface [polypeptide binding]; other site 269482018074 Pyocin activator protein PrtN; Region: PyocinActivator; pfam11112 269482018075 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 269482018076 Helix-turn-helix domain; Region: HTH_38; pfam13936 269482018077 Integrase core domain; Region: rve; pfam00665 269482018078 Uncharacterized ACR, COG2135; Region: DUF159; pfam02586 269482018079 ecotin; Provisional; Region: PRK03719 269482018080 secondary substrate binding site; other site 269482018081 primary substrate binding site; other site 269482018082 inhibition loop; other site 269482018083 dimerization interface [polypeptide binding]; other site 269482018084 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 269482018085 Major Facilitator Superfamily; Region: MFS_1; pfam07690 269482018086 putative substrate translocation pore; other site 269482018087 Predicted ATPase [General function prediction only]; Region: COG3911 269482018088 AAA domain; Region: AAA_28; pfam13521 269482018089 alpha,alpha-trehalose-phosphate synthase [UDP-forming]; Region: trehalose_OtsA; TIGR02400 269482018090 Trehalose-6-Phosphate Synthase (TPS) is a glycosyltransferase that catalyses the synthesis of alpha,alpha-1,1-trehalose-6-phosphate from glucose-6-phosphate using a UDP-glucose donor. It is a key enzyme in the trehalose synthesis pathway. Trehalose is a...; Region: GT1_TPS; cd03788 269482018091 active site 269482018092 homotetramer interface [polypeptide binding]; other site 269482018093 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 269482018094 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 269482018095 Walker A/P-loop; other site 269482018096 ATP binding site [chemical binding]; other site 269482018097 Q-loop/lid; other site 269482018098 ABC transporter signature motif; other site 269482018099 Walker B; other site 269482018100 D-loop; other site 269482018101 H-loop/switch region; other site 269482018102 ABC nitrate/sulfonate/bicarbonate family transporter, ATPase subunit; Region: ABC_transp; pfam09821 269482018103 ABC-type anion transport system, duplicated permease component [Inorganic ion transport and metabolism]; Region: COG4986 269482018104 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 269482018105 dimer interface [polypeptide binding]; other site 269482018106 conserved gate region; other site 269482018107 putative PBP binding loops; other site 269482018108 ABC-ATPase subunit interface; other site 269482018109 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 269482018110 dimer interface [polypeptide binding]; other site 269482018111 conserved gate region; other site 269482018112 putative PBP binding loops; other site 269482018113 ABC-ATPase subunit interface; other site 269482018114 The Bin/Amphiphysin/Rvs (BAR) domain, a dimerization module that binds membranes and detects membrane curvature; Region: BAR; cl12013 269482018115 HAMP domain; Region: HAMP; pfam00672 269482018116 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 269482018117 dimer interface [polypeptide binding]; other site 269482018118 phosphorylation site [posttranslational modification] 269482018119 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 269482018120 ATP binding site [chemical binding]; other site 269482018121 Mg2+ binding site [ion binding]; other site 269482018122 G-X-G motif; other site 269482018123 osmolarity response regulator; Provisional; Region: ompR; PRK09468 269482018124 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 269482018125 active site 269482018126 phosphorylation site [posttranslational modification] 269482018127 intermolecular recognition site; other site 269482018128 dimerization interface [polypeptide binding]; other site 269482018129 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 269482018130 DNA binding site [nucleotide binding] 269482018131 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 269482018132 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 269482018133 substrate binding pocket [chemical binding]; other site 269482018134 membrane-bound complex binding site; other site 269482018135 hinge residues; other site 269482018136 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 269482018137 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 269482018138 dimer interface [polypeptide binding]; other site 269482018139 conserved gate region; other site 269482018140 putative PBP binding loops; other site 269482018141 ABC-ATPase subunit interface; other site 269482018142 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 269482018143 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 269482018144 dimer interface [polypeptide binding]; other site 269482018145 conserved gate region; other site 269482018146 putative PBP binding loops; other site 269482018147 ABC-ATPase subunit interface; other site 269482018148 ABC-type histidine transport system, ATPase component [Amino acid transport and metabolism]; Region: HisP; COG4598 269482018149 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 269482018150 Walker A/P-loop; other site 269482018151 ATP binding site [chemical binding]; other site 269482018152 Q-loop/lid; other site 269482018153 ABC transporter signature motif; other site 269482018154 Walker B; other site 269482018155 D-loop; other site 269482018156 H-loop/switch region; other site 269482018157 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 269482018158 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 269482018159 Transcriptional regulator [Transcription]; Region: LysR; COG0583 269482018160 The C-terminal substrate biniding domain of an uncharacterized LysR-like transcriptional regulator Pa0477 related to DntR, contains the type 2 periplasmic binding fold; Region: PBP2_Pa0477; cd08468 269482018161 putative substrate binding pocket [chemical binding]; other site 269482018162 dimerization interface [polypeptide binding]; other site 269482018163 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 269482018164 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 269482018165 trimer interface [polypeptide binding]; other site 269482018166 eyelet of channel; other site 269482018167 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 269482018168 Nitrogen regulatory protein P-II; Region: P-II; smart00938 269482018169 NAD synthetase; Provisional; Region: PRK13981 269482018170 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 269482018171 multimer interface [polypeptide binding]; other site 269482018172 active site 269482018173 catalytic triad [active] 269482018174 protein interface 1 [polypeptide binding]; other site 269482018175 NAD+ synthase is a homodimer, which catalyzes the final step in de novo nicotinamide adenine dinucleotide (NAD+) biosynthesis, an amide transfer from either ammonia or glutamine to nicotinic acid adenine dinucleotide (NaAD). The conversion of NaAD to NAD...; Region: NAD_synthase; cd00553 269482018176 homodimer interface [polypeptide binding]; other site 269482018177 NAD binding pocket [chemical binding]; other site 269482018178 ATP binding pocket [chemical binding]; other site 269482018179 Mg binding site [ion binding]; other site 269482018180 active-site loop [active] 269482018181 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; cl17497 269482018182 Protein of unknown function, DUF482; Region: DUF482; pfam04339 269482018183 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 269482018184 GIY-YIG motif/motif A; other site 269482018185 putative active site [active] 269482018186 putative metal binding site [ion binding]; other site 269482018187 Inorganic pyrophosphatase. These enzymes hydrolyze inorganic pyrophosphate (PPi) to two molecules of orthophosphates (Pi). The reaction requires bivalent cations. The enzymes in general exist as homooligomers; Region: pyrophosphatase; cd00412 269482018188 dimer interface [polypeptide binding]; other site 269482018189 substrate binding site [chemical binding]; other site 269482018190 metal binding sites [ion binding]; metal-binding site 269482018191 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 269482018192 Uncharacterized Saccharopolyspora spinosa aldehyde dehydrogenase (AAS00426)-like; Region: ALDH_AAS00426; cd07109 269482018193 NAD(P) binding site [chemical binding]; other site 269482018194 catalytic residues [active] 269482018195 catalytic residues [active] 269482018196 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR), subgroup 3, classical (c) SDR; Region: BKR_3_SDR_c; cd05345 269482018197 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 269482018198 putative NAD(P) binding site [chemical binding]; other site 269482018199 active site 269482018200 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 269482018201 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 269482018202 putative substrate translocation pore; other site 269482018203 heme biosynthesis-associated TPR protein; Region: TPR_hemY_coli; TIGR00540 269482018204 HemY protein N-terminus; Region: HemY_N; pfam07219 269482018205 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 269482018206 TPR motif; other site 269482018207 binding surface 269482018208 bifunctional uroporphyrinogen-III synthetase/uroporphyrin-III C-methyltransferase; Reviewed; Region: PRK06975 269482018209 Uroporphyrinogen-III synthase (HemD) catalyzes the asymmetrical cyclization of tetrapyrrole (linear) to uroporphyrinogen-III, the fourth step in the biosynthesis of heme. This ubiquitous enzyme is present in eukaryotes, bacteria and archaea. Mutations in...; Region: HemD; cd06578 269482018210 active site 269482018211 putative uroporphyrinogen III C-methyltransferase; Provisional; Region: PRK10920 269482018212 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 269482018213 Hydroxymethylbilane synthase (HMBS), also known as porphobilinogen deaminase (PBGD), is an intermediate enzyme in the biosynthetic pathway of tetrapyrrolic ring systems, such as heme, chlorophylls, and vitamin B12. HMBS catalyzes the conversion of...; Region: HMBS; cd00494 269482018214 domain interfaces; other site 269482018215 active site 269482018216 phosphoenolpyruvate carboxylase; Reviewed; Region: PRK00009 269482018217 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 269482018218 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 269482018219 S-adenosylmethionine binding site [chemical binding]; other site 269482018220 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 269482018221 non-specific DNA binding site [nucleotide binding]; other site 269482018222 salt bridge; other site 269482018223 sequence-specific DNA binding site [nucleotide binding]; other site 269482018224 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 269482018225 argininosuccinate lyase; Provisional; Region: PRK00855 269482018226 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 269482018227 active sites [active] 269482018228 tetramer interface [polypeptide binding]; other site 269482018229 beta-phosphoglucomutase family hydrolase; Region: PGMB-YQAB-SF; TIGR02009 269482018230 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 269482018231 motif II; other site 269482018232 Protein of unknown function (DUF1311); Region: DUF1311; pfam07007 269482018233 Protein of unknown function (DUF1311); Region: DUF1311; cl01530 269482018234 Orn/Lys/Arg decarboxylase, N-terminal domain; Region: OKR_DC_1_N; pfam03709 269482018235 Arginine/lysine/ornithine decarboxylases [Amino acid transport and metabolism]; Region: LdcC; COG1982 269482018236 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cl00321 269482018237 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 269482018238 catalytic residue [active] 269482018239 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 269482018240 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 269482018241 trimer interface [polypeptide binding]; other site 269482018242 active site 269482018243 Copper/zinc superoxide dismutase (SODC); Region: Sod_Cu; pfam00080 269482018244 E-class dimer interface [polypeptide binding]; other site 269482018245 P-class dimer interface [polypeptide binding]; other site 269482018246 active site 269482018247 Cu2+ binding site [ion binding]; other site 269482018248 Zn2+ binding site [ion binding]; other site 269482018249 Domain of unknown function DUF59; Region: DUF59; pfam01883 269482018250 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Mrp; COG0489 269482018251 MRP (Multiple Resistance and pH adaptation) is a homologue of the Fer4_NifH superfamily. Like the other members of the superfamily, MRP contains a ATP-binding domain at the N-termini. It is found in bacteria as a membrane-spanning protein and functions...; Region: MRP-like; cd02037 269482018252 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 269482018253 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 269482018254 ligand binding site [chemical binding]; other site 269482018255 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 269482018256 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 269482018257 active site 269482018258 HIGH motif; other site 269482018259 KMSKS motif; other site 269482018260 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 269482018261 tRNA binding surface [nucleotide binding]; other site 269482018262 anticodon binding site; other site 269482018263 tRNA-binding-domain-containing Escherichia coli methionyl-tRNA synthetase (EcMetRS)-like proteins. This family includes EcMetRS and Aquifex aeolicus Trbp111 (AaTrbp111). This domain has general tRNA binding properties. MetRS aminoacylates methionine...; Region: tRNA_bind_EcMetRS_like; cd02800 269482018264 dimer interface [polypeptide binding]; other site 269482018265 putative tRNA-binding site [nucleotide binding]; other site 269482018266 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 269482018267 Family of unknown function (DUF490); Region: DUF490; pfam04357 269482018268 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 269482018269 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 269482018270 Surface antigen; Region: Bac_surface_Ag; pfam01103 269482018271 Protein of unknown function (DUF3460); Region: DUF3460; pfam11943 269482018272 Rec8/ScpA/Scc1-like protein (kleisin family) [Replication, recombination, and repair]; Region: scpA; COG1354 269482018273 pantoate--beta-alanine ligase; Region: panC; TIGR00018 269482018274 Pantoate-beta-alanine ligase; Region: PanC; cd00560 269482018275 active site 269482018276 ATP-binding site [chemical binding]; other site 269482018277 pantoate-binding site; other site 269482018278 HXXH motif; other site 269482018279 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 269482018280 tetramerization interface [polypeptide binding]; other site 269482018281 active site 269482018282 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 269482018283 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 269482018284 P-loop; other site 269482018285 Magnesium ion binding site [ion binding]; other site 269482018286 DoxX; Region: DoxX; cl17842 269482018287 cobyric acid synthase; Provisional; Region: PRK00784 269482018288 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 269482018289 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 269482018290 catalytic triad [active] 269482018291 Cobinamide kinase / cobinamide phosphate guanyltransferase; Region: CobU; cl17363 269482018292 cobalamin biosynthesis protein; Provisional; Region: cobD; PRK01209 269482018293 putative threonine-phosphate decarboxylase; Provisional; Region: PRK06959 269482018294 L-threonine-O-3-phosphate decarboxylase; Region: L_thr_O3P_dcar; TIGR01140 269482018295 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 269482018296 catalytic residue [active] 269482018297 Cobalamin binding protein BtuF. These proteins have been shown to function as initial receptors in ABC transport of vitamin B12 (cobalamin) in eubacterial and some archaeal species. They belong to the TroA superfamily of helical backbone metal receptor...; Region: BtuF; cd01144 269482018298 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 269482018299 cobalamin binding residues [chemical binding]; other site 269482018300 putative BtuC binding residues; other site 269482018301 dimer interface [polypeptide binding]; other site 269482018302 Histidine phosphatase domain found in phosphoglycerate mutases and related proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP_PGM_like; cd07067 269482018303 catalytic core [active] 269482018304 cobalamin synthase; Reviewed; Region: cobS; PRK00235 269482018305 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 269482018306 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 269482018307 putative dimer interface [polypeptide binding]; other site 269482018308 active site pocket [active] 269482018309 putative cataytic base [active] 269482018310 hemin importer ATP-binding subunit; Provisional; Region: hmuV; PRK13548 269482018311 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 269482018312 Walker A/P-loop; other site 269482018313 ATP binding site [chemical binding]; other site 269482018314 Q-loop/lid; other site 269482018315 ABC transporter signature motif; other site 269482018316 Walker B; other site 269482018317 D-loop; other site 269482018318 H-loop/switch region; other site 269482018319 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 269482018320 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 269482018321 ABC-ATPase subunit interface; other site 269482018322 dimer interface [polypeptide binding]; other site 269482018323 putative PBP binding regions; other site 269482018324 UV radiation resistance protein and autophagy-related subunit 14; Region: Atg14; pfam10186 269482018325 Cell division protein ZapA; Region: ZapA; pfam05164 269482018326 Uncharacterized conserved protein [Function unknown]; Region: COG2947 269482018327 Protein of unknown function (DUF541); Region: SIMPL; cl01077 269482018328 Cytochrome c; Region: Cytochrom_C; cl11414 269482018329 Protein of unknown function (DUF2486); Region: DUF2486; pfam10667 269482018330 DNA polymerase III subunit chi; Validated; Region: PRK05728 269482018331 multifunctional aminopeptidase A; Provisional; Region: PRK00913 269482018332 Cytosol aminopeptidase family, N-terminal and catalytic domains. Family M17 contains zinc- and manganese-dependent exopeptidases ( EC 3.4.11.1), including leucine aminopeptidase. They catalyze removal of amino acids from the N-terminus of a protein and...; Region: Peptidase_M17; cd00433 269482018333 interface (dimer of trimers) [polypeptide binding]; other site 269482018334 Substrate-binding/catalytic site; other site 269482018335 Zn-binding sites [ion binding]; other site 269482018336 Predicted permeases [General function prediction only]; Region: COG0795 269482018337 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 269482018338 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 269482018339 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 269482018340 Sirohydrochlorin ferrochelatase [Inorganic ion transport and metabolism]; Region: COG2138 269482018341 Sirohydrochlorin cobalt chelatase (CbiX) and sirohydrochlorin iron chelatase (SirB), N-terminal domain. SirB catalyzes the ferro-chelation of sirohydrochlorin to siroheme, the prosthetic group of sulfite and nitrite reductases. CbiX is a cobaltochelatase; Region: CbiX_SirB_N; cd03416 269482018342 putative active site [active] 269482018343 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 269482018344 active site 269482018345 SAM binding site [chemical binding]; other site 269482018346 homodimer interface [polypeptide binding]; other site 269482018347 GTPases - Sulfate adenylate transferase subunit 1 [Inorganic ion transport and metabolism]; Region: CysN; COG2895 269482018348 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 269482018349 CysD dimerization site [polypeptide binding]; other site 269482018350 G1 box; other site 269482018351 putative GEF interaction site [polypeptide binding]; other site 269482018352 GTP/Mg2+ binding site [chemical binding]; other site 269482018353 Switch I region; other site 269482018354 G2 box; other site 269482018355 G3 box; other site 269482018356 Switch II region; other site 269482018357 G4 box; other site 269482018358 G5 box; other site 269482018359 CysN_NodQ_II: This subfamily represents the domain II of the large subunit of ATP sulfurylase (ATPS): CysN or the N-terminal portion of NodQ, found mainly in proteobacteria and homologous to the domain II of EF-Tu. Escherichia coli ATPS consists of CysN...; Region: CysN_NodQ_II; cd03695 269482018360 TCysN_NoDQ_II: This subfamily represents the domain II of the large subunit of ATP sulfurylase (ATPS): CysN or the N-terminal portion of NodQ, found mainly in proteobacteria and homologous to the domain II of EF-Tu. Escherichia coli ATPS consists of CysN...; Region: CysN_NoDQ_III; cd04095 269482018361 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 269482018362 This domain is found in phosphoadenosine phosphosulphate (PAPS) reductase enzymes or PAPS sulphotransferase. PAPS reductase is part of the adenine nucleotide alpha hydrolases superfamily also including N type ATP PPases and ATP sulphurylases. A highly...; Region: PAPS_reductase; cd01713 269482018363 Active Sites [active] 269482018364 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases, ATP sulphurylases Universal Stress Response protein and electron transfer flavoprotein (ETF). The domain forms a apha/beta/apha fold which binds to Adenosine nucleotide; Region: AANH_like; cl00292 269482018365 3'-phosphoadenosine 5'-phosphosulfate sulfotransferase (PAPS reductase)/FAD synthetase and related enzymes [Amino acid transport and metabolism / Coenzyme metabolism]; Region: CysH; COG0175 269482018366 This domain is found in phosphoadenosine phosphosulphate (PAPS) reductase enzymes or PAPS sulphotransferase. PAPS reductase is part of the adenine nucleotide alpha hydrolases superfamily also including N type ATP PPases and ATP sulphurylases. A highly...; Region: PAPS_reductase; cd01713 269482018367 Active Sites [active] 269482018368 Bacterial protein of unknown function (DUF934); Region: DUF934; pfam06073 269482018369 Sulfite reductase, beta subunit (hemoprotein) [Inorganic ion transport and metabolism]; Region: CysI; COG0155 269482018370 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 269482018371 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 269482018372 transcriptional regulator CysB-like protein; Reviewed; Region: PRK12684 269482018373 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 269482018374 The C-terminal substrate domain of LysR-type transcriptional regulators CysB-like contains type 2 periplasmic binding fold; Region: PBP2_CysB_like; cd08413 269482018375 substrate binding site [chemical binding]; other site 269482018376 dimerization interface [polypeptide binding]; other site 269482018377 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 269482018378 Type I periplasmic binding component of ABC (ATPase Binding Cassette)-type transport systems that are predicted to be involved in uptake of amino acids; Region: PBP1_ABC-type_HAAT_like; cd06333 269482018379 putative ligand binding site [chemical binding]; other site 269482018380 Transcriptional regulator [Transcription]; Region: LysR; COG0583 269482018381 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 269482018382 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 269482018383 putative effector binding pocket; other site 269482018384 dimerization interface [polypeptide binding]; other site 269482018385 short chain dehydrogenase; Provisional; Region: PRK12937 269482018386 tetrahydroxynaphthalene/trihydroxynaphthalene reductase-like, classical (c) SDRs; Region: THN_reductase-like_SDR_c; cd05362 269482018387 NADP binding site [chemical binding]; other site 269482018388 homodimer interface [polypeptide binding]; other site 269482018389 active site 269482018390 substrate binding site [chemical binding]; other site 269482018391 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 269482018392 NADP binding site [chemical binding]; other site 269482018393 active site 269482018394 steroid binding site; other site 269482018395 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cd00165 269482018396 RNA binding surface [nucleotide binding]; other site 269482018397 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 269482018398 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 269482018399 active site 269482018400 uracil binding [chemical binding]; other site 269482018401 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 269482018402 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269482018403 NAD(P) binding site [chemical binding]; other site 269482018404 active site 269482018405 CDP-6-deoxy-delta-3,4-glucoseen reductase; Validated; Region: PRK07609 269482018406 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 269482018407 catalytic loop [active] 269482018408 iron binding site [ion binding]; other site 269482018409 NAD(P)H dependent flavin oxidoreductases use flavin as a substrate in mediating electron transfer from iron complexes or iron proteins. Structurally similar to ferredoxin reductases, but with only 15% sequence identity, flavin reductases reduce FAD, FMN; Region: flavin_oxioreductase; cd06189 269482018410 FAD binding pocket [chemical binding]; other site 269482018411 FAD binding motif [chemical binding]; other site 269482018412 phosphate binding motif [ion binding]; other site 269482018413 beta-alpha-beta structure motif; other site 269482018414 NAD binding pocket [chemical binding]; other site 269482018415 acetylornithine transaminase protein; Provisional; Region: argD; PRK03715 269482018416 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 269482018417 inhibitor-cofactor binding pocket; inhibition site 269482018418 pyridoxal 5'-phosphate binding site [chemical binding]; other site 269482018419 catalytic residue [active] 269482018420 putative acetyltransferase; Provisional; Region: PRK03624 269482018421 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 269482018422 Coenzyme A binding pocket [chemical binding]; other site 269482018423 Uncharacterized conserved protein (DUF2278); Region: DUF2278; pfam10042 269482018424 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 269482018425 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 269482018426 Walker A/P-loop; other site 269482018427 ATP binding site [chemical binding]; other site 269482018428 Q-loop/lid; other site 269482018429 ABC transporter signature motif; other site 269482018430 Walker B; other site 269482018431 D-loop; other site 269482018432 H-loop/switch region; other site 269482018433 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 269482018434 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 269482018435 Walker A/P-loop; other site 269482018436 ATP binding site [chemical binding]; other site 269482018437 Q-loop/lid; other site 269482018438 ABC transporter signature motif; other site 269482018439 Walker B; other site 269482018440 D-loop; other site 269482018441 H-loop/switch region; other site 269482018442 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 269482018443 TM-ABC transporter signature motif; other site 269482018444 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 269482018445 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 269482018446 TM-ABC transporter signature motif; other site 269482018447 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 269482018448 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 269482018449 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 269482018450 FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]; Region: SlpA; COG1047 269482018451 hypothetical protein; Reviewed; Region: PRK00024 269482018452 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 269482018453 MPN+ (JAMM) motif; other site 269482018454 Zinc-binding site [ion binding]; other site 269482018455 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 269482018456 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 269482018457 L-aspartate oxidase; Provisional; Region: PRK09077 269482018458 L-aspartate oxidase; Provisional; Region: PRK06175 269482018459 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 269482018460 nicotinate-nucleotide pyrophosphorylase; Provisional; Region: PRK06978 269482018461 Quinolinate phosphoribosyl transferase (QAPRTase or QPRTase), also called nicotinate-nucleotide pyrophosphorylase, is involved in the de novo synthesis of NAD in both prokaryotes and eukaryotes. It catalyses the reaction of quinolinic acid (QA) with...; Region: QPRTase; cd01572 269482018462 dimerization interface [polypeptide binding]; other site 269482018463 active site 269482018464 quinolinate synthetase; Provisional; Region: PRK09375 269482018465 The Delta9 Fatty Acid Desaturase (Delta9-FADS)-like CD includes the delta-9 and delta-11 acyl CoA desaturases found in various eukaryotes including vertebrates, insects, higher plants, and fungi. The delta-9 acyl-lipid desaturases are found in a wide...; Region: Delta9-FADS-like; cd03505 269482018466 Fatty acid desaturase; Region: FA_desaturase; pfam00487 269482018467 Di-iron ligands [ion binding]; other site 269482018468 Transposase; Region: DDE_Tnp_ISL3; pfam01610 269482018469 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 269482018470 Mechanosensitive ion channel; Region: MS_channel; pfam00924 269482018471 16S rRNA methyltransferase B; Provisional; Region: PRK14901 269482018472 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 269482018473 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 269482018474 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 269482018475 active site 269482018476 substrate binding site [chemical binding]; other site 269482018477 cosubstrate binding site; other site 269482018478 catalytic site [active] 269482018479 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 269482018480 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 269482018481 active site 269482018482 Riboflavin kinase; Region: Flavokinase; smart00904 269482018483 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 269482018484 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 269482018485 active site 269482018486 HIGH motif; other site 269482018487 nucleotide binding site [chemical binding]; other site 269482018488 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 269482018489 active site 269482018490 KMSKS motif; other site 269482018491 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 269482018492 tRNA binding surface [nucleotide binding]; other site 269482018493 anticodon binding site; other site 269482018494 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 269482018495 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 269482018496 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 269482018497 Flavoprotein; Region: Flavoprotein; pfam02441 269482018498 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 269482018499 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 269482018500 trimer interface [polypeptide binding]; other site 269482018501 active site 269482018502 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 269482018503 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 269482018504 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 269482018505 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 269482018506 ATP-dependent Clp protease ATP-binding subunit clpA; Region: ClpA; TIGR02639 269482018507 Clp amino terminal domain; Region: Clp_N; pfam02861 269482018508 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 269482018509 Walker A motif; other site 269482018510 ATP binding site [chemical binding]; other site 269482018511 Walker B motif; other site 269482018512 arginine finger; other site 269482018513 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 269482018514 Walker A motif; other site 269482018515 ATP binding site [chemical binding]; other site 269482018516 Walker B motif; other site 269482018517 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 269482018518 Uncharacterized conserved protein [Function unknown]; Region: COG2127 269482018519 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box...; Region: CSP_CDS; cd04458 269482018520 DNA-binding site [nucleotide binding]; DNA binding site 269482018521 RNA-binding motif; other site 269482018522 Putative multicopper oxidases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: SufI; COG2132 269482018523 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 269482018524 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 269482018525 Monomeric isocitrate dehydrogenase [Energy production and conversion]; Region: Icd; COG2838 269482018526 Monomeric isocitrate dehydrogenase; Region: IDH; cl15383 269482018527 isocitrate dehydrogenase; Validated; Region: PRK07362 269482018528 isocitrate dehydrogenase; Reviewed; Region: PRK07006 269482018529 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 269482018530 pseudouridine synthase; Region: TIGR00093 269482018531 active site 269482018532 Uncharacterized ACR, COG1430; Region: DUF192; pfam02643 269482018533 elongation factor G; Reviewed; Region: PRK00007 269482018534 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 269482018535 G1 box; other site 269482018536 putative GEF interaction site [polypeptide binding]; other site 269482018537 GTP/Mg2+ binding site [chemical binding]; other site 269482018538 Switch I region; other site 269482018539 G2 box; other site 269482018540 G3 box; other site 269482018541 Switch II region; other site 269482018542 G4 box; other site 269482018543 G5 box; other site 269482018544 EFG_mtEFG_II: this subfamily represents the domain II of elongation factor G (EF-G) in bacteria and, the C-terminus of mitochondrial Elongation factor G1 (mtEFG1) and G2 (mtEFG2)_like proteins found in eukaryotes. During the process of peptide synthesis...; Region: EFG_mtEFG_II; cd04088 269482018545 EFG_mtEFG1_IV: domains similar to domain IV of the bacterial translational elongation factor (EF) EF-G. Included in this group is a domain of mitochondrial Elongation factor G1 (mtEFG1) proteins homologous to domain IV of EF-G. Eukaryotic cells harbor 2...; Region: EFG_mtEFG1_IV; cd01434 269482018546 EFG_mtEFG_C: domains similar to the C-terminal domain of the bacterial translational elongation factor (EF) EF-G. Included in this group is the C-terminus of mitochondrial Elongation factor G1 (mtEFG1) and G2 (mtEFG2) proteins. Eukaryotic cells harbor 2...; Region: EFG_mtEFG_C; cd03713 269482018547 High-affinity nickel-transport protein; Region: NicO; cl00964 269482018548 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 269482018549 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 269482018550 active site 269482018551 catalytic tetrad [active] 269482018552 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 269482018553 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 269482018554 DNA-binding site [nucleotide binding]; DNA binding site 269482018555 UTRA domain; Region: UTRA; pfam07702 269482018556 CoA-transferase family III; Region: CoA_transf_3; pfam02515 269482018557 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 269482018558 CoA-transferase family III; Region: CoA_transf_3; pfam02515 269482018559 MerR family regulatory protein; Region: MerR; pfam00376 269482018560 Citrate synthase (CS), citryl-CoA lyase (CCL), the C-terminal portion of the single-subunit type ATP-citrate lyase (ACL) and the C-terminal portion of the large subunit of the two-subunit type ACL. CS catalyzes the condensation of acetyl coenzyme A; Region: CS_ACL-C_CCL; cl00416 269482018561 Citrate synthase (CS) catalyzes the condensation of acetyl coenzyme A (AcCoA) and oxalacetate (OAA) to form citrate and coenzyme A (CoA), the first step in the oxidative citric acid cycle (TCA or Krebs cycle). Peroxisomal CS is involved in the glyoxylate...; Region: citrate_synt_like_2; cd06102 269482018562 dimer interface [polypeptide binding]; other site 269482018563 active site 269482018564 oxalacetate/citrate binding site [chemical binding]; other site 269482018565 citrylCoA binding site [chemical binding]; other site 269482018566 coenzyme A binding site [chemical binding]; other site 269482018567 catalytic triad [active] 269482018568 putative transporter; Provisional; Region: PRK10504 269482018569 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 269482018570 putative substrate translocation pore; other site 269482018571 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 269482018572 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 269482018573 Predicted membrane protein [Function unknown]; Region: COG4539 269482018574 global nitrogen regulator NtcA, cyanobacterial; Region: NtcA_cyano; TIGR03697 269482018575 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 269482018576 ligand binding site [chemical binding]; other site 269482018577 flexible hinge region; other site 269482018578 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cd00092 269482018579 putative switch regulator; other site 269482018580 non-specific DNA interactions [nucleotide binding]; other site 269482018581 DNA binding site [nucleotide binding] 269482018582 sequence specific DNA binding site [nucleotide binding]; other site 269482018583 putative cAMP binding site [chemical binding]; other site 269482018584 Chromate transport protein ChrA [Inorganic ion transport and metabolism]; Region: ChrA; COG2059 269482018585 Chromate transporter; Region: Chromate_transp; pfam02417 269482018586 PAAR motif; Region: PAAR_motif; pfam05488 269482018587 PGAP1-like protein; Region: PGAP1; pfam07819 269482018588 Transposase domain (DUF772); Region: DUF772; pfam05598 269482018589 Transposase and inactivated derivatives, IS5 family [DNA replication, recombination, and repair]; Region: COG3039 269482018590 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 269482018591 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 269482018592 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 269482018593 Integrase core domain; Region: rve; pfam00665 269482018594 Transposase; Region: DEDD_Tnp_IS110; pfam01548 269482018595 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 269482018596 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 269482018597 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 269482018598 Helix-turn-helix domain; Region: HTH_38; pfam13936 269482018599 Integrase core domain; Region: rve; pfam00665 269482018600 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 269482018601 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 269482018602 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 269482018603 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 269482018604 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 269482018605 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 269482018606 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 269482018607 Transposase; Region: HTH_Tnp_1; pfam01527 269482018608 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 269482018609 Transposase; Region: HTH_Tnp_1; pfam01527 269482018610 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 269482018611 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 269482018612 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 269482018613 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 269482018614 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 269482018615 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 269482018616 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 269482018617 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 269482018618 Plasmid pRiA4b ORF-3-like protein; Region: PRiA4_ORF3; pfam07929 269482018619 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 269482018620 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 269482018621 Walker A motif; other site 269482018622 ATP binding site [chemical binding]; other site 269482018623 Walker B motif; other site 269482018624 superoxide dismutase; Provisional; Region: PRK10543 269482018625 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 269482018626 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 269482018627 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 269482018628 ExoVII_LU_OBF: A subfamily of OB folds corresponding to the N-terminal OB-fold domain of Escherichia coli exodeoxyribonuclease VII (ExoVII) large subunit. E. coli ExoVII is composed of two non-identical subunits. E. coli ExoVII is a...; Region: ExoVII_LU_OBF; cd04489 269482018629 generic binding surface II; other site 269482018630 generic binding surface I; other site 269482018631 tetraacyldisaccharide 4'-kinase; Provisional; Region: PRK01906 269482018632 tetraacyldisaccharide 4'-kinase; Reviewed; Region: lpxK; PRK00652 269482018633 Uncharacterized conserved protein [Function unknown]; Region: COG2835 269482018634 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 269482018635 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 269482018636 Ligand binding site; other site 269482018637 oligomer interface; other site 269482018638 adenylate kinase; Reviewed; Region: adk; PRK00279 269482018639 Adenylate kinase (ADK) catalyzes the reversible phosphoryl transfer from adenosine triphosphates (ATP) to adenosine monophosphates (AMP) and to yield adenosine diphosphates (ADP). This enzyme is required for the biosynthesis of ADP and is essential for...; Region: ADK; cd01428 269482018640 AMP-binding site [chemical binding]; other site 269482018641 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 269482018642 Uncharacterized conserved protein [Function unknown]; Region: COG2912 269482018643 Transglutaminase-like superfamily; Region: Transglut_core2; pfam13369 269482018644 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 269482018645 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 269482018646 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 269482018647 Protein of unknown function (DUF3579); Region: DUF3579; pfam12112 269482018648 ornithine carbamoyltransferase; Provisional; Region: PRK00779 269482018649 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 269482018650 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 269482018651 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK00046 269482018652 FAD binding domain; Region: FAD_binding_4; pfam01565 269482018653 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 269482018654 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1666 269482018655 Proteins similar to Escherichia coli YajQ; Region: YajQ_like; cd11740 269482018656 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 269482018657 This CD includes cysteinyl-tRNA(Pro) deacylases from Haemophilus influenzae and Escherichia coli and other related bacterial proteins. These trans-acting, single-domain proteins are homologs of ProX and also the cis-acting prolyl-tRNA synthetase (ProRS)...; Region: YbaK_deacylase; cd00002 269482018658 putative deacylase active site [active] 269482018659 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07656 269482018660 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 269482018661 acyl-activating enzyme (AAE) consensus motif; other site 269482018662 AMP binding site [chemical binding]; other site 269482018663 active site 269482018664 CoA binding site [chemical binding]; other site 269482018665 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 269482018666 XerD and XerC integrases, DNA breaking-rejoining enzymes, N- and C-terminal domains. XerD-like integrases are involved in the site-specific integration and excision of lysogenic bacteriophage genomes, transposition of conjugative transposons, termination...; Region: INT_XerDC; cd00798 269482018667 active site 269482018668 Int/Topo IB signature motif; other site 269482018669 methylated-DNA--protein-cysteine methyltransferase; Provisional; Region: PRK00901 269482018670 The DNA repair protein O6-alkylguanine-DNA alkyltransferase (ATase; also known as AGT, AGAT and MGMT) reverses O6-alkylation DNA damage by transferring O6-alkyl adducts to an active site cysteine irreversibly, without inducing DNA strand breaks. ATases...; Region: ATase; cd06445 269482018671 DNA binding site [nucleotide binding] 269482018672 active site 269482018673 epoxyqueuosine reductase; Region: TIGR00276 269482018674 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 269482018675 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 269482018676 AMIN domain; Region: AMIN; pfam11741 269482018677 N-acetylmuramoyl-L-alanine amidase or MurNAc-LAA (also known as peptidoglycan aminohydrolase, NAMLA amidase, NAMLAA, Amidase 3, and peptidoglycan amidase; EC 3.5.1.28) is an autolysin that hydrolyzes the amide bond between N-acetylmuramoyl and L-amino...; Region: MurNAc-LAA; cd02696 269482018678 active site 269482018679 metal binding site [ion binding]; metal-binding site 269482018680 O-acetylserine/cysteine export protein; Provisional; Region: PRK11453 269482018681 EamA-like transporter family; Region: EamA; pfam00892 269482018682 Pirin-related protein [General function prediction only]; Region: COG1741 269482018683 Pirin; Region: Pirin; pfam02678 269482018684 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 269482018685 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]; Region: COG3118 269482018686 TRX family; composed of two groups: Group I, which includes proteins that exclusively encode a TRX domain; and Group II, which are composed of fusion proteins of TRX and additional domains. Group I TRX is a small ancient protein that alter the redox...; Region: TRX_family; cd02947 269482018687 catalytic residues [active] 269482018688 Insertion element 4 transposase N-terminal; Region: Nterm_IS4; pfam13006 269482018689 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 269482018690 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]; Region: COG1179 269482018691 Family of activating enzymes (E1) of ubiquitin-like proteins related to the E.coli hypothetical protein ygdL. The common reaction mechanism catalyzed by E1-like enzymes begins with a nucleophilic attack of the C-terminal carboxylate of the ubiquitin-like...; Region: YgdL_like; cd00755 269482018692 putative ATP binding site [chemical binding]; other site 269482018693 putative substrate interface [chemical binding]; other site 269482018694 pyridoxamine 5'-phosphate oxidase; Provisional; Region: PRK05679 269482018695 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 269482018696 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 269482018697 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 269482018698 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 269482018699 S-adenosylmethionine binding site [chemical binding]; other site 269482018700 Protein of unknown function DUF72; Region: DUF72; pfam01904 269482018701 methionine sulfoxide reductase A; Provisional; Region: PRK14054 269482018702 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 269482018703 active site 269482018704 Int/Topo IB signature motif; other site 269482018705 DNA binding site [nucleotide binding] 269482018706 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 269482018707 DNA methylase; Region: N6_N4_Mtase; pfam01555 269482018708 conjugative relaxase domain, TrwC/TraI family; Region: relax_trwC; TIGR02686 269482018709 TrwC relaxase; Region: TrwC; pfam08751 269482018710 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 269482018711 Walker A motif; other site 269482018712 ATP binding site [chemical binding]; other site 269482018713 Walker B motif; other site 269482018714 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 269482018715 Walker A/P-loop; other site 269482018716 ATP binding site [chemical binding]; other site 269482018717 Tfp pilus assembly protein, major pilin PilA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilA; COG4969 269482018718 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 269482018719 Pilin (bacterial filament); Region: Pilin; pfam00114 269482018720 conjugal transfer/type IV secretion protein DotA/TraY; Region: DotA_TraY; TIGR04346 269482018721 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 269482018722 active site 269482018723 Int/Topo IB signature motif; other site 269482018724 DNA binding site [nucleotide binding] 269482018725 Tfp pilus assembly protein, major pilin PilA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilA; COG4969 269482018726 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 269482018727 Pilin (bacterial filament); Region: Pilin; pfam00114 269482018728 Bacterial mobilisation protein (MobC); Region: MobC; pfam05713 269482018729 Predicted restriction endonuclease [Defense mechanisms]; Region: COG3183 269482018730 Bacteriophage replication gene A protein (GPA); Region: Phage_GPA; cl15276 269482018731 56kDa selenium binding protein (SBP56); Region: SBP56; pfam05694 269482018732 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 269482018733 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 269482018734 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 269482018735 putative DNA binding site [nucleotide binding]; other site 269482018736 putative Zn2+ binding site [ion binding]; other site 269482018737 AsnC family; Region: AsnC_trans_reg; pfam01037 269482018738 arylformamidase; Region: trp_arylform; TIGR03035 269482018739 Kynureninase [Amino acid transport and metabolism]; Region: COG3844 269482018740 kynureninase; Region: kynureninase; TIGR01814 269482018741 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 269482018742 catalytic residue [active] 269482018743 tryptophan 2,3-dioxygenase; Region: trp_2_3_diox; TIGR03036 269482018744 Mannitol-1-phosphate/altronate dehydrogenases [Carbohydrate transport and metabolism]; Region: MtlD; COG0246 269482018745 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 269482018746 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 269482018747 Escherichia coli xylulokinase-like D-xylulose kinases; a subgroup of the FGGY family of carbohydrate kinases; Region: FGGY_D-XK_EcXK-like; cd07808 269482018748 N- and C-terminal domain interface [polypeptide binding]; other site 269482018749 D-xylulose kinase; Region: XylB; TIGR01312 269482018750 active site 269482018751 MgATP binding site [chemical binding]; other site 269482018752 catalytic site [active] 269482018753 metal binding site [ion binding]; metal-binding site 269482018754 xylulose binding site [chemical binding]; other site 269482018755 homodimer interface [polypeptide binding]; other site 269482018756 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 269482018757 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 269482018758 maltose/maltodextrin transporter ATP-binding protein; Provisional; Region: PRK11000 269482018759 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 269482018760 Walker A/P-loop; other site 269482018761 ATP binding site [chemical binding]; other site 269482018762 Q-loop/lid; other site 269482018763 ABC transporter signature motif; other site 269482018764 Walker B; other site 269482018765 D-loop; other site 269482018766 H-loop/switch region; other site 269482018767 TOBE domain; Region: TOBE; pfam03459 269482018768 TOBE domain; Region: TOBE_2; pfam08402 269482018769 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 269482018770 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 269482018771 motif II; other site 269482018772 HAD-hyrolase-like; Region: Hydrolase_like; pfam13242 269482018773 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 269482018774 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 269482018775 dimer interface [polypeptide binding]; other site 269482018776 conserved gate region; other site 269482018777 putative PBP binding loops; other site 269482018778 ABC-ATPase subunit interface; other site 269482018779 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 269482018780 dimer interface [polypeptide binding]; other site 269482018781 conserved gate region; other site 269482018782 putative PBP binding loops; other site 269482018783 ABC-ATPase subunit interface; other site 269482018784 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 269482018785 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 269482018786 Tagatose 6 phosphate kinase; Region: Tagatose_6_P_K; pfam08013 269482018787 2-keto-3-deoxygluconate kinase (KdgK) phosphorylates 2-keto-3-deoxygluconate (KDG) to form 2-keto-3-deoxy-6-phosphogluconate (KDGP). KDG is the common intermediate product, that allows organisms to channel D-glucuronate and/or D-galacturinate into the...; Region: KdgK; cd01166 269482018788 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 269482018789 substrate binding site [chemical binding]; other site 269482018790 ATP binding site [chemical binding]; other site 269482018791 sorbitol dehydrogenase; Provisional; Region: PRK07067 269482018792 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269482018793 NAD(P) binding site [chemical binding]; other site 269482018794 active site 269482018795 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 269482018796 metal binding site 2 [ion binding]; metal-binding site 269482018797 putative DNA binding helix; other site 269482018798 metal binding site 1 [ion binding]; metal-binding site 269482018799 dimer interface [polypeptide binding]; other site 269482018800 structural Zn2+ binding site [ion binding]; other site 269482018801 Metal binding protein TroA_b. These proteins are predicted to function as initial receptors in ABC transport of metal ions. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a distinct fold and ligand binding...; Region: TroA_b; cd01020 269482018802 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 269482018803 metal binding site [ion binding]; metal-binding site 269482018804 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 269482018805 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 269482018806 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 269482018807 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cl00462 269482018808 ABC-ATPase subunit interface; other site 269482018809 dimer interface [polypeptide binding]; other site 269482018810 S-formylglutathione hydrolase; Region: PLN02442 269482018811 S-formylglutathione hydrolase; Region: fghA_ester_D; TIGR02821 269482018812 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 269482018813 nucleotide binding site [chemical binding]; other site 269482018814 xanthine permease; Region: pbuX; TIGR03173 269482018815 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 269482018816 Myo-inositol-1-phosphate synthase; Region: NAD_binding_5; cl00554 269482018817 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 269482018818 Protein export membrane protein; Region: SecD_SecF; cl14618 269482018819 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 269482018820 periplasmic multidrug efflux lipoprotein precursor; Reviewed; Region: PRK09578 269482018821 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 269482018822 HlyD family secretion protein; Region: HlyD_3; pfam13437 269482018823 DNA-binding transcriptional repressor AcrR; Provisional; Region: PRK10668 269482018824 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 269482018825 MAATS-type transcriptional repressor, C-terminal region; Region: TetR_C_2; pfam08361 269482018826 Isochorismatase family; Region: Isochorismatase; pfam00857 269482018827 Nicotinamidase_ related amidohydrolases. Cysteine hydrolases of unknown function that share the catalytic triad with other amidohydrolases, like nicotinamidase, which converts nicotinamide to nicotinic acid and ammonia; Region: nicotinamidase_related; cd01014 269482018828 catalytic triad [active] 269482018829 conserved cis-peptide bond; other site 269482018830 transcriptional activator FtrA; Provisional; Region: ftrA; PRK09393 269482018831 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 269482018832 conserved cys residue [active] 269482018833 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 269482018834 tyrosine kinase; Provisional; Region: PRK11519 269482018835 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 269482018836 hydrophobic ligand binding site; other site 269482018837 Domain of unknown function (DUF427); Region: DUF427; pfam04248 269482018838 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 269482018839 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 269482018840 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 269482018841 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 269482018842 protein binding site [polypeptide binding]; other site 269482018843 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 269482018844 protein binding site [polypeptide binding]; other site 269482018845 sensor protein QseC; Provisional; Region: PRK10337 269482018846 His Kinase A (phospho-acceptor) domain; Region: HisKA; pfam00512 269482018847 dimer interface [polypeptide binding]; other site 269482018848 phosphorylation site [posttranslational modification] 269482018849 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 269482018850 ATP binding site [chemical binding]; other site 269482018851 Mg2+ binding site [ion binding]; other site 269482018852 G-X-G motif; other site 269482018853 DNA-binding transcriptional regulator BasR; Provisional; Region: PRK10643 269482018854 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 269482018855 active site 269482018856 phosphorylation site [posttranslational modification] 269482018857 intermolecular recognition site; other site 269482018858 dimerization interface [polypeptide binding]; other site 269482018859 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 269482018860 DNA binding site [nucleotide binding] 269482018861 D-alanyl-D-alanine carboxypeptidase (penicillin-binding protein 4) [Cell envelope biogenesis, outer membrane]; Region: DacB; COG2027 269482018862 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 269482018863 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 269482018864 Triacylglycerol lipase-like subfamily of the SGNH hydrolases, a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its...; Region: Triacylglycerol_lipase_like; cd01847 269482018865 active site 269482018866 catalytic triad [active] 269482018867 oxyanion hole [active] 269482018868 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 269482018869 Putative GTP-binding controlling metal-binding; Region: SUA5; pfam03481 269482018870 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 269482018871 ATP-grasp domain; Region: ATP-grasp; pfam02222 269482018872 AIR carboxylase; Region: AIRC; cl00310 269482018873 non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_Sc; cd01414 269482018874 ATP binding site [chemical binding]; other site 269482018875 active site 269482018876 substrate binding site [chemical binding]; other site 269482018877 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 269482018878 Tagatose-1,6-bisphosphate (TBP) aldolase and related Type B Class II aldolases. TBP aldolase is a tetrameric class II aldolase that catalyzes the reversible condensation of dihydroxyacetone phosphate with glyceraldehyde 3-phsophate to produce tagatose 1; Region: TBP_aldolase_IIB; cd00947 269482018879 intersubunit interface [polypeptide binding]; other site 269482018880 active site 269482018881 zinc binding site [ion binding]; other site 269482018882 Na+ binding site [ion binding]; other site 269482018883 pyruvate kinase; Provisional; Region: PRK05826 269482018884 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl17342 269482018885 domain interfaces; other site 269482018886 active site 269482018887 Phosphoglycerate kinase (PGK) is a monomeric enzyme which catalyzes the transfer of the high-energy phosphate group of 1,3-bisphosphoglycerate to ADP, forming ATP and 3-phosphoglycerate. This reaction represents the first of the two substrate-level...; Region: Phosphoglycerate_kinase; cd00318 269482018888 Phosphoglycerate kinase; Region: PGK; pfam00162 269482018889 substrate binding site [chemical binding]; other site 269482018890 hinge regions; other site 269482018891 ADP binding site [chemical binding]; other site 269482018892 catalytic site [active] 269482018893 Branched-chain amino acid transport protein (AzlD); Region: AzlD; pfam05437 269482018894 AzlC protein; Region: AzlC; cl00570 269482018895 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 269482018896 BCAT_beta_family: Branched-chain aminotransferase catalyses the transamination of the branched-chain amino acids leusine, isoleucine and valine to their respective alpha-keto acids, alpha-ketoisocaproate, alpha-keto-beta-methylvalerate and...; Region: BCAT_beta_family; cd01557 269482018897 homodimer interface [polypeptide binding]; other site 269482018898 substrate-cofactor binding pocket; other site 269482018899 catalytic residue [active] 269482018900 Zinc-finger domain; Region: zf-CHCC; cl01821 269482018901 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 269482018902 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 269482018903 putative active site [active] 269482018904 Calcium/calmodulin dependent protein kinase II Association; Region: CaMKII_AD; cl17504 269482018905 SnoaL-like domain; Region: SnoaL_3; pfam13474 269482018906 Predicted hydrolase of the alpha/beta-hydrolase fold [General function prediction only]; Region: COG0429 269482018907 Protein of unknown function (DUF2946); Region: DUF2944; pfam11161 269482018908 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]; Region: COG4783 269482018909 Peptidase family M48; Region: Peptidase_M48; pfam01435 269482018910 MoaC family, prokaryotic and eukaryotic. Members of this family are involved in molybdenum cofactor (Moco) biosynthesis, an essential cofactor of a diverse group of redox enzymes. MoaC, a small hexameric protein, converts, together with MoaA, a guanosine...; Region: MoaC_PE; cd01420 269482018911 trimer interface [polypeptide binding]; other site 269482018912 dimer interface [polypeptide binding]; other site 269482018913 putative active site [active] 269482018914 Uncharacterized protein related to plant photosystem II stability/assembly factor [General function prediction only]; Region: COG4447 269482018915 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 269482018916 O-Antigen ligase; Region: Wzy_C; pfam04932 269482018917 Domain of unknown function (DUF3366); Region: DUF3366; pfam11846 269482018918 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 269482018919 Tfp pilus assembly protein, major pilin PilA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilA; COG4969 269482018920 integral membrane protein, YjbE family; Region: R_switched_YjbE; TIGR03717 269482018921 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 269482018922 CoA binding domain; Region: CoA_binding; smart00881 269482018923 CoA-ligase; Region: Ligase_CoA; pfam00549 269482018924 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 269482018925 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 269482018926 CoA-ligase; Region: Ligase_CoA; pfam00549 269482018927 Protein of unknown function (DUF2889); Region: DUF2889; pfam11136 269482018928 recombination regulator RecX; Provisional; Region: recX; PRK14136 269482018929 RecA/RadA recombinase [DNA replication, recombination, and repair]; Region: RecA; COG0468 269482018930 RecA is a bacterial enzyme which has roles in homologous recombination, DNA repair, and the induction of the SOS response. RecA couples ATP hydrolysis to DNA strand exchange; Region: recA; cd00983 269482018931 hexamer interface [polypeptide binding]; other site 269482018932 Walker A motif; other site 269482018933 ATP binding site [chemical binding]; other site 269482018934 Walker B motif; other site 269482018935 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 269482018936 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 269482018937 active site 269482018938 phosphorylation site [posttranslational modification] 269482018939 intermolecular recognition site; other site 269482018940 dimerization interface [polypeptide binding]; other site 269482018941 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 269482018942 DNA binding site [nucleotide binding] 269482018943 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 269482018944 HAMP domain; Region: HAMP; pfam00672 269482018945 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 269482018946 dimer interface [polypeptide binding]; other site 269482018947 phosphorylation site [posttranslational modification] 269482018948 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 269482018949 ATP binding site [chemical binding]; other site 269482018950 Mg2+ binding site [ion binding]; other site 269482018951 G-X-G motif; other site 269482018952 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 269482018953 putative substrate translocation pore; other site 269482018954 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 269482018955 INT_SG2, DNA breaking-rejoining enzymes, integrase/recombinases subgroup 2, C-terminal catalytic domain. The CD contains mainly predicted integrase/recombinases and phage-related integrases. Some have N-terminal domains, which show little sequence...; Region: INT_SG2_C; cd01184 269482018956 Int/Topo IB signature motif; other site 269482018957 Plasmid recombination enzyme; Region: Mob_Pre; pfam01076 269482018958 Transcriptional regulator [Transcription]; Region: LysR; COG0583 269482018959 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 269482018960 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_3; cd08472 269482018961 putative effector binding pocket; other site 269482018962 putative dimerization interface [polypeptide binding]; other site 269482018963 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 269482018964 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 269482018965 conserved cys residue [active] 269482018966 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 269482018967 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 269482018968 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_2; cd03139 269482018969 conserved cys residue [active] 269482018970 Cupin domain; Region: Cupin_2; cl17218 269482018971 MAPEG family; Region: MAPEG; pfam01124 269482018972 Membrane carboxypeptidase (penicillin-binding protein) [Cell envelope biogenesis, outer membrane]; Region: MrcB; COG0744 269482018973 Transglycosylase; Region: Transgly; pfam00912 269482018974 Uncharacterized conserved protein [Function unknown]; Region: COG3791 269482018975 Transcriptional regulators [Transcription]; Region: FadR; COG2186 269482018976 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 269482018977 DNA-binding site [nucleotide binding]; DNA binding site 269482018978 FCD domain; Region: FCD; pfam07729 269482018979 galactonate dehydratase; Provisional; Region: PRK14017 269482018980 D-galactonate dehydratase catalyses the dehydration of galactonate to 2-keto-3-deoxygalactnate (KDGal), as part of the D-galactonate nonphosphorolytic catabolic Entner-Doudoroff pathway. D-galactonate dehydratase belongs to the enolase superfamily of...; Region: D-galactonate_dehydratase; cd03325 269482018981 putative active site pocket [active] 269482018982 putative metal binding site [ion binding]; other site 269482018983 Copper resistance protein D; Region: CopD; pfam05425 269482018984 Cytochrome c; Region: Cytochrom_C; cl11414 269482018985 Cytochrome c; Region: Cytochrom_C; cl11414 269482018986 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 269482018987 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 269482018988 Cytochrome c; Region: Cytochrom_C; pfam00034 269482018989 helicase 45; Provisional; Region: PTZ00424 269482018990 DEAD-box helicases. A diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif; Region: DEADc; cd00268 269482018991 ATP binding site [chemical binding]; other site 269482018992 Mg++ binding site [ion binding]; other site 269482018993 motif III; other site 269482018994 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 269482018995 nucleotide binding region [chemical binding]; other site 269482018996 ATP-binding site [chemical binding]; other site 269482018997 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 269482018998 dinuclear metal binding motif [ion binding]; other site 269482018999 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 269482019000 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 269482019001 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 269482019002 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 269482019003 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 269482019004 glycerol-3-phosphate dehydrogenase; Reviewed; Region: glpD; PRK12266 269482019005 glycerol kinase; Provisional; Region: glpK; PRK00047 269482019006 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 269482019007 N- and C-terminal domain interface [polypeptide binding]; other site 269482019008 active site 269482019009 MgATP binding site [chemical binding]; other site 269482019010 catalytic site [active] 269482019011 metal binding site [ion binding]; metal-binding site 269482019012 glycerol binding site [chemical binding]; other site 269482019013 homotetramer interface [polypeptide binding]; other site 269482019014 homodimer interface [polypeptide binding]; other site 269482019015 FBP binding site [chemical binding]; other site 269482019016 protein IIAGlc interface [polypeptide binding]; other site 269482019017 Glycerol uptake facilitator and related permeases (Major Intrinsic Protein Family) [Carbohydrate transport and metabolism]; Region: GlpF; COG0580 269482019018 amphipathic channel; other site 269482019019 Asn-Pro-Ala signature motifs; other site 269482019020 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 269482019021 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 269482019022 3,4-dihydroxy-2-butanone 4-phosphate synthase [Coenzyme metabolism]; Region: RibB; COG0108 269482019023 3,4-dihydroxy-2-butanone 4-phosphate synthase; Provisional; Region: ribB; PRK03353 269482019024 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 269482019025 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 269482019026 non-specific DNA binding site [nucleotide binding]; other site 269482019027 salt bridge; other site 269482019028 sequence-specific DNA binding site [nucleotide binding]; other site 269482019029 Cupin domain; Region: Cupin_2; pfam07883 269482019030 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 269482019031 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 269482019032 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 269482019033 FeS/SAM binding site; other site 269482019034 TRAM domain; Region: TRAM; pfam01938 269482019035 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 269482019036 PhoH-like protein; Region: PhoH; pfam02562 269482019037 unkown domain/putative metalloprotease fusion protein; Provisional; Region: PRK13963 269482019038 GGCT-like domains, also called AIG2-like family. Gamma-glutamyl cyclotransferase (GGCT) catalyzes the formation of pyroglutamic acid (5-oxoproline) from dipeptides containing gamma-glutamyl, and is a dimeric protein. In Homo sapiens, the protein is...; Region: GGCT_like; cd06661 269482019039 putative active site pocket [active] 269482019040 dimerization interface [polypeptide binding]; other site 269482019041 putative catalytic residue [active] 269482019042 Putative Mg2+ and Co2+ transporter CorC [Inorganic ion transport and metabolism]; Region: CorC; COG4535 269482019043 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the CorC_HlyC domain. CorC_HlyC is a transporter associated domain. This small domain is found in Na+/H+ antiporters, in proteins involved in...; Region: CBS_pair_CorC_HlyC_assoc; cd04590 269482019044 Transporter associated domain; Region: CorC_HlyC; smart01091 269482019045 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 269482019046 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 269482019047 putative active site [active] 269482019048 catalytic triad [active] 269482019049 putative dimer interface [polypeptide binding]; other site 269482019050 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 269482019051 binding surface 269482019052 TPR repeat; Region: TPR_11; pfam13414 269482019053 TPR motif; other site 269482019054 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 269482019055 binding surface 269482019056 TPR repeat; Region: TPR_11; pfam13414 269482019057 Class II Glycyl-tRNA synthetase (GlyRS) alpha subunit core catalytic domain. GlyRS functions as a homodimer in eukaryotes, archaea and some bacteria and as a heterotetramer in the remainder of prokaryotes and in arabidopsis. It is responsible for the...; Region: GlyRS_alpha_core; cd00733 269482019058 dimer interface [polypeptide binding]; other site 269482019059 motif 1; other site 269482019060 active site 269482019061 motif 2; other site 269482019062 motif 3; other site 269482019063 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 269482019064 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 269482019065 D,D-heptose 1,7-bisphosphate phosphatase; Validated; Region: PRK08942 269482019066 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cd01427 269482019067 active site 269482019068 motif I; other site 269482019069 motif II; other site 269482019070 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 269482019071 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 269482019072 putative acyl-acceptor binding pocket; other site 269482019073 Protein of unknown function DUF45; Region: DUF45; pfam01863 269482019074 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 269482019075 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 269482019076 dimer interface [polypeptide binding]; other site 269482019077 active site 269482019078 metal binding site [ion binding]; metal-binding site 269482019079 glutathione binding site [chemical binding]; other site 269482019080 EamA-like transporter family; Region: EamA; pfam00892 269482019081 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 269482019082 Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]; Region: KsgA; COG0030 269482019083 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK01909 269482019084 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 269482019085 peptidyl-prolyl cis-trans isomerase SurA; Provisional; Region: PRK10770 269482019086 SurA N-terminal domain; Region: SurA_N; pfam09312 269482019087 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 269482019088 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 269482019089 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 269482019090 Organic solvent tolerance protein; Region: OstA_C; pfam04453 269482019091 Predicted phosphotransferase related to Ser/Thr protein kinases [General function prediction only]; Region: COG3178 269482019092 Phosphotransferase enzyme family; Region: APH; pfam01636 269482019093 Nucleoside-diphosphate-sugar pyrophosphorylase involved in lipopolysaccharide biosynthesis/translation initiation factor 2B, gamma/epsilon subunits (eIF-2Bgamma/eIF-2Bepsilon) [Cell envelope biogenesis, outer membrane / Translation, ribosomal structure...; Region: GCD1; COG1208 269482019094 NTP_transferase_like_1 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_1; cd06422 269482019095 Substrate binding site; other site 269482019096 metal-binding site 269482019097 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 269482019098 ABC-type transport system involved in Fe-S cluster assembly, permease and ATPase components [Posttranslational modification, protein turnover, chaperones]; Region: ATM1; COG5265 269482019099 ATP-binding cassette domain of iron-sulfur clusters transporter, subfamily C; Region: ABCC_ATM1_transporter; cd03253 269482019100 Walker A/P-loop; other site 269482019101 ATP binding site [chemical binding]; other site 269482019102 Q-loop/lid; other site 269482019103 ABC transporter signature motif; other site 269482019104 Walker B; other site 269482019105 D-loop; other site 269482019106 H-loop/switch region; other site 269482019107 Brown fat-inducible thioesterase (BFIT). Brain acyl-CoA hydrolase (BACH). These enzymes deacylate long-chain fatty acids by hydrolyzing acyl-CoA thioesters to free fatty acids and CoA-SH. Eukaryotic members of this family are expressed in brain, testis; Region: BFIT_BACH; cd03442 269482019108 Conserved nitrate reductase-associated protein (Nitr_red_assoc); Region: Nitr_red_assoc; pfam09655 269482019109 formate dehydrogenase accessory protein; Reviewed; Region: PRK00724 269482019110 The Delta12 Fatty Acid Desaturase (Delta12-FADS)-like CD includes the integral-membrane enzymes, delta-12 acyl-lipid desaturases, oleate 12-hydroxylases, omega3 and omega6 fatty acid desaturases, and other related proteins, found in a wide range of...; Region: Delta12-FADS-like; cd03507 269482019111 Fatty acid desaturase; Region: FA_desaturase; pfam00487 269482019112 putative di-iron ligands [ion binding]; other site 269482019113 cytochrome o ubiquinol oxidase subunit IV; Region: CyoD; TIGR02847 269482019114 Ubiquinol oxidase subunit III subfamily. Ubiquinol oxidase, the terminal oxidase in the respiratory chains of aerobic bacteria, is a multi-chain transmembrane protein located in the cell membrane. It catalyzes the reduction of O2 and simultaneously...; Region: Ubiquinol_oxidase_III; cd02863 269482019115 Subunit I/III interface [polypeptide binding]; other site 269482019116 Subunit III/IV interface [polypeptide binding]; other site 269482019117 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 269482019118 Ubiquinol oxidase subunit I. Ubiquinol oxidase, the terminal oxidase in the respiratory chains of aerobic bacteria, is a multi-chain transmembrane protein located in the cell membrane. It catalyzes the reduction of O2 and simultaneously pumps protons...; Region: Ubiquinol_Oxidase_I; cd01662 269482019119 D-pathway; other site 269482019120 Putative ubiquinol binding site [chemical binding]; other site 269482019121 Low-spin heme (heme b) binding site [chemical binding]; other site 269482019122 Putative water exit pathway; other site 269482019123 Binuclear center (heme o3/CuB) [ion binding]; other site 269482019124 K-pathway; other site 269482019125 Putative proton exit pathway; other site 269482019126 cytochrome o ubiquinol oxidase subunit II; Region: CyoA; TIGR01433 269482019127 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 269482019128 COX Aromatic Rich Motif; Region: COX_ARM; pfam06481 269482019129 enoyl-CoA hydratase; Provisional; Region: PRK06688 269482019130 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 269482019131 substrate binding site [chemical binding]; other site 269482019132 oxyanion hole (OAH) forming residues; other site 269482019133 trimer interface [polypeptide binding]; other site 269482019134 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cl15762 269482019135 acetyl-CoA acetyltransferase; Provisional; Region: PRK09052 269482019136 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 269482019137 dimer interface [polypeptide binding]; other site 269482019138 active site 269482019139 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism]; Region: FadB; COG1250 269482019140 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 269482019141 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 269482019142 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 269482019143 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 269482019144 substrate binding site [chemical binding]; other site 269482019145 oxyanion hole (OAH) forming residues; other site 269482019146 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 269482019147 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 269482019148 Putative acyl-CoA dehydrogenases similar to fadE5; Region: ACAD_fadE5; cd01153 269482019149 FAD binding site [chemical binding]; other site 269482019150 substrate binding site [chemical binding]; other site 269482019151 catalytic residues [active] 269482019152 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 269482019153 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 269482019154 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 269482019155 Phosphatidylserine/phosphatidylglycerophosphate/car diolipin synthases and related enzymes [Lipid metabolism]; Region: Cls; COG1502 269482019156 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 269482019157 putative active site [active] 269482019158 catalytic site [active] 269482019159 Catalytic domain, repeat 2, of Escherichia coli cardiolipin synthase ybhO and similar proteins; Region: PLDc_ybhO_like_2; cd09159 269482019160 putative active site [active] 269482019161 catalytic site [active] 269482019162 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_7; cd04664 269482019163 nudix motif; other site 269482019164 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 269482019165 EcAspRS_like_N: N-terminal, anticodon recognition domain of the type found in Escherichia coli aspartyl-tRNA synthetase (AspRS), the human mitochondrial (mt) AspRS-2, the discriminating (D) Thermus thermophilus AspRS-1, and the nondiscriminating (ND)...; Region: EcAspRS_like_N; cd04317 269482019166 dimer interface [polypeptide binding]; other site 269482019167 anticodon binding site; other site 269482019168 Asp tRNA synthetase (aspRS) class II core domain. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs. AspRS is a homodimer, which attaches a specific amino acid to the 3' OH group of ribose of...; Region: AspRS_core; cd00777 269482019169 homodimer interface [polypeptide binding]; other site 269482019170 motif 1; other site 269482019171 active site 269482019172 motif 2; other site 269482019173 GAD domain; Region: GAD; pfam02938 269482019174 Asp tRNA synthetase (aspRS) class II core domain. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs. AspRS is a homodimer, which attaches a specific amino acid to the 3' OH group of ribose of...; Region: AspRS_core; cd00777 269482019175 motif 3; other site 269482019176 Uncharacterized conserved protein [Function unknown]; Region: COG2928 269482019177 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; cl00993 269482019178 Thiopurine S-methyltransferase (TPMT); Region: TPMT; pfam05724 269482019179 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 269482019180 putative ubiquinone biosynthesis protein UbiB; Reviewed; Region: ubiB; PRK04750 269482019181 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 269482019182 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3165 269482019183 SCP-2 sterol transfer family; Region: SCP2; pfam02036 269482019184 Tim44-like domain; Region: Tim44; pfam04280 269482019185 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 269482019186 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 269482019187 S-adenosylmethionine binding site [chemical binding]; other site 269482019188 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3536 269482019189 Diadenosine tetraphosphate (Ap4A) hydrolase and other HIT family hydrolases [Nucleotide transport and metabolism / Carbohydrate transport and metabolism / General function prediction only]; Region: Hit; COG0537 269482019190 nucleotide binding site/active site [active] 269482019191 HIT family signature motif; other site 269482019192 catalytic residue [active] 269482019193 Protein of unknown function (DUF3683); Region: DUF3683; pfam12447 269482019194 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 269482019195 FAD binding domain; Region: FAD_binding_4; pfam01565 269482019196 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 269482019197 4Fe-4S dicluster domain; Region: Fer4_8; pfam13183 269482019198 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 269482019199 Cysteine-rich domain; Region: CCG; pfam02754 269482019200 Domain of unknown function (DUF3400); Region: DUF3400; pfam11880 269482019201 threonine dehydratase; Reviewed; Region: PRK09224 269482019202 Threonine dehydratase: The first step in amino acid degradation is the removal of nitrogen. Although the nitrogen atoms of most amino acids are transferred to alpha-ketoglutarate before removal, the alpha-amino group of threonine can be directly...; Region: Thr-dehyd; cd01562 269482019203 tetramer interface [polypeptide binding]; other site 269482019204 pyridoxal 5'-phosphate binding site [chemical binding]; other site 269482019205 catalytic residue [active] 269482019206 First of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_1; cd04906 269482019207 putative Ile/Val binding site [chemical binding]; other site 269482019208 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 269482019209 putative Ile/Val binding site [chemical binding]; other site 269482019210 7-cyano-7-deazaguanine reductase; Provisional; Region: queF; PRK11792 269482019211 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2904 269482019212 Enzyme related to GTP cyclohydrolase I [General function prediction only]; Region: COG0780 269482019213 YjgF, YER057c, and UK114 belong to a large family of proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no...; Region: YjgF_YER057c_UK114_family; cd00448 269482019214 homotrimer interaction site [polypeptide binding]; other site 269482019215 putative active site [active] 269482019216 N-acyl-D-aspartate/D-glutamate deacylase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3653 269482019217 D-aminoacylases (N-acyl-D-Amino acid amidohydrolases) catalyze the hydrolysis of N-acyl-D-amino acids to produce the corresponding D-amino acids, which are used as intermediates in the synthesis of pesticides, bioactive peptides, and antibiotics; Region: D-aminoacylase; cd01297 269482019218 active site 269482019219 putative substrate binding pocket [chemical binding]; other site 269482019220 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 269482019221 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 269482019222 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 269482019223 putative active site [active] 269482019224 Predicted amino acid aldolase or racemase [Amino acid transport and metabolism]; Region: COG3616 269482019225 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Bacterial Cryptic D-Serine Dehydratase; Region: PLPDE_III_cryptic_DSD; cd06818 269482019226 dimer interface [polypeptide binding]; other site 269482019227 active site 269482019228 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 269482019229 substrate binding site [chemical binding]; other site 269482019230 catalytic residue [active] 269482019231 intracellular protease, PfpI family; Region: PfpI; TIGR01382 269482019232 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_1; cd03169 269482019233 conserved cys residue [active] 269482019234 Transcriptional regulators [Transcription]; Region: MarR; COG1846 269482019235 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 269482019236 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 269482019237 Major Facilitator Superfamily; Region: MFS_1; pfam07690 269482019238 putative substrate translocation pore; other site 269482019239 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 269482019240 EcsC protein family; Region: EcsC; pfam12787 269482019241 CHRD domain; Region: CHRD; pfam07452 269482019242 aldolase II superfamily protein; Provisional; Region: PRK07044 269482019243 intersubunit interface [polypeptide binding]; other site 269482019244 active site 269482019245 Zn2+ binding site [ion binding]; other site 269482019246 Phosphatidylserine/phosphatidylglycerophosphate/car diolipin synthases and related enzymes [Lipid metabolism]; Region: Cls; COG1502 269482019247 Putative catalytic domain, repeat 1, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_1; cd09111 269482019248 putative active site [active] 269482019249 catalytic site [active] 269482019250 Putative catalytic domain, repeat 2, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_2; cd09113 269482019251 putative active site [active] 269482019252 catalytic site [active] 269482019253 Transcriptional regulators [Transcription]; Region: FadR; COG2186 269482019254 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 269482019255 DNA-binding site [nucleotide binding]; DNA binding site 269482019256 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 269482019257 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 269482019258 Cysteine-rich domain; Region: CCG; pfam02754 269482019259 Cysteine-rich domain; Region: CCG; pfam02754 269482019260 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 269482019261 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]; Region: COG1139 269482019262 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 269482019263 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 269482019264 Domain of unknown function (DUF3390); Region: DUF3390; pfam11870 269482019265 L-lactate permease; Region: Lactate_perm; cl00701 269482019266 glycolate transporter; Provisional; Region: PRK09695 269482019267 Zn-dependent protease with chaperone function [Posttranslational modification, protein turnover, chaperones]; Region: HtpX; COG0501 269482019268 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 269482019269 Ligand binding site; other site 269482019270 Putative Catalytic site; other site 269482019271 DXD motif; other site 269482019272 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 269482019273 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269482019274 NAD(P) binding site [chemical binding]; other site 269482019275 active site 269482019276 acyl carrier protein; Provisional; Region: PRK09184 269482019277 Predicted membrane protein [Function unknown]; Region: COG4648 269482019278 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 269482019279 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 269482019280 acyl-activating enzyme (AAE) consensus motif; other site 269482019281 AMP binding site [chemical binding]; other site 269482019282 active site 269482019283 CoA binding site [chemical binding]; other site 269482019284 FabA/Z, beta-hydroxyacyl-acyl carrier protein (ACP)-dehydratases: One of several distinct enzyme types of the dissociative, type II, fatty acid synthase system (found in bacteria and plants) required to complete successive cycles of fatty acid elongation; Region: FabA_FabZ; cd00493 269482019285 active site 2 [active] 269482019286 dimer interface [polypeptide binding]; other site 269482019287 active site 1 [active] 269482019288 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cl17185 269482019289 putative acyl-acceptor binding pocket; other site 269482019290 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl17548 269482019291 Predicted exporter [General function prediction only]; Region: COG4258 269482019292 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 269482019293 Catalytic NodB homology domain of rhizobial NodB-like proteins; Region: CE4_NodB_like_6s_7s; cd10917 269482019294 NodB motif; other site 269482019295 active site 269482019296 catalytic site [active] 269482019297 metal binding site [ion binding]; metal-binding site 269482019298 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK09185 269482019299 Beta-ketoacyl-acyl carrier protein (ACP) synthase (KAS), type I and II. KASs are responsible for the elongation steps in fatty acid biosynthesis. KASIII catalyses the initial condensation and KAS I and II catalyze further elongation steps by Claisen...; Region: KAS_I_II; cd00834 269482019300 dimer interface [polypeptide binding]; other site 269482019301 active site 269482019302 Beta-ketoacyl synthase, N-terminal domain; Region: Ketoacyl-synt_2; pfam13723 269482019303 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 269482019304 active site 2 [active] 269482019305 active site 1 [active] 269482019306 acetoacetyl-CoA reductase; Region: AcAcCoA_reduct; TIGR01829 269482019307 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 269482019308 NAD(P) binding site [chemical binding]; other site 269482019309 homotetramer interface [polypeptide binding]; other site 269482019310 homodimer interface [polypeptide binding]; other site 269482019311 active site 269482019312 putative acyltransferase; Provisional; Region: PRK05790 269482019313 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 269482019314 dimer interface [polypeptide binding]; other site 269482019315 active site 269482019316 Phasin protein; Region: Phasin_2; pfam09361 269482019317 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 269482019318 Helix-turn-helix domain; Region: HTH_38; pfam13936 269482019319 Integrase core domain; Region: rve; pfam00665 269482019320 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 269482019321 Helix-turn-helix domain; Region: HTH_38; pfam13936 269482019322 Integrase core domain; Region: rve; pfam00665 269482019323 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 269482019324 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 269482019325 P-loop; other site 269482019326 Magnesium ion binding site [ion binding]; other site 269482019327 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 269482019328 Magnesium ion binding site [ion binding]; other site 269482019329 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 269482019330 SSB_OBF: A subfamily of OB folds similar to the OB fold of ssDNA-binding protein (SSB). SSBs bind with high affinity to ssDNA. They bind to and protect ssDNA intermediates during DNA metabolic pathways. All bacterial and eukaryotic SSBs studied to date...; Region: SSB_OBF; cd04496 269482019331 dimer interface [polypeptide binding]; other site 269482019332 ssDNA binding site [nucleotide binding]; other site 269482019333 tetramer (dimer of dimers) interface [polypeptide binding]; other site 269482019334 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 269482019335 Major Facilitator Superfamily; Region: MFS_1; pfam07690 269482019336 putative substrate translocation pore; other site 269482019337 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 269482019338 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 269482019339 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 269482019340 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 269482019341 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; cl00465 269482019342 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 269482019343 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 269482019344 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 269482019345 putative active site [active] 269482019346 putative substrate binding site [chemical binding]; other site 269482019347 putative cosubstrate binding site; other site 269482019348 catalytic site [active] 269482019349 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 269482019350 nudix motif; other site 269482019351 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 269482019352 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 269482019353 active site 269482019354 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 269482019355 TrkA-N domain; Region: TrkA_N; pfam02254 269482019356 TrkA-C domain; Region: TrkA_C; pfam02080 269482019357 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 269482019358 KpsF-like protein. KpsF is an arabinose-5-phosphate isomerase which contains SIS (Sugar ISomerase) domains. SIS domains are found in many phosphosugar isomerases and phosphosugar binding proteins. KpsF catalyzes the reversible reaction of ribulose...; Region: SIS_Kpsf; cd05014 269482019359 putative active site [active] 269482019360 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with KpsF/GutQ domains in the API [A5P (D-arabinose 5-phosphate) isomerase] protein. These APIs catalyze the conversion of the pentose pathway...; Region: CBS_pair_KpsF_GutQ_assoc; cd04604 269482019361 Low specificity phosphatase (HAD superfamily) [General function prediction only]; Region: COG1778 269482019362 HAD-superfamily hydrolase, subfamily IIIA; Region: HAD-SF-IIIA; TIGR01662 269482019363 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 269482019364 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3117 269482019365 lipopolysaccharide transport periplasmic protein LptA; Region: outer_YhbN_LptA; TIGR03002 269482019366 OstA-like protein; Region: OstA; pfam03968 269482019367 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 269482019368 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 269482019369 Walker A/P-loop; other site 269482019370 ATP binding site [chemical binding]; other site 269482019371 Q-loop/lid; other site 269482019372 ABC transporter signature motif; other site 269482019373 Walker B; other site 269482019374 D-loop; other site 269482019375 H-loop/switch region; other site 269482019376 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 269482019377 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 269482019378 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 269482019379 RaiA ("ribosome-associated inhibitor A", also known as Protein Y (PY), YfiA, and SpotY, is a stress-response protein that binds the ribosomal subunit interface and arrests translation by interfering with aminoacyl-tRNA binding to the ribosomal...; Region: RaiA; cd00552 269482019380 30S subunit binding site; other site 269482019381 PTS_IIA, PTS system, fructose/mannitol specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_fru; cd00211 269482019382 active site 269482019383 phosphorylation site [posttranslational modification] 269482019384 HPr kinase/phosphorylase; Provisional; Region: PRK05428 269482019385 HPr Serine kinase N terminus; Region: Hpr_kinase_N; pfam02603 269482019386 HprK/P, the bifunctional histidine-containing protein kinase/phosphatase, controls the phosphorylation state of the phosphocarrier protein HPr and regulates the utilization of carbon sources by gram-positive bacteria. It catalyzes both the ATP-dependent...; Region: HprK_C; cd01918 269482019387 Hpr binding site; other site 269482019388 active site 269482019389 homohexamer subunit interaction site [polypeptide binding]; other site 269482019390 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 269482019391 ATP-dependent protease La (LON) domain; Region: LON; pfam02190 269482019392 A/G-specific DNA glycosylase [DNA replication, recombination, and repair]; Region: MutY; COG1194 269482019393 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 269482019394 minor groove reading motif; other site 269482019395 helix-hairpin-helix signature motif; other site 269482019396 substrate binding pocket [chemical binding]; other site 269482019397 active site 269482019398 DNA glycosylase (MutY in bacteria and hMYH in humans) is responsible for repairing misread A*oxoG residues to C*G by removing the inappropriately paired adenine base from the DNA backbone. It belongs to the Nudix hydrolase superfamily and is important...; Region: DNA_Glycosylase_C; cd03431 269482019399 DNA binding and oxoG recognition site [nucleotide binding] 269482019400 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 269482019401 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 269482019402 DNA binding site [nucleotide binding] 269482019403 catalytic residue [active] 269482019404 H2TH interface [polypeptide binding]; other site 269482019405 putative catalytic residues [active] 269482019406 turnover-facilitating residue; other site 269482019407 intercalation triad [nucleotide binding]; other site 269482019408 8OG recognition residue [nucleotide binding]; other site 269482019409 putative reading head residues; other site 269482019410 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 269482019411 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 269482019412 heme biosynthesis-associated TPR protein; Region: TPR_hemY_coli; TIGR00540 269482019413 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 269482019414 TPR motif; other site 269482019415 binding surface 269482019416 FOG: TPR repeat [General function prediction only]; Region: NrfG; COG0457 269482019417 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 269482019418 binding surface 269482019419 TPR motif; other site 269482019420 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 269482019421 binding surface 269482019422 TPR motif; other site 269482019423 outer membrane lipoprotein LolB; Provisional; Region: lolB; PRK00022 269482019424 Outer membrane lipoprotein LolB; Region: LolB; pfam03550 269482019425 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00343 269482019426 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 269482019427 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 269482019428 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 269482019429 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 269482019430 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 269482019431 active site 269482019432 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 269482019433 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 269482019434 5S rRNA interface [nucleotide binding]; other site 269482019435 CTC domain interface [polypeptide binding]; other site 269482019436 L16 interface [polypeptide binding]; other site 269482019437 Peptidyl-tRNA hydrolase (PTH) is a monomeric protein that cleaves the ester bond linking the nascent peptide and tRNA when peptidyl-tRNA is released prematurely from the ribosome. This ensures the recycling of peptidyl-tRNAs into tRNAs produced through...; Region: PTH; cd00462 269482019438 putative active site [active] 269482019439 catalytic residue [active] 269482019440 Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]; Region: HisC; COG0079 269482019441 Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine...; Region: AAT_like; cd00609 269482019442 pyridoxal 5'-phosphate binding site [chemical binding]; other site 269482019443 homodimer interface [polypeptide binding]; other site 269482019444 catalytic residue [active] 269482019445 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 269482019446 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 269482019447 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 269482019448 active site 269482019449 (T/H)XGH motif; other site 269482019450 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 269482019451 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 269482019452 S-adenosylmethionine binding site [chemical binding]; other site 269482019453 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 269482019454 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 269482019455 The signal recognition particle (SRP) mediates the transport to or across the plasma membrane in bacteria and the endoplasmic reticulum in eukaryotes. SRP recognizes N-terminal sighnal sequences of newly synthesized polypeptides at the ribosome. The...; Region: SRP; cd03115 269482019456 P loop; other site 269482019457 GTP binding site [chemical binding]; other site 269482019458 GST_N family, Class Zeta subfamily; GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic alkylating agents, including carcinogens; Region: GST_N_Zeta; cd03042 269482019459 maleylacetoacetate isomerase; Region: maiA; TIGR01262 269482019460 C-terminal domain interface [polypeptide binding]; other site 269482019461 GSH binding site (G-site) [chemical binding]; other site 269482019462 putative dimer interface [polypeptide binding]; other site 269482019463 C-terminal, alpha helical domain of Class Zeta Glutathione S-transferases; Region: GST_C_Zeta; cd03191 269482019464 dimer interface [polypeptide binding]; other site 269482019465 N-terminal domain interface [polypeptide binding]; other site 269482019466 maleylacetoacetate (MAA) substrate binding site (H site) [chemical binding]; other site 269482019467 glycosyl transferase family protein; Provisional; Region: PRK08136 269482019468 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 269482019469 2-isopropylmalate synthase; Validated; Region: PRK03739 269482019470 Mycobacterium tuberculosis LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA; cd07942 269482019471 active site 269482019472 catalytic residues [active] 269482019473 metal binding site [ion binding]; metal-binding site 269482019474 SnoaL-like domain; Region: SnoaL_3; pfam13474 269482019475 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 269482019476 Lipid A 3-O-deacylase (PagL); Region: PagL; pfam09411 269482019477 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 269482019478 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 269482019479 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 269482019480 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 269482019481 DNA binding residues [nucleotide binding] 269482019482 cytochrome d terminal oxidase subunit 1; Provisional; Region: PRK15097 269482019483 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 269482019484 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 269482019485 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 269482019486 Putative carbohydrate binding domain; Region: CHB_HEX; cl03918 269482019487 Beta-N-acetylhexosaminidases of glycosyl hydrolase family 20 (GH20) catalyze the removal of beta-1,4-linked N-acetyl-D-hexosamine residues from the non-reducing ends of N-acetyl-beta-D-hexosaminides including N-acetylglucosides and N-acetylgalactosides; Region: GH20_hexosaminidase; cl02948 269482019488 Glycosyl hydrolase family 20, catalytic domain; Region: Glyco_hydro_20; pfam00728 269482019489 active site 269482019490 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 269482019491 PTS system, N-acetylglucosamine-specific IIBC component; Region: PTS-II-BC-nag; TIGR01998 269482019492 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cd00212 269482019493 active site turn [active] 269482019494 phosphorylation site [posttranslational modification] 269482019495 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 269482019496 HPr interaction site; other site 269482019497 glycerol kinase (GK) interaction site [polypeptide binding]; other site 269482019498 active site 269482019499 phosphorylation site [posttranslational modification] 269482019500 Histidine-containing phosphocarrier protein (HPr)-like proteins. HPr is a central component of the bacterial phosphoenolpyruvate sugar phosphotransferase system (PTS). The PTS catalyses the phosphorylation of sugar substrates during their translocation...; Region: PTS-HPr_like; cd00367 269482019501 dimerization domain swap beta strand [polypeptide binding]; other site 269482019502 regulatory protein interface [polypeptide binding]; other site 269482019503 active site 269482019504 regulatory phosphorylation site [posttranslational modification]; other site 269482019505 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 269482019506 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 269482019507 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 269482019508 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 269482019509 Predicted phosphosugar isomerases [Cell envelope biogenesis, outer membrane]; Region: AgaS; COG2222 269482019510 SIS (Sugar ISomerase) domain repeat 1 found in Glucosamine 6-phosphate synthase (GlmS) and Glucosamine-6-phosphate deaminase (GlmD). The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. GlmS contains a N-terminal...; Region: SIS_GlmS_GlmD_1; cd05008 269482019511 dimer interface [polypeptide binding]; other site 269482019512 active site 269482019513 SIS (Sugar ISomerase) domain repeat 2 found in Glucosamine 6-phosphate synthase (GlmS) and Glucosamine-6-phosphate deaminase (GlmD). The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. GlmS contains a N-terminal...; Region: SIS_GlmS_GlmD_2; cd05009 269482019514 dimer interface [polypeptide binding]; other site 269482019515 active site 269482019516 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 269482019517 N-acetylglucosamine-6-phosphate deacetylase, NagA, catalyzes the hydrolysis of the N-acetyl group of N-acetyl-glucosamine-6-phosphate (GlcNAc-6-P) to glucosamine 6-phosphate and acetate. This is the first committed step in the biosynthetic pathway to...; Region: NagA; cd00854 269482019518 active site 269482019519 dimer interface [polypeptide binding]; other site 269482019520 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 269482019521 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 269482019522 DNA-binding site [nucleotide binding]; DNA binding site 269482019523 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 269482019524 error-prone DNA polymerase; Validated; Region: dnaE2; PRK05672 269482019525 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III at DnaE2 gene; Region: PHP_PolIIIA_DnaE2; cd07434 269482019526 putative active site [active] 269482019527 putative PHP Thumb interface [polypeptide binding]; other site 269482019528 DnaE_OBF: A subfamily of OB folds corresponding to the C-terminal OB-fold nucleic acid binding domain of Thermus aquaticus and Escherichia coli type C replicative DNA polymerase III alpha subunit (DnaE). The DNA polymerase holoenzyme of E. coli contains...; Region: DnaE_OBF; cd04485 269482019529 generic binding surface II; other site 269482019530 generic binding surface I; other site 269482019531 DNA Polymerase Y-family; Region: PolY_like; cd03468 269482019532 active site 269482019533 DNA binding site [nucleotide binding] 269482019534 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 269482019535 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 269482019536 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 269482019537 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 269482019538 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 269482019539 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 269482019540 dimer interface [polypeptide binding]; other site 269482019541 putative CheW interface [polypeptide binding]; other site 269482019542 YCII-related domain; Region: YCII; cl00999 269482019543 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 269482019544 SCO (an acronym for Synthesis of Cytochrome c Oxidase) family; composed of proteins similar to Sco1, a membrane-anchored protein possessing a soluble domain with a TRX fold. Members of this family are required for the proper assembly of cytochrome c...; Region: SCO; cd02968 269482019545 Cu(I) binding site [ion binding]; other site 269482019546 protoheme IX farnesyltransferase; Provisional; Region: PRK04375 269482019547 UbiA prenyltransferase family; Region: UbiA; pfam01040 269482019548 Uncharacterized protein required for cytochrome oxidase assembly [Posttranslational modification, protein turnover, chaperones]; Region: CtaA; COG1612 269482019549 Cytochrome oxidase assembly protein; Region: COX15-CtaA; pfam02628 269482019550 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 269482019551 SURF1 superfamily. Surf1/Shy1 has been implicated in the posttranslational steps of the biogenesis of the mitochondrially-encoded Cox1 subunit of cytochrome c oxidase (complex IV). Cytochrome c oxidase (complex IV), the terminal electron-transferring...; Region: SURF1; cd06662 269482019552 Protein of unknown function (DUF2909); Region: DUF2909; pfam11137 269482019553 Cytochrome c oxidase subunit III. Cytochrome c oxidase (CcO), the terminal oxidase in the respiratory chains of eukaryotes and most bacteria, is a multi-chain transmembrane protein located in the inner membrane of mitochondria and the cell membrane of...; Region: Cyt_c_Oxidase_III; cd01665 269482019554 Subunit III/VIIa interface [polypeptide binding]; other site 269482019555 Phospholipid binding site [chemical binding]; other site 269482019556 Subunit I/III interface [polypeptide binding]; other site 269482019557 Subunit III/VIb interface [polypeptide binding]; other site 269482019558 Subunit III/VIa interface; other site 269482019559 Subunit III/Vb interface [polypeptide binding]; other site 269482019560 Protein of unknown function (DUF2970); Region: DUF2970; pfam11174 269482019561 cytochrome C oxidase assembly protein; Provisional; Region: PRK05089 269482019562 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 269482019563 Cytochrome C oxidase subunit I. Cytochrome c oxidase (CcO), the terminal oxidase in the respiratory chains of eukaryotes and most bacteria, is a multi-chain transmembrane protein located in the inner membrane of mitochondria and the cell membrane of...; Region: Cyt_c_Oxidase_I; cd01663 269482019564 Subunit I/III interface [polypeptide binding]; other site 269482019565 D-pathway; other site 269482019566 Subunit I/VIIc interface [polypeptide binding]; other site 269482019567 Subunit I/IV interface [polypeptide binding]; other site 269482019568 Subunit I/II interface [polypeptide binding]; other site 269482019569 Low-spin heme (heme a) binding site [chemical binding]; other site 269482019570 Subunit I/VIIa interface [polypeptide binding]; other site 269482019571 Subunit I/VIa interface [polypeptide binding]; other site 269482019572 Dimer interface; other site 269482019573 Putative water exit pathway; other site 269482019574 Binuclear center (heme a3/CuB) [ion binding]; other site 269482019575 K-pathway; other site 269482019576 Subunit I/Vb interface [polypeptide binding]; other site 269482019577 Putative proton exit pathway; other site 269482019578 Subunit I/VIb interface; other site 269482019579 Subunit I/VIc interface [polypeptide binding]; other site 269482019580 Electron transfer pathway; other site 269482019581 Subunit I/VIIIb interface [polypeptide binding]; other site 269482019582 Subunit I/VIIb interface [polypeptide binding]; other site 269482019583 Cytochrome C oxidase subunit II, transmembrane domain; Region: COX2_TM; pfam02790 269482019584 cytochrome c oxidase subunit II; Provisional; Region: COX2; MTH00140 269482019585 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 269482019586 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 269482019587 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 269482019588 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 269482019589 ligand binding site [chemical binding]; other site 269482019590 Integral membrane protein (DUF2244); Region: DUF2244; pfam10003 269482019591 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 269482019592 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 269482019593 S-adenosylmethionine binding site [chemical binding]; other site 269482019594 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 269482019595 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cl00309 269482019596 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 269482019597 Macro domain, Appr-1"-pase_like family. The macro domain is a high-affinity ADP-ribose binding module found in a variety of proteins as a stand-alone domain or in combination with other domains like in histone macroH2A and some PARPs (poly...; Region: Macro_Appr_pase_like; cd02908 269482019598 putative ADP-ribose binding site [chemical binding]; other site 269482019599 putative active site [active] 269482019600 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 269482019601 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 269482019602 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 269482019603 preprotein translocase subunit SecB; Validated; Region: PRK05751 269482019604 SecA binding site; other site 269482019605 Preprotein binding site; other site 269482019606 Glutaredoxin (GRX) family, GRX bacterial class 1 and 3 (b_1_3)-like subfamily; composed of bacterial GRXs, approximately 10 kDa in size, and proteins containing a GRX or GRX-like domain. GRX is a glutathione (GSH) dependent reductase, catalyzing the...; Region: GRX_GRXb_1_3_like; cd03418 269482019607 GSH binding site [chemical binding]; other site 269482019608 catalytic residues [active] 269482019609 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cd00158 269482019610 active site residue [active] 269482019611 Histidine phosphatase domain found in phosphoglycerate mutases and related proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP_PGM_like; cd07067 269482019612 catalytic core [active] 269482019613 Histidine phosphatase domain found in phosphoglycerate mutases and related proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP_PGM_like; cd07067 269482019614 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 269482019615 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 269482019616 PDZ domain of C-terminal processing-, tail-specific-, and tricorn proteases, which function in posttranslational protein processing, maturation, and disassembly or degradation, in Bacteria, Archaea, and plant chloroplasts. May be responsible for...; Region: PDZ_CTP_protease; cd00988 269482019617 protein binding site [polypeptide binding]; other site 269482019618 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 269482019619 Catalytic dyad [active] 269482019620 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 269482019621 ThiF_MoeB_HesA. Family of E1-like enzymes involved in molybdopterin and thiamine biosynthesis family. The common reaction mechanism catalyzed by MoeB and ThiF, like other E1 enzymes, begins with a nucleophilic attack of the C-terminal carboxylate of MoaD...; Region: ThiF_MoeB_HesA_family; cd00757 269482019622 ATP binding site [chemical binding]; other site 269482019623 substrate interface [chemical binding]; other site 269482019624 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 269482019625 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 269482019626 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 269482019627 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 269482019628 Histidine-containing phosphocarrier protein (HPr)-like proteins. HPr is a central component of the bacterial phosphoenolpyruvate sugar phosphotransferase system (PTS). The PTS catalyses the phosphorylation of sugar substrates during their translocation...; Region: PTS-HPr_like; cd00367 269482019629 dimerization domain swap beta strand [polypeptide binding]; other site 269482019630 regulatory protein interface [polypeptide binding]; other site 269482019631 active site 269482019632 regulatory phosphorylation site [posttranslational modification]; other site 269482019633 PTS_IIA, PTS system, mannose/sorbose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_man; cd00006 269482019634 active pocket/dimerization site; other site 269482019635 active site 269482019636 phosphorylation site [posttranslational modification] 269482019637 glutathione synthetase; Provisional; Region: PRK05246 269482019638 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 269482019639 Prokaryotic glutathione synthetase, ATP-grasp domain; Region: GSH-S_ATP; pfam02955 269482019640 glutamate--cysteine ligase, T. ferrooxidans family; Region: gshA_ferroox; TIGR02049 269482019641 Glutamate-cysteine ligase; Region: GshA; pfam08886 269482019642 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 269482019643 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 269482019644 Nitrogen regulatory protein P-II; Region: P-II; smart00938 269482019645 Membrane fusogenic activity; Region: BMFP; pfam04380 269482019646 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 269482019647 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 269482019648 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 269482019649 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 269482019650 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 269482019651 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 269482019652 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 269482019653 catalytic residues [active] 269482019654 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 269482019655 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 269482019656 active site 269482019657 phosphorylation site [posttranslational modification] 269482019658 intermolecular recognition site; other site 269482019659 dimerization interface [polypeptide binding]; other site 269482019660 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 269482019661 Walker A motif; other site 269482019662 ATP binding site [chemical binding]; other site 269482019663 Walker B motif; other site 269482019664 arginine finger; other site 269482019665 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 269482019666 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 269482019667 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 269482019668 dimer interface [polypeptide binding]; other site 269482019669 phosphorylation site [posttranslational modification] 269482019670 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 269482019671 ATP binding site [chemical binding]; other site 269482019672 G-X-G motif; other site 269482019673 C4-dicarboxylate transporter DctA; Reviewed; Region: PRK01663 269482019674 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 269482019675 pimeloyl-CoA dehydrogenase, small subunit; Region: pimD_small; TIGR03203 269482019676 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 269482019677 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 269482019678 active site 269482019679 pimeloyl-CoA dehydrogenase, large subunit; Region: pimC_large; TIGR03204 269482019680 Putative acyl-CoA dehydrogenases similar to fadE6, fadE17, and fadE26; Region: ACAD_fadE6_17_26; cd01152 269482019681 FAD binding site [chemical binding]; other site 269482019682 substrate binding site [chemical binding]; other site 269482019683 catalytic base [active] 269482019684 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 269482019685 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 269482019686 substrate binding site [chemical binding]; other site 269482019687 oxyanion hole (OAH) forming residues; other site 269482019688 trimer interface [polypeptide binding]; other site 269482019689 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 269482019690 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 269482019691 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 269482019692 Transcriptional regulator [Transcription]; Region: LysR; COG0583 269482019693 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 269482019694 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 269482019695 putative effector binding pocket; other site 269482019696 dimerization interface [polypeptide binding]; other site 269482019697 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 269482019698 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 269482019699 hypothetical protein; Provisional; Region: PRK10396 269482019700 Uncharacterized protein family (UPF0149); Region: UPF0149; pfam03695 269482019701 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 269482019702 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 269482019703 dimer interface [polypeptide binding]; other site 269482019704 conserved gate region; other site 269482019705 putative PBP binding loops; other site 269482019706 ABC-ATPase subunit interface; other site 269482019707 taurine transporter ATP-binding subunit; Provisional; Region: tauB; PRK11248 269482019708 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 269482019709 Walker A/P-loop; other site 269482019710 ATP binding site [chemical binding]; other site 269482019711 Q-loop/lid; other site 269482019712 ABC transporter signature motif; other site 269482019713 Walker B; other site 269482019714 D-loop; other site 269482019715 H-loop/switch region; other site 269482019716 ABC-type taurine transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: TauA; COG4521 269482019717 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 269482019718 substrate binding pocket [chemical binding]; other site 269482019719 membrane-bound complex binding site; other site 269482019720 hinge residues; other site 269482019721 lipoyl synthase; Provisional; Region: PRK05481 269482019722 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 269482019723 FeS/SAM binding site; other site 269482019724 lipoate-protein ligase B; Provisional; Region: PRK14343 269482019725 Protein of unknown function (DUF2917); Region: DUF2917; pfam11142 269482019726 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 269482019727 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 269482019728 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 269482019729 dimerization interface [polypeptide binding]; other site 269482019730 substrate binding pocket [chemical binding]; other site 269482019731 hypothetical protein; Provisional; Region: PRK02047 269482019732 D-Alanine aminotransferase (D-AAT_like): D-amino acid aminotransferase catalyzes transamination between D-amino acids and their respective alpha-keto acids. It plays a major role in the synthesis of bacterial cell wall components like D-alanine and...; Region: D-AAT_like; cd01558 269482019733 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 269482019734 homodimer interface [polypeptide binding]; other site 269482019735 substrate-cofactor binding pocket; other site 269482019736 pyridoxal 5'-phosphate binding site [chemical binding]; other site 269482019737 catalytic residue [active] 269482019738 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 269482019739 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 269482019740 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 269482019741 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2945 269482019742 Thioredoxin (TRX)-like [2Fe-2S] Ferredoxin (Fd) family; composed of [2Fe-2S] Fds with a TRX fold (TRX-like Fds) and proteins containing domains similar to TRX-like Fd including formate dehydrogenases, NAD-reducing hydrogenases and the subunit E of NADH:...; Region: TRX_Fd_family; cd02980 269482019743 dimer interface [polypeptide binding]; other site 269482019744 [2Fe-2S] cluster binding site [ion binding]; other site 269482019745 Protein of unknown function (DUF330); Region: DUF330; cl01135 269482019746 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 269482019747 mce related protein; Region: MCE; pfam02470 269482019748 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 269482019749 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 269482019750 Walker A/P-loop; other site 269482019751 ATP binding site [chemical binding]; other site 269482019752 Q-loop/lid; other site 269482019753 ABC transporter signature motif; other site 269482019754 Walker B; other site 269482019755 D-loop; other site 269482019756 H-loop/switch region; other site 269482019757 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 269482019758 Permease; Region: Permease; pfam02405 269482019759 bifunctional 2',3'-cyclic nucleotide 2'-phosphodiesterase/3'-nucleotidase periplasmic precursor protein; Reviewed; Region: cpdB; PRK09420 269482019760 Escherichia coli CpdB and related proteins, N-terminal metallophosphatase domain; Region: MPP_CpdB_N; cd07410 269482019761 active site 269482019762 metal binding site [ion binding]; metal-binding site 269482019763 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 269482019764 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 269482019765 biotin--protein ligase; Provisional; Region: PRK06955 269482019766 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 269482019767 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 269482019768 pantothenate kinase; Reviewed; Region: PRK13328 269482019769 rfaE bifunctional protein, domain II; Region: rfaE_dom_II; TIGR02199 269482019770 Cytidylyltransferase; Region: CTP_transf_2; pfam01467 269482019771 active site 269482019772 HIGH motif; other site 269482019773 nucleotide binding site [chemical binding]; other site 269482019774 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 269482019775 dinuclear metal binding motif [ion binding]; other site 269482019776 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 269482019777 active site 269482019778 nucleophile elbow; other site 269482019779 enoyl-CoA hydratase; Provisional; Region: PRK06563 269482019780 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cd06558 269482019781 substrate binding site [chemical binding]; other site 269482019782 oxyanion hole (OAH) forming residues; other site 269482019783 trimer interface [polypeptide binding]; other site 269482019784 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cl15762 269482019785 2-keto-4-pentenoate hydratase/2-oxohepta-3-ene-1,7-dioic acid hydratase (catechol pathway) [Secondary metabolites biosynthesis, transport, and catabolism]; Region: MhpD; COG0179 269482019786 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 269482019787 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 269482019788 Transcriptional regulator [Transcription]; Region: IclR; COG1414 269482019789 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 269482019790 Protein of unknown function (DUF3567); Region: DUF3567; pfam12091 269482019791 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; COG0646 269482019792 Homocysteine S-methyltransferase; Region: S-methyl_trans; pfam02574 269482019793 Methionine synthase I, cobalamin-binding domain [Amino acid transport and metabolism]; Region: MetH; COG1410 269482019794 MeTr subgroup of pterin binding enzymes. This family includes cobalamin-dependent methyltransferases such as methyltetrahydrofolate, corrinoid iron-sulfur protein methyltransferase (MeTr) and methionine synthase (MetH). Cobalamin-dependent...; Region: MeTr; cd00740 269482019795 substrate binding pocket [chemical binding]; other site 269482019796 B12 binding domain of methionine synthase. This domain binds methylcobalamin, which it uses as an intermediate methyl carrier from methyltetrahydrofolate (CH3H4folate) to homocysteine (Hcy); Region: methionine_synthase_B12_BD; cd02069 269482019797 B12 binding site [chemical binding]; other site 269482019798 cobalt ligand [ion binding]; other site 269482019799 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 269482019800 Domain of unknown function (DUF1840); Region: DUF1840; pfam08895 269482019801 arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611 269482019802 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 269482019803 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 269482019804 active site 269482019805 HIGH motif; other site 269482019806 KMSK motif region; other site 269482019807 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 269482019808 tRNA binding surface [nucleotide binding]; other site 269482019809 anticodon binding site; other site 269482019810 Sporulation related domain; Region: SPOR; pfam05036 269482019811 DsbA family, DsbA subfamily; DsbA is a monomeric thiol disulfide oxidoreductase protein containing a redox active CXXC motif imbedded in a TRX fold. It is involved in the oxidative protein folding pathway in prokaryotes, and is the strongest thiol...; Region: DsbA_DsbA; cd03019 269482019812 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 269482019813 catalytic residues [active] 269482019814 hinge region; other site 269482019815 alpha helical domain; other site 269482019816 short chain dehydrogenase; Provisional; Region: PRK07024 269482019817 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 269482019818 NAD(P) binding site [chemical binding]; other site 269482019819 active site 269482019820 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 269482019821 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 269482019822 peptide binding site [polypeptide binding]; other site 269482019823 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 269482019824 Isocitrate dehydrogenase kinase/phosphatase [Signal transduction mechanisms]; Region: COG4579 269482019825 bifunctional isocitrate dehydrogenase kinase/phosphatase protein; Validated; Region: aceK; PRK02946 269482019826 Carbonic anhydrases (CA) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism in which the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide is followed by the regeneration of an...; Region: beta_CA_cladeA; cd00883 269482019827 active site clefts [active] 269482019828 zinc binding site [ion binding]; other site 269482019829 dimer interface [polypeptide binding]; other site 269482019830 short chain dehydrogenase; Provisional; Region: PRK06953 269482019831 short chain dehydrogenase; Provisional; Region: PRK08219 269482019832 NAD(P) binding site [chemical binding]; other site 269482019833 active site 269482019834 hypothetical protein; Provisional; Region: PRK01842 269482019835 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 269482019836 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 269482019837 adenosylmethionine--8-amino-7-oxononanoate transaminase; Provisional; Region: PRK06943 269482019838 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 269482019839 inhibitor-cofactor binding pocket; inhibition site 269482019840 pyridoxal 5'-phosphate binding site [chemical binding]; other site 269482019841 catalytic residue [active] 269482019842 8-amino-7-oxononanoate synthase; Reviewed; Region: PRK05958 269482019843 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 269482019844 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 269482019845 catalytic residue [active] 269482019846 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 269482019847 AAA domain; Region: AAA_26; pfam13500 269482019848 biotin synthase; Region: bioB; TIGR00433 269482019849 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cd01335 269482019850 FeS/SAM binding site; other site 269482019851 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 269482019852 CutC family; Region: CutC; cl01218 269482019853 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 269482019854 Na+/H+ antiporter, bacterial form; Region: a_cpa1; TIGR00831 269482019855 2-oxoacid ferredoxin oxidoreductase; Provisional; Region: PRK13030 269482019856 Pyrimidine (PYR) binding domain of pyruvate ferredoxin oxidoreductase (PFOR), indolepyruvate ferredoxin oxidoreductase alpha subunit (IOR-alpha), and related proteins; Region: TPP_PYR_PFOR_IOR-alpha_like; cd07034 269482019857 dimer interface [polypeptide binding]; other site 269482019858 PYR/PP interface [polypeptide binding]; other site 269482019859 TPP binding site [chemical binding]; other site 269482019860 substrate binding site [chemical binding]; other site 269482019861 Thiamine pyrophosphate (TPP) family, IOR-alpha subfamily, TPP-binding module; composed of proteins similar to indolepyruvate ferredoxin oxidoreductase (IOR) alpha subunit. IOR catalyzes the oxidative decarboxylation of arylpyruvates, such as...; Region: TPP_IOR_alpha; cd02008 269482019862 TPP-binding site; other site 269482019863 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 269482019864 Maltose O-acetyltransferase (MAT) and Galactoside O-acetyltransferase (GAT): MAT and GAT catalyze the CoA-dependent acetylation of the 6-hydroxyl group of their respective sugar substrates. MAT acetylates maltose and glucose exclusively at the C6...; Region: LbH_MAT_GAT; cd03357 269482019865 trimer interface [polypeptide binding]; other site 269482019866 active site 269482019867 substrate binding site [chemical binding]; other site 269482019868 Acetyltransferase (isoleucine patch superfamily) [General function prediction only]; Region: WbbJ; COG0110 269482019869 CoA binding site [chemical binding]; other site 269482019870 Inward rectifier potassium channel; Region: IRK; pfam01007 269482019871 ABC-type sulfate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: Sbp; COG1613 269482019872 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 269482019873 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 269482019874 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 269482019875 dimer interface [polypeptide binding]; other site 269482019876 active site 269482019877 catalytic residue [active] 269482019878 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 269482019879 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 269482019880 dimerization interface [polypeptide binding]; other site 269482019881 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 269482019882 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 269482019883 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 269482019884 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 269482019885 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 269482019886 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 269482019887 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; smart01092 269482019888 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 269482019889 4-hydroxybenzoyl-CoA reductase, gamma subunit; Region: 4hydroxCoAred; TIGR03193 269482019890 catalytic loop [active] 269482019891 iron binding site [ion binding]; other site 269482019892 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 269482019893 phospholipase C, phosphocholine-specific, Pseudomonas-type; Region: PC_PLC; TIGR03396 269482019894 Phosphoesterase family; Region: Phosphoesterase; pfam04185 269482019895 Domain of unknown function (DUF756); Region: DUF756; pfam05506 269482019896 Domain of unknown function (DUF756); Region: DUF756; pfam05506 269482019897 Serine hydrolase; Region: Ser_hydrolase; pfam06821 269482019898 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 269482019899 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_18; cd08357 269482019900 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 269482019901 putative metal binding site [ion binding]; other site 269482019902 bifunctional glyoxylate/hydroxypyruvate reductase A; Provisional; Region: ghrA; PRK15469 269482019903 Putative glycerate dehydrogenase and related proteins of the D-specific 2-hydroxy dehydrogenase family; Region: GDH_like_2; cd12164 269482019904 putative ligand binding site [chemical binding]; other site 269482019905 NAD binding site [chemical binding]; other site 269482019906 dimerization interface [polypeptide binding]; other site 269482019907 catalytic site [active] 269482019908 Isopropylmalate/homocitrate/citramalate synthases [Amino acid transport and metabolism]; Region: LeuA; COG0119 269482019909 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 269482019910 active site 269482019911 catalytic residues [active] 269482019912 metal binding site [ion binding]; metal-binding site 269482019913 This CD, composed mainly of bacterial single-domain proteins, includes the Thermus thermophilus (Tt) YbaK-like protein, a homolog of the trans-acting Escherichia coli YbaK Cys-tRNA(Pro) deacylase and the Agrobacterium tumefaciens ProX Ala-tRNA(Pro)...; Region: ProX_deacylase; cd04333 269482019914 putative deacylase active site [active] 269482019915 Protein of unknown function (DUF1289); Region: DUF1289; pfam06945 269482019916 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 269482019917 EamA-like transporter family; Region: EamA; pfam00892 269482019918 EamA-like transporter family; Region: EamA; cl17759 269482019919 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 269482019920 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cd00090 269482019921 dimerization interface [polypeptide binding]; other site 269482019922 putative DNA binding site [nucleotide binding]; other site 269482019923 putative Zn2+ binding site [ion binding]; other site 269482019924 AsnC family; Region: AsnC_trans_reg; pfam01037 269482019925 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 269482019926 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 269482019927 2-Nitropropane dioxygenase (NPD), one of the nitroalkane oxidizing enzyme families, catalyzes oxidative denitrification of nitroalkanes to their corresponding carbonyl compounds and nitrites. NDP is a member of the NAD(P)H-dependent flavin oxidoreductase...; Region: NPD_like; cd04730 269482019928 FMN binding site [chemical binding]; other site 269482019929 substrate binding site [chemical binding]; other site 269482019930 putative catalytic residue [active] 269482019931 Transcriptional regulator [Transcription]; Region: LysR; COG0583 269482019932 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 269482019933 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 269482019934 putative effector binding pocket; other site 269482019935 dimerization interface [polypeptide binding]; other site 269482019936 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 269482019937 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 269482019938 trimer interface [polypeptide binding]; other site 269482019939 eyelet of channel; other site 269482019940 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 269482019941 SBF-like CPA transporter family (DUF4137); Region: DUF4137; pfam13593 269482019942 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 269482019943 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with the GGDEF (DiGuanylate-Cyclase (DGC)) domain. The GGDEF domain has been suggested to be homologous to the adenylyl cyclase catalytic domain and...; Region: CBS_pair_GGDEF_assoc; cd04598 269482019944 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 269482019945 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 269482019946 metal binding site [ion binding]; metal-binding site 269482019947 active site 269482019948 I-site; other site 269482019949 Transcriptional regulators [Transcription]; Region: PurR; COG1609 269482019950 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 269482019951 DNA binding site [nucleotide binding] 269482019952 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 269482019953 ligand binding site [chemical binding]; other site 269482019954 dimerization interface [polypeptide binding]; other site 269482019955 AGE domain; N-acyl-D-glucosamine 2-epimerase domain; Responsible for intermediate epimerization during biosynthesis of N-acetylneuraminic acid. Catalytic mechanism is believed to be via nucleotide elimination and readdition and is ATP modulated. AGE is...; Region: AGE; cd00249 269482019956 dimerization interface [polypeptide binding]; other site 269482019957 putative active cleft [active] 269482019958 Fructokinases (FRKs) mainly from bacteria and plants are enzymes with high specificity for fructose, as are all FRKs, but they catalyzes the conversion of fructose to fructose-6-phosphate, which is an entry point into glycolysis via conversion into...; Region: bac_FRK; cd01167 269482019959 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 269482019960 putative substrate binding site [chemical binding]; other site 269482019961 putative ATP binding site [chemical binding]; other site 269482019962 Protein of unknown function (DUF2905); Region: DUF2905; pfam11146 269482019963 Uncharacterized conserved protein [Function unknown]; Region: COG1565 269482019964 Dihydroneopterin aldolase; Region: FolB; smart00905 269482019965 active site 269482019966 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 269482019967 This is a subfamily of Adenine nucleotide alpha hydrolases superfamily.Adeninosine nucleotide alpha hydrolases superfamily includes N type ATP PPases and ATP sulphurylases. It forms a apha/beta/apha fold which binds to Adenosine group. This subfamily; Region: Alpha_ANH_like_II; cd01993 269482019968 Ligand Binding Site [chemical binding]; other site 269482019969 N-acetylglucosamine-1-phosphate uridyltransferase (contains nucleotidyltransferase and I-patch acetyltransferase domains) [Cell envelope biogenesis, outer membrane]; Region: GlmU; COG1207 269482019970 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 269482019971 Substrate binding site; other site 269482019972 Mg++ binding site; other site 269482019973 N-acetyl-glucosamine-1-phosphate uridyltransferase (GlmU), C-terminal left-handed beta-helix (LbH) acetyltransferase domain: GlmU is also known as UDP-N-acetylglucosamine pyrophosphorylase. It is a bifunctional bacterial enzyme that catalyzes two...; Region: LbH_GlmU_C; cd03353 269482019974 active site 269482019975 substrate binding site [chemical binding]; other site 269482019976 CoA binding site [chemical binding]; other site 269482019977 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 269482019978 Glutamine amidotransferases class-II (Gn-AT)_GFAT-type. This domain is found at the N-terminus of glucosamine-6P synthase (GlmS, or GFAT in humans). The glutaminase domain catalyzes amide nitrogen transfer from glutamine to the appropriate substrate. In...; Region: GFAT; cd00714 269482019979 glutaminase active site [active] 269482019980 SIS (Sugar ISomerase) domain repeat 1 found in Glucosamine 6-phosphate synthase (GlmS) and Glucosamine-6-phosphate deaminase (GlmD). The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. GlmS contains a N-terminal...; Region: SIS_GlmS_GlmD_1; cd05008 269482019981 dimer interface [polypeptide binding]; other site 269482019982 active site 269482019983 SIS (Sugar ISomerase) domain repeat 2 found in Glucosamine 6-phosphate synthase (GlmS) and Glucosamine-6-phosphate deaminase (GlmD). The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. GlmS contains a N-terminal...; Region: SIS_GlmS_GlmD_2; cd05009 269482019984 dimer interface [polypeptide binding]; other site 269482019985 active site 269482019986 Iron permease FTR1 family; Region: FTR1; cl00475 269482019987 Cupredoxin-like domain; Region: Cupredoxin_1; pfam13473 269482019988 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cd00371 269482019989 metal-binding site [ion binding] 269482019990 gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase; Provisional; Region: PRK09847 269482019991 Escherichia coli NADP+-dependent gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase PuuC-like; Region: ALDH_GABALDH-PuuC; cd07112 269482019992 NAD(P) binding site [chemical binding]; other site 269482019993 catalytic residues [active] 269482019994 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 269482019995 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 269482019996 non-specific DNA binding site [nucleotide binding]; other site 269482019997 salt bridge; other site 269482019998 sequence-specific DNA binding site [nucleotide binding]; other site 269482019999 Cupin domain; Region: Cupin_2; pfam07883 269482020000 Peptidase C26; Region: Peptidase_C26; pfam07722 269482020001 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 269482020002 catalytic triad [active] 269482020003 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 269482020004 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 269482020005 putative aminotransferase; Validated; Region: PRK07480 269482020006 Acetyl ornithine aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to ornithine aminotransferase, acetylornithine aminotransferase; Region: OAT_like; cd00610 269482020007 inhibitor-cofactor binding pocket; inhibition site 269482020008 pyridoxal 5'-phosphate binding site [chemical binding]; other site 269482020009 catalytic residue [active] 269482020010 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 269482020011 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 269482020012 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 269482020013 putrescine transporter ATP-binding subunit; Provisional; Region: potG; PRK11607 269482020014 Walker A/P-loop; other site 269482020015 ATP binding site [chemical binding]; other site 269482020016 Q-loop/lid; other site 269482020017 ABC transporter signature motif; other site 269482020018 Walker B; other site 269482020019 D-loop; other site 269482020020 H-loop/switch region; other site 269482020021 TOBE domain; Region: TOBE_2; pfam08402 269482020022 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 269482020023 dimer interface [polypeptide binding]; other site 269482020024 conserved gate region; other site 269482020025 putative PBP binding loops; other site 269482020026 ABC-ATPase subunit interface; other site 269482020027 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 269482020028 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 269482020029 dimer interface [polypeptide binding]; other site 269482020030 conserved gate region; other site 269482020031 putative PBP binding loops; other site 269482020032 ABC-ATPase subunit interface; other site 269482020033 Outer membrane protein family (DUF1597); Region: DUF1597; pfam07642 269482020034 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 269482020035 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 269482020036 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 269482020037 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 269482020038 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4380 269482020039 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4259 269482020040 Curli production assembly/transport component CsgG; Region: CsgG; pfam03783 269482020041 glutathione reductase; Validated; Region: PRK06116 269482020042 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 269482020043 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 269482020044 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 269482020045 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 269482020046 trimer interface [polypeptide binding]; other site 269482020047 eyelet of channel; other site 269482020048 Protein of unknown function (DUF1275); Region: DUF1275; pfam06912 269482020049 Chromate transporter; Region: Chromate_transp; pfam02417 269482020050 Chromate transporter; Region: Chromate_transp; pfam02417 269482020051 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 269482020052 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 269482020053 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 269482020054 dimerization interface [polypeptide binding]; other site 269482020055 substrate binding pocket [chemical binding]; other site 269482020056 pyrimidine utilization transport protein G; Region: RutG; TIGR03616 269482020057 flagellar hook-associated protein FlgL; Reviewed; Region: flgL; PRK08870 269482020058 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 269482020059 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK06945 269482020060 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 269482020061 Flagellar regulator YcgR; Region: YcgR; pfam07317 269482020062 c-di-GMP-binding protein [Signal transduction mechanisms]; Region: COG5581 269482020063 PilZ domain; Region: PilZ; pfam07238 269482020064 flagellar rod assembly protein/muramidase FlgJ; Provisional; Region: flgJ; PRK12709 269482020065 Rod binding protein [Cell envelope biogenesis, outer membrane / Cell motility and secretion / Posttranslational modification, protein turnover, chaperones]; Region: COG3951 269482020066 Muramidase (flagellum-specific) [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlgJ; COG1705 269482020067 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 269482020068 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 269482020069 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK12697 269482020070 Flagellar basal body L-ring protein [Cell motility and secretion]; Region: FlgH; COG2063 269482020071 flagellar basal body rod protein FlgG; Reviewed; Region: flgG; PRK12694 269482020072 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 269482020073 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 269482020074 flagellar basal body rod protein FlgF; Reviewed; Region: flgF; PRK12640 269482020075 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 269482020076 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 269482020077 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 269482020078 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 269482020079 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 269482020080 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 269482020081 flagellar basal body rod modification protein; Reviewed; Region: flgD; PRK06655 269482020082 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 269482020083 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 269482020084 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK05681 269482020085 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 269482020086 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 269482020087 flagellar basal body rod protein FlgB; Provisional; Region: flgB; PRK12626 269482020088 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK07182 269482020089 SAF-like; Region: SAF_2; pfam13144 269482020090 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 269482020091 Anti-sigma-28 factor, FlgM; Region: FlgM; pfam04316 269482020092 FlgN protein; Region: FlgN; pfam05130 269482020093 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 269482020094 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 269482020095 A family including aminopeptidase P, aminopeptidase M, and prolidase. Also known as metallopeptidase family M24. This family of enzymes is able to cleave amido-, imido- and amidino-containing bonds. Members exibit relatively narrow substrate specificity...; Region: APP_MetAP; cl00279 269482020096 active site 269482020097 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 269482020098 sequence-specific DNA binding site [nucleotide binding]; other site 269482020099 salt bridge; other site 269482020100 Cupin domain; Region: Cupin_2; pfam07883 269482020101 multifunctional tRNA nucleotidyl transferase/2'3'-cyclic phosphodiesterase/2'nucleotidase/phosphatase; Reviewed; Region: cca; PRK10885 269482020102 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 269482020103 active site 269482020104 NTP binding site [chemical binding]; other site 269482020105 metal binding triad [ion binding]; metal-binding site 269482020106 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 269482020107 CRISPR/Cas system-associated protein Cas3'' Region: Cas3''_I; cl17503 269482020108 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 269482020109 GST_N family, unknown subfamily 1; composed of uncharacterized proteins, predominantly from bacteria, with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with...; Region: GST_N_1; cd03043 269482020110 putative C-terminal domain interface [polypeptide binding]; other site 269482020111 putative GSH binding site (G-site) [chemical binding]; other site 269482020112 putative dimer interface [polypeptide binding]; other site 269482020113 C-terminal, alpha helical domain of an unknown subfamily 3 of Glutathione S-transferases; Region: GST_C_3; cd03194 269482020114 putative N-terminal domain interface [polypeptide binding]; other site 269482020115 putative dimer interface [polypeptide binding]; other site 269482020116 putative substrate binding pocket (H-site) [chemical binding]; other site 269482020117 NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, subunit 9, 39 kDa, (NDUFA9) -like, atypical (a) SDRs; Region: NDUFA9_like_SDR_a; cd05271 269482020118 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 269482020119 putative NAD(P) binding site [chemical binding]; other site 269482020120 active site 269482020121 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 269482020122 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 269482020123 N-acetyl-D-glucosamine binding site [chemical binding]; other site 269482020124 catalytic residue [active] 269482020125 5-formyltetrahydrofolate cyclo-ligase [Coenzyme metabolism]; Region: COG0212; cl00360 269482020126 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 269482020127 MarR family; Region: MarR_2; cl17246 269482020128 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 269482020129 Allophanate hydrolase subunit 1; Region: AHS1; pfam02682 269482020130 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; COG2049 269482020131 Allophanate hydrolase subunit 2 [Amino acid transport and metabolism]; Region: DUR1; COG1984 269482020132 Escherichia coli putative lactam utilization protein YbgL and similar proteins; Region: LamB_YcsF_YbgL_like; cd10800 269482020133 putative active site [active] 269482020134 TraB family; Region: TraB; pfam01963 269482020135 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 269482020136 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 269482020137 Walker A/P-loop; other site 269482020138 ATP binding site [chemical binding]; other site 269482020139 Q-loop/lid; other site 269482020140 ABC transporter signature motif; other site 269482020141 Walker B; other site 269482020142 D-loop; other site 269482020143 H-loop/switch region; other site 269482020144 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 269482020145 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 269482020146 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 269482020147 Walker A/P-loop; other site 269482020148 ATP binding site [chemical binding]; other site 269482020149 Q-loop/lid; other site 269482020150 ABC transporter signature motif; other site 269482020151 Walker B; other site 269482020152 D-loop; other site 269482020153 H-loop/switch region; other site 269482020154 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 269482020155 dipeptide transporter; Provisional; Region: PRK10913 269482020156 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 269482020157 dimer interface [polypeptide binding]; other site 269482020158 conserved gate region; other site 269482020159 putative PBP binding loops; other site 269482020160 ABC-ATPase subunit interface; other site 269482020161 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 269482020162 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 269482020163 dimer interface [polypeptide binding]; other site 269482020164 conserved gate region; other site 269482020165 putative PBP binding loops; other site 269482020166 ABC-ATPase subunit interface; other site 269482020167 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 269482020168 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 269482020169 peptide binding site [polypeptide binding]; other site 269482020170 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 269482020171 metabolite-proton symporter; Region: 2A0106; TIGR00883 269482020172 putative substrate translocation pore; other site 269482020173 High potential iron-sulfur protein; Region: HIPIP; pfam01355 269482020174 Predicted dehydrogenase [General function prediction only]; Region: COG0579 269482020175 hydroxyglutarate oxidase; Provisional; Region: PRK11728 269482020176 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 269482020177 ATP binding site [chemical binding]; other site 269482020178 Walker B motif; other site 269482020179 arginine finger; other site 269482020180 Nitroreductase family. Members of this family utilize FMN as a cofactor and catalyze reduction of a variety of nitroaromatic compounds, including nitrofurans, nitrobenzens, nitrophenol, nitrobenzoate and quinones by using either NADH or NADPH as a source...; Region: Nitroreductase; cd02136 269482020181 putative FMN binding site [chemical binding]; other site 269482020182 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 269482020183 putative catalytic site [active] 269482020184 putative phosphate binding site [ion binding]; other site 269482020185 putative metal binding site [ion binding]; other site 269482020186 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 269482020187 Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible electron transfer between NADP(H) and electron carrier proteins such as ferredoxin and flavodoxin. Isoforms of these flavoproteins (i.e. having a non-covalently...; Region: FNR1; cd06195 269482020188 FAD binding pocket [chemical binding]; other site 269482020189 FAD binding motif [chemical binding]; other site 269482020190 phosphate binding motif [ion binding]; other site 269482020191 beta-alpha-beta structure motif; other site 269482020192 NAD binding pocket [chemical binding]; other site 269482020193 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 269482020194 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 269482020195 ATP binding site [chemical binding]; other site 269482020196 Mg2+ binding site [ion binding]; other site 269482020197 G-X-G motif; other site 269482020198 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 269482020199 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 269482020200 active site 269482020201 phosphorylation site [posttranslational modification] 269482020202 intermolecular recognition site; other site 269482020203 dimerization interface [polypeptide binding]; other site 269482020204 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 269482020205 DNA binding residues [nucleotide binding] 269482020206 dimerization interface [polypeptide binding]; other site 269482020207 amino acid transporter; Region: 2A0306; TIGR00909 269482020208 C-terminus of AA_permease; Region: AA_permease_C; pfam13906 269482020209 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 269482020210 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 269482020211 XdhC Rossmann domain; Region: XdhC_C; pfam13478 269482020212 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3295 269482020213 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 269482020214 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 269482020215 Flagellar protein FliT; Region: FliT; pfam05400 269482020216 flagellar protein FliS; Validated; Region: fliS; PRK05685 269482020217 Flagellar hook-basal body complex protein FliE; Region: FliE; cl09139 269482020218 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 269482020219 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; pfam01514 269482020220 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 269482020221 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 269482020222 FliG C-terminal domain; Region: FliG_C; pfam01706 269482020223 flagellar assembly protein H; Validated; Region: fliH; PRK05687 269482020224 Flagellar assembly protein FliH; Region: FliH; pfam02108 269482020225 flagellar protein export ATPase FliI; Region: FliI_clade1; TIGR03496 269482020226 Flagellum-specific ATPase/type III secretory pathway virulence-related protein. This group of ATPases are responsible for the export of flagellum and virulence-related proteins. The bacterial flagellar motor is similar to the F0F1-ATPase, in that they...; Region: ATPase_flagellum-secretory_path_III; cd01136 269482020227 Walker A motif/ATP binding site; other site 269482020228 Walker B motif; other site 269482020229 Flagellar biosynthesis chaperone [Cell motility and secretion / Intracellular trafficking and secretion / Posttranslational modification, protein turnover, chaperones]; Region: FliJ; COG2882 269482020230 flagellar biosynthesis chaperone; Validated; Region: fliJ; PRK05689 269482020231 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 269482020232 choline dehydrogenase; Validated; Region: PRK02106 269482020233 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 269482020234 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 269482020235 Coniferyl aldehyde dehydrogenase-like; Region: ALDH_CALDH_CalB; cd07133 269482020236 NAD(P) binding site [chemical binding]; other site 269482020237 catalytic residues [active] 269482020238 serine/threonine protein kinase; Provisional; Region: PRK11768 269482020239 Putative homoserine kinase type II (protein kinase fold) [General function prediction only]; Region: COG2334 269482020240 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 269482020241 EamA-like transporter family; Region: EamA; pfam00892 269482020242 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 269482020243 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 269482020244 active site 269482020245 catalytic tetrad [active] 269482020246 Protein of unknown function (DUF3185); Region: DUF3185; pfam11381 269482020247 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; cl17312 269482020248 S-adenosylmethionine synthetase; Validated; Region: PRK05250 269482020249 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 269482020250 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 269482020251 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 269482020252 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 269482020253 putative acyl-acceptor binding pocket; other site 269482020254 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 269482020255 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 269482020256 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 269482020257 Protein of unknown function, DUF484; Region: DUF484; cl17449 269482020258 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 269482020259 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 269482020260 active site 269482020261 DNA binding site [nucleotide binding] 269482020262 Int/Topo IB signature motif; other site 269482020263 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 269482020264 Putative RNA-binding Domain in PseudoUridine synthase and Archaeosine transglycosylase; Region: PUA; smart00359 269482020265 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 269482020266 putative RNA binding site [nucleotide binding]; other site 269482020267 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 269482020268 S-adenosylmethionine binding site [chemical binding]; other site 269482020269 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 269482020270 The function of this protein family is unkown. The amino acid sequence of YjiA protein in E. coli contains several conserved motifs that characterizes it as a P-loop GTPase. YijA gene is among the genes significantly induced in response to DNA-damage...; Region: CobW_like; cd03112 269482020271 P-loop, Walker A motif; other site 269482020272 Base recognition motif; other site 269482020273 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 269482020274 RNA polymerase-binding protein DksA; Region: dksA; TIGR02420 269482020275 Protease HslV and the ATPase/chaperone HslU are part of an ATP-dependent proteolytic system that is the prokaryotic homolog of the proteasome. HslV is a dimer of hexamers (a dodecamer) that forms a central proteolytic chamber with active sites on the...; Region: protease_HslV; cd01913 269482020276 active site 269482020277 HslU subunit interaction site [polypeptide binding]; other site 269482020278 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 269482020279 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 269482020280 Walker A motif; other site 269482020281 ATP binding site [chemical binding]; other site 269482020282 AAA domain (Cdc48 subfamily); Region: AAA_2; pfam07724 269482020283 Walker B motif; other site 269482020284 arginine finger; other site 269482020285 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 269482020286 Response regulator consisting of a CheY-like receiver domain and a Fis-type HTH domain [Signal transduction mechanisms / Transcription]; Region: COG4567 269482020287 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 269482020288 active site 269482020289 phosphorylation site [posttranslational modification] 269482020290 intermolecular recognition site; other site 269482020291 dimerization interface [polypeptide binding]; other site 269482020292 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 269482020293 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 269482020294 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 269482020295 dimer interface [polypeptide binding]; other site 269482020296 phosphorylation site [posttranslational modification] 269482020297 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 269482020298 ATP binding site [chemical binding]; other site 269482020299 Mg2+ binding site [ion binding]; other site 269482020300 G-X-G motif; other site 269482020301 AAK_NAGK-C: N-Acetyl-L-glutamate kinase - cyclic (NAGK-C) catalyzes the phosphorylation of the gamma-COOH group of N-acetyl-L-glutamate (NAG) by ATP in the second step of arginine biosynthesis found in some bacteria and photosynthetic organisms using the...; Region: AAK_NAGK-C; cd04250 269482020302 feedback inhibition sensing region; other site 269482020303 homohexameric interface [polypeptide binding]; other site 269482020304 nucleotide binding site [chemical binding]; other site 269482020305 N-acetyl-L-glutamate binding site [chemical binding]; other site 269482020306 pyrimidine 5'-nucleotidase; Region: Pyr-5-nucltdase; TIGR01993 269482020307 division inhibitor protein; Provisional; Region: slmA; PRK09480 269482020308 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 269482020309 Pertactin-like passenger domains (virulence factors), C-terminal, subgroup 2, of autotransporter proteins of the type V secretion system of Gram-negative bacteria. This subgroup includes the passenger domains of the nonprotease autotransporters, Ag43; Region: PL2_Passenger_AT; cd01344 269482020310 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 269482020311 Autotransporter beta-domain; Region: Autotransporter; smart00869 269482020312 homoserine O-acetyltransferase; Provisional; Region: metX; PRK00175 269482020313 homoserine O-acetyltransferase; Region: homoserO_Ac_trn; TIGR01392 269482020314 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 269482020315 muropeptide transporter; Reviewed; Region: ampG; PRK11902 269482020316 AmpG-like permease; Region: 2A0125; TIGR00901 269482020317 Peptidase family M48; Region: Peptidase_M48; cl12018 269482020318 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 269482020319 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 269482020320 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 269482020321 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD1; cd05283 269482020322 putative NAD(P) binding site [chemical binding]; other site 269482020323 putative substrate binding site [chemical binding]; other site 269482020324 catalytic Zn binding site [ion binding]; other site 269482020325 structural Zn binding site [ion binding]; other site 269482020326 dimer interface [polypeptide binding]; other site 269482020327 Neisseria meningitides Nape-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Nape_like_AP-endo; cd10281 269482020328 putative active site [active] 269482020329 putative catalytic site [active] 269482020330 putative DNA binding site [nucleotide binding]; other site 269482020331 putative phosphate binding site [ion binding]; other site 269482020332 metal binding site A [ion binding]; metal-binding site 269482020333 putative AP binding site [nucleotide binding]; other site 269482020334 putative metal binding site B [ion binding]; other site 269482020335 polyphosphate:nucleotide phosphotransferase, PPK2 family; Region: PPK2_rel_1; TIGR03709 269482020336 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 269482020337 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 269482020338 GatB domain; Region: GatB_Yqey; smart00845 269482020339 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 269482020340 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 269482020341 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 269482020342 rod shape-determining protein MreB; Provisional; Region: PRK13927 269482020343 MreB and similar proteins; Region: MreB_like; cd10225 269482020344 nucleotide binding site [chemical binding]; other site 269482020345 Mg binding site [ion binding]; other site 269482020346 putative protofilament interaction site [polypeptide binding]; other site 269482020347 RodZ interaction site [polypeptide binding]; other site 269482020348 Cell shape-determining protein [Cell envelope biogenesis, outer membrane]; Region: MreC; COG1792 269482020349 rod shape-determining protein MreC; Region: MreC; pfam04085 269482020350 Cell shape-determining protein [Cell envelope biogenesis, outer membrane]; Region: MreD; COG2891 269482020351 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 269482020352 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 269482020353 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 269482020354 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 269482020355 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 269482020356 Sel1-like repeats; Region: SEL1; smart00671 269482020357 Sel1-like repeats; Region: SEL1; smart00671 269482020358 Sel1-like repeats; Region: SEL1; smart00671 269482020359 2,4-dihydroxyhept-2-ene-1,7-dioic acid aldolase [Carbohydrate transport and metabolism]; Region: HpcH; COG3836 269482020360 6-pyruvoyl tetrahydropterin synthase; Region: PTPS; pfam01242 269482020361 active site 269482020362 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 269482020363 putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE; Region: rSAM_QueE_Ecoli; TIGR04322 269482020364 ExsB is a transcription regulator related protein. It is a subfamily of a Adenosine nucleotide binding superfamily of proteins. This protein family is represented by a single member in nearly every completed large (> 1000 genes) prokaryotic genome. In...; Region: ExsB; cd01995 269482020365 Ligand Binding Site [chemical binding]; other site 269482020366 Winged helix-turn helix; Region: HTH_29; pfam13551 269482020367 Homeodomain-like domain; Region: HTH_32; pfam13565 269482020368 Winged helix-turn helix; Region: HTH_33; pfam13592 269482020369 DDE superfamily endonuclease; Region: DDE_3; pfam13358 269482020370 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 269482020371 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 269482020372 CysQ, a 3'-Phosphoadenosine-5'-phosphosulfate (PAPS) 3'-phosphatase, is a bacterial member of the inositol monophosphatase family. It has been proposed that CysQ helps control intracellular levels of PAPS, which is an intermediate in...; Region: CysQ; cd01638 269482020373 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 269482020374 active site 269482020375 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 269482020376 This domain is found in phosphoadenosine phosphosulphate (PAPS) reductase enzymes or PAPS sulphotransferase. PAPS reductase is part of the adenine nucleotide alpha hydrolases superfamily also including N type ATP PPases and ATP sulphurylases. A highly...; Region: PAPS_reductase; cd01713 269482020377 Active Sites [active] 269482020378 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4529 269482020379 FAD-NAD(P)-binding; Region: NAD_binding_9; pfam13454 269482020380 bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Provisional; Region: PRK05506 269482020381 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 269482020382 CysD dimerization site [polypeptide binding]; other site 269482020383 G1 box; other site 269482020384 putative GEF interaction site [polypeptide binding]; other site 269482020385 GTP/Mg2+ binding site [chemical binding]; other site 269482020386 Switch I region; other site 269482020387 G2 box; other site 269482020388 G3 box; other site 269482020389 Switch II region; other site 269482020390 G4 box; other site 269482020391 G5 box; other site 269482020392 CysN_NodQ_II: This subfamily represents the domain II of the large subunit of ATP sulfurylase (ATPS): CysN or the N-terminal portion of NodQ, found mainly in proteobacteria and homologous to the domain II of EF-Tu. Escherichia coli ATPS consists of CysN...; Region: CysN_NodQ_II; cd03695 269482020393 TCysN_NoDQ_II: This subfamily represents the domain II of the large subunit of ATP sulfurylase (ATPS): CysN or the N-terminal portion of NodQ, found mainly in proteobacteria and homologous to the domain II of EF-Tu. Escherichia coli ATPS consists of CysN...; Region: CysN_NoDQ_III; cd04095 269482020394 Adenosine 5'-phosphosulfate kinase (APSK) catalyzes the phosphorylation of adenosine 5'-phosphosulfate to form 3'-phosphoadenosine 5'-phosphosulfate (PAPS). The end-product PAPS is a biologically "activated" sulfate form...; Region: APSK; cd02027 269482020395 ligand-binding site [chemical binding]; other site 269482020396 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3551 269482020397 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3551 269482020398 Glycosyl hydrolase family 99-like domain of WbsX-like glycosyltransferases; Region: Glyco_tran_WbsX; cd11579 269482020399 putative ligand binding site [chemical binding]; other site 269482020400 putative catalytic site [active] 269482020401 Rhamnan synthesis protein F; Region: RgpF; pfam05045 269482020402 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 269482020403 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 269482020404 Walker A/P-loop; other site 269482020405 ATP binding site [chemical binding]; other site 269482020406 Q-loop/lid; other site 269482020407 ABC transporter signature motif; other site 269482020408 Walker B; other site 269482020409 D-loop; other site 269482020410 H-loop/switch region; other site 269482020411 C-Terminal domain of O-antigenic polysaccharide transporter protein Wzt and related proteins; Region: Wzt_C-like; cd10147 269482020412 putative carbohydrate binding site [chemical binding]; other site 269482020413 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 269482020414 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 269482020415 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: rmlC; TIGR01221 269482020416 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 269482020417 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 269482020418 substrate binding site; other site 269482020419 tetramer interface; other site 269482020420 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 269482020421 dTDP-4-dehydrorhamnose reductase; Provisional; Region: PRK09987 269482020422 NADP binding site [chemical binding]; other site 269482020423 active site 269482020424 putative substrate binding site [chemical binding]; other site 269482020425 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 269482020426 Phosphoglucose isomerase (PGI) contains two SIS (Sugar ISomerase) domains. This classification is based on the alignment of the first SIS domain. PGI is a multifunctional enzyme which as an intracellular dimer catalyzes the reversible isomerization of...; Region: SIS_PGI_1; cd05015 269482020427 active site 269482020428 dimer interface [polypeptide binding]; other site 269482020429 Phosphoglucose isomerase (PGI) contains two SIS (Sugar ISomerase) domains. This classification is based on the alignment of the second SIS domain. PGI is a multifunctional enzyme which as an intracellular dimer catalyzes the reversible isomerization of...; Region: SIS_PGI_2; cd05016 269482020430 dimer interface [polypeptide binding]; other site 269482020431 active site 269482020432 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 269482020433 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 269482020434 NAD binding site [chemical binding]; other site 269482020435 substrate binding site [chemical binding]; other site 269482020436 homodimer interface [polypeptide binding]; other site 269482020437 active site 269482020438 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 269482020439 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_d; cd04196 269482020440 Probable Catalytic site; other site 269482020441 Protein of unknown function (DUF3154); Region: DUF3154; pfam11351 269482020442 Bacteriophage lambda tail assembly protein I; Region: Lambda_tail_I; pfam06805 269482020443 Putative phage tail protein; Region: Phage-tail_3; pfam13550 269482020444 NlpC/P60 family; Region: NLPC_P60; cl17555 269482020445 Domain of unknown function (DUF1833); Region: DUF1833; pfam08875 269482020446 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1; pfam00415 269482020447 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1; pfam00415 269482020448 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1; pfam00415 269482020449 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1; pfam00415 269482020450 Alpha-tubulin suppressor and related RCC1 domain-containing proteins [Cell division and chromosome partitioning / Cytoskeleton]; Region: ATS1; COG5184 269482020451 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1; pfam00415 269482020452 phage tail tape measure protein, lambda family; Region: tape_meas_lam_C; TIGR01541 269482020453 Lambda phage tail tape-measure protein (Tape_meas_lam_C); Region: Tape_meas_lam_C; pfam09718 269482020454 Phage major capsid protein E; Region: Phage_cap_E; pfam03864 269482020455 Bacteriophage lambda head decoration protein D; Region: HDPD; pfam02924 269482020456 Signal peptide peptidase A (SppA) 36K type, a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_36K_type; cd07022 269482020457 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 269482020458 tandem repeat interface [polypeptide binding]; other site 269482020459 oligomer interface [polypeptide binding]; other site 269482020460 active site residues [active] 269482020461 phage portal protein, lambda family; Region: portal_lambda; TIGR01539 269482020462 Phage portal protein, lambda family; Region: Phage_portal_2; pfam05136 269482020463 Phage terminase large subunit (GpA); Region: Terminase_GpA; pfam05876 269482020464 Protein of unknown function (DUF3489); Region: DUF3489; pfam11994 269482020465 Protein of unknown function (DUF3423); Region: DUF3423; pfam11903 269482020466 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl17483 269482020467 ParB-like nuclease domain; Region: ParBc; pfam02195 269482020468 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 269482020469 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 269482020470 DNA methylase; Region: N6_N4_Mtase; pfam01555 269482020471 Peptidase M15; Region: Peptidase_M15_3; pfam08291 269482020472 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 269482020473 ParB-like nuclease domain; Region: ParB; smart00470 269482020474 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 269482020475 DNA methylase; Region: N6_N4_Mtase; pfam01555 269482020476 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 269482020477 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 269482020478 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 269482020479 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 269482020480 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 269482020481 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 269482020482 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 269482020483 RNA polymerase sigma factor SigZ; Provisional; Region: PRK09637 269482020484 active site 269482020485 dimer interface [polypeptide binding]; other site 269482020486 putative DNA-binding cleft [nucleotide binding]; other site 269482020487 Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD...; Region: RuvC_resolvase; cl17280 269482020488 hypothetical protein; Validated; Region: PRK07078 269482020489 TOPRIM_primases: The topoisomerase-primase (TORPIM) nucleotidyl transferase/hydrolase domain found in the active site regions of bacterial DnaG-type primases and their homologs. Primases synthesize RNA primers for the initiation of DNA replication. DnaG...; Region: TOPRIM_primases; cd01029 269482020490 active site 269482020491 metal binding site [ion binding]; metal-binding site 269482020492 interdomain interaction site; other site 269482020493 D5 N terminal like; Region: D5_N; pfam08706 269482020494 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 269482020495 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cd00046 269482020496 ATP binding site [chemical binding]; other site 269482020497 putative Mg++ binding site [ion binding]; other site 269482020498 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cd00079 269482020499 nucleotide binding region [chemical binding]; other site 269482020500 ATP-binding site [chemical binding]; other site 269482020501 Uncharacterized protein family UPF0547; Region: UPF0547; pfam10571 269482020502 AAA domain; Region: AAA_24; pfam13479 269482020503 Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates...; Region: NK; cl17190 269482020504 active site 269482020505 Helix-turn-helix domain; Region: HTH_17; pfam12728 269482020506 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 269482020507 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 269482020508 catalytic residues [active] 269482020509 catalytic nucleophile [active] 269482020510 Presynaptic Site I dimer interface [polypeptide binding]; other site 269482020511 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 269482020512 Synaptic Flat tetramer interface [polypeptide binding]; other site 269482020513 Synaptic Site I dimer interface [polypeptide binding]; other site 269482020514 DNA binding site [nucleotide binding] 269482020515 Recombinase; Region: Recombinase; pfam07508 269482020516 Protein of unknown function (DUF2924); Region: DUF2924; pfam11149 269482020517 Domain of unknown function (DUF955); Region: DUF955; cl01076 269482020518 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 269482020519 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 269482020520 non-specific DNA binding site [nucleotide binding]; other site 269482020521 salt bridge; other site 269482020522 sequence-specific DNA binding site [nucleotide binding]; other site 269482020523 putative Zn-ribbon RNA-binding protein; Provisional; Region: PRK14890 269482020524 Response regulator receiver domain; Region: Response_reg; pfam00072 269482020525 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 269482020526 active site 269482020527 phosphorylation site [posttranslational modification] 269482020528 intermolecular recognition site; other site 269482020529 dimerization interface [polypeptide binding]; other site 269482020530 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 269482020531 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 269482020532 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 269482020533 dimerization interface [polypeptide binding]; other site 269482020534 PAS domain; Region: PAS; smart00091 269482020535 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 269482020536 dimer interface [polypeptide binding]; other site 269482020537 phosphorylation site [posttranslational modification] 269482020538 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 269482020539 ATP binding site [chemical binding]; other site 269482020540 Mg2+ binding site [ion binding]; other site 269482020541 G-X-G motif; other site 269482020542 Domain of unknown function (DUF4390); Region: DUF4390; pfam14334 269482020543 16S rRNA methyltransferase B; Provisional; Region: PRK10901 269482020544 RNA binding domain of NusB (N protein-Utilization Substance B) and Sun (also known as RrmB or Fmu) proteins. This family includes two orthologous groups exemplified by the transcription termination factor NusB and the N-terminal domain of the...; Region: NusB_Sun; cl00223 269482020545 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cd02440 269482020546 S-adenosylmethionine binding site [chemical binding]; other site 269482020547 M48 family peptidase; Provisional; Region: PRK03001 269482020548 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 269482020549 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 269482020550 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 269482020551 putative active site [active] 269482020552 substrate binding site [chemical binding]; other site 269482020553 putative cosubstrate binding site; other site 269482020554 catalytic site [active] 269482020555 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 269482020556 substrate binding site [chemical binding]; other site 269482020557 Polypeptide or peptide deformylase; a family of metalloenzymes that catalyzes the removal of the N-terminal formyl group in a growing polypeptide chain following translation initiation during protein synthesis in prokaryotes. These enzymes utilize Fe(II)...; Region: Pep_deformylase; cd00487 269482020558 active site 269482020559 catalytic residues [active] 269482020560 metal binding site [ion binding]; metal-binding site 269482020561 DNA protecting protein DprA; Region: dprA; TIGR00732 269482020562 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 269482020563 TRX family; composed of two groups: Group I, which includes proteins that exclusively encode a TRX domain; and Group II, which are composed of fusion proteins of TRX and additional domains. Group I TRX is a small ancient protein that alter the redox...; Region: TRX_family; cd02947 269482020564 catalytic residues [active] 269482020565 DNA topoisomerase III; Validated; Region: PRK08173 269482020566 TOPRIM_TopoIA_TopoIII: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to topoisomerase III. Type IA DNA topoisomerases remove (relax) negative supercoils in the DNA by: cleaving...; Region: TOPRIM_TopoIA_TopoIII; cd03362 269482020567 active site 269482020568 putative interdomain interaction site [polypeptide binding]; other site 269482020569 putative metal-binding site [ion binding]; other site 269482020570 putative nucleotide binding site [chemical binding]; other site 269482020571 DNA Topoisomerase, subtype IA; DNA-binding, ATP-binding and catalytic domain of bacterial DNA topoisomerases I and III, and eukaryotic DNA topoisomerase III and eubacterial and archael reverse gyrases. Topoisomerases clevage single or double stranded DNA...; Region: TOP1Ac; cd00186 269482020572 domain I; other site 269482020573 DNA binding groove [nucleotide binding] 269482020574 phosphate binding site [ion binding]; other site 269482020575 domain II; other site 269482020576 domain III; other site 269482020577 nucleotide binding site [chemical binding]; other site 269482020578 catalytic site [active] 269482020579 domain IV; other site 269482020580 C-terminal repeat of topoisomerase; Region: Toprim_Crpt; pfam13342 269482020581 C-terminal repeat of topoisomerase; Region: Toprim_Crpt; pfam13342 269482020582 Transcriptional regulator [Transcription]; Region: LysR; COG0583 269482020583 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 269482020584 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 269482020585 putative effector binding pocket; other site 269482020586 dimerization interface [polypeptide binding]; other site 269482020587 Putative D-3-Phosphoglycerate Dehydrogenases; Region: PGDH_like_1; cd12169 269482020588 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 269482020589 dimerization interface [polypeptide binding]; other site 269482020590 NAD binding site [chemical binding]; other site 269482020591 ligand binding site [chemical binding]; other site 269482020592 catalytic site [active] 269482020593 Patatin-like phospholipase; Region: Patatin; pfam01734 269482020594 active site 269482020595 nucleophile elbow; other site 269482020596 PaaI_thioesterase is a tetrameric acyl-CoA thioesterase with a hot dog fold and one of several proteins responsible for phenylacetic acid (PA) degradation in bacteria. Although orthologs of PaaI exist in archaea and eukaryotes, their function has not...; Region: PaaI_thioesterase; cd03443 269482020597 CoenzymeA binding site [chemical binding]; other site 269482020598 subunit interaction site [polypeptide binding]; other site 269482020599 PHB binding site; other site 269482020600 Protein of unknown function (DUF3592); Region: DUF3592; pfam12158 269482020601 Protein of unknown function (DUF3592); Region: DUF3592; pfam12158 269482020602 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 269482020603 L-lactate permease; Region: Lactate_perm; cl00701 269482020604 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 269482020605 glutamate--cysteine ligase; Provisional; Region: PRK02107 269482020606 AlkA N-terminal domain; Region: AlkA_N; pfam06029 269482020607 3-methyl-adenine DNA glycosylase II; Provisional; Region: PRK10308 269482020608 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 269482020609 minor groove reading motif; other site 269482020610 helix-hairpin-helix signature motif; other site 269482020611 substrate binding pocket [chemical binding]; other site 269482020612 active site 269482020613 bifunctional DNA-binding transcriptional dual regulator/O6-methylguanine-DNA methyltransferase; Provisional; Region: PRK15435 269482020614 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 269482020615 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 269482020616 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 269482020617 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 269482020618 The DNA repair protein O6-alkylguanine-DNA alkyltransferase (ATase; also known as AGT, AGAT and MGMT) reverses O6-alkylation DNA damage by transferring O6-alkyl adducts to an active site cysteine irreversibly, without inducing DNA strand breaks. ATases...; Region: ATase; cd06445 269482020619 DNA binding site [nucleotide binding] 269482020620 active site 269482020621 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_2; cd07253 269482020622 dimer interface [polypeptide binding]; other site 269482020623 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 269482020624 metal binding site [ion binding]; metal-binding site 269482020625 YaeQ protein; Region: YaeQ; pfam07152 269482020626 spermidine N1-acetyltransferase; Provisional; Region: PRK15130 269482020627 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 269482020628 Coenzyme A binding pocket [chemical binding]; other site 269482020629 Protein of unknown function (DUF2795); Region: DUF2795; pfam11387 269482020630 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 269482020631 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 269482020632 metal binding site [ion binding]; metal-binding site 269482020633 active site 269482020634 I-site; other site 269482020635 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 269482020636 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 269482020637 trmE is a tRNA modification GTPase; Region: trmE; cd04164 269482020638 G1 box; other site 269482020639 GTP/Mg2+ binding site [chemical binding]; other site 269482020640 Switch I region; other site 269482020641 G2 box; other site 269482020642 Switch II region; other site 269482020643 G3 box; other site 269482020644 G4 box; other site 269482020645 G5 box; other site 269482020646 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 269482020647 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cd00093 269482020648 non-specific DNA binding site [nucleotide binding]; other site 269482020649 salt bridge; other site 269482020650 sequence-specific DNA binding site [nucleotide binding]; other site 269482020651 membrane protein insertase; Provisional; Region: PRK01318 269482020652 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 269482020653 hypothetical protein; Validated; Region: PRK00041 269482020654 Ribonuclease P; Region: Ribonuclease_P; cl00457 269482020655 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399