-- dump date 20140620_023426 -- class Genbank::misc_feature -- table misc_feature_note -- id note 859655000001 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 859655000002 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 859655000003 P-loop; other site 859655000004 Magnesium ion binding site [ion binding]; other site 859655000005 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 859655000006 Magnesium ion binding site [ion binding]; other site 859655000007 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 859655000008 ParB-like nuclease domain; Region: ParB; smart00470 859655000009 Domain of unknown function (DUF932); Region: DUF932; pfam06067 859655000010 Plasmid replication region DNA-binding N-term; Region: KfrA_N; pfam11740 859655000011 SprT homologues; Region: SprT; cl01182 859655000012 SprT-like family; Region: SprT-like; pfam10263 859655000013 topology modulation protein; Provisional; Region: PRK07261 859655000014 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 859655000015 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 859655000016 Type IV secretion-system coupling protein DNA-binding domain; Region: TrwB_AAD_bind; pfam10412 859655000017 Walker A motif; other site 859655000018 ATP binding site [chemical binding]; other site 859655000019 Walker B motif; other site 859655000020 TrwC relaxase; Region: TrwC; pfam08751 859655000021 conjugative relaxase domain, TrwC/TraI family; Region: relax_trwC; TIGR02686 859655000022 AAA domain; Region: AAA_30; pfam13604 859655000023 Family description; Region: UvrD_C_2; pfam13538 859655000024 Uncharacterized ACR, COG1430; Region: DUF192; pfam02643 859655000025 Predicted transcriptional regulators containing the CopG/Arc/MetJ DNA-binding domain and a metal-binding domain [Transcription]; Region: NikR; COG0864 859655000026 C-5 cytosine-specific DNA methylase; Region: DNA_methylase; pfam00145 859655000027 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 859655000028 cofactor binding site; other site 859655000029 DNA binding site [nucleotide binding] 859655000030 substrate interaction site [chemical binding]; other site 859655000031 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 859655000032 Very Short Patch Repair (Vsr) Endonuclease. Endonucleases in DNA repair that recognize damaged DNA and cleave the phosphodiester backbone. Vsr endonucleases have a common endonuclease topology that has been tailored for recognition of TG mismatches; Region: Vsr; cd00221 859655000033 mismatch recognition site; other site 859655000034 additional DNA contacts [nucleotide binding]; other site 859655000035 active site 859655000036 zinc binding site [ion binding]; other site 859655000037 DNA intercalation site [nucleotide binding]; other site 859655000038 Catalytic domain of EDTA-resistant nuclease Nuc from Salmonella typhimurium and similar proteins; Region: PLDc_Nuc; cd09170 859655000039 PLD-like domain; Region: PLDc_2; pfam13091 859655000040 putative active site [active] 859655000041 catalytic site [active] 859655000042 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 859655000043 N-acetyl-D-glucosamine binding site [chemical binding]; other site 859655000044 catalytic residue [active] 859655000045 P-type DNA transfer ATPase VirB11; Region: VirB11; TIGR02788 859655000046 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 859655000047 Walker A motif; other site 859655000048 hexamer interface [polypeptide binding]; other site 859655000049 ATP binding site [chemical binding]; other site 859655000050 Walker B motif; other site 859655000051 Bacterial conjugation TrbI-like protein; Region: TrbI; pfam03743 859655000052 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cl11423 859655000053 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 859655000054 VirB7 interaction site; other site 859655000055 VirB8 protein; Region: VirB8; pfam04335 859655000056 TrbL/VirB6 plasmid conjugal transfer protein; Region: TrbL; pfam04610 859655000057 P-type DNA transfer protein VirB5; Region: VirB5; TIGR02791 859655000058 Type IV secretion system proteins; Region: T4SS; pfam07996 859655000059 type IV secretion system ATPase VirB4; Provisional; Region: PRK13898 859655000060 CagE, TrbE, VirB family, component of type IV transporter system; Region: CagE_TrbE_VirB; pfam03135 859655000061 Type IV secretory pathway, VirB3-like protein; Region: VirB3; cl01501 859655000062 TrbC/VIRB2 family; Region: TrbC; pfam04956 859655000063 multiple promoter invertase; Provisional; Region: mpi; PRK13413 859655000064 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 859655000065 catalytic residues [active] 859655000066 catalytic nucleophile [active] 859655000067 Presynaptic Site I dimer interface [polypeptide binding]; other site 859655000068 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 859655000069 Synaptic Flat tetramer interface [polypeptide binding]; other site 859655000070 Synaptic Site I dimer interface [polypeptide binding]; other site 859655000071 DNA binding site [nucleotide binding] 859655000072 Helix-turn-helix domain; Region: HTH_38; pfam13936 859655000073 Zeta toxin; Region: Zeta_toxin; pfam06414 859655000074 Plasmid encoded RepA protein; Region: RepA_C; pfam04796 859655000075 DnaA N-terminal domain; Region: DnaA_N; pfam11638 859655000076 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 859655000077 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 859655000078 Walker A motif; other site 859655000079 ATP binding site [chemical binding]; other site 859655000080 Walker B motif; other site 859655000081 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 859655000082 arginine finger; other site 859655000083 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 859655000084 DnaA box-binding interface [nucleotide binding]; other site 859655000085 DNA polymerase III subunit beta; Validated; Region: PRK05643 859655000086 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 859655000087 putative DNA binding surface [nucleotide binding]; other site 859655000088 dimer interface [polypeptide binding]; other site 859655000089 beta-clamp/clamp loader binding surface; other site 859655000090 beta-clamp/translesion DNA polymerase binding surface; other site 859655000091 DNA topoisomerase IV, B subunit, Gram-positive; Region: parE_Gpos; TIGR01058 859655000092 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 859655000093 ATP binding site [chemical binding]; other site 859655000094 Mg2+ binding site [ion binding]; other site 859655000095 G-X-G motif; other site 859655000096 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 859655000097 anchoring element; other site 859655000098 dimer interface [polypeptide binding]; other site 859655000099 ATP binding site [chemical binding]; other site 859655000100 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 859655000101 active site 859655000102 putative metal-binding site [ion binding]; other site 859655000103 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 859655000104 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 859655000105 putative active site [active] 859655000106 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 859655000107 non-specific DNA binding site [nucleotide binding]; other site 859655000108 salt bridge; other site 859655000109 sequence-specific DNA binding site [nucleotide binding]; other site 859655000110 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 859655000111 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 859655000112 Walker A motif; other site 859655000113 ATP binding site [chemical binding]; other site 859655000114 Walker B motif; other site 859655000115 arginine finger; other site 859655000116 Peptidase S8 family domain in Subtilisin-like proteins; Region: Peptidases_S8_Subtilisin_like_2; cd04847 859655000117 active site 859655000118 catalytic triad [active] 859655000119 AAA domain; Region: AAA_21; pfam13304 859655000120 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 859655000121 ABC transporter signature motif; other site 859655000122 Walker B; other site 859655000123 D-loop; other site 859655000124 H-loop/switch region; other site 859655000125 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; pfam13808 859655000126 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; cl17880 859655000127 RT_like: Reverse transcriptase (RT, RNA-dependent DNA polymerase)_like family. An RT gene is usually indicative of a mobile element such as a retrotransposon or retrovirus. RTs occur in a variety of mobile elements, including retrotransposons; Region: RT_like; cl02808 859655000128 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; pfam13808 859655000129 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; cl17880 859655000130 Protein of unknown function DUF45; Region: DUF45; pfam01863 859655000131 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 859655000132 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 859655000133 Type III restriction enzyme, res subunit; Region: ResIII; pfam04851 859655000134 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme 859655000135 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme 859655000136 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 859655000137 HsdM N-terminal domain; Region: HsdM_N; pfam12161 859655000138 Methyltransferase domain; Region: Methyltransf_26; pfam13659 859655000139 Integrase core domain; Region: rve; pfam00665 859655000140 Mu transposase, C-terminal; Region: Mu-transpos_C; pfam09299 859655000141 AAA domain; Region: AAA_22; pfam13401 859655000142 TniQ; Region: TniQ; pfam06527 859655000143 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 859655000144 WYL domain; Region: WYL; pfam13280 859655000145 Domain of unknown function (DUF4194); Region: DUF4194; pfam13835 859655000146 P-loop containing region of AAA domain; Region: AAA_29; pfam13555 859655000147 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4913 859655000148 Putative exonuclease SbcCD, C subunit; Region: SbcCD_C; pfam13558 859655000149 RmuC family; Region: RmuC; pfam02646 859655000150 ParB-like nuclease domain; Region: ParBc; cl02129 859655000151 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 859655000152 RepB plasmid partitioning protein; Region: RepB; pfam07506 859655000153 ParB-like nuclease domain; Region: ParB; smart00470 859655000154 RepB plasmid partitioning protein; Region: RepB; pfam07506 859655000155 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 859655000156 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; cd00338 859655000157 catalytic residues [active] 859655000158 catalytic nucleophile [active] 859655000159 Recombinase; Region: Recombinase; pfam07508 859655000160 Evidence 2b : Function of strongly homologous gene; Product type cp : cell process 859655000161 Restriction endonuclease; Region: Mrr_cat; pfam04471 859655000162 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 859655000163 Predicted membrane protein [Function unknown]; Region: COG3781 859655000164 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 859655000165 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 859655000166 dimer interface [polypeptide binding]; other site 859655000167 putative CheW interface [polypeptide binding]; other site 859655000168 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 859655000169 Transcriptional regulator [Transcription]; Region: IclR; COG1414 859655000170 Bacterial transcriptional regulator; Region: IclR; pfam01614 859655000171 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 859655000172 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 859655000173 substrate binding pocket [chemical binding]; other site 859655000174 membrane-bound complex binding site; other site 859655000175 hinge residues; other site 859655000176 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 859655000177 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 859655000178 dimer interface [polypeptide binding]; other site 859655000179 conserved gate region; other site 859655000180 putative PBP binding loops; other site 859655000181 ABC-ATPase subunit interface; other site 859655000182 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 859655000183 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 859655000184 Walker A/P-loop; other site 859655000185 ATP binding site [chemical binding]; other site 859655000186 Q-loop/lid; other site 859655000187 ABC transporter signature motif; other site 859655000188 Walker B; other site 859655000189 D-loop; other site 859655000190 H-loop/switch region; other site 859655000191 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 859655000192 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 859655000193 Predicted integral membrane protein (DUF2269); Region: DUF2269; pfam10027 859655000194 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 859655000195 NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, subunit 9, 39 kDa, (NDUFA9) -like, atypical (a) SDRs; Region: NDUFA9_like_SDR_a; cd05271 859655000196 putative NAD(P) binding site [chemical binding]; other site 859655000197 active site 859655000198 DoxX-like family; Region: DoxX_3; pfam13781 859655000199 Predicted transcriptional regulators [Transcription]; Region: COG1510 859655000200 MarR family; Region: MarR_2; pfam12802 859655000201 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 859655000202 Uncharacterized membrane-anchored protein conserved in bacteria [Function unknown]; Region: COG4705 859655000203 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 859655000204 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 859655000205 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 859655000206 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 859655000207 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 859655000208 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 859655000209 active site 859655000210 phosphorylation site [posttranslational modification] 859655000211 intermolecular recognition site; other site 859655000212 dimerization interface [polypeptide binding]; other site 859655000213 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 859655000214 DNA binding site [nucleotide binding] 859655000215 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 859655000216 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 859655000217 dimer interface [polypeptide binding]; other site 859655000218 phosphorylation site [posttranslational modification] 859655000219 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 859655000220 ATP binding site [chemical binding]; other site 859655000221 Mg2+ binding site [ion binding]; other site 859655000222 G-X-G motif; other site 859655000223 CAAX protease self-immunity; Region: Abi; pfam02517 859655000224 hypothetical protein; Validated; Region: PRK09169 859655000225 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 859655000226 synthetase active site [active] 859655000227 NTP binding site [chemical binding]; other site 859655000228 metal binding site [ion binding]; metal-binding site 859655000229 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 859655000230 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 859655000231 putative substrate translocation pore; other site 859655000232 NnrS protein; Region: NnrS; cl01258 859655000233 bifunctional nitric oxide dioxygenase/dihydropteridine reductase 2; Provisional; Region: PRK13289 859655000234 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 859655000235 heme-binding site [chemical binding]; other site 859655000236 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 859655000237 FAD binding pocket [chemical binding]; other site 859655000238 FAD binding motif [chemical binding]; other site 859655000239 phosphate binding motif [ion binding]; other site 859655000240 beta-alpha-beta structure motif; other site 859655000241 NAD binding pocket [chemical binding]; other site 859655000242 Heme binding pocket [chemical binding]; other site 859655000243 Transcriptional regulator; Region: Rrf2; cl17282 859655000244 Rrf2 family protein; Region: rrf2_super; TIGR00738 859655000245 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 859655000246 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 859655000247 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: HsdR; COG4096 859655000248 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 859655000249 Type III restriction enzyme, res subunit; Region: ResIII; pfam04851 859655000250 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 859655000251 sensor protein QseC; Provisional; Region: PRK10337 859655000252 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 859655000253 dimer interface [polypeptide binding]; other site 859655000254 phosphorylation site [posttranslational modification] 859655000255 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 859655000256 ATP binding site [chemical binding]; other site 859655000257 Mg2+ binding site [ion binding]; other site 859655000258 G-X-G motif; other site 859655000259 transcriptional regulatory protein TctD; Provisional; Region: PRK15479 859655000260 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 859655000261 active site 859655000262 phosphorylation site [posttranslational modification] 859655000263 intermolecular recognition site; other site 859655000264 dimerization interface [polypeptide binding]; other site 859655000265 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 859655000266 DNA binding site [nucleotide binding] 859655000267 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 859655000268 NMT1/THI5 like; Region: NMT1; pfam09084 859655000269 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 859655000270 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 859655000271 eyelet of channel; other site 859655000272 trimer interface [polypeptide binding]; other site 859655000273 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 859655000274 CoenzymeA binding site [chemical binding]; other site 859655000275 subunit interaction site [polypeptide binding]; other site 859655000276 PHB binding site; other site 859655000277 Isochorismatase family; Region: Isochorismatase; pfam00857 859655000278 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 859655000279 catalytic triad [active] 859655000280 conserved cis-peptide bond; other site 859655000281 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 859655000282 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 859655000283 active site 859655000284 phosphorylation site [posttranslational modification] 859655000285 intermolecular recognition site; other site 859655000286 dimerization interface [polypeptide binding]; other site 859655000287 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 859655000288 DNA binding residues [nucleotide binding] 859655000289 dimerization interface [polypeptide binding]; other site 859655000290 Response regulator receiver domain; Region: Response_reg; pfam00072 859655000291 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 859655000292 active site 859655000293 phosphorylation site [posttranslational modification] 859655000294 intermolecular recognition site; other site 859655000295 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 859655000296 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 859655000297 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 859655000298 Osmosensitive K+ channel histidine kinase [Signal transduction mechanisms]; Region: KdpD; COG2205 859655000299 Osmosensitive K+ channel His kinase sensor domain; Region: KdpD; pfam02702 859655000300 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 859655000301 Ligand Binding Site [chemical binding]; other site 859655000302 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 859655000303 GAF domain; Region: GAF_3; pfam13492 859655000304 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 859655000305 dimer interface [polypeptide binding]; other site 859655000306 phosphorylation site [posttranslational modification] 859655000307 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 859655000308 ATP binding site [chemical binding]; other site 859655000309 Mg2+ binding site [ion binding]; other site 859655000310 G-X-G motif; other site 859655000311 potassium-transporting ATPase subunit C; Reviewed; Region: PRK00315 859655000312 potassium-transporting ATPase subunit B; Provisional; Region: PRK01122 859655000313 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 859655000314 potassium-transporting ATPase subunit A; Provisional; Region: PRK05482 859655000315 conserved hypothetical protein, proteobacterial; Region: gcw_chp; TIGR02001 859655000316 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Validated; Region: PRK05584 859655000317 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 859655000318 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 859655000319 DNA binding residues [nucleotide binding] 859655000320 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 859655000321 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 859655000322 Walker A/P-loop; other site 859655000323 ATP binding site [chemical binding]; other site 859655000324 Q-loop/lid; other site 859655000325 ABC transporter signature motif; other site 859655000326 Walker B; other site 859655000327 D-loop; other site 859655000328 H-loop/switch region; other site 859655000329 ABC nitrate/sulfonate/bicarbonate family transporter, ATPase subunit; Region: ABC_transp; cl15413 859655000330 ABC-type anion transport system, duplicated permease component [Inorganic ion transport and metabolism]; Region: COG4986 859655000331 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 859655000332 dimer interface [polypeptide binding]; other site 859655000333 conserved gate region; other site 859655000334 putative PBP binding loops; other site 859655000335 ABC-ATPase subunit interface; other site 859655000336 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 859655000337 Acylphosphatases [Energy production and conversion]; Region: AcyP; COG1254 859655000338 Protein involved in catabolism of external DNA [General function prediction only]; Region: ComJ; COG2961 859655000339 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 859655000340 CoA-transferase family III; Region: CoA_transf_3; pfam02515 859655000341 cell division topological specificity factor MinE; Provisional; Region: PRK13989 859655000342 Septum formation inhibitor-activating ATPase [Cell division and chromosome partitioning]; Region: MinD; COG2894 859655000343 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 859655000344 Switch I; other site 859655000345 Switch II; other site 859655000346 septum formation inhibitor; Reviewed; Region: PRK01973 859655000347 Septum formation inhibitor MinC, N-terminal domain; Region: MinC_N; pfam05209 859655000348 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 859655000349 bifunctional 2',3'-cyclic nucleotide 2'-phosphodiesterase/3'-nucleotidase periplasmic precursor protein; Reviewed; Region: cpdB; PRK09420 859655000350 Escherichia coli CpdB and related proteins, N-terminal metallophosphatase domain; Region: MPP_CpdB_N; cd07410 859655000351 active site 859655000352 metal binding site [ion binding]; metal-binding site 859655000353 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 859655000354 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 859655000355 Sel1-like repeats; Region: SEL1; smart00671 859655000356 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 859655000357 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 859655000358 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 859655000359 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4322 859655000360 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 859655000361 IHF dimer interface [polypeptide binding]; other site 859655000362 IHF - DNA interface [nucleotide binding]; other site 859655000363 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme 859655000364 Protein of unknown function (DUF3717); Region: DUF3717; pfam12512 859655000365 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 859655000366 aromatic arch; other site 859655000367 DCoH dimer interaction site [polypeptide binding]; other site 859655000368 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 859655000369 DCoH tetramer interaction site [polypeptide binding]; other site 859655000370 substrate binding site [chemical binding]; other site 859655000371 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 859655000372 cofactor binding site; other site 859655000373 metal binding site [ion binding]; metal-binding site 859655000374 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 859655000375 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 859655000376 AsnC family; Region: AsnC_trans_reg; pfam01037 859655000377 Predicted membrane protein [Function unknown]; Region: COG3714 859655000378 ornithine cyclodeaminase; Validated; Region: PRK07340 859655000379 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 859655000380 Outer membrane protein W [Cell envelope biogenesis, outer membrane]; Region: OmpW; COG3047 859655000381 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 859655000382 metal-binding site [ion binding] 859655000383 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 859655000384 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 859655000385 metal-binding site [ion binding] 859655000386 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 859655000387 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 859655000388 motif II; other site 859655000389 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 859655000390 Helix-Turn-Helix DNA binding domain of CueR-like transcription regulators; Region: HTH_CueR; cd01108 859655000391 DNA binding residues [nucleotide binding] 859655000392 dimer interface [polypeptide binding]; other site 859655000393 copper binding site [ion binding]; other site 859655000394 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 859655000395 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 859655000396 Serine hydrolase; Region: Ser_hydrolase; cl17834 859655000397 choline dehydrogenase; Validated; Region: PRK02106 859655000398 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 859655000399 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 859655000400 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 859655000401 Walker A/P-loop; other site 859655000402 ATP binding site [chemical binding]; other site 859655000403 Q-loop/lid; other site 859655000404 ABC transporter signature motif; other site 859655000405 Walker B; other site 859655000406 D-loop; other site 859655000407 H-loop/switch region; other site 859655000408 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 859655000409 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 859655000410 Walker A/P-loop; other site 859655000411 ATP binding site [chemical binding]; other site 859655000412 Q-loop/lid; other site 859655000413 ABC transporter signature motif; other site 859655000414 Walker B; other site 859655000415 D-loop; other site 859655000416 H-loop/switch region; other site 859655000417 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 859655000418 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 859655000419 putative ligand binding site [chemical binding]; other site 859655000420 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 859655000421 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 859655000422 TM-ABC transporter signature motif; other site 859655000423 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 859655000424 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 859655000425 TM-ABC transporter signature motif; other site 859655000426 hypothetical protein; Provisional; Region: PRK10621 859655000427 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 859655000428 Evidence 2b : Function of strongly homologous gene; Product type pr : putative regulator 859655000429 Protein of unknown function (DUF3820); Region: DUF3820; pfam12843 859655000430 Transcriptional regulator [Transcription]; Region: LysR; COG0583 859655000431 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 859655000432 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_8; cd08477 859655000433 putative effector binding pocket; other site 859655000434 putative dimerization interface [polypeptide binding]; other site 859655000435 Lin1944 and related proteins, classical (c) SDRs; Region: Lin1944_like_SDR_c; cd11731 859655000436 putative NAD(P) binding site [chemical binding]; other site 859655000437 homodimer interface [polypeptide binding]; other site 859655000438 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 859655000439 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 859655000440 putative ligand binding site [chemical binding]; other site 859655000441 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 859655000442 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 859655000443 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 859655000444 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 859655000445 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 859655000446 S-adenosylmethionine binding site [chemical binding]; other site 859655000447 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 859655000448 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 859655000449 P-loop; other site 859655000450 Magnesium ion binding site [ion binding]; other site 859655000451 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 859655000452 Magnesium ion binding site [ion binding]; other site 859655000453 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 859655000454 ParB-like nuclease domain; Region: ParB; smart00470 859655000455 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 859655000456 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 859655000457 F0F1 ATP synthase subunit C; Validated; Region: PRK06876 859655000458 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 859655000459 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 859655000460 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 859655000461 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 859655000462 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 859655000463 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 859655000464 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 859655000465 beta subunit interaction interface [polypeptide binding]; other site 859655000466 Walker A motif; other site 859655000467 ATP binding site [chemical binding]; other site 859655000468 Walker B motif; other site 859655000469 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 859655000470 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 859655000471 core domain interface [polypeptide binding]; other site 859655000472 delta subunit interface [polypeptide binding]; other site 859655000473 epsilon subunit interface [polypeptide binding]; other site 859655000474 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 859655000475 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 859655000476 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 859655000477 alpha subunit interaction interface [polypeptide binding]; other site 859655000478 Walker A motif; other site 859655000479 ATP binding site [chemical binding]; other site 859655000480 Walker B motif; other site 859655000481 inhibitor binding site; inhibition site 859655000482 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 859655000483 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 859655000484 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 859655000485 gamma subunit interface [polypeptide binding]; other site 859655000486 epsilon subunit interface [polypeptide binding]; other site 859655000487 LBP interface [polypeptide binding]; other site 859655000488 FecR protein; Region: FecR; pfam04773 859655000489 Protein of unknown function (DUF3298); Region: DUF3298; pfam11738 859655000490 Predicted CoA-binding protein [General function prediction only]; Region: COG1832 859655000491 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 859655000492 Protein of unknown function (DUF3562); Region: DUF3562; pfam12085 859655000493 PBP superfamily domain; Region: PBP_like_2; cl17296 859655000494 glutathionine S-transferase; Provisional; Region: PRK10542 859655000495 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 859655000496 C-terminal domain interface [polypeptide binding]; other site 859655000497 GSH binding site (G-site) [chemical binding]; other site 859655000498 dimer interface [polypeptide binding]; other site 859655000499 C-terminal, alpha helical domain of Class Beta Glutathione S-transferases; Region: GST_C_Beta; cd03188 859655000500 dimer interface [polypeptide binding]; other site 859655000501 N-terminal domain interface [polypeptide binding]; other site 859655000502 substrate binding pocket (H-site) [chemical binding]; other site 859655000503 Transcriptional regulator [Transcription]; Region: LysR; COG0583 859655000504 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 859655000505 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 859655000506 dimerization interface [polypeptide binding]; other site 859655000507 Cache domain; Region: Cache_1; pfam02743 859655000508 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 859655000509 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 859655000510 dimerization interface [polypeptide binding]; other site 859655000511 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 859655000512 dimer interface [polypeptide binding]; other site 859655000513 putative CheW interface [polypeptide binding]; other site 859655000514 Uncharacterized conserved protein [Function unknown]; Region: COG3791 859655000515 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 859655000516 methylcobalamin:coenzyme M methyltransferase; Validated; Region: PRK06252 859655000517 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 859655000518 substrate binding site [chemical binding]; other site 859655000519 active site 859655000520 primosome assembly protein PriA; Validated; Region: PRK05580 859655000521 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 859655000522 ATP binding site [chemical binding]; other site 859655000523 putative Mg++ binding site [ion binding]; other site 859655000524 trifunctional transcriptional regulator/proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: putA; PRK11809 859655000525 Predicted transcriptional regulator [Transcription]; Region: COG3905 859655000526 Proline dehydrogenase [Amino acid transport and metabolism]; Region: PutA; COG0506 859655000527 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 859655000528 Glutamate binding site [chemical binding]; other site 859655000529 NAD binding site [chemical binding]; other site 859655000530 catalytic residues [active] 859655000531 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 859655000532 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 859655000533 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 859655000534 dimerization interface [polypeptide binding]; other site 859655000535 ligand binding site [chemical binding]; other site 859655000536 PemK-like protein; Region: PemK; cl00995 859655000537 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 859655000538 gamma-glutamyl:cysteine ligase; Provisional; Region: PRK13516 859655000539 carboxylate-amine ligase, YbdK family; Region: gshA_cyan_rel; TIGR02050 859655000540 Predicted membrane protein [Function unknown]; Region: COG1297 859655000541 putative oligopeptide transporter, OPT family; Region: TIGR00733 859655000542 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 859655000543 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 859655000544 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 859655000545 glycine dehydrogenase; Provisional; Region: PRK05367 859655000546 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 859655000547 tetramer interface [polypeptide binding]; other site 859655000548 pyridoxal 5'-phosphate binding site [chemical binding]; other site 859655000549 catalytic residue [active] 859655000550 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 859655000551 tetramer interface [polypeptide binding]; other site 859655000552 pyridoxal 5'-phosphate binding site [chemical binding]; other site 859655000553 catalytic residue [active] 859655000554 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 859655000555 lipoyl attachment site [posttranslational modification]; other site 859655000556 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 859655000557 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 859655000558 Predicted O-acyltransferase [General function prediction only]; Region: COG3274 859655000559 Acyltransferase family; Region: Acyl_transf_3; pfam01757 859655000560 ATP-dependent DNA helicase Rep; Region: rep; TIGR01074 859655000561 Part of AAA domain; Region: AAA_19; pfam13245 859655000562 Family description; Region: UvrD_C_2; pfam13538 859655000563 Fucose-binding lectin II (PA-IIL); Region: PA-IIL; pfam07472 859655000564 DNA-binding transcriptional activator SdiA; Provisional; Region: PRK10188 859655000565 Autoinducer binding domain; Region: Autoind_bind; pfam03472 859655000566 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 859655000567 DNA binding residues [nucleotide binding] 859655000568 dimerization interface [polypeptide binding]; other site 859655000569 Autoinducer synthetase; Region: Autoind_synth; cl17404 859655000570 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 859655000571 Type I periplasmic binding domain of uncharacterized extracellular ligand-binding proteins; Region: PBP1_STKc_like; cd06326 859655000572 putative ligand binding site [chemical binding]; other site 859655000573 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 859655000574 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 859655000575 FeS/SAM binding site; other site 859655000576 HemN C-terminal domain; Region: HemN_C; pfam06969 859655000577 tartronate semialdehyde reductase; Provisional; Region: PRK15059 859655000578 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 859655000579 Hydroxypyruvate isomerase [Carbohydrate transport and metabolism]; Region: Hfi; COG3622 859655000580 glyoxylate carboligase; Provisional; Region: PRK11269 859655000581 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 859655000582 PYR/PP interface [polypeptide binding]; other site 859655000583 dimer interface [polypeptide binding]; other site 859655000584 TPP binding site [chemical binding]; other site 859655000585 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 859655000586 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 859655000587 TPP-binding site [chemical binding]; other site 859655000588 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 859655000589 transcriptional activator TtdR; Provisional; Region: PRK09801 859655000590 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 859655000591 putative effector binding pocket; other site 859655000592 dimerization interface [polypeptide binding]; other site 859655000593 Cytotoxic translational repressor of toxin-antitoxin stability system [Translation, ribosomal structure and biogenesis / Cell division and chromosome partitioning]; Region: RelE; COG2026 859655000594 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 859655000595 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 859655000596 non-specific DNA binding site [nucleotide binding]; other site 859655000597 salt bridge; other site 859655000598 sequence-specific DNA binding site [nucleotide binding]; other site 859655000599 Uncharacterized conserved protein [Function unknown]; Region: COG1739 859655000600 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 859655000601 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 859655000602 Transcriptional regulators [Transcription]; Region: GntR; COG1802 859655000603 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 859655000604 DNA-binding site [nucleotide binding]; DNA binding site 859655000605 FCD domain; Region: FCD; pfam07729 859655000606 C4-dicarboxylate transporter DctA; Reviewed; Region: PRK13027 859655000607 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 859655000608 allantoicase; Provisional; Region: PRK13257 859655000609 Allantoicase repeat; Region: Allantoicase; pfam03561 859655000610 Allantoicase repeat; Region: Allantoicase; pfam03561 859655000611 ureidoglycolate hydrolase; Provisional; Region: PRK03606 859655000612 Ureidoglycolate hydrolase [Nucleotide transport and metabolism]; Region: DAL3; COG3194 859655000613 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK08651 859655000614 M20 Zn-peptidases include exopeptidases; Region: M20_like; cd02697 859655000615 putative metal binding site [ion binding]; other site 859655000616 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 859655000617 ArsC family; Region: ArsC; pfam03960 859655000618 catalytic residues [active] 859655000619 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 859655000620 active site 859655000621 substrate binding site [chemical binding]; other site 859655000622 catalytic site [active] 859655000623 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 859655000624 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 859655000625 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 859655000626 Predicted methyltransferases [General function prediction only]; Region: COG0313 859655000627 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 859655000628 putative SAM binding site [chemical binding]; other site 859655000629 putative homodimer interface [polypeptide binding]; other site 859655000630 hypothetical protein; Provisional; Region: PRK14673 859655000631 Predicted periplasmic or secreted lipoprotein [General function prediction only]; Region: OsmY; COG2823 859655000632 BON domain; Region: BON; pfam04972 859655000633 BON domain; Region: BON; cl02771 859655000634 Cytochrome c553 [Energy production and conversion]; Region: COG2863 859655000635 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 859655000636 Flavocytochrome c sulphide dehydrogenase, flavin-binding; Region: FCSD-flav_bind; pfam09242 859655000637 O-acetylserine/cysteine export protein; Provisional; Region: PRK11453 859655000638 EamA-like transporter family; Region: EamA; pfam00892 859655000639 Cytochrome c551/c552 [Energy production and conversion]; Region: COG4654 859655000640 Predicted secreted protein [Function unknown]; Region: COG5501 859655000641 Sulfur oxidation protein SoxY; Region: SoxY; pfam13501 859655000642 Sulphur oxidation protein SoxZ; Region: SoxZ; pfam08770 859655000643 Uncharacterized conserved protein [Function unknown]; Region: COG1416 859655000644 Cytochrome c; Region: Cytochrom_C; cl11414 859655000645 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 859655000646 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 859655000647 catalytic residues [active] 859655000648 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 859655000649 Thermus thermophilus SoxB and related proteins, N-terminal metallophosphatase domain; Region: MPP_SoxB_N; cd07411 859655000650 active site 859655000651 metal binding site [ion binding]; metal-binding site 859655000652 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 859655000653 Evidence 2b : Function of strongly homologous gene; Product type e : enzyme 859655000654 Evidence 2b : Function of strongly homologous gene; Product type e : enzyme 859655000655 Predicted integral membrane protein [Function unknown]; Region: COG5616 859655000656 TPR repeat; Region: TPR_11; pfam13414 859655000657 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 859655000658 TPR motif; other site 859655000659 binding surface 859655000660 TPR repeat; Region: TPR_11; pfam13414 859655000661 TPR repeat; Region: TPR_11; pfam13414 859655000662 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 859655000663 binding surface 859655000664 TPR motif; other site 859655000665 TPR repeat; Region: TPR_11; pfam13414 859655000666 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 859655000667 TPR motif; other site 859655000668 binding surface 859655000669 Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily. LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs correspond...; Region: LRR_RI; cl15309 859655000670 Leucine-rich repeats; other site 859655000671 Substrate binding site [chemical binding]; other site 859655000672 Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily. LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs correspond...; Region: LRR_RI; cl15309 859655000673 Leucine-rich repeats; other site 859655000674 Substrate binding site [chemical binding]; other site 859655000675 Leucine rich repeat; Region: LRR_8; pfam13855 859655000676 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 859655000677 ligand-binding site [chemical binding]; other site 859655000678 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 859655000679 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 859655000680 FOG: TPR repeat [General function prediction only]; Region: NrfG; COG0457 859655000681 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 859655000682 binding surface 859655000683 TPR motif; other site 859655000684 Tetratricopeptide repeat; Region: TPR_12; pfam13424 859655000685 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 859655000686 binding surface 859655000687 TPR motif; other site 859655000688 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 859655000689 binding surface 859655000690 TPR motif; other site 859655000691 Sulfotransferase domain; Region: Sulfotransfer_1; pfam00685 859655000692 Uncharacterized protein with a C-terminal OMP (outer membrane protein) domain [Function unknown]; Region: COG4625 859655000693 Autotransporter beta-domain; Region: Autotransporter; pfam03797 859655000694 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 859655000695 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 859655000696 active site 859655000697 phosphorylation site [posttranslational modification] 859655000698 intermolecular recognition site; other site 859655000699 dimerization interface [polypeptide binding]; other site 859655000700 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 859655000701 DNA binding residues [nucleotide binding] 859655000702 dimerization interface [polypeptide binding]; other site 859655000703 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 859655000704 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 859655000705 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 859655000706 ATP binding site [chemical binding]; other site 859655000707 Mg2+ binding site [ion binding]; other site 859655000708 G-X-G motif; other site 859655000709 Methylase of polypeptide chain release factors [Translation, ribosomal structure and biogenesis]; Region: HemK; COG2890 859655000710 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 859655000711 S-adenosylmethionine binding site [chemical binding]; other site 859655000712 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 859655000713 uncharacterized flavoprotein, PP_4765 family; Region: flavo_PP4765; TIGR03862 859655000714 Methyltransferase domain; Region: Methyltransf_32; pfam13679 859655000715 Methyltransferase domain; Region: Methyltransf_31; pfam13847 859655000716 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 859655000717 rRNA binding site [nucleotide binding]; other site 859655000718 predicted 30S ribosome binding site; other site 859655000719 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 859655000720 DNA-binding site [nucleotide binding]; DNA binding site 859655000721 RNA-binding motif; other site 859655000722 Jacalin-like lectin domain of griffithsin and related proteins; Region: griffithsin_like; cd09614 859655000723 sugar binding site [chemical binding]; other site 859655000724 Streptogramin lyase [Defense mechanisms]; Region: Vgb; COG4257 859655000725 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 859655000726 Cytochrome c; Region: Cytochrom_C; pfam00034 859655000727 Flavin containing amine oxidoreductase; Region: Amino_oxidase; pfam01593 859655000728 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 859655000729 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 859655000730 non-specific DNA binding site [nucleotide binding]; other site 859655000731 salt bridge; other site 859655000732 sequence-specific DNA binding site [nucleotide binding]; other site 859655000733 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 859655000734 Type I periplasmic binding domain of uncharacterized extracellular ligand-binding proteins; Region: PBP1_STKc_like; cd06326 859655000735 putative ligand binding site [chemical binding]; other site 859655000736 Domain of unknown function (DUF4123); Region: DUF4123; pfam13503 859655000737 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 859655000738 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 859655000739 metal binding site [ion binding]; metal-binding site 859655000740 active site 859655000741 I-site; other site 859655000742 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 859655000743 active site 859655000744 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 859655000745 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 859655000746 Evidence 2b : Function of strongly homologous gene; Product type pr : putative regulator 859655000747 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 859655000748 MarR family; Region: MarR_2; cl17246 859655000749 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 859655000750 classical (c) SDRs; Region: SDR_c; cd05233 859655000751 NAD(P) binding site [chemical binding]; other site 859655000752 active site 859655000753 Uncharacterized conserved protein [Function unknown]; Region: COG3868 859655000754 C-terminal Putative NodB-like catalytic domain of PelA-like uncharacterized hypothetical proteins found in bacteria; Region: CE4_PelA_like_C; cd10922 859655000755 putative active site [active] 859655000756 HAMP domain; Region: HAMP; pfam00672 859655000757 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 859655000758 dimer interface [polypeptide binding]; other site 859655000759 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 859655000760 putative CheW interface [polypeptide binding]; other site 859655000761 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 859655000762 dinuclear metal binding motif [ion binding]; other site 859655000763 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 859655000764 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 859655000765 Cupin domain; Region: Cupin_2; pfam07883 859655000766 D-Lactate and related Dehydrogenases, NAD-binding and catalytic domains; Region: LDH_like_2; cd12183 859655000767 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 859655000768 putative ligand binding site [chemical binding]; other site 859655000769 putative NAD binding site [chemical binding]; other site 859655000770 catalytic site [active] 859655000771 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 859655000772 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD3; cd08297 859655000773 NAD binding site [chemical binding]; other site 859655000774 substrate binding site [chemical binding]; other site 859655000775 catalytic Zn binding site [ion binding]; other site 859655000776 tetramer interface [polypeptide binding]; other site 859655000777 structural Zn binding site [ion binding]; other site 859655000778 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 859655000779 PAS domain; Region: PAS; smart00091 859655000780 putative active site [active] 859655000781 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 859655000782 Walker A motif; other site 859655000783 ATP binding site [chemical binding]; other site 859655000784 Walker B motif; other site 859655000785 arginine finger; other site 859655000786 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 859655000787 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 859655000788 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 859655000789 NAD(P) binding site [chemical binding]; other site 859655000790 catalytic residues [active] 859655000791 ethanolamine ammonia lyase large subunit; Provisional; Region: PRK15067 859655000792 Ethanolamine ammonia lyase large subunit (EutB); Region: EutB; pfam06751 859655000793 ethanolamine ammonia-lyase small subunit; Provisional; Region: PRK05465 859655000794 exonuclease I; Provisional; Region: sbcB; PRK11779 859655000795 N-terminal DEDDh 3'-5' exonuclease domain of Escherichia coli exonuclease I and similar proteins; Region: ExoI_N; cd06138 859655000796 active site 859655000797 catalytic site [active] 859655000798 substrate binding site [chemical binding]; other site 859655000799 Exonuclease C-terminal; Region: Exonuc_X-T_C; pfam08411 859655000800 indolepyruvate ferredoxin oxidoreductase; Validated; Region: PRK09193 859655000801 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 859655000802 dimer interface [polypeptide binding]; other site 859655000803 PYR/PP interface [polypeptide binding]; other site 859655000804 TPP binding site [chemical binding]; other site 859655000805 substrate binding site [chemical binding]; other site 859655000806 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 859655000807 TPP-binding site; other site 859655000808 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 859655000809 Predicted flavin-nucleotide-binding protein [General function prediction only]; Region: COG3467 859655000810 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 859655000811 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 859655000812 DNA-binding site [nucleotide binding]; DNA binding site 859655000813 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 859655000814 pyridoxal 5'-phosphate binding site [chemical binding]; other site 859655000815 homodimer interface [polypeptide binding]; other site 859655000816 catalytic residue [active] 859655000817 type II secretion system protein F; Region: GspF; TIGR02120 859655000818 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 859655000819 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 859655000820 Domain of unknown function (DUF4153); Region: DUF4153; pfam13687 859655000821 type II secretion system protein E; Region: type_II_gspE; TIGR02533 859655000822 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 859655000823 Walker A motif; other site 859655000824 ATP binding site [chemical binding]; other site 859655000825 Walker B motif; other site 859655000826 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 859655000827 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 859655000828 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 859655000829 pilus (MSHA type) biogenesis protein MshL; Region: pilus_MshL; TIGR02519 859655000830 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 859655000831 Type II secretion system (T2SS), protein N; Region: T2SN; pfam01203 859655000832 Type II secretory pathway, component PulM [Intracellular trafficking and secretion]; Region: PulM; COG3149 859655000833 Type II secretion system (T2SS), protein L; Region: T2SL; pfam05134 859655000834 GspL periplasmic domain; Region: GspL_C; pfam12693 859655000835 Type II secretory pathway, component PulK [Intracellular trafficking and secretion]; Region: PulK; COG3156 859655000836 Type II secretory pathway, component PulJ [Intracellular trafficking and secretion]; Region: PulJ; COG4795 859655000837 Type II secretion system (T2SS), protein I; Region: T2SI; pfam02501 859655000838 type II secretion system protein H; Region: typeII_sec_gspH; TIGR01708 859655000839 type II secretion system protein G; Region: typeII_sec_gspG; TIGR01710 859655000840 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 859655000841 Type IV pilus biogenesis; Region: Pilus_PilP; pfam11356 859655000842 EF-hand domain pair; Region: EF_hand_5; pfam13499 859655000843 EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to...; Region: EFh; cd00051 859655000844 EF-hand domain pair; Region: EF_hand_5; pfam13499 859655000845 Ca2+ binding site [ion binding]; other site 859655000846 EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to...; Region: EFh; cd00051 859655000847 EF-hand domain pair; Region: EF_hand_5; pfam13499 859655000848 Ca2+ binding site [ion binding]; other site 859655000849 4-hydroxyphenylpyruvate dioxygenase and related hemolysins [Amino acid transport and metabolism / General function prediction only]; Region: COG3185 859655000850 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 859655000851 dimer interface [polypeptide binding]; other site 859655000852 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 859655000853 active site 859655000854 Fe binding site [ion binding]; other site 859655000855 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 859655000856 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 859655000857 putative DNA binding site [nucleotide binding]; other site 859655000858 putative Zn2+ binding site [ion binding]; other site 859655000859 AsnC family; Region: AsnC_trans_reg; pfam01037 859655000860 Subtilisin-like serine proteases [Posttranslational modification, protein turnover, chaperones]; Region: AprE; COG1404 859655000861 Peptidase domain in the S53 family; Region: Peptidases_S53_like; cd05562 859655000862 putative active site [active] 859655000863 putative catalytic triad [active] 859655000864 Peptidase domain in the S53 family; Region: Peptidases_S53_like; cd05562 859655000865 Ketosteroid isomerase homolog [Function unknown]; Region: COG4319 859655000866 SnoaL-like domain; Region: SnoaL_3; pfam13474 859655000867 Cupin domain; Region: Cupin_2; cl17218 859655000868 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 859655000869 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 859655000870 Coenzyme A binding pocket [chemical binding]; other site 859655000871 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 859655000872 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 859655000873 glutathione-regulated potassium-efflux system protein KefC; Provisional; Region: PRK03562 859655000874 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 859655000875 TrkA-N domain; Region: TrkA_N; pfam02254 859655000876 Domain of unknown function (DUF1835); Region: DUF1835; pfam08874 859655000877 Protein of unknown function; Region: DUF3658; pfam12395 859655000878 glutamate carboxypeptidase; Reviewed; Region: PRK06133 859655000879 M20 Peptidase Glutamate carboxypeptidase, a periplasmic enzyme; Region: M20_CPDG2; cd03885 859655000880 metal binding site [ion binding]; metal-binding site 859655000881 dimer interface [polypeptide binding]; other site 859655000882 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 859655000883 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 859655000884 trimer interface [polypeptide binding]; other site 859655000885 eyelet of channel; other site 859655000886 Transposase domain (DUF772); Region: DUF772; pfam05598 859655000887 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 859655000888 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 859655000889 DNA-binding transcriptional activator KdpE; Provisional; Region: PRK10529 859655000890 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 859655000891 active site 859655000892 phosphorylation site [posttranslational modification] 859655000893 intermolecular recognition site; other site 859655000894 dimerization interface [polypeptide binding]; other site 859655000895 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 859655000896 DNA binding site [nucleotide binding] 859655000897 High potential iron-sulfur protein; Region: HIPIP; pfam01355 859655000898 SnoaL-like domain; Region: SnoaL_4; cl17707 859655000899 Protein of unknown function (DUF1484); Region: DUF1484; pfam07363 859655000900 Cytochrome c5 [Energy production and conversion]; Region: CycB; COG3245 859655000901 Cytochrome c5 [Energy production and conversion]; Region: CycB; COG3245 859655000902 Helix-Turn-Helix DNA binding domain of putative transcription regulators from the MerR superfamily; Region: HTH_MerR-like_sg2; cd04778 859655000903 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 859655000904 DNA binding residues [nucleotide binding] 859655000905 putative dimer interface [polypeptide binding]; other site 859655000906 PAS fold; Region: PAS_4; pfam08448 859655000907 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 859655000908 putative active site [active] 859655000909 heme pocket [chemical binding]; other site 859655000910 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 859655000911 dimer interface [polypeptide binding]; other site 859655000912 phosphorylation site [posttranslational modification] 859655000913 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 859655000914 ATP binding site [chemical binding]; other site 859655000915 Mg2+ binding site [ion binding]; other site 859655000916 G-X-G motif; other site 859655000917 Response regulator receiver domain; Region: Response_reg; pfam00072 859655000918 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 859655000919 active site 859655000920 phosphorylation site [posttranslational modification] 859655000921 intermolecular recognition site; other site 859655000922 dimerization interface [polypeptide binding]; other site 859655000923 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 859655000924 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 859655000925 active site 859655000926 phosphorylation site [posttranslational modification] 859655000927 intermolecular recognition site; other site 859655000928 dimerization interface [polypeptide binding]; other site 859655000929 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 859655000930 DNA binding residues [nucleotide binding] 859655000931 dimerization interface [polypeptide binding]; other site 859655000932 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 859655000933 Cation efflux family; Region: Cation_efflux; cl00316 859655000934 glutathione s-transferase; Provisional; Region: PTZ00057 859655000935 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 859655000936 GSH binding site (G-site) [chemical binding]; other site 859655000937 C-terminal domain interface [polypeptide binding]; other site 859655000938 dimer interface [polypeptide binding]; other site 859655000939 C-terminal, alpha helical domain of Class Sigma-like Glutathione S-transferases; Region: GST_C_Sigma_like; cd03192 859655000940 N-terminal domain interface [polypeptide binding]; other site 859655000941 dimer interface [polypeptide binding]; other site 859655000942 substrate binding pocket (H-site) [chemical binding]; other site 859655000943 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 859655000944 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 859655000945 putative substrate translocation pore; other site 859655000946 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 859655000947 Mechanosensitive ion channel; Region: MS_channel; pfam00924 859655000948 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3295 859655000949 PepSY-associated TM helix; Region: PepSY_TM_1; pfam13172 859655000950 Late expression factor 4 (LEF-4); Region: LEF-4; pfam05098 859655000951 Outer membrane protein V [Cell envelope biogenesis, outer membrane]; Region: OmpV; COG3713 859655000952 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 859655000953 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 859655000954 active site 859655000955 phosphorylation site [posttranslational modification] 859655000956 intermolecular recognition site; other site 859655000957 dimerization interface [polypeptide binding]; other site 859655000958 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 859655000959 DNA binding site [nucleotide binding] 859655000960 HAMP domain; Region: HAMP; pfam00672 859655000961 dimerization interface [polypeptide binding]; other site 859655000962 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 859655000963 dimer interface [polypeptide binding]; other site 859655000964 phosphorylation site [posttranslational modification] 859655000965 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 859655000966 ATP binding site [chemical binding]; other site 859655000967 Mg2+ binding site [ion binding]; other site 859655000968 G-X-G motif; other site 859655000969 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 859655000970 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 859655000971 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 859655000972 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 859655000973 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 859655000974 Type I periplasmic binding domain of uncharacterized extracellular ligand-binding proteins; Region: PBP1_STKc_like; cd06326 859655000975 putative ligand binding site [chemical binding]; other site 859655000976 citrate-proton symporter; Provisional; Region: PRK15075 859655000977 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 859655000978 putative substrate translocation pore; other site 859655000979 citrate-proton symporter; Provisional; Region: PRK15075 859655000980 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 859655000981 putative substrate translocation pore; other site 859655000982 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 859655000983 dimerization interface [polypeptide binding]; other site 859655000984 putative active cleft [active] 859655000985 Periplasmic glucans biosynthesis protein [Inorganic ion transport and metabolism]; Region: MdoG; COG3131 859655000986 glucan biosynthesis protein D; Provisional; Region: mdoD; PRK13273 859655000987 Growth regulator [Signal transduction mechanisms]; Region: MazE; COG2336 859655000988 PIN domains of VapC and Smg6 ribonucleases, ribosome assembly factor NOB1, Archaeoglobus fulgidus AF0591 protein and homologs; Region: PIN_VapC-Smg6-like; cd09855 859655000989 putative active site [active] 859655000990 Protein of unknown function (DUF1415); Region: DUF1415; cl01301 859655000991 Glycerol kinase [Energy production and conversion]; Region: GlpK; COG0554 859655000992 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 859655000993 N- and C-terminal domain interface [polypeptide binding]; other site 859655000994 active site 859655000995 MgATP binding site [chemical binding]; other site 859655000996 catalytic site [active] 859655000997 metal binding site [ion binding]; metal-binding site 859655000998 glycerol binding site [chemical binding]; other site 859655000999 homotetramer interface [polypeptide binding]; other site 859655001000 homodimer interface [polypeptide binding]; other site 859655001001 FBP binding site [chemical binding]; other site 859655001002 protein IIAGlc interface [polypeptide binding]; other site 859655001003 glycerol-3-phosphate dehydrogenase; Reviewed; Region: glpD; PRK12266 859655001004 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 859655001005 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 859655001006 putative DNA binding site [nucleotide binding]; other site 859655001007 putative Zn2+ binding site [ion binding]; other site 859655001008 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 859655001009 Uncharacterized conserved protein [Function unknown]; Region: COG5607 859655001010 elongation factor Tu; Reviewed; Region: PRK00049 859655001011 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 859655001012 G1 box; other site 859655001013 GEF interaction site [polypeptide binding]; other site 859655001014 GTP/Mg2+ binding site [chemical binding]; other site 859655001015 Switch I region; other site 859655001016 G2 box; other site 859655001017 G3 box; other site 859655001018 Switch II region; other site 859655001019 G4 box; other site 859655001020 G5 box; other site 859655001021 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 859655001022 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 859655001023 Antibiotic Binding Site [chemical binding]; other site 859655001024 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK05740 859655001025 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 859655001026 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 859655001027 putative homodimer interface [polypeptide binding]; other site 859655001028 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 859655001029 heterodimer interface [polypeptide binding]; other site 859655001030 homodimer interface [polypeptide binding]; other site 859655001031 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 859655001032 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 859655001033 23S rRNA interface [nucleotide binding]; other site 859655001034 L7/L12 interface [polypeptide binding]; other site 859655001035 putative thiostrepton binding site; other site 859655001036 L25 interface [polypeptide binding]; other site 859655001037 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 859655001038 mRNA/rRNA interface [nucleotide binding]; other site 859655001039 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 859655001040 23S rRNA interface [nucleotide binding]; other site 859655001041 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 859655001042 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 859655001043 core dimer interface [polypeptide binding]; other site 859655001044 peripheral dimer interface [polypeptide binding]; other site 859655001045 L10 interface [polypeptide binding]; other site 859655001046 L11 interface [polypeptide binding]; other site 859655001047 putative EF-Tu interaction site [polypeptide binding]; other site 859655001048 putative EF-G interaction site [polypeptide binding]; other site 859655001049 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 859655001050 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 859655001051 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 859655001052 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 859655001053 RNA polymerase Rpb2, domain 6; Region: RNA_pol_Rpb2_6; pfam00562 859655001054 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 859655001055 RPB3 interaction site [polypeptide binding]; other site 859655001056 RPB1 interaction site [polypeptide binding]; other site 859655001057 RPB11 interaction site [polypeptide binding]; other site 859655001058 RPB10 interaction site [polypeptide binding]; other site 859655001059 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 859655001060 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 859655001061 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 859655001062 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 859655001063 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 859655001064 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 859655001065 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 859655001066 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 859655001067 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 859655001068 DNA binding site [nucleotide binding] 859655001069 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 859655001070 Uncharacterized protein conserved in bacteria (DUF2138); Region: DUF2138; pfam09909 859655001071 Protein of unknown function (DUF1175); Region: DUF1175; cl14898 859655001072 Large extracellular alpha-helical protein [General function prediction only]; Region: COG2373 859655001073 MG2 domain; Region: A2M_N; pfam01835 859655001074 Alpha-2-macroglobulin family; Region: A2M; pfam00207 859655001075 This group contains class II terpene cyclases, protein prenyltransferases beta subunit, two broadly specific proteinase inhibitors alpha2-macroglobulin (alpha (2)-M) and pregnancy zone protein (PZP) and, the C3 C4 and C5 components of vertebrate...; Region: ISOPREN_C2_like; cl08267 859655001076 Predicted secreted protein [Function unknown]; Region: COG5445 859655001077 Predicted secreted protein (DUF2300); Region: DUF2300; pfam10062 859655001078 Predicted secreted protein [Function unknown]; Region: COG5445 859655001079 Predicted secreted protein (DUF2300); Region: DUF2300; pfam10062 859655001080 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4676 859655001081 Uncharacterized protein conserved in bacteria (DUF2135); Region: DUF2135; pfam09906 859655001082 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4676 859655001083 Uncharacterized protein conserved in bacteria (DUF2135); Region: DUF2135; pfam09906 859655001084 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 859655001085 S-adenosylmethionine binding site [chemical binding]; other site 859655001086 Superfamily II DNA helicase [DNA replication, recombination, and repair]; Region: RecQ; COG0514 859655001087 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 859655001088 ATP binding site [chemical binding]; other site 859655001089 putative Mg++ binding site [ion binding]; other site 859655001090 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 859655001091 nucleotide binding region [chemical binding]; other site 859655001092 ATP-binding site [chemical binding]; other site 859655001093 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 859655001094 HRDC domain; Region: HRDC; pfam00570 859655001095 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 859655001096 S17 interaction site [polypeptide binding]; other site 859655001097 S8 interaction site; other site 859655001098 16S rRNA interaction site [nucleotide binding]; other site 859655001099 streptomycin interaction site [chemical binding]; other site 859655001100 23S rRNA interaction site [nucleotide binding]; other site 859655001101 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 859655001102 30S ribosomal protein S7; Validated; Region: PRK05302 859655001103 elongation factor G; Reviewed; Region: PRK00007 859655001104 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 859655001105 G1 box; other site 859655001106 putative GEF interaction site [polypeptide binding]; other site 859655001107 GTP/Mg2+ binding site [chemical binding]; other site 859655001108 Switch I region; other site 859655001109 G2 box; other site 859655001110 G3 box; other site 859655001111 Switch II region; other site 859655001112 G4 box; other site 859655001113 G5 box; other site 859655001114 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 859655001115 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 859655001116 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 859655001117 elongation factor Tu; Reviewed; Region: PRK00049 859655001118 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 859655001119 G1 box; other site 859655001120 GEF interaction site [polypeptide binding]; other site 859655001121 GTP/Mg2+ binding site [chemical binding]; other site 859655001122 Switch I region; other site 859655001123 G2 box; other site 859655001124 G3 box; other site 859655001125 Switch II region; other site 859655001126 G4 box; other site 859655001127 G5 box; other site 859655001128 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 859655001129 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 859655001130 Antibiotic Binding Site [chemical binding]; other site 859655001131 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 859655001132 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 859655001133 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 859655001134 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 859655001135 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 859655001136 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 859655001137 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 859655001138 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 859655001139 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 859655001140 putative translocon binding site; other site 859655001141 protein-rRNA interface [nucleotide binding]; other site 859655001142 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 859655001143 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 859655001144 G-X-X-G motif; other site 859655001145 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 859655001146 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 859655001147 23S rRNA interface [nucleotide binding]; other site 859655001148 5S rRNA interface [nucleotide binding]; other site 859655001149 putative antibiotic binding site [chemical binding]; other site 859655001150 L25 interface [polypeptide binding]; other site 859655001151 L27 interface [polypeptide binding]; other site 859655001152 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 859655001153 23S rRNA interface [nucleotide binding]; other site 859655001154 putative translocon interaction site; other site 859655001155 signal recognition particle (SRP54) interaction site; other site 859655001156 L23 interface [polypeptide binding]; other site 859655001157 trigger factor interaction site; other site 859655001158 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 859655001159 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 859655001160 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 859655001161 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 859655001162 RNA binding site [nucleotide binding]; other site 859655001163 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 859655001164 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 859655001165 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 859655001166 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 859655001167 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 859655001168 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 859655001169 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 859655001170 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 859655001171 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 859655001172 5S rRNA interface [nucleotide binding]; other site 859655001173 L27 interface [polypeptide binding]; other site 859655001174 23S rRNA interface [nucleotide binding]; other site 859655001175 L5 interface [polypeptide binding]; other site 859655001176 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 859655001177 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 859655001178 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 859655001179 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 859655001180 23S rRNA binding site [nucleotide binding]; other site 859655001181 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 859655001182 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 859655001183 SecY translocase; Region: SecY; pfam00344 859655001184 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 859655001185 rRNA binding site [nucleotide binding]; other site 859655001186 predicted 30S ribosome binding site; other site 859655001187 Ribosomal protein L36; Region: Ribosomal_L36; pfam00444 859655001188 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 859655001189 30S ribosomal protein S13; Region: bact_S13; TIGR03631 859655001190 30S ribosomal protein S11; Validated; Region: PRK05309 859655001191 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 859655001192 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 859655001193 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 859655001194 RNA binding surface [nucleotide binding]; other site 859655001195 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 859655001196 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 859655001197 alphaNTD homodimer interface [polypeptide binding]; other site 859655001198 alphaNTD - beta interaction site [polypeptide binding]; other site 859655001199 alphaNTD - beta' interaction site [polypeptide binding]; other site 859655001200 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 859655001201 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 859655001202 Uncharacterized protein involved in tolerance to divalent cations [Inorganic ion transport and metabolism]; Region: CutA; COG1324 859655001203 Thiol:disulfide interchange protein [Posttranslational modification, protein turnover, chaperones / Energy production and conversion]; Region: COG4232 859655001204 Disulphide bond corrector protein DsbC; Region: DsbC; pfam11412 859655001205 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 859655001206 DsbD alpha interface [polypeptide binding]; other site 859655001207 catalytic residues [active] 859655001208 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 859655001209 dimer interface [polypeptide binding]; other site 859655001210 active site 859655001211 aspartate-rich active site metal binding site; other site 859655001212 allosteric magnesium binding site [ion binding]; other site 859655001213 Schiff base residues; other site 859655001214 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 859655001215 G1 box; other site 859655001216 GTP/Mg2+ binding site [chemical binding]; other site 859655001217 Switch I region; other site 859655001218 G2 box; other site 859655001219 G3 box; other site 859655001220 Switch II region; other site 859655001221 G4 box; other site 859655001222 G5 box; other site 859655001223 Cytochrome c553 [Energy production and conversion]; Region: COG2863 859655001224 Cytochrome c; Region: Cytochrom_C; cl11414 859655001225 ResB protein required for cytochrome c biosynthesis [Posttranslational modification, protein turnover, chaperones]; Region: ResB; cl09125 859655001226 ResB-like family; Region: ResB; pfam05140 859655001227 cytochrome c-type biogenesis protein CcsB; Region: cytochr_II_ccsB; TIGR03144 859655001228 Secreted repeat of unknown function; Region: Lipoprotein_15; pfam03640 859655001229 Secreted repeat of unknown function; Region: Lipoprotein_15; pfam03640 859655001230 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 859655001231 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 859655001232 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 859655001233 DNA binding residues [nucleotide binding] 859655001234 Predicted transmembrane transcriptional regulator (anti-sigma factor) [Transcription]; Region: COG5662 859655001235 TMAO/DMSO reductase; Reviewed; Region: PRK05363 859655001236 YedY_like molybdopterin cofactor (Moco) binding domain, a subgroup of the sulfite oxidase (SO) family of molybdopterin binding domains. Escherichia coli YedY has been propsed to form a heterodimer, consisting of a soluble catalytic subunit termed YedY; Region: YedY_like_Moco; cd02107 859655001237 Moco binding site; other site 859655001238 metal coordination site [ion binding]; other site 859655001239 putative sulfite oxidase subunit YedZ; Reviewed; Region: PRK05419 859655001240 diaminopimelate decarboxylase; Region: lysA; TIGR01048 859655001241 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 859655001242 active site 859655001243 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 859655001244 substrate binding site [chemical binding]; other site 859655001245 catalytic residues [active] 859655001246 dimer interface [polypeptide binding]; other site 859655001247 Frataxin is a nuclear-encoded mitochondrial protein implicated in Friedreich's ataxia (FRDA), an human autosomal recessive neurodegenerative disease; Frataxin is found in eukaryotes and in purple bacteria; lack of frataxin causes iron to accumulate...; Region: Frataxin; cd00503 859655001248 putative iron binding site [ion binding]; other site 859655001249 Insertion element 4 transposase N-terminal; Region: Nterm_IS4; pfam13006 859655001250 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 859655001251 penicillin-binding protein 1a; Provisional; Region: mrcA; PRK11636 859655001252 Transglycosylase; Region: Transgly; pfam00912 859655001253 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 859655001254 Tfp pilus assembly protein, ATPase PilM [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilM; COG4972 859655001255 Cell division protein FtsA; Region: FtsA; cl17206 859655001256 Tfp pilus assembly protein PilN [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilN; COG3166 859655001257 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 859655001258 Tfp pilus assembly protein PilO [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilO; COG3167 859655001259 Tfp pilus assembly protein PilP [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilP; COG3168 859655001260 Pilus assembly protein, PilP; Region: PilP; pfam04351 859655001261 Type II secretory pathway, component HofQ [Intracellular trafficking and secretion]; Region: HofQ; COG4796 859655001262 AMIN domain; Region: AMIN; pfam11741 859655001263 Secretin and TonB N terminus short domain; Region: STN; smart00965 859655001264 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 859655001265 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 859655001266 shikimate kinase; Reviewed; Region: aroK; PRK00131 859655001267 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 859655001268 ADP binding site [chemical binding]; other site 859655001269 magnesium binding site [ion binding]; other site 859655001270 putative shikimate binding site; other site 859655001271 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 859655001272 active site 859655001273 dimer interface [polypeptide binding]; other site 859655001274 metal binding site [ion binding]; metal-binding site 859655001275 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01286 859655001276 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 859655001277 Zn2+ binding site [ion binding]; other site 859655001278 Mg2+ binding site [ion binding]; other site 859655001279 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 859655001280 Outer membrane protein W [Cell envelope biogenesis, outer membrane]; Region: OmpW; COG3047 859655001281 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG1943 859655001282 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 859655001283 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 859655001284 active site 859655001285 dimer interface [polypeptide binding]; other site 859655001286 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 859655001287 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 859655001288 active site 859655001289 FMN binding site [chemical binding]; other site 859655001290 substrate binding site [chemical binding]; other site 859655001291 3Fe-4S cluster binding site [ion binding]; other site 859655001292 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 859655001293 domain interface; other site 859655001294 glutamate synthase subunit beta; Reviewed; Region: gltD; PRK12810 859655001295 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 859655001296 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 859655001297 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 859655001298 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 859655001299 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 859655001300 Walker A/P-loop; other site 859655001301 ATP binding site [chemical binding]; other site 859655001302 Q-loop/lid; other site 859655001303 ABC transporter signature motif; other site 859655001304 Walker B; other site 859655001305 D-loop; other site 859655001306 H-loop/switch region; other site 859655001307 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 859655001308 Permease; Region: Permease; pfam02405 859655001309 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 859655001310 mce related protein; Region: MCE; pfam02470 859655001311 Surface lipoprotein [Cell envelope biogenesis, outer membrane]; Region: VacJ; COG2853 859655001312 ABC-type transport system involved in resistance to organic solvents, auxiliary component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2D; COG2854 859655001313 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 859655001314 anti sigma factor interaction site; other site 859655001315 regulatory phosphorylation site [posttranslational modification]; other site 859655001316 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 859655001317 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 859655001318 Walker A/P-loop; other site 859655001319 ATP binding site [chemical binding]; other site 859655001320 Q-loop/lid; other site 859655001321 ABC transporter signature motif; other site 859655001322 Walker B; other site 859655001323 D-loop; other site 859655001324 H-loop/switch region; other site 859655001325 ABC-2 type transporter; Region: ABC2_membrane; cl17235 859655001326 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 859655001327 Predicted transcriptional regulator, BolA superfamily [Transcription]; Region: COG5007 859655001328 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 859655001329 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 859655001330 hinge; other site 859655001331 active site 859655001332 ATP phosphoribosyltransferase catalytic subunit; Reviewed; Region: hisG; PRK01686 859655001333 ATP phosphoribosyltransferase [Amino acid transport and metabolism]; Region: HisG; COG0040 859655001334 Histidinol dehydrogenase [Amino acid transport and metabolism]; Region: HisD; COG0141 859655001335 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 859655001336 NAD binding site [chemical binding]; other site 859655001337 dimerization interface [polypeptide binding]; other site 859655001338 product binding site; other site 859655001339 substrate binding site [chemical binding]; other site 859655001340 zinc binding site [ion binding]; other site 859655001341 catalytic residues [active] 859655001342 histidinol-phosphate aminotransferase; Provisional; Region: PRK04870 859655001343 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 859655001344 pyridoxal 5'-phosphate binding site [chemical binding]; other site 859655001345 homodimer interface [polypeptide binding]; other site 859655001346 catalytic residue [active] 859655001347 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 859655001348 putative active site pocket [active] 859655001349 4-fold oligomerization interface [polypeptide binding]; other site 859655001350 metal binding residues [ion binding]; metal-binding site 859655001351 3-fold/trimer interface [polypeptide binding]; other site 859655001352 MarC family integral membrane protein; Region: MarC; cl00919 859655001353 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13146 859655001354 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 859655001355 putative active site [active] 859655001356 oxyanion strand; other site 859655001357 catalytic triad [active] 859655001358 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 859655001359 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 859655001360 catalytic residues [active] 859655001361 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 859655001362 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 859655001363 substrate binding site [chemical binding]; other site 859655001364 glutamase interaction surface [polypeptide binding]; other site 859655001365 phosphoribosyl-AMP cyclohydrolase; Reviewed; Region: hisI; PRK00051 859655001366 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 859655001367 metal binding site [ion binding]; metal-binding site 859655001368 Predicted membrane protein [Function unknown]; Region: COG3671 859655001369 twin arginine translocase protein A; Provisional; Region: tatA; PRK02958 859655001370 sec-independent translocase; Provisional; Region: tatB; PRK01919 859655001371 Sec-independent protein secretion pathway component TatC [Intracellular trafficking and secretion]; Region: TatC; COG0805 859655001372 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 859655001373 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 859655001374 Walker A/P-loop; other site 859655001375 ATP binding site [chemical binding]; other site 859655001376 Q-loop/lid; other site 859655001377 ABC transporter signature motif; other site 859655001378 Walker B; other site 859655001379 D-loop; other site 859655001380 H-loop/switch region; other site 859655001381 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 859655001382 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 859655001383 dimer interface [polypeptide binding]; other site 859655001384 conserved gate region; other site 859655001385 ABC-ATPase subunit interface; other site 859655001386 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 859655001387 dimer interface [polypeptide binding]; other site 859655001388 conserved gate region; other site 859655001389 putative PBP binding loops; other site 859655001390 ABC-ATPase subunit interface; other site 859655001391 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 859655001392 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 859655001393 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 859655001394 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 859655001395 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 859655001396 dimer interface [polypeptide binding]; other site 859655001397 phosphorylation site [posttranslational modification] 859655001398 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 859655001399 ATP binding site [chemical binding]; other site 859655001400 Mg2+ binding site [ion binding]; other site 859655001401 G-X-G motif; other site 859655001402 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 859655001403 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 859655001404 active site 859655001405 phosphorylation site [posttranslational modification] 859655001406 intermolecular recognition site; other site 859655001407 dimerization interface [polypeptide binding]; other site 859655001408 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 859655001409 DNA binding site [nucleotide binding] 859655001410 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 859655001411 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 859655001412 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 859655001413 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 859655001414 trimer interface [polypeptide binding]; other site 859655001415 eyelet of channel; other site 859655001416 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 859655001417 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 859655001418 protein binding site [polypeptide binding]; other site 859655001419 Uncharacterized conserved protein [Function unknown]; Region: COG0327 859655001420 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 859655001421 large-conductance mechanosensitive channel; Provisional; Region: mscL; PRK13952 859655001422 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 859655001423 ubiquinol-cytochrome c reductase, iron-sulfur subunit; Region: Rieske_proteo; TIGR01416 859655001424 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 859655001425 [2Fe-2S] cluster binding site [ion binding]; other site 859655001426 Cytochrome b subunit of the bc complex [Energy production and conversion]; Region: QcrB; COG1290 859655001427 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 859655001428 Qi binding site; other site 859655001429 intrachain domain interface; other site 859655001430 interchain domain interface [polypeptide binding]; other site 859655001431 heme bH binding site [chemical binding]; other site 859655001432 heme bL binding site [chemical binding]; other site 859655001433 Qo binding site; other site 859655001434 interchain domain interface [polypeptide binding]; other site 859655001435 intrachain domain interface; other site 859655001436 Qi binding site; other site 859655001437 Cytochrome b(C-terminal)/b6/petD; Region: Cytochrom_B_C; pfam00032 859655001438 Qo binding site; other site 859655001439 Cytochrome c1 [Energy production and conversion]; Region: CYT1; COG2857 859655001440 Cytochrome c; Region: Cytochrom_C; cl11414 859655001441 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 859655001442 C-terminal, alpha helical domain of Stringent starvation protein A; Region: GST_C_SspA; cd03186 859655001443 dimer interface [polypeptide binding]; other site 859655001444 N-terminal domain interface [polypeptide binding]; other site 859655001445 ClpXP protease specificity-enhancing factor; Provisional; Region: PRK11798 859655001446 SAM dependent carboxyl methyltransferase; Region: Methyltransf_7; cl04109 859655001447 C-5 cytosine-specific DNA methylase; Region: DNA_methylase; pfam00145 859655001448 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 859655001449 cofactor binding site; other site 859655001450 DNA binding site [nucleotide binding] 859655001451 substrate interaction site [chemical binding]; other site 859655001452 AAA domain; Region: AAA_25; pfam13481 859655001453 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 859655001454 Walker A motif; other site 859655001455 ATP binding site [chemical binding]; other site 859655001456 Walker B motif; other site 859655001457 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 859655001458 active site 859655001459 DNA binding site [nucleotide binding] 859655001460 Int/Topo IB signature motif; other site 859655001461 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 859655001462 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 859655001463 Coenzyme A binding pocket [chemical binding]; other site 859655001464 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 859655001465 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 859655001466 dimer interface [polypeptide binding]; other site 859655001467 phosphorylation site [posttranslational modification] 859655001468 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 859655001469 ATP binding site [chemical binding]; other site 859655001470 Mg2+ binding site [ion binding]; other site 859655001471 G-X-G motif; other site 859655001472 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 859655001473 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 859655001474 Evidence 2b : Function of strongly homologous gene; Product type e : enzyme 859655001475 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type prc : putative receptor 859655001476 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 859655001477 FecR protein; Region: FecR; pfam04773 859655001478 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 859655001479 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 859655001480 DNA binding residues [nucleotide binding] 859655001481 cytochrome o ubiquinol oxidase subunit II; Region: CyoA; TIGR01433 859655001482 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 859655001483 COX Aromatic Rich Motif; Region: COX_ARM; pfam06481 859655001484 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 859655001485 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 859655001486 D-pathway; other site 859655001487 Putative ubiquinol binding site [chemical binding]; other site 859655001488 Low-spin heme (heme b) binding site [chemical binding]; other site 859655001489 Putative water exit pathway; other site 859655001490 Binuclear center (heme o3/CuB) [ion binding]; other site 859655001491 K-pathway; other site 859655001492 Putative proton exit pathway; other site 859655001493 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 859655001494 Subunit I/III interface [polypeptide binding]; other site 859655001495 Subunit III/IV interface [polypeptide binding]; other site 859655001496 Prokaryotic Cytochrome C oxidase subunit IV; Region: COX4_pro; cl01204 859655001497 Transposase domain (DUF772); Region: DUF772; pfam05598 859655001498 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 859655001499 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 859655001500 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 859655001501 Walker A/P-loop; other site 859655001502 ATP binding site [chemical binding]; other site 859655001503 Q-loop/lid; other site 859655001504 ABC transporter signature motif; other site 859655001505 Walker B; other site 859655001506 D-loop; other site 859655001507 H-loop/switch region; other site 859655001508 ABC transporter; Region: ABC_tran_2; pfam12848 859655001509 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 859655001510 Zinc finger domain containing protein (CDGSH-type) [Function unknown]; Region: COG3369 859655001511 Iron-binding zinc finger CDGSH type; Region: zf-CDGSH; pfam09360 859655001512 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 859655001513 putative deacylase active site [active] 859655001514 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 859655001515 Glucan_BSP_ModH catalyzes the elongation of beta-1,2 polyglucose chains of glucan; Region: Glucan_BSP_ModH; cd04191 859655001516 Ligand binding site; other site 859655001517 DXD motif; other site 859655001518 glucan biosynthesis protein G; Provisional; Region: mdoG; PRK13274 859655001519 glucan biosynthesis protein D; Provisional; Region: mdoD; PRK13273 859655001520 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Provisional; Region: PRK06029 859655001521 Flavoprotein; Region: Flavoprotein; pfam02441 859655001522 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 859655001523 putative GSH binding site [chemical binding]; other site 859655001524 catalytic residues [active] 859655001525 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 859655001526 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 859655001527 S-adenosylmethionine binding site [chemical binding]; other site 859655001528 peptide chain release factor 1; Validated; Region: prfA; PRK00591 859655001529 This domain is found in peptide chain release factors; Region: PCRF; smart00937 859655001530 RF-1 domain; Region: RF-1; pfam00472 859655001531 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 859655001532 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 859655001533 tRNA; other site 859655001534 putative tRNA binding site [nucleotide binding]; other site 859655001535 putative NADP binding site [chemical binding]; other site 859655001536 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 859655001537 GTP-binding protein YchF; Reviewed; Region: PRK09601 859655001538 YchF GTPase; Region: YchF; cd01900 859655001539 G1 box; other site 859655001540 GTP/Mg2+ binding site [chemical binding]; other site 859655001541 Switch I region; other site 859655001542 G2 box; other site 859655001543 Switch II region; other site 859655001544 G3 box; other site 859655001545 G4 box; other site 859655001546 G5 box; other site 859655001547 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 859655001548 Flagellar protein FliT; Region: FliT; pfam05400 859655001549 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 859655001550 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 859655001551 N-acetyl-D-glucosamine binding site [chemical binding]; other site 859655001552 catalytic residue [active] 859655001553 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608 859655001554 Ubiquinone biosynthesis hydroxylase, UbiH/UbiF/VisC/COQ6 family; Region: Ubi-OHases; TIGR01988 859655001555 Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: DsbG; COG1651 859655001556 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 859655001557 dimerization domain [polypeptide binding]; other site 859655001558 dimer interface [polypeptide binding]; other site 859655001559 catalytic residues [active] 859655001560 Yhdh putative quinone oxidoreductases; Region: MDR_yhdh; cd08288 859655001561 putative quinone oxidoreductase, YhdH/YhfP family; Region: oxido_YhdH; TIGR02823 859655001562 NADP binding site [chemical binding]; other site 859655001563 dimer interface [polypeptide binding]; other site 859655001564 Predicted protease with the C-terminal PDZ domain [General function prediction only]; Region: COG3975 859655001565 M61 glycyl aminopeptidase; Region: Peptidase_M61; pfam05299 859655001566 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 859655001567 protein binding site [polypeptide binding]; other site 859655001568 Predicted membrane protein [Function unknown]; Region: COG1289 859655001569 FUSC-like inner membrane protein yccS; Region: FUSC-like; pfam12805 859655001570 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 859655001571 Protein of unknown function (DUF2778); Region: DUF2778; pfam10908 859655001572 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 859655001573 ligand binding site [chemical binding]; other site 859655001574 active site 859655001575 UGI interface [polypeptide binding]; other site 859655001576 catalytic site [active] 859655001577 Uncharacterized conserved protein [Function unknown]; Region: COG3025 859655001578 Uncharacterized subgroup of the CYTH-like superfamily having an associated CHAD domain; Region: CYTH-like_Pase_CHAD; cd07756 859655001579 putative active site [active] 859655001580 putative metal binding residues [ion binding]; other site 859655001581 signature motif; other site 859655001582 putative triphosphate binding site [ion binding]; other site 859655001583 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 859655001584 active site 859655001585 ribulose/triose binding site [chemical binding]; other site 859655001586 phosphate binding site [ion binding]; other site 859655001587 substrate (anthranilate) binding pocket [chemical binding]; other site 859655001588 product (indole) binding pocket [chemical binding]; other site 859655001589 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 859655001590 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 859655001591 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 859655001592 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 859655001593 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 859655001594 glutamine binding [chemical binding]; other site 859655001595 catalytic triad [active] 859655001596 anthranilate synthase component I; Provisional; Region: PRK13565 859655001597 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 859655001598 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 859655001599 phosphoglycolate phosphatase; Provisional; Region: PRK13222 859655001600 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 859655001601 motif II; other site 859655001602 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 859655001603 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 859655001604 substrate binding site [chemical binding]; other site 859655001605 hexamer interface [polypeptide binding]; other site 859655001606 metal binding site [ion binding]; metal-binding site 859655001607 CO2+/MG2+ efflux protein ApaG; Reviewed; Region: apaG; PRK05461 859655001608 Membrane-bound lytic murein transglycosylase [Cell envelope biogenesis, outer membrane]; Region: MltA; COG2821 859655001609 MltA specific insert domain; Region: MltA; smart00925 859655001610 3D domain; Region: 3D; pfam06725 859655001611 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 859655001612 phenylacetate-CoA ligase; Region: PA_CoA_ligase; TIGR02155 859655001613 acyl-activating enzyme (AAE) consensus motif; other site 859655001614 AMP binding site [chemical binding]; other site 859655001615 active site 859655001616 CoA binding site [chemical binding]; other site 859655001617 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 859655001618 CoenzymeA binding site [chemical binding]; other site 859655001619 subunit interaction site [polypeptide binding]; other site 859655001620 PHB binding site; other site 859655001621 enoyl-CoA hydratase; Provisional; Region: PRK08140 859655001622 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 859655001623 substrate binding site [chemical binding]; other site 859655001624 oxyanion hole (OAH) forming residues; other site 859655001625 trimer interface [polypeptide binding]; other site 859655001626 enoyl-CoA hydratase; Provisional; Region: PRK05862 859655001627 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 859655001628 substrate binding site [chemical binding]; other site 859655001629 oxyanion hole (OAH) forming residues; other site 859655001630 trimer interface [polypeptide binding]; other site 859655001631 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 859655001632 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 859655001633 metal binding site [ion binding]; metal-binding site 859655001634 putative dimer interface [polypeptide binding]; other site 859655001635 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pt : putative transporter 859655001636 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 859655001637 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 859655001638 dimer interface [polypeptide binding]; other site 859655001639 conserved gate region; other site 859655001640 putative PBP binding loops; other site 859655001641 ABC-ATPase subunit interface; other site 859655001642 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 859655001643 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 859655001644 dimer interface [polypeptide binding]; other site 859655001645 conserved gate region; other site 859655001646 putative PBP binding loops; other site 859655001647 ABC-ATPase subunit interface; other site 859655001648 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 859655001649 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 859655001650 Walker A/P-loop; other site 859655001651 ATP binding site [chemical binding]; other site 859655001652 Q-loop/lid; other site 859655001653 ABC transporter signature motif; other site 859655001654 Walker B; other site 859655001655 D-loop; other site 859655001656 H-loop/switch region; other site 859655001657 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 859655001658 ABC-type oligopeptide transport system, ATPase component [Amino acid transport and metabolism]; Region: AppF; COG4608 859655001659 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 859655001660 Walker A/P-loop; other site 859655001661 ATP binding site [chemical binding]; other site 859655001662 Q-loop/lid; other site 859655001663 ABC transporter signature motif; other site 859655001664 Walker B; other site 859655001665 D-loop; other site 859655001666 H-loop/switch region; other site 859655001667 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 859655001668 Insertion element 4 transposase N-terminal; Region: Nterm_IS4; pfam13006 859655001669 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 859655001670 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 859655001671 Type I periplasmic binding domain of uncharacterized extracellular ligand-binding proteins; Region: PBP1_STKc_like; cd06326 859655001672 putative ligand binding site [chemical binding]; other site 859655001673 PTS_IIB_fructose: subunit IIB of enzyme II (EII) of the fructose-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII (also referred to as FruAB) is a fructose-specific permease made up of two proteins (FruA and...; Region: PTS_IIB_fructose; cd05569 859655001674 active site 859655001675 P-loop; other site 859655001676 phosphorylation site [posttranslational modification] 859655001677 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; cl17425 859655001678 Phosphotransferase system, EIIC; Region: PTS_EIIC; pfam02378 859655001679 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 859655001680 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 859655001681 putative substrate binding site [chemical binding]; other site 859655001682 putative ATP binding site [chemical binding]; other site 859655001683 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 859655001684 active site 859655001685 phosphorylation site [posttranslational modification] 859655001686 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 859655001687 dimerization domain swap beta strand [polypeptide binding]; other site 859655001688 regulatory protein interface [polypeptide binding]; other site 859655001689 active site 859655001690 regulatory phosphorylation site [posttranslational modification]; other site 859655001691 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 859655001692 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 859655001693 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 859655001694 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 859655001695 Transcriptional regulators [Transcription]; Region: PurR; COG1609 859655001696 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 859655001697 DNA binding site [nucleotide binding] 859655001698 domain linker motif; other site 859655001699 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_4; cd06280 859655001700 putative dimerization interface [polypeptide binding]; other site 859655001701 putative ligand binding site [chemical binding]; other site 859655001702 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 859655001703 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 859655001704 putative [4Fe-4S] binding site [ion binding]; other site 859655001705 putative molybdopterin cofactor binding site [chemical binding]; other site 859655001706 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 859655001707 putative molybdopterin cofactor binding site; other site 859655001708 Predicted aminopeptidase (DUF2265); Region: DUF2265; cl17720 859655001709 Long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07059 859655001710 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 859655001711 acyl-activating enzyme (AAE) consensus motif; other site 859655001712 putative AMP binding site [chemical binding]; other site 859655001713 putative active site [active] 859655001714 putative CoA binding site [chemical binding]; other site 859655001715 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 859655001716 metabolite-proton symporter; Region: 2A0106; TIGR00883 859655001717 putative substrate translocation pore; other site 859655001718 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 859655001719 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 859655001720 trimer interface [polypeptide binding]; other site 859655001721 eyelet of channel; other site 859655001722 Demethoxyubiquinone hydroxylase, ferritin-like diiron-binding domain; Region: DMQH; cd01042 859655001723 diiron binding motif [ion binding]; other site 859655001724 cell division protein MraZ; Reviewed; Region: PRK00326 859655001725 MraZ protein; Region: MraZ; pfam02381 859655001726 MraZ protein; Region: MraZ; pfam02381 859655001727 MraW methylase family; Region: Methyltransf_5; cl17771 859655001728 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 859655001729 Cell division protein [Cell division and chromosome partitioning]; Region: FtsL; COG3116 859655001730 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 859655001731 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 859655001732 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 859655001733 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 859655001734 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 859655001735 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 859655001736 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 859655001737 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 859655001738 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 859655001739 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 859655001740 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 859655001741 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 859655001742 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 859655001743 Mg++ binding site [ion binding]; other site 859655001744 putative catalytic motif [active] 859655001745 putative substrate binding site [chemical binding]; other site 859655001746 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK02006 859655001747 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 859655001748 cell division protein FtsW; Region: ftsW; TIGR02614 859655001749 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 859655001750 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 859655001751 active site 859655001752 homodimer interface [polypeptide binding]; other site 859655001753 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 859655001754 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 859655001755 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 859655001756 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 859655001757 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 859655001758 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 859655001759 ATP-grasp domain; Region: ATP-grasp_4; cl17255 859655001760 Cell division septal protein [Cell envelope biogenesis, outer membrane]; Region: FtsQ; COG1589 859655001761 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 859655001762 Cell division protein FtsQ; Region: FtsQ; pfam03799 859655001763 Cell division ATPase FtsA [Cell division and chromosome partitioning]; Region: ftsA; COG0849 859655001764 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 859655001765 nucleotide binding site [chemical binding]; other site 859655001766 Cell division protein FtsA; Region: FtsA; pfam14450 859655001767 cell division protein FtsZ; Validated; Region: PRK09330 859655001768 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 859655001769 nucleotide binding site [chemical binding]; other site 859655001770 SulA interaction site; other site 859655001771 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 859655001772 catalytic triad [active] 859655001773 dimer interface [polypeptide binding]; other site 859655001774 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 859655001775 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 859655001776 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 859655001777 Peptidase family M23; Region: Peptidase_M23; pfam01551 859655001778 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 859655001779 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 859655001780 SEC-C motif; Region: SEC-C; pfam02810 859655001781 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 859655001782 heterotetramer interface [polypeptide binding]; other site 859655001783 active site pocket [active] 859655001784 cleavage site 859655001785 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG2607 859655001786 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 859655001787 Walker A motif; other site 859655001788 ATP binding site [chemical binding]; other site 859655001789 Walker B motif; other site 859655001790 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 859655001791 active site 859655001792 8-oxo-dGMP binding site [chemical binding]; other site 859655001793 nudix motif; other site 859655001794 metal binding site [ion binding]; metal-binding site 859655001795 Domain of unknown function (DUF329); Region: DUF329; pfam03884 859655001796 hypothetical protein; Provisional; Region: PRK05287 859655001797 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 859655001798 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 859655001799 CoA-binding site [chemical binding]; other site 859655001800 ATP-binding [chemical binding]; other site 859655001801 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 859655001802 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 859655001803 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 859655001804 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 859655001805 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 859655001806 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 859655001807 type IV-A pilus assembly ATPase PilB; Region: type_IV_pilB; TIGR02538 859655001808 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 859655001809 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 859655001810 Walker A motif; other site 859655001811 ATP binding site [chemical binding]; other site 859655001812 Walker B motif; other site 859655001813 Putative Mg2+ and Co2+ transporter CorB [Inorganic ion transport and metabolism]; Region: CorB; COG4536 859655001814 Domain of unknown function DUF21; Region: DUF21; pfam01595 859655001815 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 859655001816 Transporter associated domain; Region: CorC_HlyC; smart01091 859655001817 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 859655001818 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 859655001819 substrate binding pocket [chemical binding]; other site 859655001820 chain length determination region; other site 859655001821 substrate-Mg2+ binding site; other site 859655001822 catalytic residues [active] 859655001823 aspartate-rich region 1; other site 859655001824 active site lid residues [active] 859655001825 aspartate-rich region 2; other site 859655001826 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 859655001827 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 859655001828 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 859655001829 GTPase CgtA; Reviewed; Region: obgE; PRK12299 859655001830 GTP1/OBG; Region: GTP1_OBG; pfam01018 859655001831 Obg GTPase; Region: Obg; cd01898 859655001832 G1 box; other site 859655001833 GTP/Mg2+ binding site [chemical binding]; other site 859655001834 Switch I region; other site 859655001835 G2 box; other site 859655001836 G3 box; other site 859655001837 Switch II region; other site 859655001838 G4 box; other site 859655001839 G5 box; other site 859655001840 gamma-glutamyl kinase; Provisional; Region: PRK05429 859655001841 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 859655001842 nucleotide binding site [chemical binding]; other site 859655001843 homotetrameric interface [polypeptide binding]; other site 859655001844 putative phosphate binding site [ion binding]; other site 859655001845 putative allosteric binding site; other site 859655001846 PUA domain; Region: PUA; pfam01472 859655001847 CNP1-like family; Region: CNP1; pfam08750 859655001848 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 859655001849 putative active site [active] 859655001850 Ap4A binding site [chemical binding]; other site 859655001851 nudix motif; other site 859655001852 putative metal binding site [ion binding]; other site 859655001853 prolyl-tRNA synthetase; Provisional; Region: PRK09194 859655001854 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 859655001855 dimer interface [polypeptide binding]; other site 859655001856 motif 1; other site 859655001857 active site 859655001858 motif 2; other site 859655001859 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 859655001860 putative deacylase active site [active] 859655001861 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 859655001862 active site 859655001863 motif 3; other site 859655001864 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 859655001865 anticodon binding site; other site 859655001866 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 859655001867 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 859655001868 N-acetyl-D-glucosamine binding site [chemical binding]; other site 859655001869 catalytic residue [active] 859655001870 Prolyl 4-hydroxylase alpha subunit homologues; Region: P4Hc; smart00702 859655001871 Multiple antibiotic transporter [Intracellular trafficking and secretion]; Region: MarC; COG2095 859655001872 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 859655001873 active site 859655001874 signal recognition particle protein; Provisional; Region: PRK10867 859655001875 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 859655001876 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 859655001877 P loop; other site 859655001878 GTP binding site [chemical binding]; other site 859655001879 Signal peptide binding domain; Region: SRP_SPB; pfam02978 859655001880 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4137 859655001881 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 859655001882 putative active site [active] 859655001883 heme pocket [chemical binding]; other site 859655001884 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 859655001885 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 859655001886 dimer interface [polypeptide binding]; other site 859655001887 phosphorylation site [posttranslational modification] 859655001888 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 859655001889 ATP binding site [chemical binding]; other site 859655001890 Mg2+ binding site [ion binding]; other site 859655001891 G-X-G motif; other site 859655001892 Response regulator receiver domain; Region: Response_reg; pfam00072 859655001893 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 859655001894 active site 859655001895 phosphorylation site [posttranslational modification] 859655001896 intermolecular recognition site; other site 859655001897 dimerization interface [polypeptide binding]; other site 859655001898 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 859655001899 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 859655001900 Walker A motif; other site 859655001901 ATP binding site [chemical binding]; other site 859655001902 Walker B motif; other site 859655001903 arginine finger; other site 859655001904 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 859655001905 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 859655001906 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 859655001907 amidase catalytic site [active] 859655001908 Zn binding residues [ion binding]; other site 859655001909 substrate binding site [chemical binding]; other site 859655001910 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07207 859655001911 ATP cone domain; Region: ATP-cone; pfam03477 859655001912 Class I ribonucleotide reductase; Region: RNR_I; cd01679 859655001913 active site 859655001914 dimer interface [polypeptide binding]; other site 859655001915 catalytic residues [active] 859655001916 effector binding site; other site 859655001917 R2 peptide binding site; other site 859655001918 ribonucleotide-diphosphate reductase subunit beta; Provisional; Region: nrdF2; PRK13966 859655001919 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 859655001920 dimer interface [polypeptide binding]; other site 859655001921 putative radical transfer pathway; other site 859655001922 diiron center [ion binding]; other site 859655001923 tyrosyl radical; other site 859655001924 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 859655001925 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 859655001926 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 859655001927 active site 859655001928 Thioesterase-like superfamily; Region: 4HBT_3; pfam13622 859655001929 Thioesterase II (TEII) is thought to regenerate misprimed nonribosomal peptide synthetases (NRPSs) as well as modular polyketide synthases (PKSs) by hydrolyzing acetyl groups bound to the peptidyl carrier protein (PCP) and acyl carrier protein (ACP)...; Region: Thioesterase_II_repeat2; cd03445 859655001930 active site 859655001931 Peptidase M14-like domain; uncharacterized subfamily; Region: M14-like_6; cd06233 859655001932 putative active site [active] 859655001933 Zn binding site [ion binding]; other site 859655001934 Threonine/homoserine efflux transporter [Amino acid transport and metabolism]; Region: rhtA; COG5006 859655001935 EamA-like transporter family; Region: EamA; pfam00892 859655001936 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 859655001937 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 859655001938 AsnC family; Region: AsnC_trans_reg; pfam01037 859655001939 Evidence 7 : Gene remnant; Product type prc : putative receptor 859655001940 Uncharacterized protein conserved in bacteria (DUF2147); Region: DUF2147; pfam09917 859655001941 Glycine zipper 2TM domain; Region: Rick_17kDa_Anti; cl10470 859655001942 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 859655001943 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 859655001944 substrate binding site [chemical binding]; other site 859655001945 ATP binding site [chemical binding]; other site 859655001946 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 859655001947 dimer interface [polypeptide binding]; other site 859655001948 catalytic triad [active] 859655001949 peroxidatic and resolving cysteines [active] 859655001950 zinc-ribbon domain; Region: zinc_ribbon_5; cl11777 859655001951 Protein of unknown function (DUF3426); Region: DUF3426; pfam11906 859655001952 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 859655001953 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 859655001954 S-adenosylmethionine binding site [chemical binding]; other site 859655001955 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 859655001956 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 859655001957 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 859655001958 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 859655001959 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 859655001960 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 859655001961 carboxyltransferase (CT) interaction site; other site 859655001962 biotinylation site [posttranslational modification]; other site 859655001963 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 859655001964 Dehydroquinase class II; Region: DHquinase_II; pfam01220 859655001965 trimer interface [polypeptide binding]; other site 859655001966 active site 859655001967 dimer interface [polypeptide binding]; other site 859655001968 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 859655001969 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 859655001970 catalytic residues [active] 859655001971 UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl- meso-diaminopimelate ligase; Region: mpl; TIGR01081 859655001972 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 859655001973 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 859655001974 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 859655001975 Predicted esterase [General function prediction only]; Region: COG3150 859655001976 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 859655001977 4-hydroxybenzoate synthetase (chorismate lyase) [Coenzyme metabolism]; Region: UbiC; COG3161 859655001978 Exoribonuclease R [Transcription]; Region: VacB; COG0557 859655001979 RNB domain; Region: RNB; pfam00773 859655001980 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 859655001981 TonB family C-terminal domain; Region: tonB_Cterm; TIGR01352 859655001982 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 859655001983 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 859655001984 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 859655001985 shikimate binding site; other site 859655001986 NAD(P) binding site [chemical binding]; other site 859655001987 monofunctional biosynthetic peptidoglycan transglycosylase; Provisional; Region: mtgA; PRK00056 859655001988 monofunctional biosynthetic peptidoglycan transglycosylase; Region: mono_pep_trsgly; TIGR02070 859655001989 Pectate lyase; Region: Pectate_lyase; pfam03211 859655001990 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 859655001991 Escherichia coli Mg2+ transporter CorA_like subgroup; Region: EcCorA-like_1; cd12835 859655001992 Cl binding site [ion binding]; other site 859655001993 oligomer interface [polypeptide binding]; other site 859655001994 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 859655001995 active site 859655001996 dimer interface [polypeptide binding]; other site 859655001997 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 859655001998 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 859655001999 Uncharacterized protein (competence- and mitomycin-induced) [General function prediction only]; Region: CinA; COG1546 859655002000 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 859655002001 tetramer interfaces [polypeptide binding]; other site 859655002002 binuclear metal-binding site [ion binding]; other site 859655002003 thiamine monophosphate kinase; Provisional; Region: PRK05731 859655002004 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 859655002005 ATP binding site [chemical binding]; other site 859655002006 dimerization interface [polypeptide binding]; other site 859655002007 malic enzyme; Reviewed; Region: PRK12862 859655002008 Malic enzyme, N-terminal domain; Region: malic; pfam00390 859655002009 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 859655002010 putative NAD(P) binding site [chemical binding]; other site 859655002011 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 859655002012 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 859655002013 active site 859655002014 barstar interaction site; other site 859655002015 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 859655002016 putative RNAase interaction site [polypeptide binding]; other site 859655002017 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3753 859655002018 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1385 859655002019 RNA methyltransferase, RsmE family; Region: TIGR00046 859655002020 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 859655002021 putative dimer interface [polypeptide binding]; other site 859655002022 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 859655002023 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 859655002024 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 859655002025 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 859655002026 dimerization interface [polypeptide binding]; other site 859655002027 substrate binding pocket [chemical binding]; other site 859655002028 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pt : putative transporter 859655002029 2-keto-3-deoxy-galactonokinase [Carbohydrate transport and metabolism]; Region: DgoK; COG3734 859655002030 2-keto-3-deoxy-galactonokinase; Region: DGOK; pfam05035 859655002031 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 859655002032 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 859655002033 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 859655002034 Low-density lipoprotein-receptor YWTD domain; Region: LY; smart00135 859655002035 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 859655002036 active site 859655002037 2-dehydro-3-deoxy-6-phosphogalactonate aldolase; Reviewed; Region: PRK09140 859655002038 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 859655002039 active site 859655002040 intersubunit interface [polypeptide binding]; other site 859655002041 catalytic residue [active] 859655002042 galactonate dehydratase; Provisional; Region: PRK14017 859655002043 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 859655002044 putative active site pocket [active] 859655002045 putative metal binding site [ion binding]; other site 859655002046 transketolase; Reviewed; Region: PRK12753 859655002047 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 859655002048 TPP-binding site [chemical binding]; other site 859655002049 dimer interface [polypeptide binding]; other site 859655002050 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 859655002051 PYR/PP interface [polypeptide binding]; other site 859655002052 dimer interface [polypeptide binding]; other site 859655002053 TPP binding site [chemical binding]; other site 859655002054 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 859655002055 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 859655002056 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; pfam00044 859655002057 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 859655002058 Transcriptional regulator [Transcription]; Region: LysR; COG0583 859655002059 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 859655002060 The C-terminal substrate binding domain of LysR-type transcriptional regulator LeuO, an activator of leucine synthesis operon, contains the type 2 periplasmic binding fold; Region: PBP2_LeuO; cd08466 859655002061 putative substrate binding pocket [chemical binding]; other site 859655002062 putative dimerization interface [polypeptide binding]; other site 859655002063 ferric uptake regulator; Provisional; Region: fur; PRK09462 859655002064 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 859655002065 metal binding site 2 [ion binding]; metal-binding site 859655002066 putative DNA binding helix; other site 859655002067 metal binding site 1 [ion binding]; metal-binding site 859655002068 dimer interface [polypeptide binding]; other site 859655002069 structural Zn2+ binding site [ion binding]; other site 859655002070 Outer membrane lipoprotein OmlA (small protein A) [Cell envelope biogenesis, outer membrane]; Region: OlmA; COG2913 859655002071 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 859655002072 dihydrodipicolinate reductase; Provisional; Region: PRK00048 859655002073 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 859655002074 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 859655002075 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 859655002076 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 859655002077 HIGH motif; other site 859655002078 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 859655002079 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 859655002080 active site 859655002081 KMSKS motif; other site 859655002082 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 859655002083 tRNA binding surface [nucleotide binding]; other site 859655002084 Lipopolysaccharide-assembly; Region: LptE; cl01125 859655002085 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 859655002086 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 859655002087 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 859655002088 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 859655002089 putative catalytic cysteine [active] 859655002090 Predicted membrane protein [Function unknown]; Region: COG1981 859655002091 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 859655002092 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 859655002093 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 859655002094 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 859655002095 Response regulator receiver domain; Region: Response_reg; pfam00072 859655002096 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 859655002097 active site 859655002098 phosphorylation site [posttranslational modification] 859655002099 intermolecular recognition site; other site 859655002100 dimerization interface [polypeptide binding]; other site 859655002101 Response regulator receiver domain; Region: Response_reg; pfam00072 859655002102 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 859655002103 active site 859655002104 phosphorylation site [posttranslational modification] 859655002105 intermolecular recognition site; other site 859655002106 dimerization interface [polypeptide binding]; other site 859655002107 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 859655002108 dimer interface [polypeptide binding]; other site 859655002109 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 859655002110 phosphorylation site [posttranslational modification] 859655002111 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 859655002112 ATP binding site [chemical binding]; other site 859655002113 Mg2+ binding site [ion binding]; other site 859655002114 G-X-G motif; other site 859655002115 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 859655002116 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 859655002117 dimer interface [polypeptide binding]; other site 859655002118 phosphorylation site [posttranslational modification] 859655002119 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 859655002120 ATP binding site [chemical binding]; other site 859655002121 Mg2+ binding site [ion binding]; other site 859655002122 G-X-G motif; other site 859655002123 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 859655002124 S-adenosylmethionine binding site [chemical binding]; other site 859655002125 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 859655002126 active site 859655002127 phosphorylation site [posttranslational modification] 859655002128 intermolecular recognition site; other site 859655002129 dimerization interface [polypeptide binding]; other site 859655002130 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; COG1282 859655002131 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 859655002132 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 859655002133 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 859655002134 tetramerization interface [polypeptide binding]; other site 859655002135 active site 859655002136 Rubrum transdehydrogenase NAD-binding and catalytic domains; Region: Rubrum_tdh; cd05304 859655002137 NAD/NADP transhydrogenase alpha subunit [Energy production and conversion]; Region: PntA; COG3288 859655002138 ligand binding site [chemical binding]; other site 859655002139 homodimer interface [polypeptide binding]; other site 859655002140 NAD(P) binding site [chemical binding]; other site 859655002141 trimer interface B [polypeptide binding]; other site 859655002142 trimer interface A [polypeptide binding]; other site 859655002143 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 859655002144 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 859655002145 N-terminal plug; other site 859655002146 ligand-binding site [chemical binding]; other site 859655002147 Predicted membrane protein [Function unknown]; Region: COG3503 859655002148 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 859655002149 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 859655002150 putative substrate translocation pore; other site 859655002151 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 859655002152 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 859655002153 HlyD family secretion protein; Region: HlyD_3; pfam13437 859655002154 Transcriptional regulators [Transcription]; Region: MarR; COG1846 859655002155 MarR family; Region: MarR_2; cl17246 859655002156 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 859655002157 nudix motif; other site 859655002158 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 859655002159 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 859655002160 Glutamate synthase domain 2 [Amino acid transport and metabolism]; Region: GltB; COG0069 859655002161 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 859655002162 active site 859655002163 FMN binding site [chemical binding]; other site 859655002164 substrate binding site [chemical binding]; other site 859655002165 3Fe-4S cluster binding site [ion binding]; other site 859655002166 putative glutathione S-transferase; Provisional; Region: PRK10357 859655002167 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 859655002168 putative C-terminal domain interface [polypeptide binding]; other site 859655002169 putative GSH binding site (G-site) [chemical binding]; other site 859655002170 putative dimer interface [polypeptide binding]; other site 859655002171 C-terminal, alpha helical domain of an unknown subfamily 6 of Glutathione S-transferases; Region: GST_C_6; cd03205 859655002172 dimer interface [polypeptide binding]; other site 859655002173 N-terminal domain interface [polypeptide binding]; other site 859655002174 putative substrate binding pocket (H-site) [chemical binding]; other site 859655002175 adenylosuccinate lyase; Provisional; Region: PRK09285 859655002176 PurB_like adenylosuccinases (adenylsuccinate lyase, ASL); Region: PurB; cd01598 859655002177 tetramer interface [polypeptide binding]; other site 859655002178 active site 859655002179 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 859655002180 Uncharacterized conserved protein [Function unknown]; Region: COG2353 859655002181 Uncharacterized conserved protein [Function unknown]; Region: COG2353 859655002182 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme 859655002183 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme 859655002184 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 859655002185 Protein export membrane protein; Region: SecD_SecF; pfam02355 859655002186 SecD export protein N-terminal TM region; Region: SecD-TM1; pfam13721 859655002187 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 859655002188 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 859655002189 preprotein translocase subunit YajC; Validated; Region: yajC; PRK05585 859655002190 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 859655002191 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 859655002192 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 859655002193 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 859655002194 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 859655002195 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 859655002196 generic binding surface II; other site 859655002197 ssDNA binding site; other site 859655002198 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 859655002199 ATP binding site [chemical binding]; other site 859655002200 putative Mg++ binding site [ion binding]; other site 859655002201 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 859655002202 nucleotide binding region [chemical binding]; other site 859655002203 ATP-binding site [chemical binding]; other site 859655002204 Surface antigen [Cell envelope biogenesis, outer membrane]; Region: LipA; COG4520 859655002205 Predicted amino acid aldolase or racemase [Amino acid transport and metabolism]; Region: COG3616 859655002206 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 859655002207 dimer interface [polypeptide binding]; other site 859655002208 active site 859655002209 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 859655002210 substrate binding site [chemical binding]; other site 859655002211 catalytic residue [active] 859655002212 Transcriptional regulator [Transcription]; Region: LysR; COG0583 859655002213 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 859655002214 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 859655002215 dimerization interface [polypeptide binding]; other site 859655002216 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 859655002217 This family is most closely related to the GT1 family of glycosyltransferases. ExpC in Rhizobium meliloti has been shown to be involved in the biosynthesis of galactoglucan (exopolysaccharide II); Region: GT1_ExpC_like; cd03818 859655002218 putative ADP-binding pocket [chemical binding]; other site 859655002219 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 859655002220 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 859655002221 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 859655002222 diaminopropionate ammonia-lyase; Provisional; Region: PRK08206 859655002223 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 859655002224 catalytic residue [active] 859655002225 allantoate amidohydrolase; Reviewed; Region: PRK12890 859655002226 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 859655002227 active site 859655002228 metal binding site [ion binding]; metal-binding site 859655002229 dimer interface [polypeptide binding]; other site 859655002230 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 859655002231 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 859655002232 AsnC family; Region: AsnC_trans_reg; pfam01037 859655002233 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 859655002234 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 859655002235 metal binding site [ion binding]; metal-binding site 859655002236 putative dimer interface [polypeptide binding]; other site 859655002237 Transcriptional regulator [Transcription]; Region: LysR; COG0583 859655002238 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 859655002239 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 859655002240 dimerization interface [polypeptide binding]; other site 859655002241 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme 859655002242 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 859655002243 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 859655002244 dimerization interface [polypeptide binding]; other site 859655002245 DPS ferroxidase diiron center [ion binding]; other site 859655002246 ion pore; other site 859655002247 4-hydroxybenzoate octaprenyltransferase; Reviewed; Region: ubiA; PRK12848 859655002248 UbiA prenyltransferase family; Region: UbiA; pfam01040 859655002249 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 859655002250 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 859655002251 Pyridoxal 5-phosphate (PLP)-binding TIM barrel domain of Type III PLP-Dependent Enzymes, Yggs-like proteins; Region: PLPDE_III_Yggs_like; cd06824 859655002252 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 859655002253 catalytic residue [active] 859655002254 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 859655002255 Pilus retraction ATPase PilT. PilT is a nucleotide binding protein responsible for the retraction of type IV pili, likely by pili disassembly. This retraction provides the force required for travel of bacteria in low water environments by a mechanism...; Region: PilT; cd01131 859655002256 Walker A motif; other site 859655002257 ATP binding site [chemical binding]; other site 859655002258 Walker B motif; other site 859655002259 Tfp pilus assembly protein, ATPase PilU [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilU; COG5008 859655002260 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 859655002261 Walker A motif; other site 859655002262 ATP binding site [chemical binding]; other site 859655002263 Walker B motif; other site 859655002264 Tfp pilus assembly protein PilE [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilE; COG4968 859655002265 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 859655002266 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 859655002267 Type II transport protein GspH; Region: GspH; pfam12019 859655002268 Tfp pilus assembly protein PilV [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilV; COG4967 859655002269 Tfp pilus assembly protein PilW [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilW; COG4966 859655002270 PilX N-terminal; Region: PilX_N; pfam14341 859655002271 Tfp pilus assembly protein, tip-associated adhesin PilY1 [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilY1; COG3419 859655002272 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 859655002273 catalytic residues [active] 859655002274 dimer interface [polypeptide binding]; other site 859655002275 Predicted transcriptional regulator [Transcription]; Region: COG2378 859655002276 HTH domain; Region: HTH_11; pfam08279 859655002277 WYL domain; Region: WYL; pfam13280 859655002278 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG3837 859655002279 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 859655002280 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 859655002281 Putative effector of murein hydrolase [Cell envelope biogenesis, outer membrane]; Region: LrgB; COG1346 859655002282 Putative effector of murein hydrolase LrgA [General function prediction only]; Region: COG1380 859655002283 glycolate oxidase iron-sulfur subunit; Provisional; Region: glcF; PRK11274 859655002284 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 859655002285 Cysteine-rich domain; Region: CCG; pfam02754 859655002286 Cysteine-rich domain; Region: CCG; pfam02754 859655002287 glycolate oxidase FAD binding subunit; Provisional; Region: glcE; PRK11282 859655002288 FAD binding domain; Region: FAD_binding_4; pfam01565 859655002289 glycolate oxidase subunit GlcD; Provisional; Region: PRK11230 859655002290 FAD binding domain; Region: FAD_binding_4; pfam01565 859655002291 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 859655002292 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 859655002293 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 859655002294 dimerization interface [polypeptide binding]; other site 859655002295 substrate binding pocket [chemical binding]; other site 859655002296 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 859655002297 FAD binding domain; Region: FAD_binding_4; pfam01565 859655002298 ATP:cob(I)alamin adenosyltransferase; Region: PduO_Nterm; TIGR00636 859655002299 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 859655002300 Mechanosensitive ion channel; Region: MS_channel; pfam00924 859655002301 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 859655002302 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 859655002303 non-specific DNA binding site [nucleotide binding]; other site 859655002304 salt bridge; other site 859655002305 sequence-specific DNA binding site [nucleotide binding]; other site 859655002306 HipA N-terminal domain; Region: Couple_hipA; pfam13657 859655002307 Toxin module HipA, protein kinase of phosphatidylinositol 3/4-kinase superfamily [General function prediction only]; Region: HipA; COG3550 859655002308 HipA-like N-terminal domain; Region: HipA_N; pfam07805 859655002309 HipA-like C-terminal domain; Region: HipA_C; pfam07804 859655002310 phospho-2-dehydro-3-deoxyheptonate aldolase; Validated; Region: PRK09261 859655002311 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 859655002312 protease TldD; Provisional; Region: tldD; PRK10735 859655002313 nitrilase; Region: PLN02798 859655002314 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 859655002315 putative active site [active] 859655002316 catalytic triad [active] 859655002317 dimer interface [polypeptide binding]; other site 859655002318 Predicted membrane protein [Function unknown]; Region: COG3164 859655002319 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 859655002320 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Reviewed; Region: PRK11072 859655002321 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 859655002322 metal binding triad; other site 859655002323 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 859655002324 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 859655002325 metal binding triad; other site 859655002326 rhomboid family GlyGly-CTERM serine protease; Region: rhom_GG_sort; TIGR03902 859655002327 Peptidase S8 family domain, uncharacterized subfamily 13; Region: Peptidases_S8_13; cd07496 859655002328 active site 859655002329 catalytic triad [active] 859655002330 Peptidase S8 family domain, uncharacterized subfamily 13; Region: Peptidases_S8_13; cd07496 859655002331 active site 859655002332 catalytic triad [active] 859655002333 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 859655002334 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 859655002335 Walker A/P-loop; other site 859655002336 ATP binding site [chemical binding]; other site 859655002337 Q-loop/lid; other site 859655002338 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 859655002339 ABC transporter signature motif; other site 859655002340 Walker B; other site 859655002341 D-loop; other site 859655002342 H-loop/switch region; other site 859655002343 NAD(+)/NADH kinase family protein; Provisional; Region: ppnK; PRK02155 859655002344 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK02231 859655002345 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 859655002346 Winged helix-turn-helix transcription repressor, HrcA DNA-binding; Region: HrcA_DNA-bdg; pfam03444 859655002347 histidine utilization repressor, proteobacterial; Region: his_ut_repres; TIGR02018 859655002348 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 859655002349 DNA-binding site [nucleotide binding]; DNA binding site 859655002350 UTRA domain; Region: UTRA; pfam07702 859655002351 urocanate hydratase; Provisional; Region: PRK05414 859655002352 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 859655002353 active sites [active] 859655002354 tetramer interface [polypeptide binding]; other site 859655002355 formimidoylglutamase; Provisional; Region: PRK13775 859655002356 Formimidoylglutamase or HutE; Region: Formimidoylglutamase; cd09988 859655002357 putative active site [active] 859655002358 putative metal binding site [ion binding]; other site 859655002359 imidazolonepropionase; Validated; Region: PRK09356 859655002360 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 859655002361 active site 859655002362 ferrochelatase; Reviewed; Region: hemH; PRK00035 859655002363 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 859655002364 C-terminal domain interface [polypeptide binding]; other site 859655002365 active site 859655002366 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 859655002367 active site 859655002368 N-terminal domain interface [polypeptide binding]; other site 859655002369 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 859655002370 RNA binding surface [nucleotide binding]; other site 859655002371 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme 859655002372 GrpE; Region: GrpE; pfam01025 859655002373 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 859655002374 dimer interface [polypeptide binding]; other site 859655002375 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 859655002376 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 859655002377 catalytic residues [active] 859655002378 nucleoside diphosphate kinase regulator; Provisional; Region: PRK05753 859655002379 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 859655002380 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 859655002381 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 859655002382 nucleotide binding site [chemical binding]; other site 859655002383 chaperone protein DnaJ; Provisional; Region: PRK10767 859655002384 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 859655002385 HSP70 interaction site [polypeptide binding]; other site 859655002386 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 859655002387 Zn binding sites [ion binding]; other site 859655002388 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 859655002389 dimer interface [polypeptide binding]; other site 859655002390 aminodeoxychorismate synthase; Provisional; Region: PRK07508 859655002391 chorismate binding enzyme; Region: Chorismate_bind; cl10555 859655002392 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 859655002393 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; cd00449 859655002394 homodimer interface [polypeptide binding]; other site 859655002395 substrate-cofactor binding pocket; other site 859655002396 pyridoxal 5'-phosphate binding site [chemical binding]; other site 859655002397 catalytic residue [active] 859655002398 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 859655002399 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 859655002400 Walker A/P-loop; other site 859655002401 ATP binding site [chemical binding]; other site 859655002402 Q-loop/lid; other site 859655002403 ABC transporter signature motif; other site 859655002404 Walker B; other site 859655002405 D-loop; other site 859655002406 H-loop/switch region; other site 859655002407 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 859655002408 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 859655002409 oligomerization interface [polypeptide binding]; other site 859655002410 active site 859655002411 metal binding site [ion binding]; metal-binding site 859655002412 Deoxynucleoside kinases [Nucleotide transport and metabolism]; Region: COG1428 859655002413 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 859655002414 Substrate-binding site [chemical binding]; other site 859655002415 Substrate specificity [chemical binding]; other site 859655002416 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 859655002417 catalytic center binding site [active] 859655002418 ATP binding site [chemical binding]; other site 859655002419 poly(A) polymerase; Region: pcnB; TIGR01942 859655002420 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 859655002421 active site 859655002422 NTP binding site [chemical binding]; other site 859655002423 metal binding triad [ion binding]; metal-binding site 859655002424 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 859655002425 Polymerase A arginine-rich C-terminus; Region: PolyA_pol_arg_C; pfam12626 859655002426 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 859655002427 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 859655002428 ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]; Region: DnaA; COG0593 859655002429 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 859655002430 Walker A motif; other site 859655002431 ATP binding site [chemical binding]; other site 859655002432 Walker B motif; other site 859655002433 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 859655002434 arginine finger; other site 859655002435 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 859655002436 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 859655002437 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 859655002438 dimerization interface [polypeptide binding]; other site 859655002439 putative ATP binding site [chemical binding]; other site 859655002440 bifunctional DNA-binding transcriptional dual regulator/O6-methylguanine-DNA methyltransferase; Provisional; Region: PRK15435 859655002441 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 859655002442 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 859655002443 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 859655002444 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 859655002445 DNA binding site [nucleotide binding] 859655002446 active site 859655002447 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 859655002448 endonuclease III; Region: ENDO3c; smart00478 859655002449 minor groove reading motif; other site 859655002450 helix-hairpin-helix signature motif; other site 859655002451 substrate binding pocket [chemical binding]; other site 859655002452 active site 859655002453 alpha-ketoglutarate-dependent dioxygenase AlkB; Provisional; Region: PRK15401 859655002454 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3826 859655002455 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme 859655002456 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 859655002457 Coenzyme A binding pocket [chemical binding]; other site 859655002458 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 859655002459 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 859655002460 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 859655002461 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 859655002462 ATP binding site [chemical binding]; other site 859655002463 Mg2+ binding site [ion binding]; other site 859655002464 G-X-G motif; other site 859655002465 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 859655002466 ATP binding site [chemical binding]; other site 859655002467 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 859655002468 Paraquat-inducible protein B [General function prediction only]; Region: PqiB; COG3008 859655002469 mce related protein; Region: MCE; pfam02470 859655002470 mce related protein; Region: MCE; pfam02470 859655002471 mce related protein; Region: MCE; pfam02470 859655002472 Protein of unknown function (DUF3313); Region: DUF3313; pfam11769 859655002473 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 859655002474 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 859655002475 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 859655002476 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 859655002477 Uncharacterized conserved protein [Function unknown]; Region: COG2912 859655002478 Transglutaminase-like superfamily; Region: Transglut_core2; pfam13369 859655002479 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 859655002480 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 859655002481 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 859655002482 Protein of unknown function (DUF3579); Region: DUF3579; pfam12112 859655002483 ornithine carbamoyltransferase; Provisional; Region: PRK00779 859655002484 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 859655002485 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 859655002486 argininosuccinate synthase; Validated; Region: PRK05370 859655002487 argininosuccinate synthase; Provisional; Region: PRK13820 859655002488 Protein of unknown function (DUF1255); Region: DUF1255; pfam06865 859655002489 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 859655002490 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 859655002491 active site 859655002492 nucleophile elbow; other site 859655002493 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK00046 859655002494 FAD binding domain; Region: FAD_binding_4; pfam01565 859655002495 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 859655002496 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1666 859655002497 Proteins similar to Escherichia coli YajQ; Region: YajQ_like; cd11740 859655002498 Protein related to penicillin acylase [General function prediction only]; Region: COG2366 859655002499 The Ntn hydrolases (N-terminal nucleophile) are a diverse superfamily of of enzymes that are activated autocatalytically via an N-terminally lcated nucleophilic amino acid. N-terminal nucleophile (NTN-) hydrolase superfamily, which contains a...; Region: Ntn_hydrolase; cl00467 859655002500 Cephalosporin acylase (CA) belongs to a family of beta-lactam acylases that includes penicillin G acylase (PGA) and aculeacin A acylase. PGA and CA are crucial for the production of backbone chemicals like 6-aminopenicillanic acid and...; Region: Ntn_CA; cd01936 859655002501 active site 859655002502 The Ntn hydrolases (N-terminal nucleophile) are a diverse superfamily of of enzymes that are activated autocatalytically via an N-terminally lcated nucleophilic amino acid. N-terminal nucleophile (NTN-) hydrolase superfamily, which contains a...; Region: Ntn_hydrolase; cl00467 859655002503 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 859655002504 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 859655002505 putative deacylase active site [active] 859655002506 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 859655002507 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 859655002508 active site 859655002509 DNA binding site [nucleotide binding] 859655002510 Int/Topo IB signature motif; other site 859655002511 methylated-DNA--protein-cysteine methyltransferase; Provisional; Region: PRK00901 859655002512 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 859655002513 DNA binding site [nucleotide binding] 859655002514 active site 859655002515 epoxyqueuosine reductase; Region: TIGR00276 859655002516 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 859655002517 4Fe-4S binding domain; Region: Fer4; cl02805 859655002518 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 859655002519 AMIN domain; Region: AMIN; pfam11741 859655002520 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 859655002521 active site 859655002522 metal binding site [ion binding]; metal-binding site 859655002523 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 859655002524 SBF-like CPA transporter family (DUF4137); Region: DUF4137; pfam13593 859655002525 Transcriptional regulator [Transcription]; Region: LysR; COG0583 859655002526 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 859655002527 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 859655002528 putative dimerization interface [polypeptide binding]; other site 859655002529 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 859655002530 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 859655002531 tetrameric interface [polypeptide binding]; other site 859655002532 NAD binding site [chemical binding]; other site 859655002533 catalytic residues [active] 859655002534 Transcriptional regulator [Transcription]; Region: LysR; COG0583 859655002535 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 859655002536 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 859655002537 putative effector binding pocket; other site 859655002538 dimerization interface [polypeptide binding]; other site 859655002539 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 859655002540 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 859655002541 DNA binding site [nucleotide binding] 859655002542 Periplasmic sugar-binding domain of uncharacterized transport systems; Region: PBP1_uncharacterized_sugar_binding; cd06307 859655002543 putative ligand binding site [chemical binding]; other site 859655002544 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 859655002545 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 859655002546 Walker A/P-loop; other site 859655002547 ATP binding site [chemical binding]; other site 859655002548 Q-loop/lid; other site 859655002549 ABC transporter signature motif; other site 859655002550 Walker B; other site 859655002551 D-loop; other site 859655002552 H-loop/switch region; other site 859655002553 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 859655002554 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 859655002555 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 859655002556 TM-ABC transporter signature motif; other site 859655002557 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 859655002558 Periplasmic binding proteins specific to rhizopines; Region: PBP1_rhizopine_binding_like; cd06301 859655002559 putative ligand binding site [chemical binding]; other site 859655002560 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 859655002561 AP endonuclease family 2 C terminus; Region: AP_endonuc_2_N; pfam07582 859655002562 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 859655002563 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 859655002564 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 859655002565 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 859655002566 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 859655002567 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 859655002568 substrate binding site [chemical binding]; other site 859655002569 ATP binding site [chemical binding]; other site 859655002570 Uncharacterized protein conserved in bacteria (DUF2090); Region: DUF2090; pfam09863 859655002571 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3892 859655002572 Acetolactate synthase [Amino acid transport and metabolism]; Region: COG3962 859655002573 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 859655002574 PYR/PP interface [polypeptide binding]; other site 859655002575 dimer interface [polypeptide binding]; other site 859655002576 TPP binding site [chemical binding]; other site 859655002577 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 859655002578 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 859655002579 TPP-binding site [chemical binding]; other site 859655002580 Uncharacterized enzyme involved in inositol metabolism [Carbohydrate transport and metabolism]; Region: IolB; COG3718 859655002581 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 859655002582 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 859655002583 trimer interface [polypeptide binding]; other site 859655002584 eyelet of channel; other site 859655002585 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK08217 859655002586 17hydroxysteroid dehydrogenase type 10 (HSD10)-like, classical (c) SDRs; Region: HSD10-like_SDR_c; cd05371 859655002587 NAD binding site [chemical binding]; other site 859655002588 homodimer interface [polypeptide binding]; other site 859655002589 homotetramer interface [polypeptide binding]; other site 859655002590 active site 859655002591 adenylate kinase; Reviewed; Region: adk; PRK00279 859655002592 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 859655002593 AMP-binding site [chemical binding]; other site 859655002594 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 859655002595 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 859655002596 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 859655002597 Ligand binding site; other site 859655002598 oligomer interface; other site 859655002599 Uncharacterized conserved protein [Function unknown]; Region: COG2835 859655002600 tetraacyldisaccharide 4'-kinase; Provisional; Region: PRK01906 859655002601 tetraacyldisaccharide 4'-kinase; Reviewed; Region: lpxK; PRK00652 859655002602 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 859655002603 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 859655002604 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 859655002605 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 859655002606 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 859655002607 generic binding surface II; other site 859655002608 generic binding surface I; other site 859655002609 superoxide dismutase; Provisional; Region: PRK10543 859655002610 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 859655002611 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 859655002612 Transposase domain (DUF772); Region: DUF772; pfam05598 859655002613 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 859655002614 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 859655002615 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_2; cd06160 859655002616 Peptidase family M50; Region: Peptidase_M50; pfam02163 859655002617 active site 859655002618 putative substrate binding region [chemical binding]; other site 859655002619 Protein of unknown function (DUF2167); Region: DUF2167; cl01938 859655002620 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3758 859655002621 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 859655002622 IHF dimer interface [polypeptide binding]; other site 859655002623 IHF - DNA interface [nucleotide binding]; other site 859655002624 CC3(TIP30)-like, atypical (a) SDRs; Region: CC3_like_SDR_a; cd05250 859655002625 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 859655002626 NAD binding site [chemical binding]; other site 859655002627 active site 859655002628 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 859655002629 Transposase domain (DUF772); Region: DUF772; pfam05598 859655002630 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 859655002631 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 859655002632 Periplasmic glycine betaine/choline-binding (lipo)protein of an ABC-type transport system (osmoprotectant binding protein) [Cell envelope biogenesis, outer membrane]; Region: OpuBC; COG1732 859655002633 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 859655002634 dimer interface [polypeptide binding]; other site 859655002635 conserved gate region; other site 859655002636 ABC-ATPase subunit interface; other site 859655002637 Domain of unknown function (DUF3391); Region: DUF3391; pfam11871 859655002638 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 859655002639 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 859655002640 Zn2+ binding site [ion binding]; other site 859655002641 Mg2+ binding site [ion binding]; other site 859655002642 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 859655002643 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 859655002644 substrate binding pocket [chemical binding]; other site 859655002645 membrane-bound complex binding site; other site 859655002646 hinge residues; other site 859655002647 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme 859655002648 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 859655002649 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 859655002650 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 859655002651 HipA N-terminal domain; Region: Couple_hipA; cl11853 859655002652 HipA-like N-terminal domain; Region: HipA_N; pfam07805 859655002653 HipA-like C-terminal domain; Region: HipA_C; pfam07804 859655002654 EamA-like transporter family; Region: EamA; pfam00892 859655002655 EamA-like transporter family; Region: EamA; pfam00892 859655002656 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 859655002657 methylated-DNA--protein-cysteine methyltransferase; Provisional; Region: PRK00901 859655002658 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 859655002659 DNA binding site [nucleotide binding] 859655002660 active site 859655002661 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Ada; COG2169 859655002662 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 859655002663 AlkA N-terminal domain; Region: AlkA_N; pfam06029 859655002664 3-methyladenine DNA glycosylase/8-oxoguanine DNA glycosylase [DNA replication, recombination, and repair]; Region: AlkA; COG0122 859655002665 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 859655002666 helix-hairpin-helix signature motif; other site 859655002667 substrate binding pocket [chemical binding]; other site 859655002668 active site 859655002669 glucose-1-dehydrogenase; Provisional; Region: PRK06947 859655002670 classical (c) SDRs; Region: SDR_c; cd05233 859655002671 NAD(P) binding site [chemical binding]; other site 859655002672 active site 859655002673 Predicted metalloprotease [General function prediction only]; Region: COG2321 859655002674 Putative neutral zinc metallopeptidase; Region: Zn_peptidase; pfam04228 859655002675 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 859655002676 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 859655002677 Predicted membrane protein [Function unknown]; Region: COG2259 859655002678 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 859655002679 putative substrate translocation pore; other site 859655002680 Major Facilitator Superfamily; Region: MFS_1; pfam07690 859655002681 Transcriptional regulator [Transcription]; Region: LysR; COG0583 859655002682 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 859655002683 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 859655002684 putative effector binding pocket; other site 859655002685 dimerization interface [polypeptide binding]; other site 859655002686 DNA-binding transcriptional regulator LysR; Provisional; Region: PRK11013 859655002687 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 859655002688 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 859655002689 dimerization interface [polypeptide binding]; other site 859655002690 Predicted periplasmic protein [General function prediction only]; Region: COG3895 859655002691 Membrane-bound lysozyme-inhibitor of c-type lysozyme; Region: MliC; pfam09864 859655002692 Metal-dependent hydrolases of the beta-lactamase superfamily III [General function prediction only]; Region: ElaC; COG1234 859655002693 Uncharacterized conserved protein [Function unknown]; Region: COG1430 859655002694 Di-haem cytochrome c peroxidase; Region: CCP_MauG; pfam03150 859655002695 Evidence 2b : Function of strongly homologous gene; Product type pe : putative enzyme 859655002696 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 859655002697 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 859655002698 active site 859655002699 metal binding site [ion binding]; metal-binding site 859655002700 Transposase domain (DUF772); Region: DUF772; pfam05598 859655002701 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 859655002702 isocitrate dehydrogenase; Validated; Region: PRK07362 859655002703 isocitrate dehydrogenase; Reviewed; Region: PRK07006 859655002704 integrase; Provisional; Region: PRK09692 859655002705 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 859655002706 active site 859655002707 Int/Topo IB signature motif; other site 859655002708 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 859655002709 Prophage CP4-57 regulatory protein (AlpA); Region: Phage_AlpA; pfam05930 859655002710 Protein of unknown function (DUF3631); Region: DUF3631; pfam12307 859655002711 Phage regulatory protein Rha (Phage_pRha); Region: Phage_pRha; pfam09669 859655002712 Orotate phosphoribosyltransferase homologs [Nucleotide transport and metabolism]; Region: COG0856 859655002713 Domain of unknown function (DUF4126); Region: DUF4126; pfam13548 859655002714 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 859655002715 DNA-binding site [nucleotide binding]; DNA binding site 859655002716 RNA-binding motif; other site 859655002717 Uncharacterized conserved protein [Function unknown]; Region: COG2127 859655002718 ATP-dependent Clp protease ATP-binding subunit clpA; Region: ClpA; TIGR02639 859655002719 Clp amino terminal domain; Region: Clp_N; pfam02861 859655002720 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 859655002721 Walker A motif; other site 859655002722 ATP binding site [chemical binding]; other site 859655002723 Walker B motif; other site 859655002724 arginine finger; other site 859655002725 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 859655002726 Walker A motif; other site 859655002727 ATP binding site [chemical binding]; other site 859655002728 Walker B motif; other site 859655002729 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 859655002730 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 859655002731 trimer interface [polypeptide binding]; other site 859655002732 active site 859655002733 luciferase family oxidoreductase, group 1; Region: oxido_grp_1; TIGR03558 859655002734 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 859655002735 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 859655002736 Flavoprotein; Region: Flavoprotein; pfam02441 859655002737 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 859655002738 Uncharacterized conserved protein [Function unknown]; Region: COG1434 859655002739 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 859655002740 putative active site [active] 859655002741 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 859655002742 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 859655002743 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 859655002744 active site 859655002745 HIGH motif; other site 859655002746 nucleotide binding site [chemical binding]; other site 859655002747 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 859655002748 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 859655002749 active site 859655002750 KMSKS motif; other site 859655002751 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 859655002752 tRNA binding surface [nucleotide binding]; other site 859655002753 anticodon binding site; other site 859655002754 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 859655002755 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 859655002756 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 859655002757 active site 859655002758 Riboflavin kinase; Region: Flavokinase; smart00904 859655002759 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 859655002760 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 859655002761 ATP binding site [chemical binding]; other site 859655002762 Mg2+ binding site [ion binding]; other site 859655002763 G-X-G motif; other site 859655002764 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 859655002765 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 859655002766 active site 859655002767 phosphorylation site [posttranslational modification] 859655002768 intermolecular recognition site; other site 859655002769 dimerization interface [polypeptide binding]; other site 859655002770 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 859655002771 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 859655002772 active site 859655002773 phosphorylation site [posttranslational modification] 859655002774 intermolecular recognition site; other site 859655002775 dimerization interface [polypeptide binding]; other site 859655002776 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 859655002777 DNA binding residues [nucleotide binding] 859655002778 dimerization interface [polypeptide binding]; other site 859655002779 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 859655002780 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 859655002781 active site 859655002782 substrate binding site [chemical binding]; other site 859655002783 cosubstrate binding site; other site 859655002784 catalytic site [active] 859655002785 ribosomal RNA small subunit methyltransferase RsmB; Region: rsmB; TIGR00563 859655002786 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 859655002787 S-adenosylmethionine binding site [chemical binding]; other site 859655002788 Catalytic domain of EDTA-resistant nuclease Nuc from Salmonella typhimurium and similar proteins; Region: PLDc_Nuc; cd09170 859655002789 PLD-like domain; Region: PLDc_2; pfam13091 859655002790 putative active site [active] 859655002791 catalytic site [active] 859655002792 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: COG3264 859655002793 Mechanosensitive ion channel; Region: MS_channel; pfam00924 859655002794 Fatty acid desaturase; Region: FA_desaturase; pfam00487 859655002795 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 859655002796 Di-iron ligands [ion binding]; other site 859655002797 Transposase; Region: DDE_Tnp_ISL3; pfam01610 859655002798 quinolinate synthetase; Provisional; Region: PRK09375 859655002799 nicotinate-nucleotide pyrophosphorylase; Provisional; Region: PRK06978 859655002800 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 859655002801 dimerization interface [polypeptide binding]; other site 859655002802 active site 859655002803 L-aspartate oxidase; Provisional; Region: PRK09077 859655002804 L-aspartate oxidase; Provisional; Region: PRK06175 859655002805 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 859655002806 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 859655002807 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 859655002808 hypothetical protein; Reviewed; Region: PRK00024 859655002809 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 859655002810 MPN+ (JAMM) motif; other site 859655002811 Zinc-binding site [ion binding]; other site 859655002812 FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]; Region: SlpA; COG1047 859655002813 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 859655002814 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 859655002815 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 859655002816 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 859655002817 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 859655002818 dimerization interface [polypeptide binding]; other site 859655002819 ligand binding site [chemical binding]; other site 859655002820 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 859655002821 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 859655002822 TM-ABC transporter signature motif; other site 859655002823 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 859655002824 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 859655002825 TM-ABC transporter signature motif; other site 859655002826 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 859655002827 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 859655002828 Walker A/P-loop; other site 859655002829 ATP binding site [chemical binding]; other site 859655002830 Q-loop/lid; other site 859655002831 ABC transporter signature motif; other site 859655002832 Walker B; other site 859655002833 D-loop; other site 859655002834 H-loop/switch region; other site 859655002835 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 859655002836 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 859655002837 Walker A/P-loop; other site 859655002838 ATP binding site [chemical binding]; other site 859655002839 Q-loop/lid; other site 859655002840 ABC transporter signature motif; other site 859655002841 Walker B; other site 859655002842 D-loop; other site 859655002843 H-loop/switch region; other site 859655002844 Transposase domain (DUF772); Region: DUF772; pfam05598 859655002845 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 859655002846 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 859655002847 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 859655002848 Coenzyme A binding pocket [chemical binding]; other site 859655002849 acetylornithine transaminase protein; Provisional; Region: argD; PRK03715 859655002850 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 859655002851 inhibitor-cofactor binding pocket; inhibition site 859655002852 pyridoxal 5'-phosphate binding site [chemical binding]; other site 859655002853 catalytic residue [active] 859655002854 CDP-6-deoxy-delta-3,4-glucoseen reductase; Validated; Region: PRK07609 859655002855 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 859655002856 catalytic loop [active] 859655002857 iron binding site [ion binding]; other site 859655002858 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 859655002859 FAD binding pocket [chemical binding]; other site 859655002860 FAD binding motif [chemical binding]; other site 859655002861 phosphate binding motif [ion binding]; other site 859655002862 beta-alpha-beta structure motif; other site 859655002863 NAD binding pocket [chemical binding]; other site 859655002864 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 859655002865 NAD(P) binding site [chemical binding]; other site 859655002866 active site 859655002867 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 859655002868 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 859655002869 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 859655002870 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 859655002871 metal binding site [ion binding]; metal-binding site 859655002872 active site 859655002873 I-site; other site 859655002874 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 859655002875 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 859655002876 Cl- selectivity filter; other site 859655002877 Cl- binding residues [ion binding]; other site 859655002878 pore gating glutamate residue; other site 859655002879 dimer interface [polypeptide binding]; other site 859655002880 FOG: CBS domain [General function prediction only]; Region: COG0517 859655002881 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 859655002882 Transcriptional regulators [Transcription]; Region: MarR; COG1846 859655002883 MarR family; Region: MarR_2; pfam12802 859655002884 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 859655002885 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 859655002886 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 859655002887 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 859655002888 putative ligand binding site [chemical binding]; other site 859655002889 transcriptional regulator CysB-like protein; Reviewed; Region: PRK12684 859655002890 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 859655002891 The C-terminal substrate domain of LysR-type transcriptional regulators CysB-like contains type 2 periplasmic binding fold; Region: PBP2_CysB_like; cd08413 859655002892 substrate binding site [chemical binding]; other site 859655002893 dimerization interface [polypeptide binding]; other site 859655002894 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 859655002895 Sulfite reductase, beta subunit (hemoprotein) [Inorganic ion transport and metabolism]; Region: CysI; COG0155 859655002896 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 859655002897 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 859655002898 Bacterial protein of unknown function (DUF934); Region: DUF934; cl01526 859655002899 3'-phosphoadenosine 5'-phosphosulfate sulfotransferase (PAPS reductase)/FAD synthetase and related enzymes [Amino acid transport and metabolism / Coenzyme metabolism]; Region: CysH; COG0175 859655002900 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 859655002901 Active Sites [active] 859655002902 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 859655002903 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 859655002904 Active Sites [active] 859655002905 GTPases - Sulfate adenylate transferase subunit 1 [Inorganic ion transport and metabolism]; Region: CysN; COG2895 859655002906 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 859655002907 CysD dimerization site [polypeptide binding]; other site 859655002908 G1 box; other site 859655002909 putative GEF interaction site [polypeptide binding]; other site 859655002910 GTP/Mg2+ binding site [chemical binding]; other site 859655002911 Switch I region; other site 859655002912 G2 box; other site 859655002913 G3 box; other site 859655002914 Switch II region; other site 859655002915 G4 box; other site 859655002916 G5 box; other site 859655002917 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 859655002918 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 859655002919 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 859655002920 active site 859655002921 SAM binding site [chemical binding]; other site 859655002922 homodimer interface [polypeptide binding]; other site 859655002923 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 859655002924 putative substrate binding pocket [chemical binding]; other site 859655002925 trimer interface [polypeptide binding]; other site 859655002926 Sirohydrochlorin ferrochelatase [Inorganic ion transport and metabolism]; Region: COG2138 859655002927 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 859655002928 putative active site [active] 859655002929 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 859655002930 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 859655002931 Predicted permeases [General function prediction only]; Region: COG0795 859655002932 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 859655002933 multifunctional aminopeptidase A; Provisional; Region: PRK00913 859655002934 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 859655002935 interface (dimer of trimers) [polypeptide binding]; other site 859655002936 Substrate-binding/catalytic site; other site 859655002937 Zn-binding sites [ion binding]; other site 859655002938 DNA polymerase III subunit chi; Validated; Region: PRK05728 859655002939 Transposase domain (DUF772); Region: DUF772; pfam05598 859655002940 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 859655002941 dihydroxy-acid dehydratase; Provisional; Region: PRK00911 859655002942 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 859655002943 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 859655002944 The C-terminal substrate binding domain of LysR-type transcriptional regulator, IlvR, involved in the biosynthesis of isoleucine, leucine and valine; contains type 2 periplasmic binding fold; Region: PBP2_IlvR; cd08453 859655002945 putative dimerization interface [polypeptide binding]; other site 859655002946 putative substrate binding pocket [chemical binding]; other site 859655002947 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 859655002948 Insertion element 4 transposase N-terminal; Region: Nterm_IS4; pfam13006 859655002949 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 859655002950 Protein of unknown function (DUF541); Region: SIMPL; cl01077 859655002951 Uncharacterized conserved protein [Function unknown]; Region: COG2968 859655002952 Uncharacterized conserved protein [Function unknown]; Region: COG2947 859655002953 Cell division protein ZapA; Region: ZapA; pfam05164 859655002954 Domain of unknown function (DUF1875); Region: DUF1875; pfam08961 859655002955 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 859655002956 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 859655002957 N-terminal plug; other site 859655002958 ligand-binding site [chemical binding]; other site 859655002959 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 859655002960 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 859655002961 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 859655002962 dimer interface [polypeptide binding]; other site 859655002963 putative PBP binding regions; other site 859655002964 ABC-ATPase subunit interface; other site 859655002965 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 859655002966 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 859655002967 Walker A/P-loop; other site 859655002968 ATP binding site [chemical binding]; other site 859655002969 Q-loop/lid; other site 859655002970 ABC transporter signature motif; other site 859655002971 Walker B; other site 859655002972 D-loop; other site 859655002973 H-loop/switch region; other site 859655002974 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 859655002975 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 859655002976 putative dimer interface [polypeptide binding]; other site 859655002977 active site pocket [active] 859655002978 putative cataytic base [active] 859655002979 cobalamin synthase; Reviewed; Region: cobS; PRK00235 859655002980 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 859655002981 catalytic core [active] 859655002982 vitamin B12-transporter protein BtuF; Provisional; Region: PRK03379 859655002983 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 859655002984 cobalamin binding residues [chemical binding]; other site 859655002985 putative BtuC binding residues; other site 859655002986 dimer interface [polypeptide binding]; other site 859655002987 L-threonine-O-3-phosphate decarboxylase; Region: L_thr_O3P_dcar; TIGR01140 859655002988 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 859655002989 pyridoxal 5'-phosphate binding site [chemical binding]; other site 859655002990 homodimer interface [polypeptide binding]; other site 859655002991 catalytic residue [active] 859655002992 cobalamin biosynthesis protein; Provisional; Region: cobD; PRK01209 859655002993 Adenosylcobinamide kinase / adenosylcobinamide phosphate guanyltransferase (CobU). CobU is bifunctional cobalbumin biosynthesis enzymes which display adenosylcobinamide kinase and adenosylcobinamide phosphate guanyltransferase activity. This enzyme is a...; Region: CobU; cd00544 859655002994 homotrimer interface [polypeptide binding]; other site 859655002995 Walker A motif; other site 859655002996 GTP binding site [chemical binding]; other site 859655002997 Walker B motif; other site 859655002998 cobyric acid synthase; Provisional; Region: PRK00784 859655002999 Dethiobiotin synthetase [Coenzyme metabolism]; Region: BioD; COG0132 859655003000 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 859655003001 catalytic triad [active] 859655003002 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 859655003003 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 859655003004 P-loop; other site 859655003005 Magnesium ion binding site [ion binding]; other site 859655003006 pantoate--beta-alanine ligase; Region: panC; TIGR00018 859655003007 Pantoate-beta-alanine ligase; Region: PanC; cd00560 859655003008 active site 859655003009 ATP-binding site [chemical binding]; other site 859655003010 pantoate-binding site; other site 859655003011 HXXH motif; other site 859655003012 Rec8/ScpA/Scc1-like protein (kleisin family) [Replication, recombination, and repair]; Region: scpA; COG1354 859655003013 Protein of unknown function (DUF3460); Region: DUF3460; pfam11943 859655003014 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 859655003015 Surface antigen; Region: Bac_surface_Ag; pfam01103 859655003016 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 859655003017 Family of unknown function (DUF490); Region: DUF490; pfam04357 859655003018 SmpA / OmlA family; Region: SmpA_OmlA; cl17115 859655003019 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 859655003020 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 859655003021 active site 859655003022 HIGH motif; other site 859655003023 KMSKS motif; other site 859655003024 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 859655003025 tRNA binding surface [nucleotide binding]; other site 859655003026 anticodon binding site; other site 859655003027 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 859655003028 dimer interface [polypeptide binding]; other site 859655003029 putative tRNA-binding site [nucleotide binding]; other site 859655003030 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 859655003031 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 859655003032 ligand binding site [chemical binding]; other site 859655003033 Domain of unknown function DUF59; Region: DUF59; pfam01883 859655003034 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Mrp; COG0489 859655003035 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 859655003036 Walker A motif; other site 859655003037 Protein of unknown function (DUF3305); Region: DUF3305; pfam11749 859655003038 Protein of unknown function (DUF3306); Region: DUF3306; pfam11748 859655003039 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 859655003040 4Fe-4S binding domain; Region: Fer4; pfam00037 859655003041 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 859655003042 4Fe-4S binding domain; Region: Fer4; pfam00037 859655003043 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 859655003044 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 859655003045 Uncharacterized component of anaerobic dehydrogenases [General function prediction only]; Region: TorD; COG3381 859655003046 formate dehydrogenase region TAT target; Region: formate_TAT; TIGR02811 859655003047 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 859655003048 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_Formate-Dh-Na-like; cd02752 859655003049 [4Fe-4S] binding site [ion binding]; other site 859655003050 molybdopterin cofactor binding site; other site 859655003051 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 859655003052 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 859655003053 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 859655003054 molybdopterin cofactor binding site; other site 859655003055 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 859655003056 Cytochrome b subunit of formate dehydrogenase [Energy production and conversion]; Region: FdnI; COG2864 859655003057 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 859655003058 Cu/Zn superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodC; COG2032 859655003059 Copper/zinc superoxide dismutase (SOD). superoxide dismutases catalyse the conversion of superoxide radicals to molecular oxygen. Three evolutionarily distinct families of SODs are known, of which the copper/zinc-binding family is one. Defects in the...; Region: Cu-Zn_Superoxide_Dismutase; cd00305 859655003060 E-class dimer interface [polypeptide binding]; other site 859655003061 P-class dimer interface [polypeptide binding]; other site 859655003062 active site 859655003063 Cu2+ binding site [ion binding]; other site 859655003064 Zn2+ binding site [ion binding]; other site 859655003065 FdhD/NarQ family; Region: FdhD-NarQ; pfam02634 859655003066 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 859655003067 trimer interface [polypeptide binding]; other site 859655003068 active site 859655003069 Orn/Lys/Arg decarboxylase, N-terminal domain; Region: OKR_DC_1_N; pfam03709 859655003070 Arginine/lysine/ornithine decarboxylases [Amino acid transport and metabolism]; Region: LdcC; COG1982 859655003071 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 859655003072 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 859655003073 catalytic residue [active] 859655003074 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 859655003075 2'-5' RNA ligase [Translation, ribosomal structure and biogenesis]; Region: LigT; COG1514 859655003076 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 859655003077 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 859655003078 argininosuccinate lyase; Provisional; Region: PRK00855 859655003079 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 859655003080 active sites [active] 859655003081 tetramer interface [polypeptide binding]; other site 859655003082 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5343 859655003083 Anti-sigma-K factor rskA; Region: RskA; pfam10099 859655003084 RNA polymerase sigma factor SigK; Reviewed; Region: PRK09646 859655003085 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 859655003086 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 859655003087 DNA binding residues [nucleotide binding] 859655003088 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 859655003089 dinuclear metal binding motif [ion binding]; other site 859655003090 Transcriptional regulator [Transcription]; Region: LysR; COG0583 859655003091 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 859655003092 LysR substrate binding domain; Region: LysR_substrate; pfam03466 859655003093 dimerization interface [polypeptide binding]; other site 859655003094 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 859655003095 Major Facilitator Superfamily; Region: MFS_1; pfam07690 859655003096 putative substrate translocation pore; other site 859655003097 phosphoenolpyruvate carboxylase; Reviewed; Region: PRK00009 859655003098 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 859655003099 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 859655003100 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 859655003101 domain interfaces; other site 859655003102 active site 859655003103 Uroporphyrinogen-III synthase [Coenzyme metabolism]; Region: HemD; COG1587 859655003104 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 859655003105 active site 859655003106 bifunctional uroporphyrinogen-III synthetase/uroporphyrin-III C-methyltransferase; Reviewed; Region: PRK06975 859655003107 putative uroporphyrinogen III C-methyltransferase; Provisional; Region: PRK10920 859655003108 Uncharacterized enzyme of heme biosynthesis [Coenzyme metabolism]; Region: HemY; COG3071 859655003109 HemY protein N-terminus; Region: HemY_N; pfam07219 859655003110 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 859655003111 Peptidase propeptide and YPEB domain; Region: PepSY_2; pfam13670 859655003112 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 859655003113 D-galactonate transporter; Region: 2A0114; TIGR00893 859655003114 putative substrate translocation pore; other site 859655003115 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR), subgroup 3, classical (c) SDR; Region: BKR_3_SDR_c; cd05345 859655003116 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 859655003117 putative NAD(P) binding site [chemical binding]; other site 859655003118 active site 859655003119 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 859655003120 Uncharacterized Saccharopolyspora spinosa aldehyde dehydrogenase (AAS00426)-like; Region: ALDH_AAS00426; cd07109 859655003121 NAD(P) binding site [chemical binding]; other site 859655003122 catalytic residues [active] 859655003123 catalytic residues [active] 859655003124 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 859655003125 dimer interface [polypeptide binding]; other site 859655003126 substrate binding site [chemical binding]; other site 859655003127 metal binding sites [ion binding]; metal-binding site 859655003128 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3146 859655003129 Protein of unknown function, DUF482; Region: DUF482; pfam04339 859655003130 NAD synthetase; Provisional; Region: PRK13981 859655003131 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 859655003132 multimer interface [polypeptide binding]; other site 859655003133 active site 859655003134 catalytic triad [active] 859655003135 protein interface 1 [polypeptide binding]; other site 859655003136 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 859655003137 homodimer interface [polypeptide binding]; other site 859655003138 NAD binding pocket [chemical binding]; other site 859655003139 ATP binding pocket [chemical binding]; other site 859655003140 Mg binding site [ion binding]; other site 859655003141 active-site loop [active] 859655003142 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 859655003143 S-adenosylmethionine binding site [chemical binding]; other site 859655003144 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 859655003145 Nitrogen regulatory protein P-II; Region: P-II; smart00938 859655003146 Predicted membrane protein [Function unknown]; Region: COG2860 859655003147 UPF0126 domain; Region: UPF0126; pfam03458 859655003148 UPF0126 domain; Region: UPF0126; pfam03458 859655003149 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2840 859655003150 Smr domain; Region: Smr; pfam01713 859655003151 thioredoxin reductase; Provisional; Region: PRK10262 859655003152 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 859655003153 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 859655003154 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 859655003155 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 859655003156 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 859655003157 lipoprotein chaperone; Reviewed; Region: lolA; PRK00031 859655003158 Outer membrane lipoprotein carrier protein LolA; Region: LolA; pfam03548 859655003159 recombination factor protein RarA; Reviewed; Region: PRK13342 859655003160 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 859655003161 Walker A motif; other site 859655003162 ATP binding site [chemical binding]; other site 859655003163 Walker B motif; other site 859655003164 arginine finger; other site 859655003165 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 859655003166 seryl-tRNA synthetase; Provisional; Region: PRK05431 859655003167 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 859655003168 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 859655003169 dimer interface [polypeptide binding]; other site 859655003170 active site 859655003171 motif 1; other site 859655003172 motif 2; other site 859655003173 motif 3; other site 859655003174 multiple promoter invertase; Provisional; Region: mpi; PRK13413 859655003175 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 859655003176 catalytic residues [active] 859655003177 catalytic nucleophile [active] 859655003178 Presynaptic Site I dimer interface [polypeptide binding]; other site 859655003179 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 859655003180 Synaptic Flat tetramer interface [polypeptide binding]; other site 859655003181 Synaptic Site I dimer interface [polypeptide binding]; other site 859655003182 DNA binding site [nucleotide binding] 859655003183 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 859655003184 DNA-binding interface [nucleotide binding]; DNA binding site 859655003185 Plasmid stabilisation system protein; Region: Plasmid_stabil; pfam05016 859655003186 Predicted transcriptional regulator [Transcription]; Region: COG3905 859655003187 Zonular occludens toxin (Zot); Region: Zot; cl17485 859655003188 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 859655003189 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 859655003190 active site 859655003191 phosphorylation site [posttranslational modification] 859655003192 intermolecular recognition site; other site 859655003193 dimerization interface [polypeptide binding]; other site 859655003194 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 859655003195 DNA binding residues [nucleotide binding] 859655003196 dimerization interface [polypeptide binding]; other site 859655003197 PAS fold; Region: PAS_4; pfam08448 859655003198 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 859655003199 putative active site [active] 859655003200 heme pocket [chemical binding]; other site 859655003201 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 859655003202 Histidine kinase; Region: HisKA_3; pfam07730 859655003203 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 859655003204 ATP binding site [chemical binding]; other site 859655003205 Mg2+ binding site [ion binding]; other site 859655003206 G-X-G motif; other site 859655003207 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 859655003208 type II secretion system protein G; Region: typeII_sec_gspG; TIGR01710 859655003209 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 859655003210 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 859655003211 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 859655003212 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 859655003213 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 859655003214 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 859655003215 Walker A motif; other site 859655003216 ATP binding site [chemical binding]; other site 859655003217 Walker B motif; other site 859655003218 type IV pilus secretin (or competence protein) PilQ; Region: IV_pilus_PilQ; TIGR02515 859655003219 Secretin and TonB N terminus short domain; Region: STN; smart00965 859655003220 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 859655003221 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 859655003222 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 859655003223 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 859655003224 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 859655003225 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 859655003226 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 859655003227 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 859655003228 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 859655003229 Putative multicopper oxidases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: SufI; COG2132 859655003230 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 859655003231 Putative multicopper oxidases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: SufI; COG2132 859655003232 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 859655003233 Putative multicopper oxidases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: SufI; COG2132 859655003234 Immunoglobulin-like fold, Plexins, Transcription factors (IPT). IPTs are also known as Transcription factor ImmunoGlobin (TIG) domains. They are present in intracellular transcription factors, cell surface receptors (such as plexins and scatter factor...; Region: IPT; cl15674 859655003235 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 859655003236 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 859655003237 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 859655003238 Cu(I) binding site [ion binding]; other site 859655003239 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 859655003240 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 859655003241 N-acetyl-D-glucosamine binding site [chemical binding]; other site 859655003242 catalytic residue [active] 859655003243 High potential iron-sulfur protein; Region: HIPIP; pfam01355 859655003244 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; cl01768 859655003245 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 859655003246 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 859655003247 catalytic residues [active] 859655003248 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 859655003249 VirK protein; Region: VirK; pfam06903 859655003250 Outer membrane protein V [Cell envelope biogenesis, outer membrane]; Region: OmpV; COG3713 859655003251 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 859655003252 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme 859655003253 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme 859655003254 Domain of unknown function DUF21; Region: DUF21; pfam01595 859655003255 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 859655003256 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 859655003257 Transporter associated domain; Region: CorC_HlyC; smart01091 859655003258 Uncharacterized conserved protein [Function unknown]; Region: COG3868 859655003259 C-terminal Putative NodB-like catalytic domain of PelA-like uncharacterized hypothetical proteins found in bacteria; Region: CE4_PelA_like_C; cd10922 859655003260 putative active site [active] 859655003261 Tetratricopeptide repeat; Region: TPR_15; pfam13429 859655003262 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 859655003263 GAF domain; Region: GAF_3; pfam13492 859655003264 poly-beta-1,6 N-acetyl-D-glucosamine export porin PgaA; Region: PGA_TPR_OMP; TIGR03939 859655003265 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_3; cd03813 859655003266 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 859655003267 Predicted membrane protein [Function unknown]; Region: COG4267 859655003268 Domain of unknown function (DUF4382); Region: DUF4382; pfam14321 859655003269 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 859655003270 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 859655003271 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 859655003272 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 859655003273 substrate binding pocket [chemical binding]; other site 859655003274 membrane-bound complex binding site; other site 859655003275 hinge residues; other site 859655003276 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 859655003277 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 859655003278 Walker A/P-loop; other site 859655003279 ATP binding site [chemical binding]; other site 859655003280 Q-loop/lid; other site 859655003281 ABC transporter signature motif; other site 859655003282 Walker B; other site 859655003283 D-loop; other site 859655003284 H-loop/switch region; other site 859655003285 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 859655003286 dimer interface [polypeptide binding]; other site 859655003287 conserved gate region; other site 859655003288 putative PBP binding loops; other site 859655003289 ABC-ATPase subunit interface; other site 859655003290 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 859655003291 dimer interface [polypeptide binding]; other site 859655003292 conserved gate region; other site 859655003293 putative PBP binding loops; other site 859655003294 ABC-ATPase subunit interface; other site 859655003295 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 859655003296 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 859655003297 substrate binding pocket [chemical binding]; other site 859655003298 membrane-bound complex binding site; other site 859655003299 hinge residues; other site 859655003300 beta-ketoadipate pathway transcriptional regulators, PcaR/PcaU/PobR family; Region: pcaR_pcaU; TIGR02431 859655003301 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 859655003302 Bacterial transcriptional regulator; Region: IclR; pfam01614 859655003303 Coenzyme A transferase; Region: CoA_trans; cl17247 859655003304 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 859655003305 beta-ketoadipyl CoA thiolase; Validated; Region: PRK09050 859655003306 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 859655003307 dimer interface [polypeptide binding]; other site 859655003308 active site 859655003309 3-carboxy-cis,cis-muconate cycloisomerase; Provisional; Region: PRK09053 859655003310 prokaryotic 3-carboxy-cis,cis-muconate cycloisomerase (CMLE)_like; Region: pCLME; cd01597 859655003311 tetramer interface [polypeptide binding]; other site 859655003312 active site 859655003313 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 859655003314 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 859655003315 4-carboxymuconolactone decarboxylase; Region: decarb_PcaC; TIGR02425 859655003316 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 859655003317 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 859655003318 TM-ABC transporter signature motif; other site 859655003319 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 859655003320 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 859655003321 TM-ABC transporter signature motif; other site 859655003322 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 859655003323 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 859655003324 Walker A/P-loop; other site 859655003325 ATP binding site [chemical binding]; other site 859655003326 Q-loop/lid; other site 859655003327 ABC transporter signature motif; other site 859655003328 Walker B; other site 859655003329 D-loop; other site 859655003330 H-loop/switch region; other site 859655003331 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 859655003332 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 859655003333 Walker A/P-loop; other site 859655003334 ATP binding site [chemical binding]; other site 859655003335 Q-loop/lid; other site 859655003336 ABC transporter signature motif; other site 859655003337 Walker B; other site 859655003338 D-loop; other site 859655003339 H-loop/switch region; other site 859655003340 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 859655003341 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 859655003342 Transcriptional regulator [Transcription]; Region: LysR; COG0583 859655003343 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 859655003344 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 859655003345 substrate binding pocket [chemical binding]; other site 859655003346 dimerization interface [polypeptide binding]; other site 859655003347 4-hydroxybenzoate 3-monooxygenase; Validated; Region: PRK08243 859655003348 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 859655003349 Predicted extracellular endo alpha-1,4 polygalactosaminidase or related polysaccharide hydrolase [Carbohydrate transport and metabolism]; Region: COG2342 859655003350 Transcriptional activator HlyU; Region: HlyU; cl02273 859655003351 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 859655003352 rRNA binding site [nucleotide binding]; other site 859655003353 predicted 30S ribosome binding site; other site 859655003354 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 859655003355 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 859655003356 active site 859655003357 tetramer interface; other site 859655003358 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 859655003359 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 859655003360 active site 859655003361 HIGH motif; other site 859655003362 nucleotide binding site [chemical binding]; other site 859655003363 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 859655003364 active site 859655003365 KMSKS motif; other site 859655003366 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 859655003367 tRNA binding surface [nucleotide binding]; other site 859655003368 anticodon binding site; other site 859655003369 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 859655003370 DNA-dependent helicase II; Provisional; Region: uvrD; PRK11773 859655003371 Part of AAA domain; Region: AAA_19; pfam13245 859655003372 Family description; Region: UvrD_C_2; pfam13538 859655003373 Putative homoserine kinase type II (protein kinase fold) [General function prediction only]; Region: COG2334 859655003374 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 859655003375 putative active site [active] 859655003376 putative substrate binding site [chemical binding]; other site 859655003377 ATP binding site [chemical binding]; other site 859655003378 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 859655003379 DNA polymerase I; Provisional; Region: PRK05755 859655003380 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 859655003381 active site 859655003382 metal binding site 1 [ion binding]; metal-binding site 859655003383 putative 5' ssDNA interaction site; other site 859655003384 metal binding site 3; metal-binding site 859655003385 metal binding site 2 [ion binding]; metal-binding site 859655003386 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 859655003387 putative DNA binding site [nucleotide binding]; other site 859655003388 putative metal binding site [ion binding]; other site 859655003389 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 859655003390 active site 859655003391 catalytic site [active] 859655003392 substrate binding site [chemical binding]; other site 859655003393 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 859655003394 active site 859655003395 DNA binding site [nucleotide binding] 859655003396 catalytic site [active] 859655003397 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 859655003398 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 859655003399 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 859655003400 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428 859655003401 ZIP Zinc transporter; Region: Zip; pfam02535 859655003402 Insertion element 4 transposase N-terminal; Region: Nterm_IS4; pfam13006 859655003403 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 859655003404 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 859655003405 Thiosulfate sulfurtransferase (TST), N-terminal, inactive domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the 1st repeat, which does not contain the catalytically active Cys residue. The role of the 1st repeat is uncertain, but it...; Region: TST_Repeat_1; cd01448 859655003406 active site residue [active] 859655003407 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 859655003408 active site residue [active] 859655003409 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 859655003410 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 859655003411 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 859655003412 [2Fe-2S] cluster binding site [ion binding]; other site 859655003413 C-terminal catalytic domain of the oxygenase alpha subunit of Rieske-type non-heme iron aromatic ring-hydroxylating oxygenases; Region: RHO_alpha_C; cd00680 859655003414 alpha subunit interface [polypeptide binding]; other site 859655003415 active site 859655003416 substrate binding site [chemical binding]; other site 859655003417 Fe binding site [ion binding]; other site 859655003418 Evidence 2b : Function of strongly homologous gene; Product type pe : putative enzyme 859655003419 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 859655003420 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 859655003421 substrate binding pocket [chemical binding]; other site 859655003422 chain length determination region; other site 859655003423 substrate-Mg2+ binding site; other site 859655003424 catalytic residues [active] 859655003425 aspartate-rich region 1; other site 859655003426 active site lid residues [active] 859655003427 aspartate-rich region 2; other site 859655003428 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 859655003429 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 859655003430 TPP-binding site; other site 859655003431 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 859655003432 PYR/PP interface [polypeptide binding]; other site 859655003433 dimer interface [polypeptide binding]; other site 859655003434 TPP binding site [chemical binding]; other site 859655003435 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 859655003436 putative GTP cyclohydrolase; Provisional; Region: PRK13674 859655003437 UGMP family protein; Validated; Region: PRK09604 859655003438 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl17884 859655003439 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 859655003440 Predicted flavoproteins [General function prediction only]; Region: COG2081 859655003441 Protein of unknown function (DUF429); Region: DUF429; cl12046 859655003442 Yqey-like protein; Region: YqeY; pfam09424 859655003443 DNA primase; Validated; Region: dnaG; PRK05667 859655003444 CHC2 zinc finger; Region: zf-CHC2; pfam01807 859655003445 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 859655003446 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 859655003447 active site 859655003448 metal binding site [ion binding]; metal-binding site 859655003449 interdomain interaction site; other site 859655003450 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 859655003451 DNA primase DnaG DnaB-binding; Region: DnaG_DnaB_bind; pfam08278 859655003452 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 859655003453 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 859655003454 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 859655003455 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 859655003456 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 859655003457 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 859655003458 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 859655003459 DNA binding residues [nucleotide binding] 859655003460 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 859655003461 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 859655003462 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 859655003463 Uncharacterized flavoproteins [Energy production and conversion]; Region: FpaA; COG0426 859655003464 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 859655003465 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 859655003466 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 859655003467 ATP binding site [chemical binding]; other site 859655003468 Mg++ binding site [ion binding]; other site 859655003469 motif III; other site 859655003470 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 859655003471 nucleotide binding region [chemical binding]; other site 859655003472 ATP-binding site [chemical binding]; other site 859655003473 Glutamyl- and glutaminyl-tRNA synthetases [Translation, ribosomal structure and biogenesis]; Region: GlnS; COG0008 859655003474 glutamyl-queuosine tRNA(Asp) synthetase; Region: queuosine_YadB; TIGR03838 859655003475 active site 859655003476 HIGH motif; other site 859655003477 nucleotide binding site [chemical binding]; other site 859655003478 active site 859655003479 KMSKS motif; other site 859655003480 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11074 859655003481 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 859655003482 The C-terminal substrate binding domain of LysR-type transcriptional regulator, HupR, which regulates expression of the heme uptake receptor HupA; contains the type 2 periplasmic binding fold; Region: PBP2_HupR; cd08431 859655003483 putative dimerization interface [polypeptide binding]; other site 859655003484 Pirin-related protein [General function prediction only]; Region: COG1741 859655003485 Pirin; Region: Pirin; pfam02678 859655003486 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 859655003487 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 859655003488 rhodanese superfamily protein; Provisional; Region: PRK05320 859655003489 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 859655003490 active site residue [active] 859655003491 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 859655003492 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE1; Region: PHP_PolIIIA_DnaE1; cd07433 859655003493 putative active site [active] 859655003494 putative PHP Thumb interface [polypeptide binding]; other site 859655003495 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 859655003496 generic binding surface II; other site 859655003497 generic binding surface I; other site 859655003498 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 859655003499 O-Antigen ligase; Region: Wzy_C; pfam04932 859655003500 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 859655003501 Glycosyl transferase family 2; Region: Glycos_transf_2; pfam00535 859655003502 active site 859655003503 N-terminal domain of galactosyltransferase; Region: Glyco_transf_7C; cl17476 859655003504 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 859655003505 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 859655003506 putative metal binding site; other site 859655003507 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 859655003508 Glycosyl transferase family 2; Region: Glycos_transf_2; pfam00535 859655003509 active site 859655003510 lipid A export permease/ATP-binding protein MsbA; Region: MsbA_lipidA; TIGR02203 859655003511 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 859655003512 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 859655003513 Walker A/P-loop; other site 859655003514 ATP binding site [chemical binding]; other site 859655003515 Q-loop/lid; other site 859655003516 ABC transporter signature motif; other site 859655003517 Walker B; other site 859655003518 D-loop; other site 859655003519 H-loop/switch region; other site 859655003520 uncharacterized peroxidase-related enzyme; Region: peroxid_rel; TIGR01926 859655003521 ribokinase/pfkB superfamily: Kinases that accept a wide variety of substrates, including carbohydrates and aromatic small molecules, all are phosphorylated at a hydroxyl group. The superfamily includes ribokinase, fructokinase, ketohexokinase; Region: ribokinase_pfkB_like; cl00192 859655003522 alkylhydroperoxidase AhpD family core domain; Region: ahpD_dom; TIGR00778 859655003523 ribonuclease G; Provisional; Region: PRK11712 859655003524 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 859655003525 homodimer interface [polypeptide binding]; other site 859655003526 oligonucleotide binding site [chemical binding]; other site 859655003527 Maf-like protein; Region: Maf; pfam02545 859655003528 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 859655003529 active site 859655003530 dimer interface [polypeptide binding]; other site 859655003531 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 859655003532 Uncharacterized homolog of plant Iojap protein [Function unknown]; Region: COG0799 859655003533 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 859655003534 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 859655003535 active site 859655003536 (T/H)XGH motif; other site 859655003537 coproporphyrinogen III oxidase; Provisional; Region: PRK05330 859655003538 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; pfam01218 859655003539 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 859655003540 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 859655003541 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 859655003542 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 859655003543 hypothetical protein; Validated; Region: PRK00110 859655003544 Bacterial protein of unknown function (DUF853); Region: DUF853; pfam05872 859655003545 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 859655003546 Walker A motif; other site 859655003547 ATP binding site [chemical binding]; other site 859655003548 Zonular occludens toxin (Zot); Region: Zot; cl17485 859655003549 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 859655003550 active site 859655003551 EamA-like transporter family; Region: EamA; pfam00892 859655003552 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 859655003553 EamA-like transporter family; Region: EamA; pfam00892 859655003554 short chain dehydrogenase; Provisional; Region: PRK08339 859655003555 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR)-like, SDR; Region: BKR_like_SDR_like; cd05344 859655003556 putative NAD(P) binding site [chemical binding]; other site 859655003557 putative active site [active] 859655003558 Methylglyoxal synthase catalyzes the enolization of dihydroxyacetone phosphate (DHAP) to produce methylglyoxal. The first part of the catalytic mechanism is believed to be similar to TIM (triosephosphate isomerase) in that both enzymes utilize DHAP to...; Region: MGS; cd01422 859655003559 active site 859655003560 dimer interfaces [polypeptide binding]; other site 859655003561 catalytic residues [active] 859655003562 quinone oxidoreductase, NADPH-dependent; Provisional; Region: PRK10754 859655003563 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 859655003564 NADP binding site [chemical binding]; other site 859655003565 dimer interface [polypeptide binding]; other site 859655003566 Predicted Fe-S oxidoreductases [General function prediction only]; Region: COG0535 859655003567 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; cl15377 859655003568 FeS/SAM binding site; other site 859655003569 Protein of unknown function (DUF4019); Region: DUF4019; pfam13211 859655003570 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 859655003571 Periplasmic binding domain of the basic membrane lipoprotein Med in Bacillus and its close homologs from other bacteria and Archaea; Region: PBP1_BmpA_Med_like; cd06353 859655003572 putative ligand binding site [chemical binding]; other site 859655003573 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 859655003574 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 859655003575 TM-ABC transporter signature motif; other site 859655003576 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 859655003577 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 859655003578 TM-ABC transporter signature motif; other site 859655003579 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 859655003580 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 859655003581 Walker A/P-loop; other site 859655003582 ATP binding site [chemical binding]; other site 859655003583 Q-loop/lid; other site 859655003584 ABC transporter signature motif; other site 859655003585 Walker B; other site 859655003586 D-loop; other site 859655003587 H-loop/switch region; other site 859655003588 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 859655003589 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 859655003590 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 859655003591 putative substrate translocation pore; other site 859655003592 Allophanate hydrolase subunit 1; Region: AHS1; smart00796 859655003593 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; COG2049 859655003594 Allophanate hydrolase subunit 2 [Amino acid transport and metabolism]; Region: DUR1; COG1984 859655003595 Escherichia coli putative lactam utilization protein YbgL and similar proteins; Region: LamB_YcsF_YbgL_like; cd10800 859655003596 putative active site [active] 859655003597 Predicted membrane protein [Function unknown]; Region: COG3819 859655003598 Predicted membrane protein [Function unknown]; Region: COG3817 859655003599 Protein of unknown function (DUF979); Region: DUF979; pfam06166 859655003600 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 859655003601 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 859655003602 Pyroglutamyl peptidase (PGP) type I, also known as pyrrolidone carboxyl peptidase (pcp) type I: Enzymes responsible for cleaving pyroglutamate (pGlu) from the N-terminal end of specialized proteins. The N-terminal pGlu protects these proteins from...; Region: Peptidase_C15; cd00501 859655003603 putative substrate binding pocket [chemical binding]; other site 859655003604 AC domain interface; other site 859655003605 catalytic triad [active] 859655003606 AB domain interface; other site 859655003607 interchain disulfide; other site 859655003608 Protein of unknown function (DUF2968); Region: DUF2968; pfam11180 859655003609 Uncharacterized conserved protein [Function unknown]; Region: COG4715 859655003610 SWIM zinc finger; Region: SWIM; pfam04434 859655003611 Predicted esterase of the alpha/beta hydrolase fold [General function prediction only]; Region: COG3545 859655003612 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 859655003613 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 859655003614 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 859655003615 putative DNA binding site [nucleotide binding]; other site 859655003616 AsnC family; Region: AsnC_trans_reg; pfam01037 859655003617 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 859655003618 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 859655003619 NAD(P) binding site [chemical binding]; other site 859655003620 active site 859655003621 Helix-Turn-Helix DNA binding domain of Heavy Metal Resistance transcription regulators; Region: HTH_HMRTR; cd04770 859655003622 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 859655003623 DNA binding residues [nucleotide binding] 859655003624 dimer interface [polypeptide binding]; other site 859655003625 metal binding site [ion binding]; metal-binding site 859655003626 coproporphyrinogen III oxidase; Provisional; Region: PRK08898 859655003627 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 859655003628 FeS/SAM binding site; other site 859655003629 HemN C-terminal domain; Region: HemN_C; pfam06969 859655003630 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 859655003631 active site 859655003632 dimerization interface [polypeptide binding]; other site 859655003633 ribonuclease PH; Reviewed; Region: rph; PRK00173 859655003634 Ribonuclease PH; Region: RNase_PH_bact; cd11362 859655003635 hexamer interface [polypeptide binding]; other site 859655003636 active site 859655003637 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cd00143 859655003638 active site 859655003639 Protein kinase domain; Region: Pkinase; pfam00069 859655003640 Catalytic domain of Protein Kinases; Region: PKc; cd00180 859655003641 active site 859655003642 ATP binding site [chemical binding]; other site 859655003643 substrate binding site [chemical binding]; other site 859655003644 activation loop (A-loop); other site 859655003645 hypothetical protein; Provisional; Region: PRK11820 859655003646 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 859655003647 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 859655003648 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 859655003649 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 859655003650 catalytic site [active] 859655003651 G-X2-G-X-G-K; other site 859655003652 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 859655003653 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 859655003654 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 859655003655 Zn2+ binding site [ion binding]; other site 859655003656 Mg2+ binding site [ion binding]; other site 859655003657 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 859655003658 synthetase active site [active] 859655003659 NTP binding site [chemical binding]; other site 859655003660 metal binding site [ion binding]; metal-binding site 859655003661 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 859655003662 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 859655003663 transcription elongation factor GreB; Reviewed; Region: greB; PRK01885 859655003664 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 859655003665 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 859655003666 Poly(3-hydroxybutyrate) depolymerase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: LpqC; COG3509 859655003667 LysM domain/BON superfamily protein; Provisional; Region: PRK11198 859655003668 BON domain; Region: BON; pfam04972 859655003669 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 859655003670 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 859655003671 AMP binding site [chemical binding]; other site 859655003672 metal binding site [ion binding]; metal-binding site 859655003673 active site 859655003674 aminopeptidase N; Provisional; Region: pepN; PRK14015 859655003675 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_1; cd09600 859655003676 active site 859655003677 Zn binding site [ion binding]; other site 859655003678 Domain of unknown function (DUF4136); Region: DUF4136; pfam13590 859655003679 malic enzyme; Reviewed; Region: PRK12862 859655003680 Malic enzyme, N-terminal domain; Region: malic; pfam00390 859655003681 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 859655003682 putative NAD(P) binding site [chemical binding]; other site 859655003683 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 859655003684 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 859655003685 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 859655003686 trimer interface [polypeptide binding]; other site 859655003687 eyelet of channel; other site 859655003688 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3195 859655003689 putative urate catabolism protein; Region: uraD_N-term-dom; TIGR03212 859655003690 Catalytic domain of bacterial PuuE allantoinases, Schizosaccharomyces pombe chitin deacetylase 1 (SpCDA1), and similar proteins; Region: CE4_PuuE_SpCDA1; cd10977 859655003691 active site 859655003692 catalytic site [active] 859655003693 tetramer interface [polypeptide binding]; other site 859655003694 hydroxydechloroatrazine ethylaminohydrolase; Reviewed; Region: PRK08203 859655003695 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 859655003696 active site 859655003697 putative substrate binding pocket [chemical binding]; other site 859655003698 xanthine permease; Region: pbuX; TIGR03173 859655003699 Transcriptional regulators [Transcription]; Region: GntR; COG1802 859655003700 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 859655003701 DNA-binding site [nucleotide binding]; DNA binding site 859655003702 FCD domain; Region: FCD; pfam07729 859655003703 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 859655003704 active site 859655003705 homotetramer interface [polypeptide binding]; other site 859655003706 Predicted membrane protein [Function unknown]; Region: COG3748 859655003707 Protein of unknown function (DUF989); Region: DUF989; pfam06181 859655003708 Cytochrome c; Region: Cytochrom_C; pfam00034 859655003709 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 859655003710 DNA binding site [nucleotide binding] 859655003711 active site 859655003712 Int/Topo IB signature motif; other site 859655003713 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; pfam13808 859655003714 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; cl17880 859655003715 phosphonate utilization associated transcriptional regulator; Region: phnR_burk; TIGR03338 859655003716 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 859655003717 DNA-binding site [nucleotide binding]; DNA binding site 859655003718 FCD domain; Region: FCD; pfam07729 859655003719 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 859655003720 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 859655003721 benzoate transport; Region: 2A0115; TIGR00895 859655003722 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 859655003723 putative substrate translocation pore; other site 859655003724 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 859655003725 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 859655003726 inhibitor site; inhibition site 859655003727 active site 859655003728 dimer interface [polypeptide binding]; other site 859655003729 catalytic residue [active] 859655003730 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 859655003731 Escherichia coli NADP+-dependent gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase PuuC-like; Region: ALDH_GABALDH-PuuC; cd07112 859655003732 NAD(P) binding site [chemical binding]; other site 859655003733 catalytic residues [active] 859655003734 aromatic amino acid exporter; Provisional; Region: PRK11689 859655003735 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 859655003736 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 859655003737 trimer interface [polypeptide binding]; other site 859655003738 eyelet of channel; other site 859655003739 Transcriptional regulator [Transcription]; Region: LysR; COG0583 859655003740 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 859655003741 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 859655003742 putative effector binding pocket; other site 859655003743 dimerization interface [polypeptide binding]; other site 859655003744 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 859655003745 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 859655003746 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 859655003747 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 859655003748 active site 859655003749 catalytic tetrad [active] 859655003750 Fungal fucose-specific lectin; Region: Fungal_lectin; pfam07938 859655003751 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 859655003752 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 859655003753 Walker A/P-loop; other site 859655003754 ATP binding site [chemical binding]; other site 859655003755 Q-loop/lid; other site 859655003756 ABC transporter signature motif; other site 859655003757 Walker B; other site 859655003758 D-loop; other site 859655003759 H-loop/switch region; other site 859655003760 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 859655003761 dimer interface [polypeptide binding]; other site 859655003762 conserved gate region; other site 859655003763 putative PBP binding loops; other site 859655003764 ABC-ATPase subunit interface; other site 859655003765 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 859655003766 dimer interface [polypeptide binding]; other site 859655003767 conserved gate region; other site 859655003768 putative PBP binding loops; other site 859655003769 ABC-ATPase subunit interface; other site 859655003770 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 859655003771 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 859655003772 substrate binding pocket [chemical binding]; other site 859655003773 membrane-bound complex binding site; other site 859655003774 hinge residues; other site 859655003775 Transcriptional regulators [Transcription]; Region: FadR; COG2186 859655003776 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 859655003777 DNA-binding site [nucleotide binding]; DNA binding site 859655003778 FCD domain; Region: FCD; pfam07729 859655003779 Predicted membrane protein [Function unknown]; Region: COG2119 859655003780 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 859655003781 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 859655003782 guanine deaminase; Provisional; Region: PRK09228 859655003783 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 859655003784 active site 859655003785 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 859655003786 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 859655003787 active site 859655003788 purine riboside binding site [chemical binding]; other site 859655003789 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 859655003790 xanthine dehydrogenase accessory protein XdhC; Region: xanthine_xdhC; TIGR02964 859655003791 XdhC Rossmann domain; Region: XdhC_C; pfam13478 859655003792 xanthine dehydrogenase, molybdopterin binding subunit; Region: xanthine_xdhB; TIGR02965 859655003793 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 859655003794 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 859655003795 xanthine dehydrogenase, small subunit; Region: xanthine_xdhA; TIGR02963 859655003796 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 859655003797 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; pfam03450 859655003798 Transcriptional regulator [Transcription]; Region: LysR; COG0583 859655003799 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 859655003800 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 859655003801 putative substrate binding pocket [chemical binding]; other site 859655003802 putative dimerization interface [polypeptide binding]; other site 859655003803 ABC-type tungstate transport system, permease component [Coenzyme metabolism]; Region: TupB; COG2998 859655003804 PBP superfamily domain; Region: PBP_like_2; pfam12849 859655003805 N-terminal domain of molybdenum-binding protein [General function prediction only]; Region: ModE; COG2005 859655003806 Transcriptional regulator [Transcription]; Region: LysR; COG0583 859655003807 Periplasmic molybdate-binding protein/domain [Inorganic ion transport and metabolism]; Region: COG1910 859655003808 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 859655003809 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 859655003810 apolar tunnel; other site 859655003811 heme binding site [chemical binding]; other site 859655003812 dimerization interface [polypeptide binding]; other site 859655003813 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3803 859655003814 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 859655003815 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 859655003816 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 859655003817 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 859655003818 Bacterial transcriptional repressor; Region: TetR; pfam13972 859655003819 Diacylglycerol kinase [Cell envelope biogenesis, outer membrane]; Region: DgkA; COG0818 859655003820 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 859655003821 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 859655003822 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 859655003823 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 859655003824 putative active site [active] 859655003825 putative metal binding site [ion binding]; other site 859655003826 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 859655003827 PGAP1-like protein; Region: PGAP1; pfam07819 859655003828 RDD family; Region: RDD; pfam06271 859655003829 Protein of unknown function (DUF3106); Region: DUF3106; pfam11304 859655003830 Protein of unknown function (DUF3619); Region: DUF3619; pfam12279 859655003831 RNA polymerase factor sigma-70; Validated; Region: PRK09047 859655003832 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 859655003833 DNA binding residues [nucleotide binding] 859655003834 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK06965 859655003835 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 859655003836 PYR/PP interface [polypeptide binding]; other site 859655003837 dimer interface [polypeptide binding]; other site 859655003838 TPP binding site [chemical binding]; other site 859655003839 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 859655003840 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 859655003841 TPP-binding site [chemical binding]; other site 859655003842 dimer interface [polypeptide binding]; other site 859655003843 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 859655003844 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 859655003845 putative valine binding site [chemical binding]; other site 859655003846 dimer interface [polypeptide binding]; other site 859655003847 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 859655003848 ketol-acid reductoisomerase; Provisional; Region: PRK05479 859655003849 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 859655003850 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 859655003851 phosphatidylserine decarboxylase; Provisional; Region: PRK05305 859655003852 CDP-diacylglycerol--serine O-phosphatidyltransferase; Region: pssA; TIGR00473 859655003853 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 859655003854 2-isopropylmalate synthase; Validated; Region: PRK00915 859655003855 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 859655003856 active site 859655003857 catalytic residues [active] 859655003858 metal binding site [ion binding]; metal-binding site 859655003859 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 859655003860 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 859655003861 Periplasmic solute-binding domain of active transport proteins; Region: PBP1_SBP_like_3; cd06329 859655003862 putative ligand binding site [chemical binding]; other site 859655003863 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 859655003864 16S/18S rRNA binding site [nucleotide binding]; other site 859655003865 S13e-L30e interaction site [polypeptide binding]; other site 859655003866 25S rRNA binding site [nucleotide binding]; other site 859655003867 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 859655003868 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 859655003869 RNase E interface [polypeptide binding]; other site 859655003870 trimer interface [polypeptide binding]; other site 859655003871 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 859655003872 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 859655003873 RNase E interface [polypeptide binding]; other site 859655003874 trimer interface [polypeptide binding]; other site 859655003875 active site 859655003876 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 859655003877 putative nucleic acid binding region [nucleotide binding]; other site 859655003878 G-X-X-G motif; other site 859655003879 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 859655003880 RNA binding site [nucleotide binding]; other site 859655003881 domain interface; other site 859655003882 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 859655003883 PIG3 p53-inducible quinone oxidoreductase; Region: p53_inducible_oxidoreductase; cd05276 859655003884 NAD(P) binding site [chemical binding]; other site 859655003885 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 859655003886 triosephosphate isomerase; Provisional; Region: PRK14567 859655003887 substrate binding site [chemical binding]; other site 859655003888 dimer interface [polypeptide binding]; other site 859655003889 catalytic triad [active] 859655003890 Preprotein translocase SecG subunit; Region: SecG; pfam03840 859655003891 NADH:ubiquinone oxidoreductase subunit A; Validated; Region: PRK06602 859655003892 NADH dehydrogenase subunit B; Validated; Region: PRK06411 859655003893 NADH dehydrogenase subunit C; Provisional; Region: PRK06074 859655003894 NADH (or F420H2) dehydrogenase, subunit C; Region: NuoC_fam; TIGR01961 859655003895 NADH:ubiquinone oxidoreductase 49 kD subunit 7 [Energy production and conversion]; Region: NuoD; COG0649 859655003896 NADH dehydrogenase subunit D; Validated; Region: PRK06075 859655003897 NADH dehydrogenase subunit E; Validated; Region: PRK07539 859655003898 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 859655003899 putative dimer interface [polypeptide binding]; other site 859655003900 [2Fe-2S] cluster binding site [ion binding]; other site 859655003901 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 859655003902 SLBB domain; Region: SLBB; pfam10531 859655003903 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 859655003904 NADH dehydrogenase subunit G; Validated; Region: PRK09129 859655003905 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 859655003906 catalytic loop [active] 859655003907 iron binding site [ion binding]; other site 859655003908 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 859655003909 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 859655003910 Molybdopterin-Binding, C-terminal (MopB_CT) 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-...; Region: MopB_CT; cd02775 859655003911 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 859655003912 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 859655003913 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 859655003914 4Fe-4S binding domain; Region: Fer4; cl02805 859655003915 4Fe-4S binding domain; Region: Fer4; pfam00037 859655003916 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 859655003917 NADH dehydrogenase subunit J; Provisional; Region: PRK06433 859655003918 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 859655003919 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 859655003920 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 859655003921 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 859655003922 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 859655003923 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 859655003924 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 859655003925 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 859655003926 Protein of unknown function (DUF2818); Region: DUF2818; pfam10993 859655003927 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 859655003928 dimer interface [polypeptide binding]; other site 859655003929 ADP-ribose binding site [chemical binding]; other site 859655003930 active site 859655003931 nudix motif; other site 859655003932 metal binding site [ion binding]; metal-binding site 859655003933 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5319 859655003934 pimeloyl-CoA dehydrogenase, large subunit; Region: pimC_large; TIGR03204 859655003935 Putative acyl-CoA dehydrogenases similar to fadE6, fadE17, and fadE26; Region: ACAD_fadE6_17_26; cd01152 859655003936 FAD binding site [chemical binding]; other site 859655003937 substrate binding site [chemical binding]; other site 859655003938 catalytic base [active] 859655003939 pimeloyl-CoA dehydrogenase, small subunit; Region: pimD_small; TIGR03203 859655003940 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 859655003941 active site 859655003942 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 859655003943 putative active site [active] 859655003944 putative catalytic site [active] 859655003945 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 859655003946 putative active site [active] 859655003947 putative catalytic site [active] 859655003948 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 859655003949 Periplasmic component (FmdD) of an active transport system for short-chain amides and urea (FmdDEF); Region: PBP1_FmdD_like; cd06355 859655003950 putative ligand binding site [chemical binding]; other site 859655003951 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 859655003952 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 859655003953 TM-ABC transporter signature motif; other site 859655003954 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 859655003955 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 859655003956 TM-ABC transporter signature motif; other site 859655003957 Uncharacterized ABC-type transport system, ATPase component [General function prediction only]; Region: COG4674 859655003958 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 859655003959 Walker A/P-loop; other site 859655003960 ATP binding site [chemical binding]; other site 859655003961 Q-loop/lid; other site 859655003962 ABC transporter signature motif; other site 859655003963 Walker B; other site 859655003964 D-loop; other site 859655003965 H-loop/switch region; other site 859655003966 urea ABC transporter, ATP-binding protein UrtE; Region: urea_trans_UrtE; TIGR03410 859655003967 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 859655003968 Walker A/P-loop; other site 859655003969 ATP binding site [chemical binding]; other site 859655003970 Q-loop/lid; other site 859655003971 ABC transporter signature motif; other site 859655003972 Walker B; other site 859655003973 D-loop; other site 859655003974 H-loop/switch region; other site 859655003975 Urease accessory protein UreH [Posttranslational modification, protein turnover, chaperones]; Region: UreH; COG0829 859655003976 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 859655003977 alpha-gamma subunit interface [polypeptide binding]; other site 859655003978 beta-gamma subunit interface [polypeptide binding]; other site 859655003979 Hydrogenase/urease accessory protein [Posttranslational modification, protein turnover, chaperones]; Region: HupE; COG2370 859655003980 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 859655003981 gamma-beta subunit interface [polypeptide binding]; other site 859655003982 alpha-beta subunit interface [polypeptide binding]; other site 859655003983 urease subunit alpha; Reviewed; Region: ureC; PRK13207 859655003984 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 859655003985 subunit interactions [polypeptide binding]; other site 859655003986 active site 859655003987 flap region; other site 859655003988 urease accessory protein UreE; Provisional; Region: ureE; PRK13263 859655003989 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 859655003990 dimer interface [polypeptide binding]; other site 859655003991 catalytic residues [active] 859655003992 Urease accessory protein UreF [Posttranslational modification, protein turnover, chaperones]; Region: UreF; COG0830 859655003993 UreF; Region: UreF; pfam01730 859655003994 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 859655003995 Fatty acid desaturase [Lipid metabolism]; Region: DesA; COG3239 859655003996 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 859655003997 putative di-iron ligands [ion binding]; other site 859655003998 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 859655003999 Lysine efflux permease [General function prediction only]; Region: COG1279 859655004000 Evidence 4 : Homologs of previously reported genes of unknown function 859655004001 Putative protein-S-isoprenylcysteine methyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: STE14; COG2020 859655004002 GSH-dependent disulfide bond oxidoreductase; Provisional; Region: PRK13972 859655004003 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 859655004004 C-terminal domain interface [polypeptide binding]; other site 859655004005 GSH binding site (G-site) [chemical binding]; other site 859655004006 dimer interface [polypeptide binding]; other site 859655004007 C-terminal, alpha helical domain of Escherichia coli YfcG Glutathione S-transferases and related uncharacterized proteins; Region: GST_C_YfcG_like; cd10291 859655004008 N-terminal domain interface [polypeptide binding]; other site 859655004009 putative dimer interface [polypeptide binding]; other site 859655004010 active site 859655004011 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 859655004012 Acyl-CoA dehydrogenases similar to fadE2; Region: ACAD_FadE2; cd01155 859655004013 FAD binding site [chemical binding]; other site 859655004014 substrate binding site [chemical binding]; other site 859655004015 catalytic base [active] 859655004016 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 859655004017 CoenzymeA binding site [chemical binding]; other site 859655004018 subunit interaction site [polypeptide binding]; other site 859655004019 PHB binding site; other site 859655004020 leucine transcriptional activator; Reviewed; Region: leuO; PRK09508 859655004021 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 859655004022 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 859655004023 substrate binding pocket [chemical binding]; other site 859655004024 dimerization interface [polypeptide binding]; other site 859655004025 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 859655004026 dimer interface [polypeptide binding]; other site 859655004027 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 859655004028 Phosphotransferase enzyme family; Region: APH; pfam01636 859655004029 putative active site [active] 859655004030 putative substrate binding site [chemical binding]; other site 859655004031 ATP binding site [chemical binding]; other site 859655004032 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 859655004033 catalytic core [active] 859655004034 enoyl-CoA hydratase; Provisional; Region: PRK07511 859655004035 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 859655004036 substrate binding site [chemical binding]; other site 859655004037 oxyanion hole (OAH) forming residues; other site 859655004038 trimer interface [polypeptide binding]; other site 859655004039 3-hydroxy-acyl-CoA dehydrogenase; Validated; Region: PRK08268 859655004040 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 859655004041 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 859655004042 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 859655004043 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 859655004044 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 859655004045 C-terminal domain interface [polypeptide binding]; other site 859655004046 GSH binding site (G-site) [chemical binding]; other site 859655004047 dimer interface [polypeptide binding]; other site 859655004048 C-terminal, alpha helical domain of an unknown subfamily 9 of Glutathione S-transferases; Region: GST_C_9; cd10424 859655004049 putative N-terminal domain interface [polypeptide binding]; other site 859655004050 putative dimer interface [polypeptide binding]; other site 859655004051 putative substrate binding pocket (H-site) [chemical binding]; other site 859655004052 methionine aminotransferase; Validated; Region: PRK09082 859655004053 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 859655004054 pyridoxal 5'-phosphate binding site [chemical binding]; other site 859655004055 homodimer interface [polypeptide binding]; other site 859655004056 catalytic residue [active] 859655004057 PIN domain; Region: PIN_3; cl17397 859655004058 hypothetical protein; Validated; Region: PRK02101 859655004059 Predicted carboxypeptidase [Amino acid transport and metabolism]; Region: COG2866 859655004060 Peptidase M14-like domain of ATP/GTP binding proteins and cytosolic carboxypeptidases; uncharacterized bacterial subgroup; Region: M14_Nna1_like_1; cd06234 859655004061 putative active site [active] 859655004062 Zn binding site [ion binding]; other site 859655004063 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 859655004064 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_2; cd08498 859655004065 Protein of unknown function (DUF2863); Region: DUF2863; pfam11062 859655004066 aconitate hydratase; Provisional; Region: acnA; PRK12881 859655004067 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 859655004068 substrate binding site [chemical binding]; other site 859655004069 ligand binding site [chemical binding]; other site 859655004070 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 859655004071 substrate binding site [chemical binding]; other site 859655004072 2-methylcitrate dehydratase; Provisional; Region: prpD; PRK09425 859655004073 2-methylcitrate dehydratase; Region: prpD; TIGR02330 859655004074 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 859655004075 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 859655004076 tetramer interface [polypeptide binding]; other site 859655004077 active site 859655004078 Mg2+/Mn2+ binding site [ion binding]; other site 859655004079 Citrate lyase beta subunit [Carbohydrate transport and metabolism]; Region: CitE; COG2301 859655004080 malate dehydrogenase; Provisional; Region: PRK05442 859655004081 Chloroplast-like malate dehydrogenases; Region: MDH_choloroplast_like; cd01338 859655004082 NAD(P) binding site [chemical binding]; other site 859655004083 dimer interface [polypeptide binding]; other site 859655004084 malate binding site [chemical binding]; other site 859655004085 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 859655004086 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 859655004087 DNA-binding site [nucleotide binding]; DNA binding site 859655004088 UTRA domain; Region: UTRA; pfam07702 859655004089 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 859655004090 Iron-sulfur protein interface; other site 859655004091 proximal quinone binding site [chemical binding]; other site 859655004092 SdhD (CybS) interface [polypeptide binding]; other site 859655004093 proximal heme binding site [chemical binding]; other site 859655004094 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 859655004095 SdhC subunit interface [polypeptide binding]; other site 859655004096 proximal heme binding site [chemical binding]; other site 859655004097 cardiolipin binding site; other site 859655004098 Iron-sulfur protein interface; other site 859655004099 proximal quinone binding site [chemical binding]; other site 859655004100 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK07057 859655004101 L-aspartate oxidase; Provisional; Region: PRK06175 859655004102 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 859655004103 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 859655004104 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 859655004105 Flavinator of succinate dehydrogenase; Region: Sdh5; cl01110 859655004106 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 859655004107 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 859655004108 dimer interface [polypeptide binding]; other site 859655004109 active site 859655004110 citrylCoA binding site [chemical binding]; other site 859655004111 NADH binding [chemical binding]; other site 859655004112 cationic pore residues; other site 859655004113 oxalacetate/citrate binding site [chemical binding]; other site 859655004114 coenzyme A binding site [chemical binding]; other site 859655004115 catalytic triad [active] 859655004116 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 859655004117 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 859655004118 substrate binding site [chemical binding]; other site 859655004119 ligand binding site [chemical binding]; other site 859655004120 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 859655004121 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 859655004122 substrate binding site [chemical binding]; other site 859655004123 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 859655004124 tartrate dehydrogenase; Region: TTC; TIGR02089 859655004125 aspartate-semialdehyde dehydrogenase; Reviewed; Region: PRK06598 859655004126 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 859655004127 Tfp pilus assembly protein FimV [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimV; COG3170 859655004128 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 859655004129 Tfp pilus assembly protein FimV [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimV; COG3170 859655004130 FimV C-terminal domain; Region: FimV_Cterm; TIGR03504 859655004131 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 859655004132 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 859655004133 dimerization interface 3.5A [polypeptide binding]; other site 859655004134 active site 859655004135 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 859655004136 active site 859655004137 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 859655004138 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 859655004139 pyridoxal 5'-phosphate binding site [chemical binding]; other site 859655004140 catalytic residue [active] 859655004141 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 859655004142 DNA methylase; Region: N6_N4_Mtase; pfam01555 859655004143 tryptophan synthase alpha subunit; Provisional; Region: trpA; CHL00200 859655004144 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 859655004145 substrate binding site [chemical binding]; other site 859655004146 active site 859655004147 catalytic residues [active] 859655004148 heterodimer interface [polypeptide binding]; other site 859655004149 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 859655004150 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 859655004151 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 859655004152 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 859655004153 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 859655004154 Uncharacterized protein conserved in bacteria [Function unknown]; Region: DedD; COG3147 859655004155 Sporulation related domain; Region: SPOR; pfam05036 859655004156 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 859655004157 Colicin V production protein; Region: Colicin_V; pfam02674 859655004158 amidophosphoribosyltransferase; Provisional; Region: PRK09246 859655004159 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 859655004160 active site 859655004161 tetramer interface [polypeptide binding]; other site 859655004162 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 859655004163 active site 859655004164 ABC-2 type transporter; Region: ABC2_membrane; cl17235 859655004165 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 859655004166 nodulation ABC transporter NodI; Provisional; Region: PRK13537 859655004167 ATP-binding cassette domain of the lipid transporters, subfamily A; Region: ABC_subfamily_A; cd03263 859655004168 Walker A/P-loop; other site 859655004169 ATP binding site [chemical binding]; other site 859655004170 Q-loop/lid; other site 859655004171 ABC transporter signature motif; other site 859655004172 Walker B; other site 859655004173 D-loop; other site 859655004174 H-loop/switch region; other site 859655004175 phasin family protein; Region: phasin; TIGR01841 859655004176 Insertion element 4 transposase N-terminal; Region: Nterm_IS4; pfam13006 859655004177 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 859655004178 Uncharacterized conserved protein [Function unknown]; Region: COG1434 859655004179 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 859655004180 putative active site [active] 859655004181 Uncharacterized protein, possibly involved in utilization of glycolate and propanediol [General function prediction only]; Region: GlcG; COG3193 859655004182 Hemin uptake protein [Inorganic ion transport and metabolism]; Region: HemP; COG4256 859655004183 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 859655004184 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 859655004185 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 859655004186 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 859655004187 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 859655004188 ATPases of the AAA+ class [Posttranslational modification, protein turnover, chaperones]; Region: SpoVK; COG0464 859655004189 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 859655004190 Walker A motif; other site 859655004191 ATP binding site [chemical binding]; other site 859655004192 Walker B motif; other site 859655004193 arginine finger; other site 859655004194 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 859655004195 Walker A motif; other site 859655004196 ATP binding site [chemical binding]; other site 859655004197 Walker B motif; other site 859655004198 arginine finger; other site 859655004199 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 859655004200 dimerization interface [polypeptide binding]; other site 859655004201 putative DNA binding site [nucleotide binding]; other site 859655004202 putative Zn2+ binding site [ion binding]; other site 859655004203 Putative hydrophobic ligand-binding SRPBCC domain of Micromonospora echinospora CalC, human Aha1, and related proteins; Region: SRPBCC_CalC_Aha1-like; cd07814 859655004204 putative hydrophobic ligand binding site [chemical binding]; other site 859655004205 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; Region: SRPBCC_CalC_Aha1-like_7; cd08900 859655004206 putative hydrophobic ligand binding site [chemical binding]; other site 859655004207 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 859655004208 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 859655004209 glutamate racemase; Provisional; Region: PRK00865 859655004210 Fumarate hydratase (Fumerase); Region: Fumerase; pfam05681 859655004211 Fumarase C-terminus; Region: Fumerase_C; pfam05683 859655004212 hypothetical protein; Provisional; Region: PRK05208 859655004213 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 859655004214 EamA-like transporter family; Region: EamA; pfam00892 859655004215 EamA-like transporter family; Region: EamA; pfam00892 859655004216 acetyl-CoA synthetase; Provisional; Region: PRK00174 859655004217 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 859655004218 active site 859655004219 CoA binding site [chemical binding]; other site 859655004220 acyl-activating enzyme (AAE) consensus motif; other site 859655004221 AMP binding site [chemical binding]; other site 859655004222 acetate binding site [chemical binding]; other site 859655004223 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 859655004224 probable sodium:solute symporter, VC_2705 subfamily; Region: Na_symport_lg; TIGR03648 859655004225 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pr : putative regulator 859655004226 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; pfam13808 859655004227 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; cl17880 859655004228 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pr : putative regulator 859655004229 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 859655004230 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 859655004231 dimer interface [polypeptide binding]; other site 859655004232 putative CheW interface [polypeptide binding]; other site 859655004233 Cache domain; Region: Cache_1; pfam02743 859655004234 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 859655004235 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 859655004236 metal binding site [ion binding]; metal-binding site 859655004237 active site 859655004238 I-site; other site 859655004239 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 859655004240 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 859655004241 active site 859655004242 phosphorylation site [posttranslational modification] 859655004243 dimerization interface [polypeptide binding]; other site 859655004244 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 859655004245 DNA binding site [nucleotide binding] 859655004246 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 859655004247 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 859655004248 catalytic loop [active] 859655004249 iron binding site [ion binding]; other site 859655004250 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 859655004251 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 859655004252 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 859655004253 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 859655004254 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 859655004255 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 859655004256 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 859655004257 uncharacterized peroxidase-related enzyme; Region: peroxid_rel; TIGR01926 859655004258 Acyl-CoA thioester hydrolase/BAAT N-terminal region; Region: Bile_Hydr_Trans; pfam04775 859655004259 BAAT / Acyl-CoA thioester hydrolase C terminal; Region: BAAT_C; pfam08840 859655004260 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4950; cl17731 859655004261 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_2; cd08498 859655004262 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 859655004263 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 859655004264 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 859655004265 Walker A/P-loop; other site 859655004266 ATP binding site [chemical binding]; other site 859655004267 Q-loop/lid; other site 859655004268 ABC transporter signature motif; other site 859655004269 Walker B; other site 859655004270 D-loop; other site 859655004271 H-loop/switch region; other site 859655004272 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 859655004273 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 859655004274 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 859655004275 Walker A/P-loop; other site 859655004276 ATP binding site [chemical binding]; other site 859655004277 Q-loop/lid; other site 859655004278 ABC transporter signature motif; other site 859655004279 Walker B; other site 859655004280 D-loop; other site 859655004281 H-loop/switch region; other site 859655004282 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 859655004283 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 859655004284 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 859655004285 dimer interface [polypeptide binding]; other site 859655004286 conserved gate region; other site 859655004287 putative PBP binding loops; other site 859655004288 ABC-ATPase subunit interface; other site 859655004289 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 859655004290 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 859655004291 dimer interface [polypeptide binding]; other site 859655004292 conserved gate region; other site 859655004293 putative PBP binding loops; other site 859655004294 ABC-ATPase subunit interface; other site 859655004295 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 859655004296 FAD-NAD(P)-binding; Region: NAD_binding_9; pfam13454 859655004297 Transcriptional regulator [Transcription]; Region: LysR; COG0583 859655004298 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 859655004299 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 859655004300 dimerization interface [polypeptide binding]; other site 859655004301 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 859655004302 Type I periplasmic binding domain of uncharacterized extracellular ligand-binding proteins; Region: PBP1_STKc_like; cd06326 859655004303 putative ligand binding site [chemical binding]; other site 859655004304 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme 859655004305 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 859655004306 Transposase; Region: DEDD_Tnp_IS110; pfam01548 859655004307 The SYLF domain (also called DUF500), a novel lipid-binding module; Region: SYLF; cd11524 859655004308 putative amphipathic alpha helix; other site 859655004309 Aspartyl/asparaginyl beta-hydroxylase and related dioxygenases [Posttranslational modification, protein turnover, chaperones]; Region: COG3555 859655004310 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 859655004311 nudix motif; other site 859655004312 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 859655004313 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 859655004314 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 859655004315 putative active site [active] 859655004316 putative substrate binding site [chemical binding]; other site 859655004317 putative cosubstrate binding site; other site 859655004318 catalytic site [active] 859655004319 exonuclease, DNA polymerase III, epsilon subunit family; Region: dnaq; TIGR00573 859655004320 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 859655004321 active site 859655004322 catalytic site [active] 859655004323 substrate binding site [chemical binding]; other site 859655004324 Common central domain of tyrosinase; Region: Tyrosinase; pfam00264 859655004325 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 859655004326 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 859655004327 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 859655004328 Ligand Binding Site [chemical binding]; other site 859655004329 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 859655004330 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD2; cd08298 859655004331 putative NAD(P) binding site [chemical binding]; other site 859655004332 putative substrate binding site [chemical binding]; other site 859655004333 catalytic Zn binding site [ion binding]; other site 859655004334 structural Zn binding site [ion binding]; other site 859655004335 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 859655004336 Flavodoxins [Energy production and conversion]; Region: FldA; COG0716 859655004337 DnaK suppressor protein [Signal transduction mechanisms]; Region: DksA; COG1734 859655004338 Protein of unknown function (DUF1488); Region: DUF1488; pfam07369 859655004339 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 859655004340 RNA/DNA hybrid binding site [nucleotide binding]; other site 859655004341 active site 859655004342 Methyltransferase domain; Region: Methyltransf_11; pfam08241 859655004343 hydroxyacylglutathione hydrolase; Region: GSH_gloB; TIGR03413 859655004344 membrane-bound lytic murein transglycosylase D; Provisional; Region: mltD; PRK10783 859655004345 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 859655004346 N-acetyl-D-glucosamine binding site [chemical binding]; other site 859655004347 catalytic residue [active] 859655004348 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 859655004349 Evidence 2a : Function of homologous gene experimentally demonstrated in an other organism; PubMedId : 10411265; Product type pe : putative enzyme 859655004350 Evidence 2a : Function of homologous gene experimentally demonstrated in an other organism; PubMedId : 10411265; Product type pe : putative enzyme 859655004351 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 859655004352 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 859655004353 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 859655004354 catalytic site [active] 859655004355 subunit interface [polypeptide binding]; other site 859655004356 leucine export protein LeuE; Provisional; Region: PRK10958 859655004357 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 859655004358 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 859655004359 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 859655004360 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 859655004361 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 859655004362 ATP-grasp domain; Region: ATP-grasp_4; cl17255 859655004363 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 859655004364 IMP binding site; other site 859655004365 dimer interface [polypeptide binding]; other site 859655004366 interdomain contacts; other site 859655004367 partial ornithine binding site; other site 859655004368 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 859655004369 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 859655004370 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 859655004371 Domain of unknown function (DUF4149); Region: DUF4149; pfam13664 859655004372 Predicted RNA-binding protein containing KH domain, possibly ribosomal protein [Translation, ribosomal structure and biogenesis]; Region: COG1534 859655004373 FtsJ-like methyltransferase; Region: FtsJ; cl17430 859655004374 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 859655004375 ATP-dependent Zn proteases [Posttranslational modification, protein turnover, chaperones]; Region: HflB; COG0465 859655004376 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 859655004377 Walker A motif; other site 859655004378 ATP binding site [chemical binding]; other site 859655004379 Walker B motif; other site 859655004380 arginine finger; other site 859655004381 Peptidase family M41; Region: Peptidase_M41; pfam01434 859655004382 dihydropteroate synthase; Region: DHPS; TIGR01496 859655004383 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 859655004384 substrate binding pocket [chemical binding]; other site 859655004385 dimer interface [polypeptide binding]; other site 859655004386 inhibitor binding site; inhibition site 859655004387 phosphoglucosamine mutase; Provisional; Region: glmM; PRK10887 859655004388 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 859655004389 active site 859655004390 substrate binding site [chemical binding]; other site 859655004391 metal binding site [ion binding]; metal-binding site 859655004392 PBP superfamily domain; Region: PBP_like_2; cl17296 859655004393 phosphate transporter permease subunit PstC; Provisional; Region: pstC; PRK11275 859655004394 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 859655004395 dimer interface [polypeptide binding]; other site 859655004396 conserved gate region; other site 859655004397 putative PBP binding loops; other site 859655004398 ABC-ATPase subunit interface; other site 859655004399 phosphate transporter permease subunit PtsA; Provisional; Region: pstA; PRK11268 859655004400 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 859655004401 dimer interface [polypeptide binding]; other site 859655004402 conserved gate region; other site 859655004403 putative PBP binding loops; other site 859655004404 ABC-ATPase subunit interface; other site 859655004405 phosphate transporter ATP-binding protein; Provisional; Region: pstB; PRK10744 859655004406 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 859655004407 Walker A/P-loop; other site 859655004408 ATP binding site [chemical binding]; other site 859655004409 Q-loop/lid; other site 859655004410 ABC transporter signature motif; other site 859655004411 Walker B; other site 859655004412 D-loop; other site 859655004413 H-loop/switch region; other site 859655004414 transcriptional regulator PhoU; Provisional; Region: PRK11115 859655004415 PhoU domain; Region: PhoU; pfam01895 859655004416 PhoU domain; Region: PhoU; pfam01895 859655004417 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 859655004418 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 859655004419 active site 859655004420 phosphorylation site [posttranslational modification] 859655004421 intermolecular recognition site; other site 859655004422 dimerization interface [polypeptide binding]; other site 859655004423 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 859655004424 DNA binding site [nucleotide binding] 859655004425 Domain of unknown function (DUF3329); Region: DUF3329; pfam11808 859655004426 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 859655004427 PAS domain; Region: PAS; smart00091 859655004428 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 859655004429 dimer interface [polypeptide binding]; other site 859655004430 phosphorylation site [posttranslational modification] 859655004431 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 859655004432 ATP binding site [chemical binding]; other site 859655004433 Mg2+ binding site [ion binding]; other site 859655004434 G-X-G motif; other site 859655004435 polyphosphate kinase 1; Region: poly_P_kin; TIGR03705 859655004436 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 859655004437 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 859655004438 Catalytic C-terminal domain, first repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C1_like; cd09165 859655004439 putative domain interface [polypeptide binding]; other site 859655004440 putative active site [active] 859655004441 catalytic site [active] 859655004442 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 859655004443 putative domain interface [polypeptide binding]; other site 859655004444 putative active site [active] 859655004445 catalytic site [active] 859655004446 Exopolyphosphatase [Nucleotide transport and metabolism / Inorganic ion transport and metabolism]; Region: GppA; COG0248 859655004447 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 859655004448 Putative hemolysin [General function prediction only]; Region: COG3176 859655004449 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 859655004450 catalytic core [active] 859655004451 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 859655004452 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 859655004453 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 859655004454 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 859655004455 dimerization interface [polypeptide binding]; other site 859655004456 putative DNA binding site [nucleotide binding]; other site 859655004457 putative Zn2+ binding site [ion binding]; other site 859655004458 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 859655004459 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 859655004460 metal binding site [ion binding]; metal-binding site 859655004461 active site 859655004462 I-site; other site 859655004463 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 859655004464 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 859655004465 Glutamate-1-semialdehyde aminotransferase [Coenzyme metabolism]; Region: HemL; COG0001 859655004466 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 859655004467 catalytic residue [active] 859655004468 Cupin-like domain; Region: Cupin_8; pfam13621 859655004469 Dyp-type peroxidase family; Region: Dyp_perox; cl01067 859655004470 Pyruvate formate lyase; Region: PFL; pfam02901 859655004471 Pyruvate-formate lyase [Energy production and conversion]; Region: PflD; COG1882 859655004472 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 859655004473 Uncharacterized conserved protein [Function unknown]; Region: COG5634 859655004474 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 859655004475 Bacterial export proteins, family 3; Region: Bac_export_3; cl00867 859655004476 Bacterial export proteins, family 1; Region: Bac_export_1; cl00734 859655004477 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 859655004478 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 859655004479 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 859655004480 FHIPEP family; Region: FHIPEP; pfam00771 859655004481 Flagellar basal body rod protein [Cell motility and secretion]; Region: FlgG; COG4786 859655004482 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 859655004483 flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12693 859655004484 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 859655004485 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 859655004486 flagellar basal body P-ring biosynthesis protein FlgA; Reviewed; Region: flgA; PRK07018 859655004487 Domains similar to fish antifreeze type III protein; Region: SAF; cl00555 859655004488 Flagellar L-ring protein; Region: FlgH; pfam02107 859655004489 Flagellar basal body L-ring protein [Cell motility and secretion]; Region: FlgH; COG2063 859655004490 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 859655004491 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 859655004492 flagellar basal-body rod protein FlgB; Region: FlgB; TIGR01396 859655004493 flagellar basal-body rod protein FlgC; Region: FlgC; TIGR01395 859655004494 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 859655004495 Flagellar hook-basal body complex protein FliE; Region: FliE; pfam02049 859655004496 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 859655004497 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 859655004498 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 859655004499 Essential protein Yae1, N terminal; Region: Yae1_N; pfam09811 859655004500 Flagellar assembly protein FliH; Region: FliH; pfam02108 859655004501 flagellar protein export ATPase FliI; Region: FliI_clade1; TIGR03496 859655004502 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 859655004503 Walker A motif/ATP binding site; other site 859655004504 Walker B motif; other site 859655004505 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 859655004506 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 859655004507 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 859655004508 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 859655004509 Flagellar motor switch/type III secretory pathway protein [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FliN; COG1886 859655004510 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 859655004511 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 859655004512 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 859655004513 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 859655004514 DNA binding residues [nucleotide binding] 859655004515 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 859655004516 TPR motif; other site 859655004517 binding surface 859655004518 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 859655004519 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 859655004520 RHS Repeat; Region: RHS_repeat; pfam05593 859655004521 RHS Repeat; Region: RHS_repeat; pfam05593 859655004522 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 859655004523 RHS Repeat; Region: RHS_repeat; cl11982 859655004524 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 859655004525 RHS Repeat; Region: RHS_repeat; pfam05593 859655004526 RHS Repeat; Region: RHS_repeat; pfam05593 859655004527 RHS Repeat; Region: RHS_repeat; pfam05593 859655004528 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 859655004529 RHS Repeat; Region: RHS_repeat; pfam05593 859655004530 YD repeat (two copies); Region: YD_repeat_2x; TIGR01643 859655004531 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 859655004532 RHS Repeat; Region: RHS_repeat; pfam05593 859655004533 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 859655004534 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 859655004535 ATP-grasp domain; Region: ATP-grasp_4; cl17255 859655004536 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_3; pfam13640 859655004537 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 859655004538 putative FMN binding site [chemical binding]; other site 859655004539 NADPH bind site [chemical binding]; other site 859655004540 thiazole/oxazole-forming peptide maturase, SagD family component; Region: TOMM_cyclo_SagD; TIGR03604 859655004541 YcaO-like family; Region: YcaO; pfam02624 859655004542 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 859655004543 FAD binding domain; Region: FAD_binding_4; pfam01565 859655004544 Predicted membrane protein [Function unknown]; Region: COG3308 859655004545 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 859655004546 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 859655004547 Virulence factor BrkB; Region: Virul_fac_BrkB; cl07918 859655004548 Predicted membrane protein [Function unknown]; Region: COG4323 859655004549 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 859655004550 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 859655004551 O-acetylhomoserine aminocarboxypropyltransferase; Validated; Region: PRK08134 859655004552 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 859655004553 homodimer interface [polypeptide binding]; other site 859655004554 substrate-cofactor binding pocket; other site 859655004555 pyridoxal 5'-phosphate binding site [chemical binding]; other site 859655004556 catalytic residue [active] 859655004557 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_12; cd04625 859655004558 FOG: CBS domain [General function prediction only]; Region: COG0517 859655004559 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 859655004560 putative substrate translocation pore; other site 859655004561 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 859655004562 putative acyl-acceptor binding pocket; other site 859655004563 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 859655004564 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 859655004565 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 859655004566 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 859655004567 Tetramer interface [polypeptide binding]; other site 859655004568 active site 859655004569 FMN-binding site [chemical binding]; other site 859655004570 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 859655004571 hydroxyglutarate oxidase; Provisional; Region: PRK11728 859655004572 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 859655004573 Ferredoxin-like protein [Energy production and conversion]; Region: FixX; COG2440 859655004574 short chain dehydrogenase; Provisional; Region: PRK06949 859655004575 classical (c) SDRs; Region: SDR_c; cd05233 859655004576 NAD(P) binding site [chemical binding]; other site 859655004577 active site 859655004578 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 859655004579 PAS domain; Region: PAS_9; pfam13426 859655004580 putative active site [active] 859655004581 heme pocket [chemical binding]; other site 859655004582 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 859655004583 DNA binding residues [nucleotide binding] 859655004584 dimerization interface [polypeptide binding]; other site 859655004585 Acyl CoA:acetate/3-ketoacid CoA transferase, alpha subunit [Lipid metabolism]; Region: AtoD; COG1788 859655004586 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 859655004587 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 859655004588 3-hydroxybutyrate dehydrogenase; Provisional; Region: PRK12429 859655004589 NAD(P) binding site [chemical binding]; other site 859655004590 active site 859655004591 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 859655004592 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 859655004593 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 859655004594 homotrimer interaction site [polypeptide binding]; other site 859655004595 putative active site [active] 859655004596 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 859655004597 HD domain; Region: HD_4; pfam13328 859655004598 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 859655004599 synthetase active site [active] 859655004600 NTP binding site [chemical binding]; other site 859655004601 metal binding site [ion binding]; metal-binding site 859655004602 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 859655004603 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 859655004604 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 859655004605 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 859655004606 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; pfam07973 859655004607 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 859655004608 active site 859655004609 dimer interface [polypeptide binding]; other site 859655004610 motif 1; other site 859655004611 motif 2; other site 859655004612 motif 3; other site 859655004613 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 859655004614 anticodon binding site; other site 859655004615 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 859655004616 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 859655004617 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 859655004618 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 859655004619 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 859655004620 23S rRNA binding site [nucleotide binding]; other site 859655004621 L21 binding site [polypeptide binding]; other site 859655004622 L13 binding site [polypeptide binding]; other site 859655004623 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 859655004624 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 859655004625 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 859655004626 dimer interface [polypeptide binding]; other site 859655004627 motif 1; other site 859655004628 active site 859655004629 motif 2; other site 859655004630 motif 3; other site 859655004631 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 859655004632 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 859655004633 putative tRNA-binding site [nucleotide binding]; other site 859655004634 B3/4 domain; Region: B3_4; pfam03483 859655004635 tRNA synthetase B5 domain; Region: B5; smart00874 859655004636 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 859655004637 dimer interface [polypeptide binding]; other site 859655004638 motif 1; other site 859655004639 motif 3; other site 859655004640 motif 2; other site 859655004641 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; smart00896 859655004642 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 859655004643 IHF dimer interface [polypeptide binding]; other site 859655004644 IHF - DNA interface [nucleotide binding]; other site 859655004645 Helix-Turn-Helix DNA binding domain of putative MlrA-like transcription regulators; Region: HTH_MlrA-like_sg2; cd04765 859655004646 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 859655004647 DNA binding residues [nucleotide binding] 859655004648 Aldose 1-epimerase, similar to Synechocystis Slr1438; Region: Aldose_epim_Slr1438; cd09025 859655004649 active site 859655004650 catalytic residues [active] 859655004651 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 859655004652 active site 859655004653 DNA polymerase IV; Validated; Region: PRK02406 859655004654 DNA binding site [nucleotide binding] 859655004655 amino acid transporter; Region: 2A0306; TIGR00909 859655004656 C-terminus of AA_permease; Region: AA_permease_C; pfam13906 859655004657 Uncharacterized secreted protein [Function unknown]; Region: COG5429 859655004658 Protein of unknown function (DUF1488); Region: DUF1488; pfam07369 859655004659 2,4-dihydroxyhept-2-ene-1,7-dioic acid aldolase [Carbohydrate transport and metabolism]; Region: HpcH; COG3836 859655004660 homoprotocatechuate degradation operon regulator, HpaR; Region: HpaR; TIGR02337 859655004661 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 859655004662 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 859655004663 putative catalytic site [active] 859655004664 putative phosphate binding site [ion binding]; other site 859655004665 active site 859655004666 metal binding site A [ion binding]; metal-binding site 859655004667 DNA binding site [nucleotide binding] 859655004668 putative AP binding site [nucleotide binding]; other site 859655004669 putative metal binding site B [ion binding]; other site 859655004670 cytosine deaminase; Validated; Region: PRK07572 859655004671 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 859655004672 active site 859655004673 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 859655004674 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 859655004675 active site 859655004676 Zn binding site [ion binding]; other site 859655004677 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14189 859655004678 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 859655004679 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 859655004680 homodimer interface [polypeptide binding]; other site 859655004681 NADP binding site [chemical binding]; other site 859655004682 substrate binding site [chemical binding]; other site 859655004683 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 859655004684 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 859655004685 active site 859655004686 phosphorylation site [posttranslational modification] 859655004687 intermolecular recognition site; other site 859655004688 dimerization interface [polypeptide binding]; other site 859655004689 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 859655004690 DNA binding residues [nucleotide binding] 859655004691 dimerization interface [polypeptide binding]; other site 859655004692 PAS domain S-box; Region: sensory_box; TIGR00229 859655004693 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 859655004694 putative active site [active] 859655004695 heme pocket [chemical binding]; other site 859655004696 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 859655004697 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 859655004698 dimer interface [polypeptide binding]; other site 859655004699 phosphorylation site [posttranslational modification] 859655004700 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 859655004701 ATP binding site [chemical binding]; other site 859655004702 Mg2+ binding site [ion binding]; other site 859655004703 G-X-G motif; other site 859655004704 pyruvate dehydrogenase subunit E1; Reviewed; Region: aceE; PRK09405 859655004705 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 859655004706 dimer interface [polypeptide binding]; other site 859655004707 TPP-binding site [chemical binding]; other site 859655004708 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 859655004709 dihydrolipoamide acetyltransferase; Reviewed; Region: PRK11855 859655004710 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 859655004711 E3 interaction surface; other site 859655004712 lipoyl attachment site [posttranslational modification]; other site 859655004713 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 859655004714 E3 interaction surface; other site 859655004715 lipoyl attachment site [posttranslational modification]; other site 859655004716 e3 binding domain; Region: E3_binding; pfam02817 859655004717 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 859655004718 proteasome_protease_HslV. This group contains the eukaryotic proteosome alpha and beta subunits and the prokaryotic protease hslV subunit. Proteasomes are large multimeric self-compartmentalizing proteases, involved in the clearance of misfolded proteins; Region: proteasome_protease_HslV; cd01906 859655004719 active site 859655004720 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 859655004721 E3 interaction surface; other site 859655004722 lipoyl attachment site [posttranslational modification]; other site 859655004723 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06467 859655004724 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 859655004725 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 859655004726 Phasin protein; Region: Phasin_2; pfam09361 859655004727 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 859655004728 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 859655004729 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 859655004730 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 859655004731 Histone deacetylase class IV also known as histone deacetylase 11; Region: HDAC_classIV; cd09993 859655004732 putative active site [active] 859655004733 Zn binding site [ion binding]; other site 859655004734 putative DMT superfamily transporter inner membrane protein; Provisional; Region: PRK11272 859655004735 EamA-like transporter family; Region: EamA; pfam00892 859655004736 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 859655004737 active site 859655004738 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 859655004739 putative FMN binding site [chemical binding]; other site 859655004740 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 859655004741 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 859655004742 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 859655004743 Transcriptional regulator [Transcription]; Region: IclR; COG1414 859655004744 Bacterial transcriptional regulator; Region: IclR; pfam01614 859655004745 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 859655004746 Cysteine-rich domain; Region: CCG; pfam02754 859655004747 Cysteine-rich domain; Region: CCG; pfam02754 859655004748 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]; Region: COG1139 859655004749 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 859655004750 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 859655004751 Domain of unknown function (DUF3390); Region: DUF3390; pfam11870 859655004752 Predicted membrane protein [Function unknown]; Region: XynA; COG2314 859655004753 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pf : putative factor 859655004754 arginyl-tRNA-protein transferase; Provisional; Region: PRK01305 859655004755 Arginine-tRNA-protein transferase, N terminus; Region: ATE_N; pfam04376 859655004756 Arginine-tRNA-protein transferase, C terminus; Region: ATE_C; pfam04377 859655004757 leucyl/phenylalanyl-tRNA--protein transferase; Reviewed; Region: aat; PRK00301 859655004758 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 859655004759 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 859655004760 nudix motif; other site 859655004761 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type ps : putative structure 859655004762 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type ps : putative structure 859655004763 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 859655004764 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 859655004765 quinone interaction residues [chemical binding]; other site 859655004766 active site 859655004767 catalytic residues [active] 859655004768 FMN binding site [chemical binding]; other site 859655004769 substrate binding site [chemical binding]; other site 859655004770 K+ transporter [Inorganic ion transport and metabolism]; Region: Kup; COG3158 859655004771 potassium uptake protein; Region: kup; TIGR00794 859655004772 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 859655004773 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 859655004774 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 859655004775 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 859655004776 RNA binding site [nucleotide binding]; other site 859655004777 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 859655004778 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 859655004779 DEAD_2; Region: DEAD_2; pfam06733 859655004780 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 859655004781 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 859655004782 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 859655004783 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 859655004784 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 859655004785 RNA binding surface [nucleotide binding]; other site 859655004786 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 859655004787 active site 859655004788 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 859655004789 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; cl00650 859655004790 poly(R)-hydroxyalkanoic acid synthase, class I; Region: PHA_synth_I; TIGR01838 859655004791 Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; Region: PhaC_N; pfam07167 859655004792 putative acyltransferase; Provisional; Region: PRK05790 859655004793 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 859655004794 dimer interface [polypeptide binding]; other site 859655004795 active site 859655004796 acetyacetyl-CoA reductase; Provisional; Region: PRK12938 859655004797 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 859655004798 NAD(P) binding site [chemical binding]; other site 859655004799 homotetramer interface [polypeptide binding]; other site 859655004800 homodimer interface [polypeptide binding]; other site 859655004801 active site 859655004802 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5394 859655004803 PHB/PHA accumulation regulator DNA-binding domain; Region: PHB_acc_N; pfam07879 859655004804 PHB accumulation regulatory domain; Region: PHB_acc; pfam05233 859655004805 tRNA-dihydrouridine synthase [Translation, ribosomal structure and biogenesis]; Region: COG0042 859655004806 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 859655004807 FMN binding site [chemical binding]; other site 859655004808 active site 859655004809 catalytic residues [active] 859655004810 substrate binding site [chemical binding]; other site 859655004811 ribosomal protein S12 methylthiotransferase; Provisional; Region: rimO; PRK14862 859655004812 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 859655004813 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 859655004814 FeS/SAM binding site; other site 859655004815 TRAM domain; Region: TRAM; cl01282 859655004816 cystathionine beta-lyase; Provisional; Region: PRK07050 859655004817 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 859655004818 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 859655004819 catalytic residue [active] 859655004820 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 859655004821 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 859655004822 motif II; other site 859655004823 acetylornithine deacetylase; Provisional; Region: PRK07522 859655004824 M20 Peptidase acetylornithine deacetylase; Region: M20_ArgE; cd03894 859655004825 metal binding site [ion binding]; metal-binding site 859655004826 putative dimer interface [polypeptide binding]; other site 859655004827 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 859655004828 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 859655004829 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 859655004830 ATP binding site [chemical binding]; other site 859655004831 putative Mg++ binding site [ion binding]; other site 859655004832 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 859655004833 nucleotide binding region [chemical binding]; other site 859655004834 ATP-binding site [chemical binding]; other site 859655004835 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 859655004836 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 859655004837 substrate binding site; other site 859655004838 dimer interface; other site 859655004839 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 859655004840 homotrimer interaction site [polypeptide binding]; other site 859655004841 zinc binding site [ion binding]; other site 859655004842 CDP-binding sites; other site 859655004843 alkylhydroperoxidase, AhpD family; Region: ahpD; TIGR00777 859655004844 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 859655004845 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 859655004846 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 859655004847 dimer interface [polypeptide binding]; other site 859655004848 decamer (pentamer of dimers) interface [polypeptide binding]; other site 859655004849 catalytic triad [active] 859655004850 peroxidatic and resolving cysteines [active] 859655004851 osmolarity sensor protein; Provisional; Region: envZ; PRK09467 859655004852 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 859655004853 dimerization interface [polypeptide binding]; other site 859655004854 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 859655004855 ATP binding site [chemical binding]; other site 859655004856 Mg2+ binding site [ion binding]; other site 859655004857 G-X-G motif; other site 859655004858 osmolarity response regulator; Provisional; Region: ompR; PRK09468 859655004859 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 859655004860 active site 859655004861 phosphorylation site [posttranslational modification] 859655004862 intermolecular recognition site; other site 859655004863 dimerization interface [polypeptide binding]; other site 859655004864 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 859655004865 DNA binding site [nucleotide binding] 859655004866 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5267 859655004867 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4102 859655004868 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 859655004869 active site lid residues [active] 859655004870 substrate binding pocket [chemical binding]; other site 859655004871 catalytic residues [active] 859655004872 substrate-Mg2+ binding site; other site 859655004873 aspartate-rich region 1; other site 859655004874 aspartate-rich region 2; other site 859655004875 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 859655004876 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 859655004877 HlyD family secretion protein; Region: HlyD_3; pfam13437 859655004878 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 859655004879 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 859655004880 Rci recombinase, C-terminal catalytic domain. Rci enzymes are found in IncI1 incompatibility group plasmids such as R64. These recombinases belong to the superfamily of DNA breaking-rejoining enzymes, which share the same fold in their catalytic domain...; Region: INT_Rci; cd00796 859655004881 catalytic residues [active] 859655004882 Int/Topo IB signature motif; other site 859655004883 PRTRC system ThiF family protein; Region: PRTRC_ThiF; TIGR03736 859655004884 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 859655004885 ATP binding site [chemical binding]; other site 859655004886 substrate interface [chemical binding]; other site 859655004887 Domain of unknown function (DUF2016); Region: DUF2016; pfam09436 859655004888 PRTRC system protein A; Region: PRTRC_A; TIGR03735 859655004889 Prokaryotic homologs of the JAB domain; Region: Prok-JAB; pfam14464 859655004890 PRTRC system protein B; Region: PRTRC_B; TIGR03737 859655004891 PRTRC system protein F; Region: PRTRC_F; TIGR03742 859655004892 Alpha-helical domain 2; Region: alpha-hel2; pfam14456 859655004893 PRTRC system protein C; Region: PRTRC_C; TIGR03738 859655004894 PRTRC system protein E; Region: PRTRC_E; TIGR03741 859655004895 deoxynucleoside monophosphate kinase; Provisional; Region: 1; PHA02575 859655004896 Evidence 4 : Homologs of previously reported genes of unknown function 859655004897 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 859655004898 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 859655004899 sequence-specific DNA binding site [nucleotide binding]; other site 859655004900 salt bridge; other site 859655004901 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 859655004902 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 859655004903 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cd00085 859655004904 active site 859655004905 Phage terminase-like protein, large subunit [General function prediction only]; Region: COG4626 859655004906 Phage-related protein [Function unknown]; Region: COG4695 859655004907 phage portal protein, HK97 family; Region: portal_HK97; TIGR01537 859655004908 Phage head maturation protease [General function prediction only]; Region: COG3740 859655004909 Predicted phage phi-C31 gp36 major capsid-like protein [General function prediction only]; Region: COG4653 859655004910 Phage capsid family; Region: Phage_capsid; pfam05065 859655004911 Head-Tail Connector Protein gp6 of Bacteriophage HK97 and similar proteins; Region: gp6; cd08054 859655004912 oligomerization interface [polypeptide binding]; other site 859655004913 Bacteriophage head-tail adaptor [General function prediction only]; Region: COG5614 859655004914 Cytochrome c oxidase assembly protein CtaG/Cox11; Region: CtaG_Cox11; cl01240 859655004915 Protein of unknown function (DUF3168); Region: DUF3168; pfam11367 859655004916 Phage tail protein; Region: Phage_tail_3; pfam08813 859655004917 Domain of unknown function (DUF1789); Region: DUF1789; pfam08748 859655004918 Phage related hypothetical protein (DUF1799); Region: DUF1799; pfam08809 859655004919 Phage-related minor tail protein [Function unknown]; Region: COG5281 859655004920 Prophage tail length tape measure protein; Region: TMP_2; pfam06791 859655004921 Lambda phage tail tape-measure protein (Tape_meas_lam_C); Region: Tape_meas_lam_C; pfam09718 859655004922 Phage minor tail protein; Region: Phage_min_tail; pfam05939 859655004923 Phage Tail Collar Domain; Region: Collar; pfam07484 859655004924 Caudovirales tail fibre assembly protein; Region: Caudo_TAP; pfam02413 859655004925 Phage minor tail protein L; Region: Phage_tail_L; cl01908 859655004926 Mpr1p, Pad1p N-terminal (MPN) domains with catalytic isopeptidase activity (metal-binding) found in proteins also containing NlpC/P60 domains; Region: MPN_NLPC_P60; cd08073 859655004927 MPN+ (JAMM) motif; other site 859655004928 Zinc-binding site [ion binding]; other site 859655004929 NlpC/P60 family; Region: NLPC_P60; cl17555 859655004930 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 859655004931 Phage-related protein, tail component [Function unknown]; Region: COG4723 859655004932 Predicted nuclease of the RNAse H fold, HicB family [General function prediction only]; Region: HicB; COG4226 859655004933 HicB family; Region: HicB; pfam05534 859655004934 Phage-related protein, tail component [Function unknown]; Region: COG4733 859655004935 Putative phage tail protein; Region: Phage-tail_3; pfam13550 859655004936 Fibronectin type 3 domain; Region: FN3; smart00060 859655004937 Domain of unknown function (DUF1983); Region: DUF1983; pfam09327 859655004938 The lysozyme from bacteriophage lambda hydrolyses the beta-1,4-glycosidic bond between N-acetylmuramic acid (MurNAc) and N-acetylglucosamine (GlcNAc), as do other lysozymes. But unlike other lysozymes, bacteriophage lambda does not produce a reducing...; Region: bacteriophage_lambda_lysozyme; cd00736 859655004939 N-acetyl-D-glucosamine binding site [chemical binding]; other site 859655004940 catalytic residue [active] 859655004941 Domain of unknown function (DUF4325); Region: DUF4325; pfam14213 859655004942 bifunctional tRNA (mnm(5)s(2)U34)-methyltransferase/FAD-dependent cmnm(5)s(2)U34 oxidoreductase; Reviewed; Region: mnmC; PRK01747 859655004943 Uncharacterized conserved protein [Function unknown]; Region: COG4121 859655004944 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 859655004945 trigger factor; Provisional; Region: tig; PRK01490 859655004946 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 859655004947 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 859655004948 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 859655004949 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 859655004950 oligomer interface [polypeptide binding]; other site 859655004951 active site residues [active] 859655004952 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 859655004953 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 859655004954 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 859655004955 Walker A motif; other site 859655004956 ATP binding site [chemical binding]; other site 859655004957 Walker B motif; other site 859655004958 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 859655004959 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 859655004960 Found in ATP-dependent protease La (LON); Region: LON; smart00464 859655004961 Found in ATP-dependent protease La (LON); Region: LON; smart00464 859655004962 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 859655004963 Walker A motif; other site 859655004964 ATP binding site [chemical binding]; other site 859655004965 Walker B motif; other site 859655004966 arginine finger; other site 859655004967 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 859655004968 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 859655004969 IHF dimer interface [polypeptide binding]; other site 859655004970 IHF - DNA interface [nucleotide binding]; other site 859655004971 SurA N-terminal domain; Region: SurA_N_3; cl07813 859655004972 periplasmic folding chaperone; Provisional; Region: PRK10788 859655004973 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 859655004974 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 859655004975 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 859655004976 Catalytic site [active] 859655004977 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 859655004978 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 859655004979 active site 859655004980 catalytic triad [active] 859655004981 oxyanion hole [active] 859655004982 switch loop; other site 859655004983 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG4181 859655004984 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 859655004985 Walker A/P-loop; other site 859655004986 ATP binding site [chemical binding]; other site 859655004987 Q-loop/lid; other site 859655004988 ABC transporter signature motif; other site 859655004989 Walker B; other site 859655004990 D-loop; other site 859655004991 H-loop/switch region; other site 859655004992 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 859655004993 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 859655004994 active site 859655004995 dimer interface [polypeptide binding]; other site 859655004996 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 859655004997 dimer interface [polypeptide binding]; other site 859655004998 active site 859655004999 putative carbohydrate kinase; Provisional; Region: PRK10565 859655005000 Uncharacterized conserved protein [Function unknown]; Region: COG0062 859655005001 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 859655005002 putative substrate binding site [chemical binding]; other site 859655005003 putative ATP binding site [chemical binding]; other site 859655005004 Predicted transcription regulator, contains HTH domain (MarR family) [Transcription]; Region: COG5631 859655005005 phosphoribosylformylglycinamidine synthase; Provisional; Region: PRK05297 859655005006 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 859655005007 dimerization interface [polypeptide binding]; other site 859655005008 ATP binding site [chemical binding]; other site 859655005009 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 859655005010 dimerization interface [polypeptide binding]; other site 859655005011 ATP binding site [chemical binding]; other site 859655005012 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 859655005013 putative active site [active] 859655005014 catalytic triad [active] 859655005015 Domain of unknown function (DUF1843); Region: DUF1843; pfam08898 859655005016 Domain of unknown function (DUF1842); Region: DUF1842; pfam08896 859655005017 Domain of unknown function (DUF1843); Region: DUF1843; pfam08898 859655005018 Domain of unknown function (DUF1842); Region: DUF1842; pfam08896 859655005019 Domain of unknown function (DUF1843); Region: DUF1843; pfam08898 859655005020 Y_X(10)_GDL-associated radical SAM protein; Region: rad_SAM_trio; TIGR03913 859655005021 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 859655005022 FeS/SAM binding site; other site 859655005023 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 859655005024 Transcriptional regulator [Transcription]; Region: LysR; COG0583 859655005025 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 859655005026 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 859655005027 putative effector binding pocket; other site 859655005028 putative dimerization interface [polypeptide binding]; other site 859655005029 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 859655005030 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 859655005031 NAD(P) binding site [chemical binding]; other site 859655005032 active site 859655005033 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 859655005034 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 859655005035 dimer interface [polypeptide binding]; other site 859655005036 conserved gate region; other site 859655005037 putative PBP binding loops; other site 859655005038 ABC-ATPase subunit interface; other site 859655005039 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 859655005040 dimer interface [polypeptide binding]; other site 859655005041 conserved gate region; other site 859655005042 putative PBP binding loops; other site 859655005043 ABC-ATPase subunit interface; other site 859655005044 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 859655005045 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 859655005046 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 859655005047 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 859655005048 Walker A/P-loop; other site 859655005049 ATP binding site [chemical binding]; other site 859655005050 Q-loop/lid; other site 859655005051 ABC transporter signature motif; other site 859655005052 Walker B; other site 859655005053 D-loop; other site 859655005054 H-loop/switch region; other site 859655005055 TOBE domain; Region: TOBE_2; pfam08402 859655005056 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 859655005057 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 859655005058 dimer interface [polypeptide binding]; other site 859655005059 phosphorylation site [posttranslational modification] 859655005060 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 859655005061 ATP binding site [chemical binding]; other site 859655005062 Mg2+ binding site [ion binding]; other site 859655005063 G-X-G motif; other site 859655005064 transcriptional regulatory protein TctD; Provisional; Region: PRK15479 859655005065 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 859655005066 active site 859655005067 phosphorylation site [posttranslational modification] 859655005068 intermolecular recognition site; other site 859655005069 dimerization interface [polypeptide binding]; other site 859655005070 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 859655005071 DNA binding site [nucleotide binding] 859655005072 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 859655005073 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 859655005074 trimer interface [polypeptide binding]; other site 859655005075 eyelet of channel; other site 859655005076 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: PhnK; COG1101 859655005077 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 859655005078 Walker A/P-loop; other site 859655005079 ATP binding site [chemical binding]; other site 859655005080 Q-loop/lid; other site 859655005081 ABC transporter signature motif; other site 859655005082 Walker B; other site 859655005083 D-loop; other site 859655005084 H-loop/switch region; other site 859655005085 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 859655005086 Transmembrane subunit (TM) of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which are involved in the uptake of branched-chain amino acids (AAs), as well as TMs of transporters involved in the uptake of...; Region: TM_PBP1_branched-chain-AA_like; cd06574 859655005087 TM-ABC transporter signature motif; other site 859655005088 Type I periplasmic ligand-binding domain of uncharacterized ABC-type transport systems that are predicted to be involved in the uptake of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_uncharacterized_transporter; cd06325 859655005089 zinc binding site [ion binding]; other site 859655005090 putative ligand binding site [chemical binding]; other site 859655005091 peptidylprolyl isomerase; Provisional; Region: prsA; PRK00059 859655005092 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 859655005093 Stress-induced morphogen (activity unknown) [Signal transduction mechanisms]; Region: BolA; COG0271 859655005094 intracellular septation protein A; Reviewed; Region: PRK00259 859655005095 methionine sulfoxide reductase B; Provisional; Region: PRK00222 859655005096 SelR domain; Region: SelR; pfam01641 859655005097 Uncharacterized conserved protein [Function unknown]; Region: COG0397 859655005098 hypothetical protein; Validated; Region: PRK00029 859655005099 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07008 859655005100 Fatty acyl-CoA synthetases similar to LC-FACS from Thermus thermophiles; Region: ttLC_FACS_AlkK_like; cd12119 859655005101 dimer interface [polypeptide binding]; other site 859655005102 acyl-activating enzyme (AAE) consensus motif; other site 859655005103 putative active site [active] 859655005104 AMP binding site [chemical binding]; other site 859655005105 putative CoA binding site [chemical binding]; other site 859655005106 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 859655005107 Periplasmic solute-binding domain of active transport proteins; Region: PBP1_SBP_like_3; cd06329 859655005108 putative ligand binding site [chemical binding]; other site 859655005109 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 859655005110 TM-ABC transporter signature motif; other site 859655005111 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 859655005112 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 859655005113 TM-ABC transporter signature motif; other site 859655005114 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 859655005115 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 859655005116 Walker A/P-loop; other site 859655005117 ATP binding site [chemical binding]; other site 859655005118 Q-loop/lid; other site 859655005119 ABC transporter signature motif; other site 859655005120 Walker B; other site 859655005121 D-loop; other site 859655005122 H-loop/switch region; other site 859655005123 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 859655005124 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 859655005125 Walker A/P-loop; other site 859655005126 ATP binding site [chemical binding]; other site 859655005127 Q-loop/lid; other site 859655005128 ABC transporter signature motif; other site 859655005129 Walker B; other site 859655005130 D-loop; other site 859655005131 H-loop/switch region; other site 859655005132 Endopygalactorunase [Cell envelope biogenesis, outer membrane]; Region: PGU1; COG5434 859655005133 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 859655005134 Interdomain contacts; other site 859655005135 Cytokine receptor motif; other site 859655005136 Probable polygalacturonase At3g15720; Region: PLN03003; cl14103 859655005137 lysine transporter; Provisional; Region: PRK10836 859655005138 lysine transporter; Provisional; Region: PRK10836 859655005139 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 859655005140 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 859655005141 substrate binding site [chemical binding]; other site 859655005142 oxyanion hole (OAH) forming residues; other site 859655005143 trimer interface [polypeptide binding]; other site 859655005144 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 859655005145 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 859655005146 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 859655005147 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 859655005148 Isochorismatase family; Region: Isochorismatase; pfam00857 859655005149 catalytic triad [active] 859655005150 metal binding site [ion binding]; metal-binding site 859655005151 conserved cis-peptide bond; other site 859655005152 acetyl-CoA acetyltransferase; Provisional; Region: PRK07108 859655005153 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 859655005154 dimer interface [polypeptide binding]; other site 859655005155 active site 859655005156 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 859655005157 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 859655005158 Putative acyl-CoA dehydrogenases similar to fadE5; Region: ACAD_fadE5; cd01153 859655005159 FAD binding site [chemical binding]; other site 859655005160 substrate binding site [chemical binding]; other site 859655005161 catalytic residues [active] 859655005162 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 859655005163 gluconate 5-dehydrogenase; Provisional; Region: PRK08213 859655005164 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 859655005165 NAD(P) binding site [chemical binding]; other site 859655005166 active site 859655005167 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 859655005168 CoenzymeA binding site [chemical binding]; other site 859655005169 subunit interaction site [polypeptide binding]; other site 859655005170 PHB binding site; other site 859655005171 Beta-lactamase; Region: Beta-lactamase; pfam00144 859655005172 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 859655005173 Putative NADP-dependent oxidoreductases [General function prediction only]; Region: COG2130 859655005174 Prostaglandin dehydrogenases; Region: PGDH; cd05288 859655005175 NAD(P) binding site [chemical binding]; other site 859655005176 substrate binding site [chemical binding]; other site 859655005177 dimer interface [polypeptide binding]; other site 859655005178 hypothetical protein; Provisional; Region: PRK06208 859655005179 intersubunit interface [polypeptide binding]; other site 859655005180 active site 859655005181 Zn2+ binding site [ion binding]; other site 859655005182 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 859655005183 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 859655005184 C-terminal domain interface [polypeptide binding]; other site 859655005185 GSH binding site (G-site) [chemical binding]; other site 859655005186 dimer interface [polypeptide binding]; other site 859655005187 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cd00299 859655005188 N-terminal domain interface [polypeptide binding]; other site 859655005189 hypothetical protein; Provisional; Region: PRK06194 859655005190 classical (c) SDRs; Region: SDR_c; cd05233 859655005191 NAD(P) binding site [chemical binding]; other site 859655005192 active site 859655005193 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 859655005194 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 859655005195 Iron-containing alcohol dehydrogenases-like, involved in the linear alkylbenzenesulfonate (LAS) degradation pathway; Region: Fe-ADH7; cd08192 859655005196 putative active site [active] 859655005197 metal binding site [ion binding]; metal-binding site 859655005198 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 859655005199 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 859655005200 substrate binding pocket [chemical binding]; other site 859655005201 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 859655005202 active site 859655005203 Acetyltransferase (GNAT) domain; Region: Acetyltransf_5; cl17496 859655005204 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 859655005205 Coenzyme A binding pocket [chemical binding]; other site 859655005206 Uncharacterized conserved protein [Function unknown]; Region: COG3332 859655005207 Predicted aminomethyltransferase related to GcvT [General function prediction only]; Region: COG0354 859655005208 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 859655005209 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 859655005210 YceG-like family; Region: YceG; pfam02618 859655005211 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 859655005212 dimerization interface [polypeptide binding]; other site 859655005213 thymidylate kinase; Validated; Region: tmk; PRK00698 859655005214 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 859655005215 TMP-binding site; other site 859655005216 ATP-binding site [chemical binding]; other site 859655005217 DNA polymerase III subunit delta'; Validated; Region: PRK06964 859655005218 DNA polymerase III subunit delta'; Validated; Region: PRK08485 859655005219 PilZ domain; Region: PilZ; cl01260 859655005220 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 859655005221 active site 859655005222 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 859655005223 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 859655005224 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 859655005225 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 859655005226 ergothioneine biosynthesis protein EgtB; Region: egtB_TIGR03440 859655005227 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 859655005228 Transcriptional regulators [Transcription]; Region: PurR; COG1609 859655005229 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 859655005230 DNA binding site [nucleotide binding] 859655005231 domain linker motif; other site 859655005232 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 859655005233 putative dimerization interface [polypeptide binding]; other site 859655005234 putative ligand binding site [chemical binding]; other site 859655005235 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 859655005236 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 859655005237 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 859655005238 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 859655005239 dimer interface [polypeptide binding]; other site 859655005240 conserved gate region; other site 859655005241 putative PBP binding loops; other site 859655005242 ABC-ATPase subunit interface; other site 859655005243 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 859655005244 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 859655005245 dimer interface [polypeptide binding]; other site 859655005246 conserved gate region; other site 859655005247 putative PBP binding loops; other site 859655005248 ABC-ATPase subunit interface; other site 859655005249 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 859655005250 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 859655005251 Walker A/P-loop; other site 859655005252 ATP binding site [chemical binding]; other site 859655005253 Q-loop/lid; other site 859655005254 ABC transporter signature motif; other site 859655005255 Walker B; other site 859655005256 D-loop; other site 859655005257 H-loop/switch region; other site 859655005258 TOBE domain; Region: TOBE_2; pfam08402 859655005259 Predicted phosphohydrolases [General function prediction only]; Region: Icc; COG1409 859655005260 Enterobacter aerogenes GpdQ and related proteins, metallophosphatase domain; Region: MPP_GpdQ; cd07402 859655005261 active site 859655005262 metal binding site [ion binding]; metal-binding site 859655005263 hexamer interface [polypeptide binding]; other site 859655005264 polyhydroxyalkanoate depolymerase, intracellular; Region: PHB_depoly_PhaZ; TIGR01849 859655005265 PHB de-polymerase C-terminus; Region: PHB_depo_C; pfam06850 859655005266 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 859655005267 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 859655005268 putative C-terminal domain interface [polypeptide binding]; other site 859655005269 putative GSH binding site (G-site) [chemical binding]; other site 859655005270 putative dimer interface [polypeptide binding]; other site 859655005271 C-terminal, alpha helical domain of an unknown subfamily 3 of Glutathione S-transferases; Region: GST_C_3; cd03194 859655005272 putative N-terminal domain interface [polypeptide binding]; other site 859655005273 putative dimer interface [polypeptide binding]; other site 859655005274 putative substrate binding pocket (H-site) [chemical binding]; other site 859655005275 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_x; TIGR03181 859655005276 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 859655005277 tetramer interface [polypeptide binding]; other site 859655005278 TPP-binding site [chemical binding]; other site 859655005279 heterodimer interface [polypeptide binding]; other site 859655005280 phosphorylation loop region [posttranslational modification] 859655005281 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 859655005282 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 859655005283 alpha subunit interface [polypeptide binding]; other site 859655005284 TPP binding site [chemical binding]; other site 859655005285 heterodimer interface [polypeptide binding]; other site 859655005286 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 859655005287 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 859655005288 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 859655005289 E3 interaction surface; other site 859655005290 lipoyl attachment site [posttranslational modification]; other site 859655005291 e3 binding domain; Region: E3_binding; pfam02817 859655005292 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 859655005293 Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily. LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs correspond...; Region: LRR_RI; cl15309 859655005294 Leucine-rich repeats; other site 859655005295 Substrate binding site [chemical binding]; other site 859655005296 Leucine rich repeat; Region: LRR_8; pfam13855 859655005297 Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily. LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs correspond...; Region: LRR_RI; cl15309 859655005298 Leucine-rich repeats; other site 859655005299 Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily. LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs correspond...; Region: LRR_RI; cl15309 859655005300 Leucine-rich repeats; other site 859655005301 Substrate binding site [chemical binding]; other site 859655005302 Leucine rich repeat; Region: LRR_8; pfam13855 859655005303 Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily. LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs correspond...; Region: LRR_RI; cl15309 859655005304 Leucine-rich repeats; other site 859655005305 Substrate binding site [chemical binding]; other site 859655005306 Leucine rich repeat; Region: LRR_8; pfam13855 859655005307 Leucine-rich repeat (LRR) protein [Function unknown]; Region: COG4886 859655005308 Leucine rich repeat; Region: LRR_8; pfam13855 859655005309 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 859655005310 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_2; cd03139 859655005311 conserved cys residue [active] 859655005312 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 859655005313 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 859655005314 putative Cl- selectivity filter; other site 859655005315 putative pore gating glutamate residue; other site 859655005316 Methyltransferase domain; Region: Methyltransf_11; pfam08241 859655005317 Predicted thioesterase involved in non-ribosomal peptide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: GrsT; COG3208 859655005318 Phosphopantetheinyl transferase [Coenzyme metabolism]; Region: Sfp; COG2091 859655005319 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 859655005320 Oxidoreductase (NAD-binding), involved in siderophore biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: PchG; COG4693 859655005321 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 859655005322 Fatty acyl-AMP ligase (FAAL); Region: FAAL; cd05931 859655005323 acyl-CoA synthetase; Validated; Region: PRK05850 859655005324 acyl-activating enzyme (AAE) consensus motif; other site 859655005325 active site 859655005326 Phosphopantetheine attachment site; Region: PKS_PP; smart00823 859655005327 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 859655005328 Beta-ketoacyl synthase; Region: PKS_KS; smart00825 859655005329 active site 859655005330 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 859655005331 Acyl transferase domain in polyketide synthase (PKS) enzymes; Region: PKS_AT; smart00827 859655005332 ketoreductase (KR) and fatty acid synthase (FAS), complex (x) SDRs; Region: KR_FAS_SDR_x; cd05274 859655005333 KR domain; Region: KR; pfam08659 859655005334 NADP binding site [chemical binding]; other site 859655005335 active site 859655005336 Phosphopantetheine attachment site; Region: PKS_PP; smart00823 859655005337 Condensation domain; Region: Condensation; pfam00668 859655005338 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 859655005339 Nonribosomal peptide synthase; Region: NRPS; pfam08415 859655005340 The adenylation domain of nonribosomal peptide synthetases (NRPS), including Streptoalloteichus tallysomycin biosynthesis genes; Region: A_NRPS_TlmIV_like; cd12114 859655005341 acyl-activating enzyme (AAE) consensus motif; other site 859655005342 AMP binding site [chemical binding]; other site 859655005343 Methyltransferase domain; Region: Methyltransf_23; pfam13489 859655005344 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 859655005345 S-adenosylmethionine binding site [chemical binding]; other site 859655005346 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 859655005347 Condensation domain; Region: Condensation; pfam00668 859655005348 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 859655005349 Nonribosomal peptide synthase; Region: NRPS; pfam08415 859655005350 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 859655005351 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 859655005352 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 859655005353 N-terminal plug; other site 859655005354 ligand-binding site [chemical binding]; other site 859655005355 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 859655005356 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 859655005357 Walker A/P-loop; other site 859655005358 ATP binding site [chemical binding]; other site 859655005359 Q-loop/lid; other site 859655005360 ABC transporter signature motif; other site 859655005361 Walker B; other site 859655005362 D-loop; other site 859655005363 H-loop/switch region; other site 859655005364 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 859655005365 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 859655005366 putative bacteriocin export ABC transporter, lactococcin 972 group; Region: L_ocin_972_ABC; TIGR03608 859655005367 Walker A/P-loop; other site 859655005368 ATP binding site [chemical binding]; other site 859655005369 Q-loop/lid; other site 859655005370 ABC transporter signature motif; other site 859655005371 Walker B; other site 859655005372 D-loop; other site 859655005373 H-loop/switch region; other site 859655005374 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 859655005375 Beta-ketoacyl synthase; Region: PKS_KS; smart00825 859655005376 active site 859655005377 Methyltransferase domain; Region: Methyltransf_23; pfam13489 859655005378 Methyltransferase domain; Region: Methyltransf_12; pfam08242 859655005379 ketoreductase (KR) and fatty acid synthase (FAS), complex (x) SDRs; Region: KR_FAS_SDR_x; cd05274 859655005380 This enzymatic domain is part of bacterial polyketide synthases; Region: PKS_KR; smart00822 859655005381 NADP binding site [chemical binding]; other site 859655005382 active site 859655005383 Condensation domain; Region: Condensation; pfam00668 859655005384 Condensation domain; Region: Condensation; pfam00668 859655005385 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 859655005386 Nonribosomal peptide synthase; Region: NRPS; pfam08415 859655005387 The adenylation domain of nonribosomal peptide synthetases (NRPS), including Streptoalloteichus tallysomycin biosynthesis genes; Region: A_NRPS_TlmIV_like; cd12114 859655005388 acyl-activating enzyme (AAE) consensus motif; other site 859655005389 AMP binding site [chemical binding]; other site 859655005390 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 859655005391 S-adenosylmethionine binding site [chemical binding]; other site 859655005392 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 859655005393 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 859655005394 Thioesterase domains of type I polyketide synthases or non-ribosomal peptide synthetases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3319 859655005395 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 859655005396 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 859655005397 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type ph : phenotype 859655005398 putative acetyltransferase; Provisional; Region: PRK03624 859655005399 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 859655005400 Lysine/ornithine N-monooxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: IucD; COG3486 859655005401 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 859655005402 Methionyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: MetG; COG0143 859655005403 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 859655005404 active site 859655005405 HIGH motif; other site 859655005406 nucleotide binding site [chemical binding]; other site 859655005407 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 859655005408 active site 859655005409 KMSKS motif; other site 859655005410 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 859655005411 Mannose-6-phosphate isomerase [Carbohydrate transport and metabolism]; Region: {ManC}; COG0662 859655005412 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 859655005413 MarR family; Region: MarR_2; cl17246 859655005414 Transcriptional regulators [Transcription]; Region: MarR; COG1846 859655005415 Maleate cis-trans isomerase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3473 859655005416 Predicted amidohydrolase [General function prediction only]; Region: COG0388 859655005417 Nitrilases, cyanide hydratase (CH)s, and similar proteins (class 1 nitrilases); Region: nitrilases_CHs; cd07564 859655005418 putative active site [active] 859655005419 catalytic triad [active] 859655005420 putative dimer interface [polypeptide binding]; other site 859655005421 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 859655005422 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 859655005423 Gentisate 1,2-dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3435 859655005424 Cupin domain; Region: Cupin_2; pfam07883 859655005425 Cupin domain; Region: Cupin_2; pfam07883 859655005426 salicylyl-CoA 5-hydroxylase; Reviewed; Region: PRK08255 859655005427 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 859655005428 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 859655005429 active site 859655005430 FMN binding site [chemical binding]; other site 859655005431 substrate binding site [chemical binding]; other site 859655005432 homotetramer interface [polypeptide binding]; other site 859655005433 catalytic residue [active] 859655005434 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 859655005435 active site 859655005436 putative indolepyruvate oxidoreductase subunit B; Reviewed; Region: PRK08312 859655005437 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 859655005438 Indolepyruvate ferredoxin oxidoreductase, alpha and beta subunits [Energy production and conversion]; Region: COG4231 859655005439 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 859655005440 dimer interface [polypeptide binding]; other site 859655005441 PYR/PP interface [polypeptide binding]; other site 859655005442 TPP binding site [chemical binding]; other site 859655005443 substrate binding site [chemical binding]; other site 859655005444 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 859655005445 TPP-binding site; other site 859655005446 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 859655005447 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 859655005448 Walker B; other site 859655005449 D-loop; other site 859655005450 H-loop/switch region; other site 859655005451 Helix-turn-helix domain; Region: HTH_18; pfam12833 859655005452 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 859655005453 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; cl01768 859655005454 Phytoene dehydrogenase and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG1233 859655005455 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 859655005456 hydroxyglutarate oxidase; Provisional; Region: PRK11728 859655005457 Kynurenine formamidase [Amino acid transport and metabolism]; Region: COG1878 859655005458 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 859655005459 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 859655005460 short chain dehydrogenase; Provisional; Region: PRK08265 859655005461 classical (c) SDRs; Region: SDR_c; cd05233 859655005462 NAD(P) binding site [chemical binding]; other site 859655005463 active site 859655005464 hypothetical protein; Validated; Region: PRK09169 859655005465 RelA- and SpoT-like ppGpp Synthetases and Hydrolases, catalytic domain; Region: Rel-Spo_like; cl11966 859655005466 metal binding triad [ion binding]; metal-binding site 859655005467 Transcriptional regulator [Transcription]; Region: LysR; COG0583 859655005468 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 859655005469 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 859655005470 dimerization interface [polypeptide binding]; other site 859655005471 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 859655005472 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 859655005473 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 859655005474 Domain of unknown function (DUF1910); Region: DUF1910; pfam08928 859655005475 Domain of unknown function (DUF1911); Region: DUF1911; pfam08929 859655005476 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 859655005477 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 859655005478 Haemolysin secretion/activation protein ShlB/FhaC/HecB; Region: ShlB; pfam03865 859655005479 Protein of unknown function (DUF2924); Region: DUF2924; pfam11149 859655005480 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 859655005481 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 859655005482 catalytic residues [active] 859655005483 catalytic nucleophile [active] 859655005484 Presynaptic Site I dimer interface [polypeptide binding]; other site 859655005485 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 859655005486 Synaptic Flat tetramer interface [polypeptide binding]; other site 859655005487 Synaptic Site I dimer interface [polypeptide binding]; other site 859655005488 DNA binding site [nucleotide binding] 859655005489 Recombinase; Region: Recombinase; pfam07508 859655005490 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 859655005491 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 859655005492 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 859655005493 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 859655005494 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 859655005495 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cl02931 859655005496 phosphoglycolate phosphatase; Provisional; Region: PRK13222 859655005497 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 859655005498 motif II; other site 859655005499 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 859655005500 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 859655005501 S-adenosylmethionine binding site [chemical binding]; other site 859655005502 Glycine zipper 2TM domain; Region: Rick_17kDa_Anti; cl10470 859655005503 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 859655005504 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 859655005505 ligand binding site [chemical binding]; other site 859655005506 DNA gyrase subunit A; Validated; Region: PRK05560 859655005507 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 859655005508 CAP-like domain; other site 859655005509 active site 859655005510 primary dimer interface [polypeptide binding]; other site 859655005511 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 859655005512 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 859655005513 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 859655005514 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 859655005515 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 859655005516 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 859655005517 Uncharacterized protein conserved in bacteria (DUF2059); Region: DUF2059; pfam09832 859655005518 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 859655005519 homodimer interface [polypeptide binding]; other site 859655005520 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 859655005521 substrate-cofactor binding pocket; other site 859655005522 pyridoxal 5'-phosphate binding site [chemical binding]; other site 859655005523 catalytic residue [active] 859655005524 Chorismate mutase type II; Region: CM_2; cl00693 859655005525 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 859655005526 Prephenate dehydratase; Region: PDT; pfam00800 859655005527 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 859655005528 putative L-Phe binding site [chemical binding]; other site 859655005529 histidinol-phosphate aminotransferase; Validated; Region: PRK02731 859655005530 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 859655005531 pyridoxal 5'-phosphate binding site [chemical binding]; other site 859655005532 homodimer interface [polypeptide binding]; other site 859655005533 catalytic residue [active] 859655005534 Prephenate dehydrogenase; Region: PDH; pfam02153 859655005535 prephenate dehydrogenase; Validated; Region: PRK08507 859655005536 3-phosphoshikimate 1-carboxyvinyltransferase; Region: PLN02338 859655005537 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 859655005538 hinge; other site 859655005539 active site 859655005540 cytidylate kinase; Provisional; Region: cmk; PRK00023 859655005541 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 859655005542 CMP-binding site; other site 859655005543 The sites determining sugar specificity; other site 859655005544 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 859655005545 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 859655005546 RNA binding site [nucleotide binding]; other site 859655005547 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 859655005548 RNA binding site [nucleotide binding]; other site 859655005549 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 859655005550 RNA binding site [nucleotide binding]; other site 859655005551 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 859655005552 RNA binding site [nucleotide binding]; other site 859655005553 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 859655005554 RNA binding site [nucleotide binding]; other site 859655005555 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 859655005556 RNA binding site [nucleotide binding]; other site 859655005557 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 859655005558 IHF dimer interface [polypeptide binding]; other site 859655005559 IHF - DNA interface [nucleotide binding]; other site 859655005560 Protein of unknown function (DUF1049); Region: DUF1049; cl01539 859655005561 Predicted N-acetylglucosaminyl transferase [Carbohydrate transport and metabolism]; Region: COG2956 859655005562 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 859655005563 binding surface 859655005564 TPR motif; other site 859655005565 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 859655005566 binding surface 859655005567 TPR motif; other site 859655005568 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 859655005569 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 859655005570 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 859655005571 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 859655005572 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 859655005573 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 859655005574 putative ribose interaction site [chemical binding]; other site 859655005575 putative ADP binding site [chemical binding]; other site 859655005576 ADP-L-glycero-D-mannoheptose 6-epimerase (GME), extended (e) SDRs; Region: ADP_GME_SDR_e; cd05248 859655005577 ADP-L-glycero-D-manno-heptose-6-epimerase; Region: heptose_epim; TIGR02197 859655005578 NADP binding site [chemical binding]; other site 859655005579 homopentamer interface [polypeptide binding]; other site 859655005580 substrate binding site [chemical binding]; other site 859655005581 active site 859655005582 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 859655005583 cysteine synthase B; Region: cysM; TIGR01138 859655005584 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 859655005585 dimer interface [polypeptide binding]; other site 859655005586 pyridoxal 5'-phosphate binding site [chemical binding]; other site 859655005587 catalytic residue [active] 859655005588 Transglycosylase SLT domain; Region: SLT_2; pfam13406 859655005589 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 859655005590 N-acetyl-D-glucosamine binding site [chemical binding]; other site 859655005591 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 859655005592 Histone deacetylases and histone-like deacetylases, classII; Region: HDAC_classII_2; cd11599 859655005593 putative active site [active] 859655005594 Zn binding site [ion binding]; other site 859655005595 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 859655005596 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 859655005597 Walker A/P-loop; other site 859655005598 ATP binding site [chemical binding]; other site 859655005599 Q-loop/lid; other site 859655005600 ABC transporter signature motif; other site 859655005601 Walker B; other site 859655005602 D-loop; other site 859655005603 H-loop/switch region; other site 859655005604 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 859655005605 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 859655005606 dimer interface [polypeptide binding]; other site 859655005607 conserved gate region; other site 859655005608 ABC-ATPase subunit interface; other site 859655005609 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 859655005610 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 859655005611 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 859655005612 Ligand binding site [chemical binding]; other site 859655005613 Electron transfer flavoprotein domain; Region: ETF; pfam01012 859655005614 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 859655005615 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 859655005616 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 859655005617 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 859655005618 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 859655005619 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 859655005620 active site 859655005621 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 859655005622 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 859655005623 Cytochrome P450; Region: p450; cl12078 859655005624 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 859655005625 SnoaL-like domain; Region: SnoaL_3; pfam13474 859655005626 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 859655005627 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 859655005628 leucine-responsive transcriptional regulator; Provisional; Region: PRK11169 859655005629 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 859655005630 AsnC family; Region: AsnC_trans_reg; pfam01037 859655005631 DNA repair photolyase [DNA replication, recombination, and repair]; Region: SplB; COG1533 859655005632 Predicted membrane protein [Function unknown]; Region: XynA; COG2314 859655005633 Glucose/sorbosone dehydrogenases [Carbohydrate transport and metabolism]; Region: COG2133 859655005634 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 859655005635 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 859655005636 RimM N-terminal domain; Region: RimM; pfam01782 859655005637 PRC-barrel domain; Region: PRC; pfam05239 859655005638 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 859655005639 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 859655005640 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 859655005641 putative active site [active] 859655005642 putative CoA binding site [chemical binding]; other site 859655005643 nudix motif; other site 859655005644 metal binding site [ion binding]; metal-binding site 859655005645 CobD/CbiB family protein; Provisional; Region: PRK07630 859655005646 Domain of unknown function (DUF2007); Region: DUF2007; pfam09413 859655005647 GTPase RsgA; Reviewed; Region: PRK00098 859655005648 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 859655005649 RNA binding site [nucleotide binding]; other site 859655005650 homodimer interface [polypeptide binding]; other site 859655005651 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 859655005652 GTPase/Zn-binding domain interface [polypeptide binding]; other site 859655005653 GTP/Mg2+ binding site [chemical binding]; other site 859655005654 G4 box; other site 859655005655 G5 box; other site 859655005656 G1 box; other site 859655005657 Switch I region; other site 859655005658 G2 box; other site 859655005659 G3 box; other site 859655005660 Switch II region; other site 859655005661 Peptidase family M48; Region: Peptidase_M48; cl12018 859655005662 Zn-dependent protease with chaperone function [Posttranslational modification, protein turnover, chaperones]; Region: HtpX; COG0501 859655005663 DEDDh 3'-5' exonuclease domain of oligoribonuclease and similar proteins; Region: Orn; cd06135 859655005664 catalytic site [active] 859655005665 putative active site [active] 859655005666 putative substrate binding site [chemical binding]; other site 859655005667 dimer interface [polypeptide binding]; other site 859655005668 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 859655005669 MPT binding site; other site 859655005670 trimer interface [polypeptide binding]; other site 859655005671 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3028 859655005672 peptidase PmbA; Provisional; Region: PRK11040 859655005673 Transposase domain (DUF772); Region: DUF772; pfam05598 859655005674 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 859655005675 ergothioneine biosynthesis protein EgtB; Region: egtB_TIGR03440 859655005676 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 859655005677 Uncharacterized conserved protein [Function unknown]; Region: COG4301 859655005678 Uncharacterized conserved protein (DUF2260); Region: DUF2260; pfam10017 859655005679 integral membrane protein, YjbE family; Region: R_switched_YjbE; TIGR03717 859655005680 hypothetical protein; Provisional; Region: PRK06815 859655005681 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 859655005682 tetramer interface [polypeptide binding]; other site 859655005683 pyridoxal 5'-phosphate binding site [chemical binding]; other site 859655005684 catalytic residue [active] 859655005685 thymidylate synthase; Reviewed; Region: thyA; PRK01827 859655005686 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 859655005687 dimerization interface [polypeptide binding]; other site 859655005688 active site 859655005689 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 859655005690 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 859655005691 folate binding site [chemical binding]; other site 859655005692 NADP+ binding site [chemical binding]; other site 859655005693 Transposase domain (DUF772); Region: DUF772; pfam05598 859655005694 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 859655005695 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 859655005696 DEAD-like helicases superfamily; Region: DEXDc; smart00487 859655005697 ATP binding site [chemical binding]; other site 859655005698 Mg++ binding site [ion binding]; other site 859655005699 motif III; other site 859655005700 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 859655005701 nucleotide binding region [chemical binding]; other site 859655005702 ATP-binding site [chemical binding]; other site 859655005703 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 859655005704 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 859655005705 putative ion selectivity filter; other site 859655005706 putative pore gating glutamate residue; other site 859655005707 putative H+/Cl- coupling transport residue; other site 859655005708 3-deoxy-D-manno-oct-2-ulosonic acid (Kdo) hydroxylase; Region: Kdo_hydroxy; pfam11004 859655005709 glutamate and aspartate transporter subunit; Provisional; Region: PRK10797 859655005710 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 859655005711 substrate binding pocket [chemical binding]; other site 859655005712 membrane-bound complex binding site; other site 859655005713 hinge residues; other site 859655005714 ABC transporter ATPase component; Reviewed; Region: PRK11147 859655005715 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 859655005716 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 859655005717 ABC transporter; Region: ABC_tran_2; pfam12848 859655005718 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 859655005719 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 859655005720 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 859655005721 ATP binding site [chemical binding]; other site 859655005722 Mg2+ binding site [ion binding]; other site 859655005723 G-X-G motif; other site 859655005724 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 859655005725 anchoring element; other site 859655005726 dimer interface [polypeptide binding]; other site 859655005727 ATP binding site [chemical binding]; other site 859655005728 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 859655005729 active site 859655005730 metal binding site [ion binding]; metal-binding site 859655005731 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 859655005732 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 859655005733 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 859655005734 N-acetyl-D-glucosamine binding site [chemical binding]; other site 859655005735 catalytic residue [active] 859655005736 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 859655005737 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 859655005738 CAP-like domain; other site 859655005739 active site 859655005740 primary dimer interface [polypeptide binding]; other site 859655005741 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 859655005742 Chromate transport protein ChrA [Inorganic ion transport and metabolism]; Region: ChrA; COG2059 859655005743 Chromate transport protein ChrA [Inorganic ion transport and metabolism]; Region: ChrA; COG2059 859655005744 Transposase domain (DUF772); Region: DUF772; pfam05598 859655005745 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 859655005746 L-lactate permease; Region: Lactate_perm; cl00701 859655005747 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 859655005748 MASE1; Region: MASE1; pfam05231 859655005749 PAS fold; Region: PAS_3; pfam08447 859655005750 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; pfam05721 859655005751 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 859655005752 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 859655005753 putative C-terminal domain interface [polypeptide binding]; other site 859655005754 putative GSH binding site (G-site) [chemical binding]; other site 859655005755 putative dimer interface [polypeptide binding]; other site 859655005756 C-terminal, alpha helical domain of an unknown subfamily 2 of Glutathione S-transferases; Region: GST_C_2; cd03180 859655005757 putative N-terminal domain interface [polypeptide binding]; other site 859655005758 putative dimer interface [polypeptide binding]; other site 859655005759 putative substrate binding pocket (H-site) [chemical binding]; other site 859655005760 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 859655005761 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 859655005762 pyridoxal 5'-phosphate binding site [chemical binding]; other site 859655005763 homodimer interface [polypeptide binding]; other site 859655005764 catalytic residue [active] 859655005765 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 859655005766 homotrimer interaction site [polypeptide binding]; other site 859655005767 putative active site [active] 859655005768 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 859655005769 EamA-like transporter family; Region: EamA; pfam00892 859655005770 Predicted metal-dependent hydrolases related to alanyl-tRNA synthetase HxxxH domain [General function prediction only]; Region: COG2872 859655005771 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 859655005772 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 859655005773 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 859655005774 DNA-binding site [nucleotide binding]; DNA binding site 859655005775 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 859655005776 pyridoxal 5'-phosphate binding site [chemical binding]; other site 859655005777 homodimer interface [polypeptide binding]; other site 859655005778 catalytic residue [active] 859655005779 heat shock protein 90; Provisional; Region: PRK05218 859655005780 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 859655005781 ATP binding site [chemical binding]; other site 859655005782 Mg2+ binding site [ion binding]; other site 859655005783 G-X-G motif; other site 859655005784 MUG-like Uracil-DNA glycosylase enzyme family; Region: UDG_MUG_like; cd10032 859655005785 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; cd00338 859655005786 catalytic residues [active] 859655005787 catalytic nucleophile [active] 859655005788 MUG-like Uracil-DNA glycosylase enzyme family; Region: UDG_MUG_like; cd10032 859655005789 putative active site [active] 859655005790 Predicted flavoprotein [General function prediction only]; Region: COG0431 859655005791 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 859655005792 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 859655005793 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 859655005794 putative substrate translocation pore; other site 859655005795 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 859655005796 putative substrate translocation pore; other site 859655005797 Major Facilitator Superfamily; Region: MFS_1; pfam07690 859655005798 MarR family; Region: MarR_2; cl17246 859655005799 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 859655005800 Putative hydrophobic ligand-binding SRPBCC domain of Micromonospora echinospora CalC, human Aha1, and related proteins; Region: SRPBCC_CalC_Aha1-like; cd07814 859655005801 putative hydrophobic ligand binding site [chemical binding]; other site 859655005802 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 859655005803 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 859655005804 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cd00299 859655005805 N-terminal domain interface [polypeptide binding]; other site 859655005806 dimer interface [polypeptide binding]; other site 859655005807 substrate binding pocket (H-site) [chemical binding]; other site 859655005808 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 859655005809 dimerization interface [polypeptide binding]; other site 859655005810 putative DNA binding site [nucleotide binding]; other site 859655005811 putative Zn2+ binding site [ion binding]; other site 859655005812 Uncharacterized protein conserved in bacteria containing a divergent form of TPR repeats [Function unknown]; Region: COG4700 859655005813 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 859655005814 Spermidine synthase [Amino acid transport and metabolism]; Region: SpeE; COG0421 859655005815 S-adenosylmethionine binding site [chemical binding]; other site 859655005816 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3825 859655005817 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 859655005818 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 859655005819 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 859655005820 Walker A motif; other site 859655005821 ATP binding site [chemical binding]; other site 859655005822 Walker B motif; other site 859655005823 arginine finger; other site 859655005824 Cytochrome c553 [Energy production and conversion]; Region: COG2863 859655005825 Cytochrome c553 [Energy production and conversion]; Region: COG2863 859655005826 Insertion element 4 transposase N-terminal; Region: Nterm_IS4; pfam13006 859655005827 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 859655005828 Domain of unknown function (DUF1841); Region: DUF1841; pfam08897 859655005829 EamA-like transporter family; Region: EamA; pfam00892 859655005830 EamA-like transporter family; Region: EamA; pfam00892 859655005831 Carboxypeptidase C (cathepsin A) [Amino acid transport and metabolism]; Region: COG2939 859655005832 Serine carboxypeptidase; Region: Peptidase_S10; cl08270 859655005833 Nitroreductase-like family 5. 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_5; cd02148 859655005834 putative FMN binding site [chemical binding]; other site 859655005835 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 859655005836 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 859655005837 minor groove reading motif; other site 859655005838 helix-hairpin-helix signature motif; other site 859655005839 substrate binding pocket [chemical binding]; other site 859655005840 active site 859655005841 ferredoxin; Provisional; Region: PRK06991 859655005842 Putative Fe-S cluster; Region: FeS; pfam04060 859655005843 4Fe-4S binding domain; Region: Fer4; pfam00037 859655005844 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 859655005845 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 859655005846 Transposase domain (DUF772); Region: DUF772; pfam05598 859655005847 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 859655005848 Poly-beta-hydroxyalkanoate depolymerase [Lipid metabolism]; Region: DepA; COG4553 859655005849 PHB de-polymerase C-terminus; Region: PHB_depo_C; pfam06850 859655005850 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 859655005851 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 859655005852 pyridoxal 5'-phosphate binding site [chemical binding]; other site 859655005853 homodimer interface [polypeptide binding]; other site 859655005854 catalytic residue [active] 859655005855 excinuclease ABC subunit B; Provisional; Region: PRK05298 859655005856 Myosin and Kinesin motor domain. These ATPases belong to the P-loop NTPase family and provide the driving force in myosin and kinesin mediated processes; Region: Motor_domain; cl00286 859655005857 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 859655005858 ATP-binding site [chemical binding]; other site 859655005859 ATP binding site [chemical binding]; other site 859655005860 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 859655005861 nucleotide binding region [chemical binding]; other site 859655005862 ATP-binding site [chemical binding]; other site 859655005863 Ultra-violet resistance protein B; Region: UvrB; pfam12344 859655005864 UvrB/uvrC motif; Region: UVR; pfam02151 859655005865 Site-specific recombinase [DNA replication, recombination, and repair]; Region: COG4389 859655005866 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 859655005867 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 859655005868 substrate binding site [chemical binding]; other site 859655005869 dimer interface [polypeptide binding]; other site 859655005870 ATP binding site [chemical binding]; other site 859655005871 Transcriptional regulators [Transcription]; Region: PurR; COG1609 859655005872 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 859655005873 DNA binding site [nucleotide binding] 859655005874 domain linker motif; other site 859655005875 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 859655005876 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 859655005877 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 859655005878 TM-ABC transporter signature motif; other site 859655005879 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 859655005880 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 859655005881 Walker A/P-loop; other site 859655005882 ATP binding site [chemical binding]; other site 859655005883 Q-loop/lid; other site 859655005884 ABC transporter signature motif; other site 859655005885 Walker B; other site 859655005886 D-loop; other site 859655005887 H-loop/switch region; other site 859655005888 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 859655005889 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 859655005890 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 859655005891 ligand binding site [chemical binding]; other site 859655005892 Predicted transcriptional regulator [Transcription]; Region: COG1959 859655005893 iron-sulfur cluster assembly transcription factor IscR; Region: IscR; TIGR02010 859655005894 cysteine desulfurase; Provisional; Region: PRK14012 859655005895 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 859655005896 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 859655005897 catalytic residue [active] 859655005898 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 859655005899 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 859655005900 trimerization site [polypeptide binding]; other site 859655005901 active site 859655005902 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 859655005903 Protein of unknown function (DUF3565); Region: DUF3565; pfam12088 859655005904 co-chaperone HscB; Provisional; Region: hscB; PRK03578 859655005905 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 859655005906 HSP70 interaction site [polypeptide binding]; other site 859655005907 HSCB C-terminal oligomerisation domain; Region: HSCB_C; pfam07743 859655005908 chaperone protein HscA; Provisional; Region: hscA; PRK05183 859655005909 Nucleotide-binding domain of HscA and similar proteins; Region: HscA_like_NBD; cd10236 859655005910 nucleotide binding site [chemical binding]; other site 859655005911 putative NEF/HSP70 interaction site [polypeptide binding]; other site 859655005912 SBD interface [polypeptide binding]; other site 859655005913 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 859655005914 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 859655005915 catalytic loop [active] 859655005916 iron binding site [ion binding]; other site 859655005917 FeS assembly protein IscX; Region: iscX_yfhJ; TIGR03412 859655005918 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 859655005919 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 859655005920 dimer interface [polypeptide binding]; other site 859655005921 putative anticodon binding site; other site 859655005922 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 859655005923 motif 1; other site 859655005924 active site 859655005925 motif 2; other site 859655005926 motif 3; other site 859655005927 short chain dehydrogenase; Provisional; Region: PRK07023 859655005928 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 859655005929 NAD(P) binding site [chemical binding]; other site 859655005930 active site 859655005931 peptide chain release factor 2; Provisional; Region: PRK08787 859655005932 This domain is found in peptide chain release factors; Region: PCRF; smart00937 859655005933 RF-1 domain; Region: RF-1; pfam00472 859655005934 nicotinate phosphoribosyltransferase; Region: NAPRTase; TIGR01514 859655005935 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 859655005936 active site 859655005937 Uncharacterized conserved protein [Function unknown]; Region: COG1556 859655005938 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 859655005939 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 859655005940 transmembrane helices; other site 859655005941 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 859655005942 D-glycerate dehydrogenase/hydroxypyruvate reductase (GDH); Region: GDH; cd05301 859655005943 dimerization interface [polypeptide binding]; other site 859655005944 ligand binding site [chemical binding]; other site 859655005945 NADP binding site [chemical binding]; other site 859655005946 catalytic site [active] 859655005947 Predicted nuclease of restriction endonuclease-like fold, RmuC family [General function prediction only]; Region: COG1322 859655005948 RmuC family; Region: RmuC; pfam02646 859655005949 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 859655005950 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 859655005951 dimer interface [polypeptide binding]; other site 859655005952 putative functional site; other site 859655005953 putative MPT binding site; other site 859655005954 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 859655005955 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 859655005956 GTP binding site; other site 859655005957 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 859655005958 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 859655005959 FeS/SAM binding site; other site 859655005960 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 859655005961 Ribonucleases G and E [Translation, ribosomal structure and biogenesis]; Region: CafA; COG1530 859655005962 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 859655005963 homodimer interface [polypeptide binding]; other site 859655005964 oligonucleotide binding site [chemical binding]; other site 859655005965 23S rRNA pseudouridylate synthase C; Provisional; Region: PRK11025 859655005966 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 859655005967 RNA binding surface [nucleotide binding]; other site 859655005968 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 859655005969 active site 859655005970 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 859655005971 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 859655005972 motif II; other site 859655005973 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 859655005974 iron-sulfur cluster [ion binding]; other site 859655005975 [2Fe-2S] cluster binding site [ion binding]; other site 859655005976 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 859655005977 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 859655005978 tandem repeat interface [polypeptide binding]; other site 859655005979 oligomer interface [polypeptide binding]; other site 859655005980 active site residues [active] 859655005981 Uncharacterized subfamily of the tetrapyrrole methylase family similar to ribosomal RNA small subunit methyltransferase I (RsmI); Region: RsmI_like; cd11649 859655005982 putative SAM binding site [chemical binding]; other site 859655005983 homodimer interface [polypeptide binding]; other site 859655005984 Maf-like protein; Region: Maf; pfam02545 859655005985 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 859655005986 active site 859655005987 dimer interface [polypeptide binding]; other site 859655005988 Uncharacterized ACR, COG1399; Region: DUF177; cl00616 859655005989 50S ribosomal protein L32; Validated; Region: rpmF; PRK01110 859655005990 putative phosphate acyltransferase; Provisional; Region: PRK05331 859655005991 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 859655005992 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 859655005993 dimer interface [polypeptide binding]; other site 859655005994 active site 859655005995 CoA binding pocket [chemical binding]; other site 859655005996 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 859655005997 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 859655005998 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 859655005999 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 859655006000 NAD(P) binding site [chemical binding]; other site 859655006001 homotetramer interface [polypeptide binding]; other site 859655006002 homodimer interface [polypeptide binding]; other site 859655006003 active site 859655006004 acyl carrier protein; Provisional; Region: acpP; PRK00982 859655006005 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK07314 859655006006 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 859655006007 dimer interface [polypeptide binding]; other site 859655006008 active site 859655006009 RNA polymerase sigma factor RpoE; Region: RpoE_Sigma70; TIGR02939 859655006010 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 859655006011 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 859655006012 DNA binding residues [nucleotide binding] 859655006013 Negative regulator of sigma E activity [Signal transduction mechanisms]; Region: RseA; COG3073 859655006014 Anti sigma-E protein RseA, N-terminal domain; Region: RseA_N; pfam03872 859655006015 Negative regulator of sigma E activity [Signal transduction mechanisms]; Region: RseB; COG3026 859655006016 anti-sigma E factor; Provisional; Region: rseB; PRK09455 859655006017 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 859655006018 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 859655006019 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 859655006020 protein binding site [polypeptide binding]; other site 859655006021 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 859655006022 protein binding site [polypeptide binding]; other site 859655006023 Glutaredoxin-like domain (DUF836); Region: DUF836; pfam05768 859655006024 GTP-binding protein LepA; Provisional; Region: PRK05433 859655006025 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 859655006026 G1 box; other site 859655006027 putative GEF interaction site [polypeptide binding]; other site 859655006028 GTP/Mg2+ binding site [chemical binding]; other site 859655006029 Switch I region; other site 859655006030 G2 box; other site 859655006031 G3 box; other site 859655006032 Switch II region; other site 859655006033 G4 box; other site 859655006034 G5 box; other site 859655006035 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 859655006036 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 859655006037 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 859655006038 signal peptidase I; Provisional; Region: PRK10861 859655006039 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 859655006040 Catalytic site [active] 859655006041 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 859655006042 ribonuclease III; Reviewed; Region: rnc; PRK00102 859655006043 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 859655006044 dimerization interface [polypeptide binding]; other site 859655006045 active site 859655006046 metal binding site [ion binding]; metal-binding site 859655006047 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 859655006048 dsRNA binding site [nucleotide binding]; other site 859655006049 GTPase Era; Reviewed; Region: era; PRK00089 859655006050 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 859655006051 G1 box; other site 859655006052 GTP/Mg2+ binding site [chemical binding]; other site 859655006053 Switch I region; other site 859655006054 G2 box; other site 859655006055 Switch II region; other site 859655006056 G3 box; other site 859655006057 G4 box; other site 859655006058 G5 box; other site 859655006059 KH domain; Region: KH_2; pfam07650 859655006060 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 859655006061 Recombination protein O N terminal; Region: RecO_N; pfam11967 859655006062 Recombination protein O C terminal; Region: RecO_C; pfam02565 859655006063 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 859655006064 active site 859655006065 hydrophilic channel; other site 859655006066 dimerization interface [polypeptide binding]; other site 859655006067 catalytic residues [active] 859655006068 active site lid [active] 859655006069 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 859655006070 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 859655006071 beta-hexosaminidase; Provisional; Region: PRK05337 859655006072 elongation factor P; Validated; Region: PRK00529 859655006073 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 859655006074 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 859655006075 RNA binding site [nucleotide binding]; other site 859655006076 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 859655006077 RNA binding site [nucleotide binding]; other site 859655006078 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4394 859655006079 Uncharacterized protein conserved in bacteria (DUF2331); Region: DUF2331; pfam10093 859655006080 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 859655006081 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 859655006082 GIY-YIG motif/motif A; other site 859655006083 active site 859655006084 catalytic site [active] 859655006085 putative DNA binding site [nucleotide binding]; other site 859655006086 metal binding site [ion binding]; metal-binding site 859655006087 UvrB/uvrC motif; Region: UVR; pfam02151 859655006088 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 859655006089 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 859655006090 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 859655006091 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 859655006092 active site 859655006093 phosphorylation site [posttranslational modification] 859655006094 intermolecular recognition site; other site 859655006095 dimerization interface [polypeptide binding]; other site 859655006096 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 859655006097 DNA binding site [nucleotide binding] 859655006098 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4254 859655006099 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 859655006100 FecR protein; Region: FecR; pfam04773 859655006101 Predicted transmembrane sensor domain [Signal transduction mechanisms]; Region: COG4252 859655006102 CHASE2 domain; Region: CHASE2; pfam05226 859655006103 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 859655006104 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 859655006105 dimer interface [polypeptide binding]; other site 859655006106 phosphorylation site [posttranslational modification] 859655006107 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 859655006108 ATP binding site [chemical binding]; other site 859655006109 Mg2+ binding site [ion binding]; other site 859655006110 G-X-G motif; other site 859655006111 Evidence 4 : Homologs of previously reported genes of unknown function 859655006112 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 859655006113 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 859655006114 DNA binding site [nucleotide binding] 859655006115 Predicted membrane protein [Function unknown]; Region: COG2261 859655006116 Transcriptional regulators [Transcription]; Region: FadR; COG2186 859655006117 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 859655006118 DNA-binding site [nucleotide binding]; DNA binding site 859655006119 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 859655006120 glucarate dehydratase; Region: glucar-dehydr; TIGR03247 859655006121 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 859655006122 active site 859655006123 tetramer interface [polypeptide binding]; other site 859655006124 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 859655006125 D-galactonate transporter; Region: 2A0114; TIGR00893 859655006126 putative substrate translocation pore; other site 859655006127 Alpha-glucosidases, family 31 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: COG1501 859655006128 Galactose mutarotase-like; Region: Gal_mutarotas_2; pfam13802 859655006129 Glycosyl hydrolase family 31 (GH31) domain of a bacterial protein family represented by Escherichia coli protein Aec37. The gene encoding Aec37 (aec-37) is located within a genomic island (AGI-3) isolated from the extraintestinal avian pathogenic...; Region: GH31_glycosidase_Aec37; cd06599 859655006130 putative active site [active] 859655006131 putative catalytic site [active] 859655006132 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 859655006133 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 859655006134 trimer interface [polypeptide binding]; other site 859655006135 eyelet of channel; other site 859655006136 aldose 1-epimerase, similar to Escherichia coli YphB; Region: Aldose_epim_Ec_YphB; cd09021 859655006137 active site 859655006138 catalytic residues [active] 859655006139 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 859655006140 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 859655006141 trimer interface [polypeptide binding]; other site 859655006142 eyelet of channel; other site 859655006143 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 859655006144 maleylacetoacetate isomerase; Region: maiA; TIGR01262 859655006145 C-terminal domain interface [polypeptide binding]; other site 859655006146 GSH binding site (G-site) [chemical binding]; other site 859655006147 putative dimer interface [polypeptide binding]; other site 859655006148 C-terminal, alpha helical domain of Class Zeta Glutathione S-transferases; Region: GST_C_Zeta; cd03191 859655006149 dimer interface [polypeptide binding]; other site 859655006150 N-terminal domain interface [polypeptide binding]; other site 859655006151 maleylacetoacetate (MAA) substrate binding site (H site) [chemical binding]; other site 859655006152 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 859655006153 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 859655006154 gentisate 1,2-dioxygenase; Region: gentisate_1_2; TIGR02272 859655006155 Cupin domain; Region: Cupin_2; pfam07883 859655006156 Mif2/CENP-C like; Region: Mif2; pfam11699 859655006157 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 859655006158 [2Fe-2S] cluster binding site [ion binding]; other site 859655006159 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 859655006160 inter-subunit interface; other site 859655006161 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 859655006162 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 859655006163 iron-sulfur cluster [ion binding]; other site 859655006164 [2Fe-2S] cluster binding site [ion binding]; other site 859655006165 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 859655006166 putative alpha subunit interface [polypeptide binding]; other site 859655006167 putative active site [active] 859655006168 putative substrate binding site [chemical binding]; other site 859655006169 Fe binding site [ion binding]; other site 859655006170 CDP-6-deoxy-delta-3,4-glucoseen reductase; Validated; Region: PRK07609 859655006171 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 859655006172 catalytic loop [active] 859655006173 iron binding site [ion binding]; other site 859655006174 The oxygenase reductase FAD/NADH binding domain acts as part of the multi-component bacterial oxygenases which oxidize hydrocarbons using oxygen as the oxidant. Electron transfer is from NADH via FAD (in the oxygenase reductase) and an [2FE-2S]...; Region: O2ase_reductase_like; cd06187 859655006175 FAD binding pocket [chemical binding]; other site 859655006176 FAD binding motif [chemical binding]; other site 859655006177 phosphate binding motif [ion binding]; other site 859655006178 beta-alpha-beta structure motif; other site 859655006179 NAD binding pocket [chemical binding]; other site 859655006180 Transcriptional regulator [Transcription]; Region: LysR; COG0583 859655006181 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 859655006182 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 859655006183 substrate binding pocket [chemical binding]; other site 859655006184 dimerization interface [polypeptide binding]; other site 859655006185 benzoate transport; Region: 2A0115; TIGR00895 859655006186 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 859655006187 putative substrate translocation pore; other site 859655006188 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 859655006189 putative substrate translocation pore; other site 859655006190 Transcriptional regulator [Transcription]; Region: LysR; COG0583 859655006191 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 859655006192 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 859655006193 putative dimerization interface [polypeptide binding]; other site 859655006194 Predicted permeases [General function prediction only]; Region: COG0679 859655006195 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 859655006196 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 859655006197 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 859655006198 non-specific DNA binding site [nucleotide binding]; other site 859655006199 salt bridge; other site 859655006200 sequence-specific DNA binding site [nucleotide binding]; other site 859655006201 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 859655006202 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 859655006203 conserved cys residue [active] 859655006204 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 859655006205 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 859655006206 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 859655006207 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 859655006208 sarcosine oxidase, beta subunit family, heterotetrameric form; Region: soxB; TIGR01373 859655006209 hydroxyglutarate oxidase; Provisional; Region: PRK11728 859655006210 Sarcosine oxidase delta subunit [Amino acid transport and metabolism]; Region: SoxD; COG4311 859655006211 sarcosine oxidase, alpha subunit family, heterotetrameric form; Region: soxA; TIGR01372 859655006212 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_4; pfam13510 859655006213 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 859655006214 Sarcosine oxidase gamma subunit [Amino acid transport and metabolism]; Region: COG4583 859655006215 Dihydroneopterin aldolase [Coenzyme metabolism]; Region: FolB; COG1539 859655006216 active site 859655006217 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK13010 859655006218 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 859655006219 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 859655006220 putative active site [active] 859655006221 putative substrate binding site [chemical binding]; other site 859655006222 putative cosubstrate binding site; other site 859655006223 catalytic site [active] 859655006224 putative DNA-binding transcriptional regulator; Provisional; Region: PRK10837 859655006225 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 859655006226 putative dimerization interface [polypeptide binding]; other site 859655006227 Predicted membrane protein [Function unknown]; Region: COG2855 859655006228 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 859655006229 MarR family; Region: MarR_2; pfam12802 859655006230 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4312 859655006231 Helix-turn-helix domain; Region: HTH_17; pfam12728 859655006232 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 859655006233 RT_Bac_retron_I: Reverse transcriptases (RTs) in bacterial retrotransposons or retrons. The polymerase reaction of this enzyme leads to the production of a unique RNA-DNA complex called msDNA (multicopy single-stranded (ss)DNA) in which a small ssDNA...; Region: RT_Bac_retron_I; cd01646 859655006234 putative active site [active] 859655006235 putative NTP binding site [chemical binding]; other site 859655006236 putative nucleic acid binding site [nucleotide binding]; other site 859655006237 6-phosphofructokinase, eukaryotic type; Region: 6PF1K_euk; TIGR02478 859655006238 YqaJ-like viral recombinase domain; Region: YqaJ; pfam09588 859655006239 KTSC domain; Region: KTSC; pfam13619 859655006240 Predicted transcriptional regulator [Transcription]; Region: COG2932 859655006241 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 859655006242 salt bridge; other site 859655006243 non-specific DNA binding site [nucleotide binding]; other site 859655006244 sequence-specific DNA binding site [nucleotide binding]; other site 859655006245 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 859655006246 Catalytic site [active] 859655006247 MarR family; Region: MarR_2; cl17246 859655006248 DEAD-like helicases superfamily; Region: DEXDc; smart00487 859655006249 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 859655006250 nucleotide binding region [chemical binding]; other site 859655006251 ATP-binding site [chemical binding]; other site 859655006252 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 859655006253 DNA methylase; Region: N6_N4_Mtase; pfam01555 859655006254 T5orf172 domain; Region: T5orf172; pfam10544 859655006255 Protein of unknown function (DUF968); Region: DUF968; pfam06147 859655006256 Predicted transcriptional regulator [Transcription]; Region: COG2944 859655006257 Uncharacterized conserved protein (DUF2280); Region: DUF2280; pfam10045 859655006258 Terminase-like family; Region: Terminase_6; pfam03237 859655006259 Domain of unknown function (DUF4055); Region: DUF4055; pfam13264 859655006260 P22 coat protein - gene protein 5; Region: P22_CoatProtein; pfam11651 859655006261 HeH/LEM domain; Region: HeH; pfam12949 859655006262 Phage tail sheath protein; Region: Phage_sheath_1; cl01389 859655006263 Uncharacterized protein containing LysM domain [Function unknown]; Region: XkdP; COG1652 859655006264 Phage late control gene D protein (GPD); Region: Phage_GPD; cl15796 859655006265 phage baseplate assembly protein V; Region: phage_P2_V; TIGR01644 859655006266 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 859655006267 Bacteriophage Mu Gp45 protein; Region: Phage_Mu_Gp45; cl15410 859655006268 Baseplate J-like protein; Region: Baseplate_J; pfam04865 859655006269 Left-handed beta-roll, including virulence factors and various other proteins; Region: LbR-like; cl17507 859655006270 trimer interface [polypeptide binding]; other site 859655006271 Domain of unknown function (DUF4376); Region: DUF4376; pfam14301 859655006272 GDSL-like Lipase/Acylhydrolase family; Region: Lipase_GDSL_2; pfam13472 859655006273 active site 859655006274 oxyanion hole [active] 859655006275 Predicted chitinase [General function prediction only]; Region: COG3179 859655006276 catalytic residue [active] 859655006277 Lipase (class 3). 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...; Region: Lipase_3; cd00519 859655006278 active site flap/lid [active] 859655006279 nucleophilic elbow; other site 859655006280 catalytic triad [active] 859655006281 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 859655006282 active site 859655006283 DNA binding site [nucleotide binding] 859655006284 Int/Topo IB signature motif; other site 859655006285 Ferredoxin [Energy production and conversion]; Region: COG1146 859655006286 4Fe-4S binding domain; Region: Fer4; pfam00037 859655006287 Domain of unknown function (DUF3470); Region: DUF3470; pfam11953 859655006288 ssDNA exonuclease RecJ; Provisional; Region: PRK11070 859655006289 DHH family; Region: DHH; pfam01368 859655006290 DHHA1 domain; Region: DHHA1; pfam02272 859655006291 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4255 859655006292 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 859655006293 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 859655006294 FtsX-like permease family; Region: FtsX; pfam02687 859655006295 lipoprotein releasing system, ATP-binding protein; Region: LolD_lipo_ex; TIGR02211 859655006296 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 859655006297 Walker A/P-loop; other site 859655006298 ATP binding site [chemical binding]; other site 859655006299 Q-loop/lid; other site 859655006300 ABC transporter signature motif; other site 859655006301 Walker B; other site 859655006302 D-loop; other site 859655006303 H-loop/switch region; other site 859655006304 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 859655006305 active site 859655006306 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 859655006307 DNA internalization-related competence protein ComEC/Rec2; Region: ComEC_Rec2; TIGR00361 859655006308 Competence protein; Region: Competence; pfam03772 859655006309 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 859655006310 Uncharacterized conserved protein [Function unknown]; Region: COG2308 859655006311 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2307 859655006312 A predicted alpha-helical domain with a conserved ER motif; Region: Alpha-E; pfam04168 859655006313 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 859655006314 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 859655006315 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 859655006316 Predicted proteasome-type protease [Posttranslational modification, protein turnover, chaperones]; Region: COG3484 859655006317 Bacterial proteasome, beta subunit. The 20S proteasome, multisubunit proteolytic complex, is the central enzyme of nonlysosomal protein degradation in both the cytosol and nucleus. It is composed of 28 subunits arranged as four homoheptameric rings that...; Region: proteasome_beta_bacterial; cd03765 859655006318 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 859655006319 Serine hydrolase; Region: Ser_hydrolase; cl17834 859655006320 CTP synthetase; Validated; Region: pyrG; PRK05380 859655006321 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 859655006322 Catalytic site [active] 859655006323 active site 859655006324 UTP binding site [chemical binding]; other site 859655006325 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 859655006326 active site 859655006327 putative oxyanion hole; other site 859655006328 catalytic triad [active] 859655006329 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 859655006330 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 859655006331 Uncharacterized conserved protein [Function unknown]; Region: COG5470 859655006332 enolase; Provisional; Region: eno; PRK00077 859655006333 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 859655006334 dimer interface [polypeptide binding]; other site 859655006335 metal binding site [ion binding]; metal-binding site 859655006336 substrate binding pocket [chemical binding]; other site 859655006337 cell division protein FtsB; Reviewed; Region: ftsB; PRK00888 859655006338 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 859655006339 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 859655006340 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 859655006341 dimerization interface [polypeptide binding]; other site 859655006342 domain crossover interface; other site 859655006343 redox-dependent activation switch; other site 859655006344 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 859655006345 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 859655006346 trimer interface [polypeptide binding]; other site 859655006347 putative metal binding site [ion binding]; other site 859655006348 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 859655006349 dinuclear metal binding motif [ion binding]; other site 859655006350 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 859655006351 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 859655006352 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 859655006353 Predicted thiol-disulfide oxidoreductase [General function prediction only]; Region: COG3011 859655006354 Domain of unknown function (DUF4166); Region: DUF4166; pfam13761 859655006355 Shikimate / quinate 5-dehydrogenase; Region: Shikimate_DH; pfam01488 859655006356 Saccharopine dehydrogenase; Region: Saccharop_dh; pfam03435 859655006357 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 859655006358 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 859655006359 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 859655006360 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 859655006361 active site 859655006362 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 859655006363 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 859655006364 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 859655006365 Peptidase family M50; Region: Peptidase_M50; pfam02163 859655006366 active site 859655006367 putative substrate binding region [chemical binding]; other site 859655006368 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 859655006369 active site 859655006370 HIGH motif; other site 859655006371 dimer interface [polypeptide binding]; other site 859655006372 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 859655006373 active site 859655006374 KMSKS motif; other site 859655006375 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 859655006376 S-adenosylmethionine binding site [chemical binding]; other site 859655006377 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 859655006378 dihydrodipicolinate synthase; Region: dapA; TIGR00674 859655006379 dimer interface [polypeptide binding]; other site 859655006380 active site 859655006381 catalytic residue [active] 859655006382 Uncharacterized lipoprotein [Cell envelope biogenesis, outer membrane]; Region: NlpB; COG3317 859655006383 NlpB/DapX lipoprotein; Region: Lipoprotein_18; pfam06804 859655006384 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 859655006385 Uncharacterized conserved protein [Function unknown]; Region: COG2850 859655006386 Cupin-like domain; Region: Cupin_8; pfam13621 859655006387 FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]; Region: SlpA; COG1047 859655006388 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 859655006389 MutS domain I; Region: MutS_I; pfam01624 859655006390 MutS domain II; Region: MutS_II; pfam05188 859655006391 MutS domain III; Region: MutS_III; pfam05192 859655006392 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 859655006393 Walker A/P-loop; other site 859655006394 ATP binding site [chemical binding]; other site 859655006395 Q-loop/lid; other site 859655006396 ABC transporter signature motif; other site 859655006397 Walker B; other site 859655006398 D-loop; other site 859655006399 H-loop/switch region; other site 859655006400 Transcriptional regulator [Transcription]; Region: LysR; COG0583 859655006401 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 859655006402 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 859655006403 dimerization interface [polypeptide binding]; other site 859655006404 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 859655006405 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 859655006406 putative substrate translocation pore; other site 859655006407 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 859655006408 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 859655006409 active site 859655006410 catalytic tetrad [active] 859655006411 Cache domain; Region: Cache_2; pfam08269 859655006412 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 859655006413 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 859655006414 dimer interface [polypeptide binding]; other site 859655006415 putative CheW interface [polypeptide binding]; other site 859655006416 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cl00144 859655006417 dimer interface [polypeptide binding]; other site 859655006418 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 859655006419 dimerization interface [polypeptide binding]; other site 859655006420 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 859655006421 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 859655006422 dimer interface [polypeptide binding]; other site 859655006423 putative CheW interface [polypeptide binding]; other site 859655006424 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2258 859655006425 MOSC domain; Region: MOSC; pfam03473 859655006426 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 859655006427 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 859655006428 catalytic triad [active] 859655006429 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pr : putative regulator 859655006430 Transposase domain (DUF772); Region: DUF772; pfam05598 859655006431 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 859655006432 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 859655006433 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 859655006434 active site 859655006435 dimerization interface [polypeptide binding]; other site 859655006436 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 859655006437 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 859655006438 Serine acetyltransferase [Amino acid transport and metabolism]; Region: CysE; COG1045 859655006439 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 859655006440 trimer interface [polypeptide binding]; other site 859655006441 active site 859655006442 substrate binding site [chemical binding]; other site 859655006443 CoA binding site [chemical binding]; other site 859655006444 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 859655006445 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 859655006446 putative active site [active] 859655006447 putative metal binding site [ion binding]; other site 859655006448 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 859655006449 substrate binding site [chemical binding]; other site 859655006450 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 859655006451 substrate binding site [chemical binding]; other site 859655006452 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 859655006453 binding surface 859655006454 TPR motif; other site 859655006455 TPR repeat; Region: TPR_11; pfam13414 859655006456 TPR repeat; Region: TPR_11; pfam13414 859655006457 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 859655006458 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 859655006459 active site 859655006460 HIGH motif; other site 859655006461 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 859655006462 KMSKS motif; other site 859655006463 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 859655006464 tRNA binding surface [nucleotide binding]; other site 859655006465 anticodon binding site; other site 859655006466 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 859655006467 endonuclease III; Region: ENDO3c; smart00478 859655006468 minor groove reading motif; other site 859655006469 helix-hairpin-helix signature motif; other site 859655006470 substrate binding pocket [chemical binding]; other site 859655006471 active site 859655006472 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 859655006473 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 859655006474 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 859655006475 tRNA(Ile)-lysidine synthetase; Provisional; Region: tilS; PRK10660 859655006476 Ligand Binding Site [chemical binding]; other site 859655006477 TilS substrate binding domain; Region: TilS; pfam09179 859655006478 TilS substrate C-terminal domain; Region: TilS_C; pfam11734 859655006479 aspartate kinase; Reviewed; Region: PRK06635 859655006480 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 859655006481 putative nucleotide binding site [chemical binding]; other site 859655006482 putative catalytic residues [active] 859655006483 putative Mg ion binding site [ion binding]; other site 859655006484 putative aspartate binding site [chemical binding]; other site 859655006485 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 859655006486 putative allosteric regulatory site; other site 859655006487 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 859655006488 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK06997 859655006489 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 859655006490 NAD binding site [chemical binding]; other site 859655006491 homotetramer interface [polypeptide binding]; other site 859655006492 homodimer interface [polypeptide binding]; other site 859655006493 substrate binding site [chemical binding]; other site 859655006494 active site 859655006495 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 859655006496 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 859655006497 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4174 859655006498 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 859655006499 dimer interface [polypeptide binding]; other site 859655006500 conserved gate region; other site 859655006501 putative PBP binding loops; other site 859655006502 ABC-ATPase subunit interface; other site 859655006503 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4239 859655006504 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 859655006505 dimer interface [polypeptide binding]; other site 859655006506 conserved gate region; other site 859655006507 putative PBP binding loops; other site 859655006508 ABC-ATPase subunit interface; other site 859655006509 ABC-type uncharacterized transport system, duplicated ATPase component [General function prediction only]; Region: COG4172 859655006510 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 859655006511 Walker A/P-loop; other site 859655006512 ATP binding site [chemical binding]; other site 859655006513 Q-loop/lid; other site 859655006514 ABC transporter signature motif; other site 859655006515 Walker B; other site 859655006516 D-loop; other site 859655006517 H-loop/switch region; other site 859655006518 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 859655006519 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 859655006520 Walker A/P-loop; other site 859655006521 ATP binding site [chemical binding]; other site 859655006522 Q-loop/lid; other site 859655006523 ABC transporter signature motif; other site 859655006524 Walker B; other site 859655006525 D-loop; other site 859655006526 H-loop/switch region; other site 859655006527 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 859655006528 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 859655006529 NlpC/P60 family; Region: NLPC_P60; pfam00877 859655006530 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 859655006531 Patatin-like phospholipase domain containing protein 6, protein 7, and fungal NTE1; Region: Pat_PNPLA6_PNPLA7_NTE1_like; cd07205 859655006532 nucleophile elbow; other site 859655006533 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 859655006534 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 859655006535 active site 859655006536 HIGH motif; other site 859655006537 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 859655006538 active site 859655006539 KMSKS motif; other site 859655006540 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 859655006541 putative efflux protein, MATE family; Region: matE; TIGR00797 859655006542 cation binding site [ion binding]; other site 859655006543 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 859655006544 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 859655006545 50S ribosomal protein L31 type B; Reviewed; Region: rpmE2; PRK01678 859655006546 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3228 859655006547 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 859655006548 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 859655006549 active site 859655006550 phosphorylation site [posttranslational modification] 859655006551 intermolecular recognition site; other site 859655006552 dimerization interface [polypeptide binding]; other site 859655006553 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 859655006554 DNA binding residues [nucleotide binding] 859655006555 dimerization interface [polypeptide binding]; other site 859655006556 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 859655006557 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 859655006558 Walker A motif; other site 859655006559 ATP binding site [chemical binding]; other site 859655006560 Walker B motif; other site 859655006561 arginine finger; other site 859655006562 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 859655006563 transcription termination factor Rho; Provisional; Region: rho; PRK09376 859655006564 Rho termination factor, N-terminal domain; Region: Rho_N; smart00959 859655006565 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 859655006566 RNA binding site [nucleotide binding]; other site 859655006567 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 859655006568 multimer interface [polypeptide binding]; other site 859655006569 Walker A motif; other site 859655006570 ATP binding site [chemical binding]; other site 859655006571 Walker B motif; other site 859655006572 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 859655006573 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 859655006574 catalytic residues [active] 859655006575 Inactivated superfamily I helicase [DNA replication, recombination, and repair]; Region: COG3893 859655006576 RecB family exonuclease [DNA replication, recombination, and repair]; Region: COG2887 859655006577 ATP-dependent exoDNAse (exonuclease V) beta subunit (contains helicase and exonuclease domains) [DNA replication, recombination, and repair]; Region: RecB; COG1074 859655006578 Family description; Region: UvrD_C_2; pfam13538 859655006579 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 859655006580 DNA polymerase III, subunit gamma and tau; Region: dnaX_nterm; TIGR02397 859655006581 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 859655006582 Walker A motif; other site 859655006583 ATP binding site [chemical binding]; other site 859655006584 Walker B motif; other site 859655006585 DNA polymerase III subunit delta'; Validated; Region: PRK08485 859655006586 arginine finger; other site 859655006587 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 859655006588 hypothetical protein; Validated; Region: PRK00153 859655006589 recombination protein RecR; Reviewed; Region: recR; PRK00076 859655006590 RecR protein; Region: RecR; pfam02132 859655006591 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 859655006592 putative active site [active] 859655006593 putative metal-binding site [ion binding]; other site 859655006594 tetramer interface [polypeptide binding]; other site 859655006595 Carbohydrate-selective porin, OprB family; Region: OprB; pfam04966 859655006596 Transcriptional regulator [Transcription]; Region: LysR; COG0583 859655006597 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 859655006598 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 859655006599 putative dimerization interface [polypeptide binding]; other site 859655006600 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 859655006601 CoA-transferase family III; Region: CoA_transf_3; pfam02515 859655006602 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 859655006603 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 859655006604 membrane-bound complex binding site; other site 859655006605 hinge residues; other site 859655006606 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 859655006607 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 859655006608 Walker A/P-loop; other site 859655006609 ATP binding site [chemical binding]; other site 859655006610 Q-loop/lid; other site 859655006611 ABC transporter signature motif; other site 859655006612 Walker B; other site 859655006613 D-loop; other site 859655006614 H-loop/switch region; other site 859655006615 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 859655006616 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 859655006617 dimer interface [polypeptide binding]; other site 859655006618 conserved gate region; other site 859655006619 putative PBP binding loops; other site 859655006620 ABC-ATPase subunit interface; other site 859655006621 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 859655006622 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 859655006623 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 859655006624 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 859655006625 FMN binding site [chemical binding]; other site 859655006626 active site 859655006627 substrate binding site [chemical binding]; other site 859655006628 catalytic residue [active] 859655006629 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 859655006630 Quinone oxidoreductase (QOR); Region: QOR1; cd08241 859655006631 NAD(P) binding site [chemical binding]; other site 859655006632 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 859655006633 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 859655006634 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 859655006635 S-adenosylmethionine binding site [chemical binding]; other site 859655006636 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 859655006637 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 859655006638 Peptidase family M23; Region: Peptidase_M23; pfam01551 859655006639 RNA polymerase sigma factor RpoS; Region: rpoS_proteo; TIGR02394 859655006640 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 859655006641 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 859655006642 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 859655006643 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 859655006644 DNA binding residues [nucleotide binding] 859655006645 Metal-dependent hydrolase [General function prediction only]; Region: ElsH; COG3568 859655006646 putative catalytic site [active] 859655006647 putative metal binding site [ion binding]; other site 859655006648 putative phosphate binding site [ion binding]; other site 859655006649 23S rRNA m(5)U1939 methyltransferase; Reviewed; Region: rumA; PRK13168 859655006650 TRAM domain; Region: TRAM; pfam01938 859655006651 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 859655006652 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 859655006653 S-adenosylmethionine binding site [chemical binding]; other site 859655006654 YccA-like proteins; Region: YccA_like; cd10433 859655006655 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 859655006656 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 859655006657 active site 859655006658 multimer interface [polypeptide binding]; other site 859655006659 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK11194 859655006660 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 859655006661 FeS/SAM binding site; other site 859655006662 Tfp pilus assembly protein PilF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilF; COG3063 859655006663 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 859655006664 binding surface 859655006665 TPR motif; other site 859655006666 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 859655006667 binding surface 859655006668 TPR motif; other site 859655006669 Predicted transcriptional regulator contains Xre-like HTH domain [Function unknown]; Region: COG1426 859655006670 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 859655006671 non-specific DNA binding site [nucleotide binding]; other site 859655006672 salt bridge; other site 859655006673 sequence-specific DNA binding site [nucleotide binding]; other site 859655006674 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 859655006675 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 859655006676 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 859655006677 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 859655006678 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 859655006679 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 859655006680 dimer interface [polypeptide binding]; other site 859655006681 motif 1; other site 859655006682 active site 859655006683 motif 2; other site 859655006684 motif 3; other site 859655006685 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 859655006686 anticodon binding site; other site 859655006687 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2976 859655006688 Uncharacterized protein conserved in bacteria (DUF2133); Region: DUF2133; pfam09976 859655006689 outer membrane assembly lipoprotein YfgL; Region: assembly_YfgL; TIGR03300 859655006690 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 859655006691 Trp docking motif [polypeptide binding]; other site 859655006692 active site 859655006693 GTP-binding protein Der; Reviewed; Region: PRK00093 859655006694 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 859655006695 G1 box; other site 859655006696 GTP/Mg2+ binding site [chemical binding]; other site 859655006697 Switch I region; other site 859655006698 G2 box; other site 859655006699 Switch II region; other site 859655006700 G3 box; other site 859655006701 G4 box; other site 859655006702 G5 box; other site 859655006703 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 859655006704 G1 box; other site 859655006705 GTP/Mg2+ binding site [chemical binding]; other site 859655006706 Switch I region; other site 859655006707 G2 box; other site 859655006708 G3 box; other site 859655006709 Switch II region; other site 859655006710 G4 box; other site 859655006711 G5 box; other site 859655006712 bacterial Hfq-like; Region: Hfq; cd01716 859655006713 hexamer interface [polypeptide binding]; other site 859655006714 Sm1 motif; other site 859655006715 RNA binding site [nucleotide binding]; other site 859655006716 Sm2 motif; other site 859655006717 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 859655006718 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 859655006719 HflX GTPase family; Region: HflX; cd01878 859655006720 G1 box; other site 859655006721 GTP/Mg2+ binding site [chemical binding]; other site 859655006722 Switch I region; other site 859655006723 G2 box; other site 859655006724 G3 box; other site 859655006725 Switch II region; other site 859655006726 G4 box; other site 859655006727 Bacterial membrane protein N terminal; Region: HflK_N; pfam12221 859655006728 HflK protein; Region: hflK; TIGR01933 859655006729 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 859655006730 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 859655006731 HflC protein; Region: hflC; TIGR01932 859655006732 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3242 859655006733 ATP phosphoribosyltransferase regulatory subunit; Provisional; Region: PRK12421 859655006734 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 859655006735 dimer interface [polypeptide binding]; other site 859655006736 motif 1; other site 859655006737 active site 859655006738 motif 2; other site 859655006739 motif 3; other site 859655006740 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 859655006741 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 859655006742 GDP-binding site [chemical binding]; other site 859655006743 ACT binding site; other site 859655006744 IMP binding site; other site 859655006745 Predicted phosphoribosyltransferases [General function prediction only]; Region: COG2236 859655006746 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 859655006747 active site 859655006748 ribonuclease R; Region: RNase_R; TIGR02063 859655006749 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 859655006750 RNB domain; Region: RNB; pfam00773 859655006751 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 859655006752 RNA binding site [nucleotide binding]; other site 859655006753 23S rRNA (guanosine-2'-O-)-methyltransferase; Provisional; Region: PRK11181 859655006754 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 859655006755 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 859655006756 NAD-dependent deacetylase; Provisional; Region: PRK00481 859655006757 SIRT5_Af1_CobB: Eukaryotic, archaeal and prokaryotic group (class3) which includes human sirtuin SIRT5, Archaeoglobus fulgidus Sir2-Af1, and E. coli CobB; and are members of the SIR2 family of proteins, silent information regulator 2 (Sir2) enzymes which...; Region: SIRT5_Af1_CobB; cd01412 859655006758 NAD+ binding site [chemical binding]; other site 859655006759 substrate binding site [chemical binding]; other site 859655006760 Zn binding site [ion binding]; other site 859655006761 transaldolase-like protein; Provisional; Region: PTZ00411 859655006762 Transaldolases including both TalA and TalB; Region: Transaldolase_TalAB; cd00957 859655006763 active site 859655006764 dimer interface [polypeptide binding]; other site 859655006765 catalytic residue [active] 859655006766 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 859655006767 tetramer (dimer of dimers) interface [polypeptide binding]; other site 859655006768 active site 859655006769 dimer interface [polypeptide binding]; other site 859655006770 uncharacterized nucleobase-cation-symport-1 (NCS1) transporter subfamily, YbbW-like; solute-binding domain; Region: SLC-NCS1sbd_YbbW-like; cd11485 859655006771 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 859655006772 Na binding site [ion binding]; other site 859655006773 putative substrate binding site [chemical binding]; other site 859655006774 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 859655006775 dimerization interface [polypeptide binding]; other site 859655006776 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 859655006777 dimer interface [polypeptide binding]; other site 859655006778 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 859655006779 putative CheW interface [polypeptide binding]; other site 859655006780 oxidative damage protection protein; Provisional; Region: PRK05408 859655006781 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 859655006782 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 859655006783 trimer interface [polypeptide binding]; other site 859655006784 eyelet of channel; other site 859655006785 Uncharacterized enzyme involved in inositol metabolism [Carbohydrate transport and metabolism]; Region: IolB; COG3718 859655006786 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 859655006787 Acetolactate synthase [Amino acid transport and metabolism]; Region: COG3962 859655006788 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 859655006789 dimer interface [polypeptide binding]; other site 859655006790 PYR/PP interface [polypeptide binding]; other site 859655006791 TPP binding site [chemical binding]; other site 859655006792 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 859655006793 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 859655006794 TPP-binding site [chemical binding]; other site 859655006795 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 859655006796 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 859655006797 substrate binding site [chemical binding]; other site 859655006798 ATP binding site [chemical binding]; other site 859655006799 Uncharacterized protein conserved in bacteria (DUF2090); Region: DUF2090; pfam09863 859655006800 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3892 859655006801 Periplasmic binding proteins specific to rhizopines; Region: PBP1_rhizopine_binding_like; cd06301 859655006802 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 859655006803 putative ligand binding site [chemical binding]; other site 859655006804 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 859655006805 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 859655006806 Walker A/P-loop; other site 859655006807 ATP binding site [chemical binding]; other site 859655006808 Q-loop/lid; other site 859655006809 ABC transporter signature motif; other site 859655006810 Walker B; other site 859655006811 D-loop; other site 859655006812 H-loop/switch region; other site 859655006813 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 859655006814 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 859655006815 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 859655006816 TM-ABC transporter signature motif; other site 859655006817 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 859655006818 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cl12060 859655006819 DNA interaction; other site 859655006820 Metal-binding active site; metal-binding site 859655006821 Predicted sugar epimerase [Carbohydrate transport and metabolism]; Region: COG4130 859655006822 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 859655006823 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 859655006824 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 859655006825 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 859655006826 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 859655006827 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 859655006828 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 859655006829 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 859655006830 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 859655006831 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 859655006832 putative active site [active] 859655006833 N-acetylglutamate synthase; Validated; Region: PRK05279 859655006834 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 859655006835 putative feedback inhibition sensing region; other site 859655006836 putative nucleotide binding site [chemical binding]; other site 859655006837 putative substrate binding site [chemical binding]; other site 859655006838 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 859655006839 Coenzyme A binding pocket [chemical binding]; other site 859655006840 ATP-dependent helicase HrpA; Region: DEAH_box_HrpA; TIGR01967 859655006841 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 859655006842 ATP binding site [chemical binding]; other site 859655006843 putative Mg++ binding site [ion binding]; other site 859655006844 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 859655006845 nucleotide binding region [chemical binding]; other site 859655006846 ATP-binding site [chemical binding]; other site 859655006847 Helicase associated domain (HA2); Region: HA2; pfam04408 859655006848 Oligonucleotide/oligosaccharide-binding (OB)-fold; Region: OB_NTP_bind; pfam07717 859655006849 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 859655006850 Uncharacterized conserved protein [Function unknown]; Region: COG3391 859655006851 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 859655006852 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 859655006853 Catalytic NodB homology domain of rhizobial NodB-like proteins; Region: CE4_NodB_like_6s_7s; cd10917 859655006854 NodB motif; other site 859655006855 active site 859655006856 catalytic site [active] 859655006857 metal binding site [ion binding]; metal-binding site 859655006858 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 859655006859 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 859655006860 Etoposide-induced protein 2.4 (EI24); Region: EI24; pfam07264 859655006861 Predicted nucleotide-utilizing enzyme related to molybdopterin-biosynthesis enzyme MoeA [General function prediction only]; Region: CinA; COG1058 859655006862 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 859655006863 putative MPT binding site; other site 859655006864 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 859655006865 active site residue [active] 859655006866 glutamine synthetase; Provisional; Region: glnA; PRK09469 859655006867 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 859655006868 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 859655006869 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 859655006870 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 859655006871 PAS domain; Region: PAS; smart00091 859655006872 putative active site [active] 859655006873 heme pocket [chemical binding]; other site 859655006874 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 859655006875 dimer interface [polypeptide binding]; other site 859655006876 phosphorylation site [posttranslational modification] 859655006877 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 859655006878 ATP binding site [chemical binding]; other site 859655006879 Mg2+ binding site [ion binding]; other site 859655006880 G-X-G motif; other site 859655006881 nitrogen regulation protein NR(I); Region: ntrC; TIGR01818 859655006882 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 859655006883 active site 859655006884 phosphorylation site [posttranslational modification] 859655006885 intermolecular recognition site; other site 859655006886 dimerization interface [polypeptide binding]; other site 859655006887 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 859655006888 Walker A motif; other site 859655006889 ATP binding site [chemical binding]; other site 859655006890 Walker B motif; other site 859655006891 arginine finger; other site 859655006892 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 859655006893 type VI secretion ATPase, ClpV1 family; Region: VI_ClpV1; TIGR03345 859655006894 HAD-superfamily hydrolase, subfamily IIB; Region: HAD-SF-IIB; TIGR01484 859655006895 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 859655006896 active site 859655006897 motif I; other site 859655006898 motif II; other site 859655006899 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 859655006900 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 859655006901 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 859655006902 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 859655006903 dimer interface [polypeptide binding]; other site 859655006904 conserved gate region; other site 859655006905 putative PBP binding loops; other site 859655006906 ABC-ATPase subunit interface; other site 859655006907 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 859655006908 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 859655006909 dimer interface [polypeptide binding]; other site 859655006910 conserved gate region; other site 859655006911 putative PBP binding loops; other site 859655006912 ABC-ATPase subunit interface; other site 859655006913 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 859655006914 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 859655006915 Walker A/P-loop; other site 859655006916 ATP binding site [chemical binding]; other site 859655006917 Q-loop/lid; other site 859655006918 ABC transporter signature motif; other site 859655006919 Walker B; other site 859655006920 D-loop; other site 859655006921 H-loop/switch region; other site 859655006922 TOBE domain; Region: TOBE_2; pfam08402 859655006923 cytoplasmic glycerophosphodiester phosphodiesterase; Provisional; Region: ugpQ; PRK09454 859655006924 Glycerophosphodiester phosphodiesterase domain in Escherichia coli cytosolic glycerophosphodiester phosphodiesterase UgpQ and similar proteins; Region: GDPD_EcUgpQ_like; cd08562 859655006925 putative active site [active] 859655006926 catalytic site [active] 859655006927 putative metal binding site [ion binding]; other site 859655006928 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 859655006929 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 859655006930 TPP-binding site [chemical binding]; other site 859655006931 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 859655006932 dimer interface [polypeptide binding]; other site 859655006933 PYR/PP interface [polypeptide binding]; other site 859655006934 TPP binding site [chemical binding]; other site 859655006935 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 859655006936 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 859655006937 E3 interaction surface; other site 859655006938 lipoyl attachment site [posttranslational modification]; other site 859655006939 e3 binding domain; Region: E3_binding; pfam02817 859655006940 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 859655006941 dihydrolipoamide dehydrogenase; Validated; Region: PRK06327 859655006942 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 859655006943 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 859655006944 Predicted ATPase [General function prediction only]; Region: COG1485 859655006945 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 859655006946 Walker B; other site 859655006947 D-loop; other site 859655006948 H-loop/switch region; other site 859655006949 Phosphosulfolactate phosphohydrolase and related enzymes [Coenzyme metabolism / General function prediction only]; Region: COG2045 859655006950 2-phosphosulpholactate phosphatase; Region: 2-ph_phosp; cl00895 859655006951 Putative metal-binding domain of cation transport ATPase; Region: ATPase-cat_bd; pfam12156 859655006952 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 859655006953 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 859655006954 metal-binding site [ion binding] 859655006955 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 859655006956 Soluble P-type ATPase [General function prediction only]; Region: COG4087 859655006957 Uncharacterized protein, possibly involved in nitrogen fixation [Inorganic ion transport and metabolism]; Region: FixS; COG3197 859655006958 Cytochrome cbb3 oxidase subunit I. Cytochrome cbb3 oxidase, the terminal oxidase in the respiratory chains of proteobacteria, is a multi-chain transmembrane protein located in the cell membrane. Like other cytochrome oxidases, it catalyzes the reduction...; Region: cbb3_Oxidase_I; cd01661 859655006959 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 859655006960 Low-spin heme binding site [chemical binding]; other site 859655006961 Putative water exit pathway; other site 859655006962 Binuclear center (active site) [active] 859655006963 Putative proton exit pathway; other site 859655006964 Cbb3-type cytochrome oxidase, cytochrome c subunit [Energy production and conversion]; Region: CcoO; COG2993 859655006965 cbb3-type cytochrome c oxidase subunit II; Provisional; Region: PRK14487 859655006966 Cytochrome cbb oxidase CcoQ. Cytochrome cbb3 oxidase, the terminal oxidase in the respiratory chains of proteobacteria, is a multi-chain transmembrane protein located in the cell membrane. Like other cytochrome oxidases, it catalyzes the reduction of O2...; Region: cbb3_Oxidase_CcoQ; cl00282 859655006967 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 859655006968 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 859655006969 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 859655006970 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 859655006971 4Fe-4S binding domain; Region: Fer4_5; pfam12801 859655006972 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 859655006973 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 859655006974 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 859655006975 ligand binding site [chemical binding]; other site 859655006976 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 859655006977 putative switch regulator; other site 859655006978 non-specific DNA interactions [nucleotide binding]; other site 859655006979 DNA binding site [nucleotide binding] 859655006980 sequence specific DNA binding site [nucleotide binding]; other site 859655006981 putative cAMP binding site [chemical binding]; other site 859655006982 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 859655006983 Chromosome segregation and condensation protein B [DNA replication, recombination and repair]; Region: scpB; COG1386 859655006984 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 859655006985 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 859655006986 RNA binding surface [nucleotide binding]; other site 859655006987 Pseudouridine synthase, Escherichia coli RluB like; Region: PseudoU_synth_RluB; cd02556 859655006988 probable active site [active] 859655006989 Uncharacterized BCR, YhbC family COG0779; Region: DUF150; pfam02576 859655006990 Sm and related proteins; Region: Sm_like; cl00259 859655006991 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 859655006992 putative oligomer interface [polypeptide binding]; other site 859655006993 putative RNA binding site [nucleotide binding]; other site 859655006994 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 859655006995 NusA N-terminal domain; Region: NusA_N; pfam08529 859655006996 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 859655006997 RNA binding site [nucleotide binding]; other site 859655006998 homodimer interface [polypeptide binding]; other site 859655006999 NusA-like KH domain; Region: KH_5; pfam13184 859655007000 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 859655007001 G-X-X-G motif; other site 859655007002 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 859655007003 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 859655007004 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 859655007005 Bacterial translation initiation factor IF-2 associated region; Region: IF2_assoc; pfam08364 859655007006 translation initiation factor IF-2; Region: IF-2; TIGR00487 859655007007 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 859655007008 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 859655007009 G1 box; other site 859655007010 putative GEF interaction site [polypeptide binding]; other site 859655007011 GTP/Mg2+ binding site [chemical binding]; other site 859655007012 Switch I region; other site 859655007013 G2 box; other site 859655007014 G3 box; other site 859655007015 Switch II region; other site 859655007016 G4 box; other site 859655007017 G5 box; other site 859655007018 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 859655007019 Translation-initiation factor 2; Region: IF-2; pfam11987 859655007020 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 859655007021 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 859655007022 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK01851 859655007023 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 859655007024 RNA binding site [nucleotide binding]; other site 859655007025 active site 859655007026 Pseudouridine synthase II TruB, C-terminal; Region: TruB-C_2; pfam09157 859655007027 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 859655007028 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 859655007029 putative substrate translocation pore; other site 859655007030 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 859655007031 multidrug efflux system protein EmrA; Provisional; Region: PRK15136 859655007032 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 859655007033 HlyD family secretion protein; Region: HlyD_3; pfam13437 859655007034 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 859655007035 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 859655007036 MarR family; Region: MarR; pfam01047 859655007037 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 859655007038 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 859655007039 G1 box; other site 859655007040 putative GEF interaction site [polypeptide binding]; other site 859655007041 GTP/Mg2+ binding site [chemical binding]; other site 859655007042 Switch I region; other site 859655007043 G2 box; other site 859655007044 G3 box; other site 859655007045 Switch II region; other site 859655007046 G4 box; other site 859655007047 G5 box; other site 859655007048 Translation_Factor_II_like: Elongation factor Tu (EF-Tu) domain II-like proteins. Elongation factor Tu consists of three structural domains, this family represents the second domain. Domain II adopts a beta barrel structure and is involved in binding to...; Region: Translation_Factor_II_like; cl02787 859655007049 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 859655007050 Transposase domain (DUF772); Region: DUF772; pfam05598 859655007051 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 859655007052 Evidence 2b : Function of strongly homologous gene; Product type e : enzyme 859655007053 Evidence 2b : Function of strongly homologous gene; Product type e : enzyme 859655007054 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 859655007055 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 859655007056 substrate binding site [chemical binding]; other site 859655007057 oxyanion hole (OAH) forming residues; other site 859655007058 trimer interface [polypeptide binding]; other site 859655007059 2-enoyl-CoA Hydratase C-terminal region; Region: ECH_C; pfam13766 859655007060 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 859655007061 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 859655007062 FMN binding site [chemical binding]; other site 859655007063 active site 859655007064 catalytic residues [active] 859655007065 substrate binding site [chemical binding]; other site 859655007066 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4994 859655007067 hypothetical protein; Provisional; Region: PRK06156 859655007068 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 859655007069 metal binding site [ion binding]; metal-binding site 859655007070 LexA repressor; Validated; Region: PRK00215 859655007071 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 859655007072 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 859655007073 Catalytic site [active] 859655007074 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 859655007075 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 859655007076 FAD binding pocket [chemical binding]; other site 859655007077 FAD binding motif [chemical binding]; other site 859655007078 phosphate binding motif [ion binding]; other site 859655007079 beta-alpha-beta structure motif; other site 859655007080 NAD binding pocket [chemical binding]; other site 859655007081 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 859655007082 active site 859655007083 homotetramer interface [polypeptide binding]; other site 859655007084 homodimer interface [polypeptide binding]; other site 859655007085 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 859655007086 Primosomal replication protein N [DNA replication, recombination, and repair]; Region: PriB; COG2965 859655007087 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 859655007088 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 859655007089 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 859655007090 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 859655007091 replicative DNA helicase; Provisional; Region: PRK07004 859655007092 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 859655007093 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 859655007094 Walker A motif; other site 859655007095 ATP binding site [chemical binding]; other site 859655007096 Walker B motif; other site 859655007097 DNA binding loops [nucleotide binding] 859655007098 Phosphate transport regulator (distant homolog of PhoU) [Inorganic ion transport and metabolism]; Region: COG1392 859655007099 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 859655007100 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 859655007101 NlpC/P60 family; Region: NLPC_P60; pfam00877 859655007102 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]; Region: COG1875 859655007103 PIN domain of bacterial Smg6-like homologs with PhoH-like ATPase domains; Region: PIN_PhoHL-ATPase; cd09883 859655007104 putative active site [active] 859655007105 PhoH-like protein; Region: PhoH; pfam02562 859655007106 Phosphopantetheinyl transferase [Coenzyme metabolism]; Region: Sfp; COG2091 859655007107 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 859655007108 Patatin-like phospholipase; Region: Patatin; pfam01734 859655007109 active site 859655007110 nucleophile elbow; other site 859655007111 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 859655007112 active site 2 [active] 859655007113 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 859655007114 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 859655007115 catalytic triad [active] 859655007116 Catalytic domain of Escherichia coli 4-deoxy-4-formamido-L-arabinose-phosphoundecaprenol deformylase ArnD and other bacterial homologs; Region: CE4_ArnD; cd10939 859655007117 4-deoxy-4-formamido-L-arabinose-phosphoundecaprenol deformylase ArnD; Provisional; Region: PRK15394 859655007118 putative active site [active] 859655007119 putative catalytic site [active] 859655007120 putative Zn binding site [ion binding]; other site 859655007121 NAD-dependent epimerase/dehydratase family protein; Provisional; Region: PRK11908 859655007122 Arna decarboxylase_like, extended (e) SDRs; Region: Arna_like_SDR_e; cd05257 859655007123 NAD binding site [chemical binding]; other site 859655007124 substrate binding site [chemical binding]; other site 859655007125 active site 859655007126 putative formyltransferase; Provisional; Region: PRK06988 859655007127 Formyltransferase, catalytic core domain; Region: FMT_core; cl00395 859655007128 active site 859655007129 substrate binding site [chemical binding]; other site 859655007130 cosubstrate binding site; other site 859655007131 catalytic site [active] 859655007132 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 859655007133 active site 859655007134 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 859655007135 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 859655007136 Ligand binding site; other site 859655007137 Putative Catalytic site; other site 859655007138 DXD motif; other site 859655007139 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 859655007140 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 859655007141 inhibitor-cofactor binding pocket; inhibition site 859655007142 pyridoxal 5'-phosphate binding site [chemical binding]; other site 859655007143 catalytic residue [active] 859655007144 4-amino-4-deoxy-L-arabinose-phosphoundecaprenol flippase subunit ArnF; Provisional; Region: PRK02971 859655007145 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 859655007146 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl17364 859655007147 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl17364 859655007148 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 859655007149 aminotransferase AlaT; Validated; Region: PRK09265 859655007150 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 859655007151 pyridoxal 5'-phosphate binding site [chemical binding]; other site 859655007152 homodimer interface [polypeptide binding]; other site 859655007153 catalytic residue [active] 859655007154 homoserine dehydrogenase; Provisional; Region: PRK06349 859655007155 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 859655007156 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 859655007157 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 859655007158 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 859655007159 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 859655007160 pyridoxal 5'-phosphate binding site [chemical binding]; other site 859655007161 catalytic residue [active] 859655007162 Uncharacterized subfamily of Uracil-DNA glycosylases; Region: UDG_like_1; cd10033 859655007163 putative uracil binding site [chemical binding]; other site 859655007164 putative active site [active] 859655007165 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 859655007166 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 859655007167 dimer interface [polypeptide binding]; other site 859655007168 putative functional site; other site 859655007169 putative MPT binding site; other site 859655007170 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 859655007171 MoaE interaction surface [polypeptide binding]; other site 859655007172 MoeB interaction surface [polypeptide binding]; other site 859655007173 thiocarboxylated glycine; other site 859655007174 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 859655007175 MoaE homodimer interface [polypeptide binding]; other site 859655007176 MoaD interaction [polypeptide binding]; other site 859655007177 active site residues [active] 859655007178 chromosome condensation membrane protein; Provisional; Region: PRK14196 859655007179 3HB-oligomer hydrolase (3HBOH); Region: 3HBOH; pfam10605 859655007180 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 859655007181 Clp amino terminal domain; Region: Clp_N; pfam02861 859655007182 Clp amino terminal domain; Region: Clp_N; pfam02861 859655007183 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 859655007184 Walker A motif; other site 859655007185 ATP binding site [chemical binding]; other site 859655007186 Walker B motif; other site 859655007187 arginine finger; other site 859655007188 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 859655007189 Walker A motif; other site 859655007190 ATP binding site [chemical binding]; other site 859655007191 Walker B motif; other site 859655007192 arginine finger; other site 859655007193 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 859655007194 ABC-type sulfate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: Sbp; COG1613 859655007195 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 859655007196 FMN reductase, SsuE family; Region: FMN_reduc_SsuE; TIGR03567 859655007197 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 859655007198 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 859655007199 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 859655007200 dimerization interface [polypeptide binding]; other site 859655007201 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 859655007202 substrate binding pocket [chemical binding]; other site 859655007203 membrane-bound complex binding site; other site 859655007204 hinge residues; other site 859655007205 alkanesulfonate monooxygenase; Provisional; Region: PRK00719 859655007206 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 859655007207 active site 859655007208 dimer interface [polypeptide binding]; other site 859655007209 non-prolyl cis peptide bond; other site 859655007210 insertion regions; other site 859655007211 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 859655007212 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 859655007213 putative PBP binding loops; other site 859655007214 ABC-ATPase subunit interface; other site 859655007215 aliphatic sulfonates transport ATP-binding subunit; Provisional; Region: ssuB; PRK11247 859655007216 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 859655007217 Walker A/P-loop; other site 859655007218 ATP binding site [chemical binding]; other site 859655007219 Q-loop/lid; other site 859655007220 ABC transporter signature motif; other site 859655007221 Walker B; other site 859655007222 D-loop; other site 859655007223 H-loop/switch region; other site 859655007224 Molybdopterin-binding protein [Coenzyme metabolism]; Region: MopI; COG3585 859655007225 EAL domain; Region: EAL; pfam00563 859655007226 Predicted esterase of the alpha/beta hydrolase fold [General function prediction only]; Region: COG3545 859655007227 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 859655007228 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 859655007229 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 859655007230 dimer interface [polypeptide binding]; other site 859655007231 conserved gate region; other site 859655007232 putative PBP binding loops; other site 859655007233 ABC-ATPase subunit interface; other site 859655007234 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 859655007235 dimer interface [polypeptide binding]; other site 859655007236 conserved gate region; other site 859655007237 putative PBP binding loops; other site 859655007238 ABC-ATPase subunit interface; other site 859655007239 ABC-type sulfate/molybdate transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: CysA; COG1118 859655007240 ATP-binding cassette domain of the sulfate transporter; Region: ABC_CysA_sulfate_importer; cd03296 859655007241 Walker A/P-loop; other site 859655007242 ATP binding site [chemical binding]; other site 859655007243 Q-loop/lid; other site 859655007244 ABC transporter signature motif; other site 859655007245 Walker B; other site 859655007246 D-loop; other site 859655007247 H-loop/switch region; other site 859655007248 TOBE-like domain; Region: TOBE_3; pfam12857 859655007249 transcriptional regulator CysB-like protein; Reviewed; Region: PRK12683 859655007250 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 859655007251 The C-terminal substrate domain of LysR-type transcriptional regulators CysB-like contains type 2 periplasmic binding fold; Region: PBP2_CysB_like; cd08413 859655007252 substrate binding site [chemical binding]; other site 859655007253 dimerization interface [polypeptide binding]; other site 859655007254 E3 ubiquitin-protein ligase SlrP; Provisional; Region: PRK15370 859655007255 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 859655007256 LytTr DNA-binding domain; Region: LytTR; smart00850 859655007257 thiamine pyrophosphate protein; Validated; Region: PRK08199 859655007258 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 859655007259 PYR/PP interface [polypeptide binding]; other site 859655007260 dimer interface [polypeptide binding]; other site 859655007261 TPP binding site [chemical binding]; other site 859655007262 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 859655007263 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 859655007264 TPP-binding site [chemical binding]; other site 859655007265 ribonuclease activity regulator protein RraA; Provisional; Region: PRK09372 859655007266 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 859655007267 putative active site pocket [active] 859655007268 dimerization interface [polypeptide binding]; other site 859655007269 putative catalytic residue [active] 859655007270 Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily. LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs correspond...; Region: LRR_RI; cl15309 859655007271 Leucine-rich repeats; other site 859655007272 Substrate binding site [chemical binding]; other site 859655007273 Leucine rich repeat; Region: LRR_8; pfam13855 859655007274 Leucine rich repeat; Region: LRR_8; pfam13855 859655007275 Leucine rich repeat; Region: LRR_8; pfam13855 859655007276 Leucine rich repeat; Region: LRR_8; pfam13855 859655007277 Antagonist of mitotic exit network protein 1; Region: AMN1; cl15308 859655007278 Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily. LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs correspond...; Region: LRR_RI; cl15309 859655007279 Leucine-rich repeats; other site 859655007280 Substrate binding site [chemical binding]; other site 859655007281 isocitrate lyase; Provisional; Region: PRK15063 859655007282 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 859655007283 tetramer interface [polypeptide binding]; other site 859655007284 active site 859655007285 Mg2+/Mn2+ binding site [ion binding]; other site 859655007286 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 859655007287 Ligand Binding Site [chemical binding]; other site 859655007288 Transcriptional regulator [Transcription]; Region: LysR; COG0583 859655007289 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 859655007290 putative effector binding pocket; other site 859655007291 dimerization interface [polypeptide binding]; other site 859655007292 2-haloalkanoic acid dehalogenase, type II; Region: HAD_type_II; TIGR01428 859655007293 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 859655007294 motif II; other site 859655007295 malate synthase A; Region: malate_syn_A; TIGR01344 859655007296 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 859655007297 active site 859655007298 DUF1857, an uncharacterized ligand-binding domain of the SRPBCC domain superfamily; Region: SRPBCC_DUF1857; cd08863 859655007299 putative hydrophobic ligand binding site [chemical binding]; other site 859655007300 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 859655007301 Major Facilitator Superfamily; Region: MFS_1; pfam07690 859655007302 putative substrate translocation pore; other site 859655007303 Acyl-CoA-binding protein [Lipid metabolism]; Region: ACB; COG4281 859655007304 acyl-CoA binding pocket [chemical binding]; other site 859655007305 CoA binding site [chemical binding]; other site 859655007306 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 859655007307 Glycoprotease family; Region: Peptidase_M22; pfam00814 859655007308 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 859655007309 Coenzyme A binding pocket [chemical binding]; other site 859655007310 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 859655007311 Fe-S cluster binding site [ion binding]; other site 859655007312 active site 859655007313 lysophospholipid transporter LplT; Provisional; Region: PRK11195 859655007314 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 859655007315 alanine racemase; Reviewed; Region: alr; PRK00053 859655007316 active site 859655007317 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 859655007318 substrate binding site [chemical binding]; other site 859655007319 catalytic residues [active] 859655007320 dimer interface [polypeptide binding]; other site 859655007321 DNA repair protein RadA; Provisional; Region: PRK11823 859655007322 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 859655007323 Walker A motif/ATP binding site; other site 859655007324 ATP binding site [chemical binding]; other site 859655007325 Walker B motif; other site 859655007326 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 859655007327 disulfide bond formation protein B; Provisional; Region: PRK02110 859655007328 Uncharacterized conserved protein [Function unknown]; Region: COG1683 859655007329 formyl-CoA transferase; Region: oxalate_frc; TIGR03253 859655007330 CoA-transferase family III; Region: CoA_transf_3; pfam02515 859655007331 putative ABC transporter ATP-binding protein; Provisional; Region: PRK10636 859655007332 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 859655007333 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 859655007334 ABC transporter; Region: ABC_tran_2; pfam12848 859655007335 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 859655007336 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 859655007337 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 859655007338 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 859655007339 putative active site [active] 859655007340 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 859655007341 catalytic nucleophile [active] 859655007342 glutathione transporter ATP-binding protein; Provisional; Region: PRK10261 859655007343 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 859655007344 Walker A/P-loop; other site 859655007345 ATP binding site [chemical binding]; other site 859655007346 Q-loop/lid; other site 859655007347 ABC transporter signature motif; other site 859655007348 Walker B; other site 859655007349 D-loop; other site 859655007350 H-loop/switch region; other site 859655007351 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 859655007352 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 859655007353 Walker A/P-loop; other site 859655007354 ATP binding site [chemical binding]; other site 859655007355 Q-loop/lid; other site 859655007356 ABC transporter signature motif; other site 859655007357 Walker B; other site 859655007358 D-loop; other site 859655007359 H-loop/switch region; other site 859655007360 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 859655007361 glutathione ABC transporter substrate-binding protein GsiB; Provisional; Region: PRK15413 859655007362 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 859655007363 glutathione ABC transporter permease GsiC; Provisional; Region: PRK15081 859655007364 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 859655007365 dimer interface [polypeptide binding]; other site 859655007366 conserved gate region; other site 859655007367 putative PBP binding loops; other site 859655007368 ABC-ATPase subunit interface; other site 859655007369 glutathione ABC transporter permease GsiD; Provisional; Region: PRK15082 859655007370 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 859655007371 dimer interface [polypeptide binding]; other site 859655007372 conserved gate region; other site 859655007373 putative PBP binding loops; other site 859655007374 ABC-ATPase subunit interface; other site 859655007375 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 859655007376 homodimer interface [polypeptide binding]; other site 859655007377 homotetramer interface [polypeptide binding]; other site 859655007378 active site pocket [active] 859655007379 cleavage site 859655007380 Peptidase M55, D-aminopeptidase dipeptide-binding protein family; Region: DAP_dppA_1; cd08663 859655007381 SxDxEG motif; other site 859655007382 active site 859655007383 metal binding site [ion binding]; metal-binding site 859655007384 homopentamer interface [polypeptide binding]; other site 859655007385 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 859655007386 GTP cyclohydrolase I; Provisional; Region: PLN03044 859655007387 active site 859655007388 Methylase of polypeptide chain release factors [Translation, ribosomal structure and biogenesis]; Region: HemK; COG2890 859655007389 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 859655007390 S-adenosylmethionine binding site [chemical binding]; other site 859655007391 Adenylyl cyclase (AC) class IV-like, a subgroup of the CYTH-like superfamily; Region: CYTH-like_AC_IV-like; cd07890 859655007392 putative active site [active] 859655007393 putative metal binding residues [ion binding]; other site 859655007394 signature motif; other site 859655007395 putative triphosphate binding site [ion binding]; other site 859655007396 dimer interface [polypeptide binding]; other site 859655007397 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 859655007398 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 859655007399 metal binding site [ion binding]; metal-binding site 859655007400 dimer interface [polypeptide binding]; other site 859655007401 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 859655007402 ArsC family; Region: ArsC; pfam03960 859655007403 putative catalytic residues [active] 859655007404 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 859655007405 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 859655007406 trimer interface [polypeptide binding]; other site 859655007407 active site 859655007408 substrate binding site [chemical binding]; other site 859655007409 CoA binding site [chemical binding]; other site 859655007410 succinyldiaminopimelate transaminase; Provisional; Region: PRK09147 859655007411 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 859655007412 pyridoxal 5'-phosphate binding site [chemical binding]; other site 859655007413 homodimer interface [polypeptide binding]; other site 859655007414 catalytic residue [active] 859655007415 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 859655007416 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 859655007417 Alpha/beta hydrolase of unknown function (DUF1057); Region: DUF1057; pfam06342 859655007418 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 859655007419 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 859655007420 Walker A/P-loop; other site 859655007421 ATP binding site [chemical binding]; other site 859655007422 Q-loop/lid; other site 859655007423 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; smart00968 859655007424 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 859655007425 Q-loop/lid; other site 859655007426 ABC transporter signature motif; other site 859655007427 Walker B; other site 859655007428 D-loop; other site 859655007429 H-loop/switch region; other site 859655007430 ZipA, C-terminal domain (FtsZ-binding); Region: ZipA_C; smart00771 859655007431 Ligase N family; Region: LIGANc; smart00532 859655007432 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 859655007433 nucleotide binding pocket [chemical binding]; other site 859655007434 K-X-D-G motif; other site 859655007435 catalytic site [active] 859655007436 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 859655007437 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 859655007438 Helix-hairpin-helix motif; Region: HHH_2; pfam12826 859655007439 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 859655007440 Dimer interface [polypeptide binding]; other site 859655007441 BRCT sequence motif; other site 859655007442 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 859655007443 active site 859655007444 catalytic residues [active] 859655007445 metal binding site [ion binding]; metal-binding site 859655007446 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 859655007447 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 859655007448 RNA binding surface [nucleotide binding]; other site 859655007449 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 859655007450 active site 859655007451 PII uridylyl-transferase; Provisional; Region: PRK03059 859655007452 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 859655007453 metal binding triad; other site 859655007454 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 859655007455 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 859655007456 Zn2+ binding site [ion binding]; other site 859655007457 Mg2+ binding site [ion binding]; other site 859655007458 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 859655007459 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 859655007460 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 859655007461 active site 859655007462 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 859655007463 rRNA interaction site [nucleotide binding]; other site 859655007464 S8 interaction site; other site 859655007465 putative laminin-1 binding site; other site 859655007466 elongation factor Ts; Provisional; Region: tsf; PRK09377 859655007467 Ubiquitin Associated domain. The UBA domain is a commonly occurring sequence motif in some members of the ubiquitination pathway, UV excision repair proteins, and certain protein kinases. Although its specific role is so far unknown, it has been...; Region: UBA; cl00153 859655007468 Elongation factor TS; Region: EF_TS; pfam00889 859655007469 Elongation factor TS; Region: EF_TS; pfam00889 859655007470 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 859655007471 putative nucleotide binding site [chemical binding]; other site 859655007472 uridine monophosphate binding site [chemical binding]; other site 859655007473 homohexameric interface [polypeptide binding]; other site 859655007474 ribosome recycling factor; Reviewed; Region: frr; PRK00083 859655007475 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 859655007476 hinge region; other site 859655007477 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 859655007478 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 859655007479 catalytic residue [active] 859655007480 putative FPP diphosphate binding site; other site 859655007481 putative FPP binding hydrophobic cleft; other site 859655007482 dimer interface [polypeptide binding]; other site 859655007483 putative IPP diphosphate binding site; other site 859655007484 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 859655007485 CDP-diglyceride synthase; Provisional; Region: cdsA; PRK11624 859655007486 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 859655007487 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 859655007488 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 859655007489 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 859655007490 zinc metallopeptidase RseP; Provisional; Region: PRK10779 859655007491 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 859655007492 active site 859655007493 PDZ domain, also called DHR (Dlg homologous region) or GLGF (after a conserved sequence motif). Many PDZ domains bind C-terminal polypeptides, though binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated; Region: PDZ; cl00117 859655007494 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 859655007495 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 859655007496 putative substrate binding region [chemical binding]; other site 859655007497 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 859655007498 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 859655007499 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 859655007500 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 859655007501 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 859655007502 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 859655007503 Surface antigen; Region: Bac_surface_Ag; pfam01103 859655007504 periplasmic chaperone; Provisional; Region: PRK10780 859655007505 Outer membrane protein (OmpH-like); Region: OmpH; smart00935 859655007506 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 859655007507 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 859655007508 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 859655007509 trimer interface [polypeptide binding]; other site 859655007510 active site 859655007511 UDP-GlcNAc binding site [chemical binding]; other site 859655007512 lipid binding site [chemical binding]; lipid-binding site 859655007513 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 859655007514 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 859655007515 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 859655007516 active site 859655007517 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 859655007518 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 859655007519 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 859655007520 RNA/DNA hybrid binding site [nucleotide binding]; other site 859655007521 active site 859655007522 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 859655007523 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 859655007524 PEP synthetase regulatory protein; Provisional; Region: PRK05339 859655007525 phosphoenolpyruvate synthase; Validated; Region: PRK06464 859655007526 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 859655007527 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 859655007528 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 859655007529 Membrane protein implicated in regulation of membrane protease activity [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: COG1585 859655007530 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 859655007531 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 859655007532 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 859655007533 SmpB-tmRNA interface; other site 859655007534 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 859655007535 putative coenzyme Q binding site [chemical binding]; other site 859655007536 RnfH family Ubiquitin; Region: Ub-RnfH; cl17382 859655007537 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 859655007538 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 859655007539 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 859655007540 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 859655007541 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 859655007542 active site 859655007543 GMP synthase; Reviewed; Region: guaA; PRK00074 859655007544 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 859655007545 AMP/PPi binding site [chemical binding]; other site 859655007546 candidate oxyanion hole; other site 859655007547 catalytic triad [active] 859655007548 potential glutamine specificity residues [chemical binding]; other site 859655007549 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 859655007550 ATP Binding subdomain [chemical binding]; other site 859655007551 Ligand Binding sites [chemical binding]; other site 859655007552 Dimerization subdomain; other site 859655007553 Predicted transcriptional regulator [Transcription]; Region: COG3905 859655007554 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 859655007555 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 859655007556 The C-terminal substrate binding domain of galactose-binding protein regulator contains the type 2 periplasmic binding fold; Region: PBP2_GbpR; cd08435 859655007557 putative dimerization interface [polypeptide binding]; other site 859655007558 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 859655007559 heterodimer interface [polypeptide binding]; other site 859655007560 multimer interface [polypeptide binding]; other site 859655007561 protocatechuate 3,4-dioxygenase, beta subunit; Region: protocat_beta; TIGR02422 859655007562 active site 859655007563 Protocatechuate 3,4-dioxygenase beta subunit [Secondary metabolites biosynthesis, transport, and catabolism]; Region: PcaH; COG3485 859655007564 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 859655007565 heterodimer interface [polypeptide binding]; other site 859655007566 active site 859655007567 2'-5' RNA ligase [Translation, ribosomal structure and biogenesis]; Region: LigT; COG1514 859655007568 Predicted protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: COG3531 859655007569 DsbA family, FrnE-like subfamily; composed of uncharacterized proteins containing a CXXC motif with similarity to DsbA and FrnE. FrnE is presumed to be a thiol oxidoreductase involved in polyketide biosynthesis, specifically in the production of the...; Region: DsbA_FrnE_like; cd03025 859655007570 catalytic residues [active] 859655007571 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 859655007572 Major Facilitator Superfamily; Region: MFS_1; pfam07690 859655007573 putative substrate translocation pore; other site 859655007574 HipA N-terminal domain; Region: couple_hipA; TIGR03071 859655007575 Toxin module HipA, protein kinase of phosphatidylinositol 3/4-kinase superfamily [General function prediction only]; Region: HipA; COG3550 859655007576 HipA-like N-terminal domain; Region: HipA_N; pfam07805 859655007577 HipA-like C-terminal domain; Region: HipA_C; pfam07804 859655007578 transcriptional regulator, y4mF family; Region: couple_hipB; TIGR03070 859655007579 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 859655007580 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 859655007581 tetramer interface [polypeptide binding]; other site 859655007582 active site 859655007583 Mg2+/Mn2+ binding site [ion binding]; other site 859655007584 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 859655007585 putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE; Region: rSAM_QueE_Ecoli; TIGR04322 859655007586 6-pyruvoyl tetrahydropterin synthase; Region: PTPS; pfam01242 859655007587 active site 859655007588 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 859655007589 nucleoside/Zn binding site; other site 859655007590 dimer interface [polypeptide binding]; other site 859655007591 catalytic motif [active] 859655007592 LD-Carboxypeptidase, a serine protease, includes microcin C7 self immunity protein; Region: Peptidase_S66; cd07025 859655007593 dimer interface [polypeptide binding]; other site 859655007594 catalytic triad [active] 859655007595 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 859655007596 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 859655007597 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 859655007598 ABC transporter; Region: ABC_tran_2; pfam12848 859655007599 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 859655007600 Transposase domain (DUF772); Region: DUF772; pfam05598 859655007601 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 859655007602 Rhodococcus ruber 6-oxolauric acid dehydrogenase-like; Region: ALDH_CddD_SSP0762; cd07138 859655007603 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 859655007604 NAD binding site [chemical binding]; other site 859655007605 catalytic residues [active] 859655007606 Predicted Fe-S protein [General function prediction only]; Region: COG3313 859655007607 Glucoamylase and related glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: SGA1; COG3387 859655007608 Glycosyl hydrolases family 15; Region: Glyco_hydro_15; pfam00723 859655007609 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4320 859655007610 Uncharacterized protein conserved in bacteria (DUF2252); Region: DUF2252; pfam10009 859655007611 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 859655007612 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cd00181 859655007613 dimer interface [polypeptide binding]; other site 859655007614 ligand binding site [chemical binding]; other site 859655007615 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 859655007616 dimerization interface [polypeptide binding]; other site 859655007617 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 859655007618 dimer interface [polypeptide binding]; other site 859655007619 putative CheW interface [polypeptide binding]; other site 859655007620 Uncharacterized membrane protein [Function unknown]; Region: SapB; COG1285 859655007621 MgtC family; Region: MgtC; pfam02308 859655007622 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 859655007623 fatty acyl CoA reductases (FARs), extended (e) SDRs; Region: FAR-N_SDR_e; cd05236 859655007624 putative NAD(P) binding site [chemical binding]; other site 859655007625 active site 859655007626 putative substrate binding site [chemical binding]; other site 859655007627 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 859655007628 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 859655007629 XdhC Rossmann domain; Region: XdhC_C; pfam13478 859655007630 Carbon monoxide dehydrogenase subunit G (CoxG); Region: CoxG; cd05018 859655007631 putative hydrophobic ligand binding site [chemical binding]; other site 859655007632 Protein containing von Willebrand factor type A (vWA) domain [General function prediction only]; Region: CoxE; COG3552 859655007633 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 859655007634 metal ion-dependent adhesion site (MIDAS); other site 859655007635 MoxR-like ATPases [General function prediction only]; Region: COG0714 859655007636 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 859655007637 Walker A motif; other site 859655007638 ATP binding site [chemical binding]; other site 859655007639 Walker B motif; other site 859655007640 arginine finger; other site 859655007641 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 859655007642 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; smart01092 859655007643 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 859655007644 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 859655007645 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 859655007646 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 859655007647 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 859655007648 Uncharacterized protein conserved in bacteria [Function unknown]; Region: CreA; COG3045 859655007649 CreA protein; Region: CreA; pfam05981 859655007650 Transcriptional regulator [Transcription]; Region: LysR; COG0583 859655007651 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 859655007652 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 859655007653 putative effector binding pocket; other site 859655007654 dimerization interface [polypeptide binding]; other site 859655007655 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 859655007656 putative substrate translocation pore; other site 859655007657 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 859655007658 Membrane carboxypeptidase (penicillin-binding protein) [Cell envelope biogenesis, outer membrane]; Region: MrcB; COG0744 859655007659 Transglycosylase; Region: Transgly; pfam00912 859655007660 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 859655007661 Evidence 2b : Function of strongly homologous gene; Product type r : regulator 859655007662 adenosylmethionine--8-amino-7-oxononanoate transaminase; Provisional; Region: PRK06943 859655007663 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 859655007664 inhibitor-cofactor binding pocket; inhibition site 859655007665 pyridoxal 5'-phosphate binding site [chemical binding]; other site 859655007666 catalytic residue [active] 859655007667 8-amino-7-oxononanoate synthase; Reviewed; Region: PRK05958 859655007668 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 859655007669 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 859655007670 catalytic residue [active] 859655007671 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 859655007672 AAA domain; Region: AAA_26; pfam13500 859655007673 Protein of unknown function (DUF817); Region: DUF817; pfam05675 859655007674 Protein of unknown function (DUF1653); Region: DUF1653; cl01949 859655007675 K homology RNA-binding domain, type I. KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA. There are two different KH domains that...; Region: KH-I; cl17245 859655007676 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3749 859655007677 Sulfite reductase, beta subunit (hemoprotein) [Inorganic ion transport and metabolism]; Region: CysI; COG0155 859655007678 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 859655007679 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 859655007680 Heme/copper-type cytochrome/quinol oxidase, subunit 4 [Energy production and conversion]; Region: CyoD; COG3125 859655007681 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 859655007682 Subunit I/III interface [polypeptide binding]; other site 859655007683 Subunit III/IV interface [polypeptide binding]; other site 859655007684 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 859655007685 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 859655007686 D-pathway; other site 859655007687 Putative ubiquinol binding site [chemical binding]; other site 859655007688 Low-spin heme (heme b) binding site [chemical binding]; other site 859655007689 Putative water exit pathway; other site 859655007690 Binuclear center (heme o3/CuB) [ion binding]; other site 859655007691 K-pathway; other site 859655007692 Putative proton exit pathway; other site 859655007693 cytochrome o ubiquinol oxidase subunit II; Region: CyoA; TIGR01433 859655007694 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 859655007695 COX Aromatic Rich Motif; Region: COX_ARM; pfam06481 859655007696 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 859655007697 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 859655007698 DNA-binding site [nucleotide binding]; DNA binding site 859655007699 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 859655007700 pyridoxal 5'-phosphate binding site [chemical binding]; other site 859655007701 homodimer interface [polypeptide binding]; other site 859655007702 catalytic residue [active] 859655007703 nitrobindin heme-binding domain; Region: nitrobindin; cd07828 859655007704 heme-binding site [chemical binding]; other site 859655007705 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type h : extrachromosomal origin 859655007706 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme 859655007707 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 859655007708 pyridoxal 5'-phosphate binding site [chemical binding]; other site 859655007709 homodimer interface [polypeptide binding]; other site 859655007710 catalytic residue [active] 859655007711 Endolysins and autolysins are found in viruses and bacteria, respectively. The ds DNA phages of eubacteria use endolysins or muralytic enzymes in conjunction with hollin, a small membrane protein, to degrade the peptidoglycan found in bacterial cell...; Region: endolysin_autolysin; cd00737 859655007712 catalytic residues [active] 859655007713 Phage-related minor tail protein [Function unknown]; Region: COG5281 859655007714 tape measure domain; Region: tape_meas_nterm; TIGR02675 859655007715 Phage-related minor tail protein [Function unknown]; Region: COG5281 859655007716 prevent-host-death family protein; Region: phd_fam; TIGR01552 859655007717 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 859655007718 oligomeric interface; other site 859655007719 putative active site [active] 859655007720 homodimer interface [polypeptide binding]; other site 859655007721 YopJ Serine/Threonine acetyltransferase; Region: YopJ; cl07849 859655007722 H-NS histone family; Region: Histone_HNS; pfam00816 859655007723 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 859655007724 Phage major capsid protein E; Region: Phage_cap_E; pfam03864 859655007725 Bacteriophage lambda head decoration protein D; Region: HDPD; pfam02924 859655007726 Signal peptide peptidase A (SppA) 36K type, a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_36K_type; cd07022 859655007727 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 859655007728 tandem repeat interface [polypeptide binding]; other site 859655007729 oligomer interface [polypeptide binding]; other site 859655007730 active site residues [active] 859655007731 Bacteriophage capsid protein [General function prediction only]; Region: COG5511 859655007732 phage portal protein, lambda family; Region: portal_lambda; TIGR01539 859655007733 Bacteriophage capsid protein [General function prediction only]; Region: COG5511 859655007734 Phage terminase large subunit (GpA); Region: Terminase_GpA; pfam05876 859655007735 Protein of unknown function (DUF3489); Region: DUF3489; pfam11994 859655007736 Predicted nuclease of restriction endonuclease-like fold [General function prediction only]; Region: COG4804 859655007737 Predicted nuclease of restriction endonuclease-like fold [General function prediction only]; Region: COG4804 859655007738 Evidence 7 : Gene remnant 859655007739 Evidence 7 : Gene remnant 859655007740 ParB-like nuclease domain; Region: ParBc; pfam02195 859655007741 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 859655007742 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 859655007743 DNA methylase; Region: N6_N4_Mtase; pfam01555 859655007744 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 859655007745 ParB-like nuclease domain; Region: ParBc; pfam02195 859655007746 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 859655007747 DNA methylase; Region: N6_N4_Mtase; pfam01555 859655007748 hypothetical protein; Validated; Region: PRK07078 859655007749 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 859655007750 active site 859655007751 metal binding site [ion binding]; metal-binding site 859655007752 interdomain interaction site; other site 859655007753 D5 N terminal like; Region: D5_N; smart00885 859655007754 AAA domain; Region: AAA_24; pfam13479 859655007755 Helix-turn-helix domain; Region: HTH_17; cl17695 859655007756 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 859655007757 cyclase homology domain; Region: CHD; cd07302 859655007758 nucleotidyl binding site; other site 859655007759 metal binding site [ion binding]; metal-binding site 859655007760 dimer interface [polypeptide binding]; other site 859655007761 Prokaryotic E2 family B; Region: Prok-E2_B; pfam14461 859655007762 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 2 [Coenzyme metabolism]; Region: ThiF; COG0476 859655007763 ThiF family; Region: ThiF; pfam00899 859655007764 ATP binding site [chemical binding]; other site 859655007765 substrate interface [chemical binding]; other site 859655007766 Prokaryotic homologs of the JAB domain; Region: Prok-JAB; pfam14464 859655007767 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 859655007768 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 859655007769 ligand binding site [chemical binding]; other site 859655007770 flexible hinge region; other site 859655007771 Predicted nucleotide-binding protein containing TIR-like domain; Region: TIR-like; cl17861 859655007772 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type h : extrachromosomal origin 859655007773 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type h : extrachromosomal origin 859655007774 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme 859655007775 Nitroreductase-like family 1. 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_1; cd02137 859655007776 dimer interface [polypeptide binding]; other site 859655007777 FMN binding site [chemical binding]; other site 859655007778 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; cl00514 859655007779 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 859655007780 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 859655007781 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 859655007782 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 859655007783 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 859655007784 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 859655007785 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 859655007786 Endoglucanase C-terminal domain/subunit and related proteins [Carbohydrate transport and metabolism]; Region: COG4305 859655007787 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 859655007788 glutathionine S-transferase; Provisional; Region: PRK10542 859655007789 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 859655007790 C-terminal domain interface [polypeptide binding]; other site 859655007791 GSH binding site (G-site) [chemical binding]; other site 859655007792 dimer interface [polypeptide binding]; other site 859655007793 C-terminal, alpha helical domain of Class Beta Glutathione S-transferases; Region: GST_C_Beta; cd03188 859655007794 dimer interface [polypeptide binding]; other site 859655007795 N-terminal domain interface [polypeptide binding]; other site 859655007796 substrate binding pocket (H-site) [chemical binding]; other site 859655007797 Predicted transcriptional regulators [Transcription]; Region: COG1733 859655007798 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 859655007799 Predicted integral membrane protein [Function unknown]; Region: COG5455 859655007800 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 859655007801 Sulfite oxidase and related enzymes [General function prediction only]; Region: COG2041 859655007802 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 859655007803 Moco binding site; other site 859655007804 metal coordination site [ion binding]; other site 859655007805 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 859655007806 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 859655007807 CPxP motif; other site 859655007808 ADP-ribose pyrophosphatase [Nucleotide transport and metabolism]; Region: COG1051 859655007809 nudix motif; other site 859655007810 Threonine aldolase [Amino acid transport and metabolism]; Region: GLY1; COG2008 859655007811 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 859655007812 tetramer interface [polypeptide binding]; other site 859655007813 pyridoxal 5'-phosphate binding site [chemical binding]; other site 859655007814 catalytic residue [active] 859655007815 4-oxalocrotonate tautomerase; Provisional; Region: PRK00745 859655007816 active site 1 [active] 859655007817 dimer interface [polypeptide binding]; other site 859655007818 hexamer interface [polypeptide binding]; other site 859655007819 active site 2 [active] 859655007820 aldolase II superfamily protein; Provisional; Region: PRK07044 859655007821 intersubunit interface [polypeptide binding]; other site 859655007822 active site 859655007823 Zn2+ binding site [ion binding]; other site 859655007824 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 859655007825 putative substrate translocation pore; other site 859655007826 Transcriptional regulator [Transcription]; Region: LysR; COG0583 859655007827 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 859655007828 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 859655007829 dimerization interface [polypeptide binding]; other site 859655007830 Membrane-bound serine protease (ClpP class) [Posttranslational modification, protein turnover, chaperones]; Region: NfeD; COG1030 859655007831 Nodulation formation efficiency D (NfeD) is a membrane-bound ClpP-class protease; Region: Clp_protease_NfeD_1; cd07020 859655007832 dimer interface [polypeptide binding]; other site 859655007833 active site residues [active] 859655007834 NfeD-like C-terminal, partner-binding; Region: NfeD; pfam01957 859655007835 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 859655007836 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 859655007837 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 859655007838 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 859655007839 N-terminal plug; other site 859655007840 ligand-binding site [chemical binding]; other site 859655007841 Purine nucleoside permease [Nucleotide transport and metabolism]; Region: NUP; COG5042 859655007842 Purine nucleoside permease [Nucleotide transport and metabolism]; Region: NUP; COG5042 859655007843 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme 859655007844 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme 859655007845 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 859655007846 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 859655007847 motif 1; other site 859655007848 active site 859655007849 motif 2; other site 859655007850 motif 3; other site 859655007851 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 859655007852 DHHA1 domain; Region: DHHA1; pfam02272 859655007853 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 859655007854 CoA-transferase family III; Region: CoA_transf_3; pfam02515 859655007855 Predicted membrane protein [Function unknown]; Region: COG3556 859655007856 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 859655007857 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3333 859655007858 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 859655007859 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 859655007860 active site 859655007861 HIGH motif; other site 859655007862 nucleotide binding site [chemical binding]; other site 859655007863 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 859655007864 KMSKS motif; other site 859655007865 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 859655007866 Uncharacterized conserved protein [Function unknown]; Region: COG2353 859655007867 S4-like RNA binding protein [Replication, recombination, and repair]; Region: COG2501 859655007868 Predicted membrane protein [Function unknown]; Region: COG3686 859655007869 Protein of unknown function (DUF3999); Region: DUF3999; pfam13163 859655007870 Protein of unknown function (DUF3999); Region: DUF3999; pfam13163 859655007871 Predicted membrane protein [Function unknown]; Region: COG5373 859655007872 YaeQ protein; Region: YaeQ; pfam07152 859655007873 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 859655007874 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 859655007875 Uncharacterized protein involved in cation transport [Inorganic ion transport and metabolism]; Region: ChaC; COG3703 859655007876 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 859655007877 putative active site pocket [active] 859655007878 dimerization interface [polypeptide binding]; other site 859655007879 putative catalytic residue [active] 859655007880 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 859655007881 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 859655007882 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 859655007883 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 859655007884 Insertion element 4 transposase N-terminal; Region: Nterm_IS4; pfam13006 859655007885 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 859655007886 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK08314 859655007887 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 859655007888 Putative long-chain fatty acid CoA ligase; Region: LC_FACS_like; cd05935 859655007889 acyl-activating enzyme (AAE) consensus motif; other site 859655007890 putative AMP binding site [chemical binding]; other site 859655007891 putative active site [active] 859655007892 putative CoA binding site [chemical binding]; other site 859655007893 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]; Region: COG3118 859655007894 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 859655007895 catalytic residues [active] 859655007896 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 859655007897 binding surface 859655007898 TPR motif; other site 859655007899 Predicted protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: COG3531 859655007900 DsbA family, FrnE-like subfamily; composed of uncharacterized proteins containing a CXXC motif with similarity to DsbA and FrnE. FrnE is presumed to be a thiol oxidoreductase involved in polyketide biosynthesis, specifically in the production of the...; Region: DsbA_FrnE_like; cd03025 859655007901 catalytic residues [active] 859655007902 Hemerythrin; Region: Hemerythrin; cd12107 859655007903 catalase/hydroperoxidase HPI(I); Provisional; Region: PRK15061 859655007904 N-terminal catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_1; cd00649 859655007905 dimer interface [polypeptide binding]; other site 859655007906 active site 859655007907 heme binding site [chemical binding]; other site 859655007908 C-terminal non-catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_2; cd08200 859655007909 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]; Region: COG1179 859655007910 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 859655007911 putative ATP binding site [chemical binding]; other site 859655007912 putative substrate interface [chemical binding]; other site 859655007913 Uncharacterized protein involved in outer membrane biogenesis [Cell envelope biogenesis, outer membrane]; Region: AsmA; COG2982 859655007914 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 859655007915 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 859655007916 Cytochrome c; Region: Cytochrom_C; pfam00034 859655007917 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 859655007918 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 859655007919 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 859655007920 Membrane bound FAD containing D-sorbitol dehydrogenase; Region: FAD-SLDH; pfam12318 859655007921 Phosphoinositide 3-kinase (PI3K)-like family, catalytic domain; The PI3K-like catalytic domain 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: PI3Kc_like; cl00119 859655007922 pyridoxamine-phosphate oxidase; Region: pdxH; TIGR00558 859655007923 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 859655007924 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 859655007925 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 859655007926 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 859655007927 S-adenosylmethionine binding site [chemical binding]; other site 859655007928 Uncharacterized conserved protein [Function unknown]; Region: COG1801 859655007929 methionine sulfoxide reductase A; Provisional; Region: PRK14054 859655007930 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 859655007931 Protein of unknown function (DUF3079); Region: DUF3079; pfam11278 859655007932 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 859655007933 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 859655007934 putative DNA binding site [nucleotide binding]; other site 859655007935 putative Zn2+ binding site [ion binding]; other site 859655007936 AsnC family; Region: AsnC_trans_reg; pfam01037 859655007937 arylformamidase; Region: trp_arylform; TIGR03035 859655007938 Kynureninase [Amino acid transport and metabolism]; Region: COG3844 859655007939 kynureninase; Region: kynureninase; TIGR01814 859655007940 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 859655007941 catalytic residue [active] 859655007942 tryptophan 2,3-dioxygenase; Region: trp_2_3_diox; TIGR03036 859655007943 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 859655007944 Transcriptional regulator [Transcription]; Region: IclR; COG1414 859655007945 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 859655007946 Glutaryl-CoA dehydrogenase; Region: GCD; cd01151 859655007947 FAD binding site [chemical binding]; other site 859655007948 substrate binding pocket [chemical binding]; other site 859655007949 catalytic base [active] 859655007950 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 859655007951 Sulfate transporter family; Region: Sulfate_transp; pfam00916 859655007952 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 859655007953 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 859655007954 dimer interface [polypeptide binding]; other site 859655007955 decamer (pentamer of dimers) interface [polypeptide binding]; other site 859655007956 catalytic triad [active] 859655007957 Uncharacterized conserved protein [Function unknown]; Region: ElaB; COG4575 859655007958 Predicted membrane protein [Function unknown]; Region: COG5393 859655007959 Protein of unknown function (DUF3318); Region: DUF3318; pfam11780 859655007960 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4619 859655007961 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 859655007962 Walker A/P-loop; other site 859655007963 ATP binding site [chemical binding]; other site 859655007964 Q-loop/lid; other site 859655007965 ABC transporter signature motif; other site 859655007966 Walker B; other site 859655007967 D-loop; other site 859655007968 H-loop/switch region; other site 859655007969 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG0390 859655007970 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 859655007971 nudix motif; other site 859655007972 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 859655007973 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 859655007974 active site 859655007975 iron coordination sites [ion binding]; other site 859655007976 substrate binding pocket [chemical binding]; other site 859655007977 Nucleoside 2-deoxyribosyltransferase [Nucleotide transport and metabolism]; Region: COG3613 859655007978 DNA/RNA endonuclease G, NUC1 [Nucleotide transport and metabolism]; Region: NUC1; COG1864 859655007979 DNA/RNA non-specific endonuclease; Region: Endonuclease_NS; smart00892 859655007980 active site 859655007981 substrate binding site [chemical binding]; other site 859655007982 Mg2+ binding site [ion binding]; other site 859655007983 phospho-2-dehydro-3-deoxyheptonate aldolase; Provisional; Region: PRK12755 859655007984 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 859655007985 chemotaxis regulator CheZ; Provisional; Region: PRK11166 859655007986 chemotaxis regulatory protein CheY; Provisional; Region: PRK10610 859655007987 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 859655007988 active site 859655007989 phosphorylation site [posttranslational modification] 859655007990 intermolecular recognition site; other site 859655007991 dimerization interface [polypeptide binding]; other site 859655007992 PAAR motif; Region: PAAR_motif; pfam05488 859655007993 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; cl01733 859655007994 Thioesterase domain; Region: Thioesterase; pfam00975 859655007995 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 859655007996 active site 859655007997 DNA binding site [nucleotide binding] 859655007998 Int/Topo IB signature motif; other site 859655007999 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 859655008000 AAA domain; Region: AAA_25; pfam13481 859655008001 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 859655008002 Walker A motif; other site 859655008003 ATP binding site [chemical binding]; other site 859655008004 Walker B motif; other site 859655008005 Replication protein A, class 2b aminoacyl-tRNA synthetases, and related proteins with oligonucleotide/oligosaccharide (OB) fold; Region: RPA_2b-aaRSs_OBF_like; cl09930 859655008006 generic binding surface I; other site 859655008007 generic binding surface II; other site 859655008008 Predicted transporter component [General function prediction only]; Region: COG2391 859655008009 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 859655008010 Ligand Binding Site [chemical binding]; other site 859655008011 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1729 859655008012 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 859655008013 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 859655008014 ligand binding site [chemical binding]; other site 859655008015 translocation protein TolB; Provisional; Region: tolB; PRK02889 859655008016 TolB amino-terminal domain; Region: TolB_N; pfam04052 859655008017 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 859655008018 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 859655008019 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 859655008020 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 859655008021 TolA protein; Region: tolA_full; TIGR02794 859655008022 TonB C terminal; Region: TonB_2; pfam13103 859655008023 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 859655008024 TolR protein; Region: tolR; TIGR02801 859655008025 TolQ protein; Region: tolQ; TIGR02796 859655008026 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 859655008027 active site 859655008028 malonic semialdehyde reductase; Provisional; Region: PRK10538 859655008029 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 859655008030 NAD(P) binding site [chemical binding]; other site 859655008031 active site 859655008032 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 859655008033 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 859655008034 dimer interface [polypeptide binding]; other site 859655008035 active site 859655008036 glycine-pyridoxal phosphate binding site [chemical binding]; other site 859655008037 folate binding site [chemical binding]; other site 859655008038 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 859655008039 ATP cone domain; Region: ATP-cone; pfam03477 859655008040 type IV pilus modification protein PilV; Region: type_IV_pilV; TIGR02523 859655008041 Tfp pilus assembly protein PilW [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilW; COG4966 859655008042 Tfp pilus assembly protein PilX [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilX; COG4726 859655008043 PilX N-terminal; Region: PilX_N; pfam14341 859655008044 Type IV pilus assembly protein PilX C-term; Region: PilX; pfam13681 859655008045 Tfp pilus assembly protein, tip-associated adhesin PilY1 [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilY1; COG3419 859655008046 Neisseria PilC beta-propeller domain; Region: Neisseria_PilC; pfam05567 859655008047 Tfp pilus assembly protein PilE [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilE; COG4968 859655008048 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 859655008049 Tfp pilus assembly protein FimT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimT; COG4970 859655008050 Type II transport protein GspH; Region: GspH; pfam12019 859655008051 Tfp pilus assembly protein PilW [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilW; COG4966 859655008052 Tfp pilus assembly protein PilX [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilX; COG4726 859655008053 Type IV pilus assembly protein PilX C-term; Region: PilX; pfam13681 859655008054 Tfp pilus assembly protein, tip-associated adhesin PilY1 [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilY1; COG3419 859655008055 Neisseria PilC beta-propeller domain; Region: Neisseria_PilC; pfam05567 859655008056 Tfp pilus assembly protein PilE [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilE; COG4968 859655008057 Tfp pilus assembly protein FimT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimT; COG4970 859655008058 bifunctional diaminohydroxyphosphoribosylaminopyrimidine deaminase/5-amino-6-(5-phosphoribosylamino)uracil reductase; Provisional; Region: ribD; PRK10786 859655008059 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 859655008060 catalytic motif [active] 859655008061 Zn binding site [ion binding]; other site 859655008062 RibD C-terminal domain; Region: RibD_C; cl17279 859655008063 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 859655008064 Lumazine binding domain; Region: Lum_binding; pfam00677 859655008065 Lumazine binding domain; Region: Lum_binding; pfam00677 859655008066 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II-like protein; Provisional; Region: PRK14019 859655008067 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 859655008068 GTP cyclohydrolase II; Region: GTP_cyclohydro2; pfam00925 859655008069 dimerization interface [polypeptide binding]; other site 859655008070 active site 859655008071 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 859655008072 homopentamer interface [polypeptide binding]; other site 859655008073 active site 859655008074 transcription antitermination protein NusB; Reviewed; Region: nusB; PRK00202 859655008075 aminotransferase; Validated; Region: PRK07337 859655008076 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 859655008077 pyridoxal 5'-phosphate binding site [chemical binding]; other site 859655008078 homodimer interface [polypeptide binding]; other site 859655008079 catalytic residue [active] 859655008080 Transposase domain (DUF772); Region: DUF772; pfam05598 859655008081 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 859655008082 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 859655008083 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 859655008084 N-acetyl-D-glucosamine binding site [chemical binding]; other site 859655008085 catalytic residue [active] 859655008086 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 859655008087 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4318 859655008088 Domain of unknown function (DUF4337); Region: DUF4337; pfam14235 859655008089 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 859655008090 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 859655008091 acyl-activating enzyme (AAE) consensus motif; other site 859655008092 AMP binding site [chemical binding]; other site 859655008093 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 859655008094 Condensation domain; Region: Condensation; pfam00668 859655008095 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 859655008096 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 859655008097 acyl-activating enzyme (AAE) consensus motif; other site 859655008098 AMP binding site [chemical binding]; other site 859655008099 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 859655008100 Predicted thioesterase involved in non-ribosomal peptide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: GrsT; COG3208 859655008101 Condensation domain; Region: Condensation; pfam00668 859655008102 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 859655008103 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 859655008104 Branched-chain amino acid transport protein (AzlD); Region: AzlD; cl00735 859655008105 AzlC protein; Region: AzlC; cl00570 859655008106 2,3-diaminopropionate biosynthesis protein SbnB; Region: dehyd_SbnB_fam; TIGR03944 859655008107 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 859655008108 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 859655008109 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; pfam13808 859655008110 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; cl17880 859655008111 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme 859655008112 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 859655008113 S-adenosylmethionine binding site [chemical binding]; other site 859655008114 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 859655008115 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 859655008116 active site 859655008117 FMN binding site [chemical binding]; other site 859655008118 substrate binding site [chemical binding]; other site 859655008119 homotetramer interface [polypeptide binding]; other site 859655008120 catalytic residue [active] 859655008121 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 859655008122 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 859655008123 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 859655008124 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 859655008125 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 859655008126 S-adenosylmethionine binding site [chemical binding]; other site 859655008127 Member of the Rhodanese Homology Domain superfamily, subgroup 2. Subgroup 2 includes uncharacterized putative rhodanese-related domains; Region: RHOD_2; cd01528 859655008128 active site residue [active] 859655008129 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 859655008130 Heat shock protein [Posttranslational modification, protein turnover, chaperones]; Region: HslJ; COG3187 859655008131 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 859655008132 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 859655008133 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 859655008134 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 859655008135 putative active site [active] 859655008136 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 859655008137 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 859655008138 active site 859655008139 substrate binding site [chemical binding]; other site 859655008140 metal binding site [ion binding]; metal-binding site 859655008141 Chain length determinant protein; Region: Wzz; cl15801 859655008142 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 859655008143 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 859655008144 Mg++ binding site [ion binding]; other site 859655008145 putative catalytic motif [active] 859655008146 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 859655008147 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 859655008148 Probable Catalytic site; other site 859655008149 metal-binding site 859655008150 RfbF is a putative dTDP-rhamnosyl transferase; Region: GT2_RfbF_like; cd02526 859655008151 L-rhamnosyltransferase; Region: rhamnosyltran; TIGR01556 859655008152 Ligand binding site; other site 859655008153 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 859655008154 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 859655008155 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: rmlC; TIGR01221 859655008156 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 859655008157 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 859655008158 substrate binding site; other site 859655008159 tetramer interface; other site 859655008160 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 859655008161 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 859655008162 NADP binding site [chemical binding]; other site 859655008163 active site 859655008164 putative substrate binding site [chemical binding]; other site 859655008165 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 859655008166 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 859655008167 NAD binding site [chemical binding]; other site 859655008168 substrate binding site [chemical binding]; other site 859655008169 homodimer interface [polypeptide binding]; other site 859655008170 active site 859655008171 diadenosine tetraphosphatase; Reviewed; Region: apaH; PRK00166 859655008172 Escherichia coli ApaH and related proteins, metallophosphatase domain; Region: MPP_ApaH; cd07422 859655008173 active site 859655008174 metal binding site [ion binding]; metal-binding site 859655008175 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 859655008176 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 859655008177 putative acyl-acceptor binding pocket; other site 859655008178 dihydroorotase; Provisional; Region: PRK07627 859655008179 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 859655008180 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 859655008181 active site 859655008182 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 859655008183 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 859655008184 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 859655008185 Pyrimidine operon attenuation protein/uracil phosphoribosyltransferase [Nucleotide transport and metabolism]; Region: PyrR; COG2065 859655008186 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 859655008187 active site 859655008188 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 859655008189 hypothetical protein; Validated; Region: PRK00228 859655008190 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 859655008191 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 859655008192 RNA binding surface [nucleotide binding]; other site 859655008193 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 859655008194 active site 859655008195 uracil binding [chemical binding]; other site 859655008196 DNA photolyase; Region: DNA_photolyase; pfam00875 859655008197 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 859655008198 putative binding surface; other site 859655008199 active site 859655008200 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 859655008201 putative binding surface; other site 859655008202 active site 859655008203 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 859655008204 putative binding surface; other site 859655008205 active site 859655008206 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 859655008207 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 859655008208 ATP binding site [chemical binding]; other site 859655008209 Mg2+ binding site [ion binding]; other site 859655008210 G-X-G motif; other site 859655008211 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 859655008212 Response regulator receiver domain; Region: Response_reg; pfam00072 859655008213 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 859655008214 active site 859655008215 phosphorylation site [posttranslational modification] 859655008216 intermolecular recognition site; other site 859655008217 dimerization interface [polypeptide binding]; other site 859655008218 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 859655008219 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 859655008220 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 859655008221 dimer interface [polypeptide binding]; other site 859655008222 putative CheW interface [polypeptide binding]; other site 859655008223 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 859655008224 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 859655008225 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 859655008226 active site 859655008227 phosphorylation site [posttranslational modification] 859655008228 intermolecular recognition site; other site 859655008229 dimerization interface [polypeptide binding]; other site 859655008230 Response regulator receiver domain; Region: Response_reg; pfam00072 859655008231 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 859655008232 active site 859655008233 phosphorylation site [posttranslational modification] 859655008234 intermolecular recognition site; other site 859655008235 dimerization interface [polypeptide binding]; other site 859655008236 Rubredoxin [Energy production and conversion]; Region: COG1773 859655008237 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 859655008238 iron binding site [ion binding]; other site 859655008239 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 859655008240 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 859655008241 inhibitor-cofactor binding pocket; inhibition site 859655008242 pyridoxal 5'-phosphate binding site [chemical binding]; other site 859655008243 catalytic residue [active] 859655008244 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme 859655008245 Uncharacterized conserved protein [Function unknown]; Region: LemA; COG1704 859655008246 Beta-propeller domains of methanol dehydrogenase type [General function prediction only]; Region: COG1512 859655008247 Repair protein; Region: Repair_PSII; pfam04536 859655008248 Predicted membrane protein [Function unknown]; Region: COG3762 859655008249 Flp pilus assembly protein, pilin Flp [Intracellular trafficking and secretion]; Region: Flp; COG3847 859655008250 Flp pilus assembly protein, pilin Flp [Intracellular trafficking and secretion]; Region: Flp; COG3847 859655008251 Flp pilus assembly protein, pilin Flp [Intracellular trafficking and secretion]; Region: Flp; COG3847 859655008252 Flp pilus assembly protein, protease CpaA [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: CpaA; COG4960 859655008253 Flp pilus assembly protein CpaB [Intracellular trafficking and secretion]; Region: CpaB; COG3745 859655008254 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 859655008255 Flp pilus assembly protein, secretin CpaC [Intracellular trafficking and secretion]; Region: CpaC; COG4964 859655008256 Pilus formation protein N terminal region; Region: T2SS-T3SS_pil_N; pfam13629 859655008257 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 859655008258 Flp pilus assembly protein, ATPase CpaE [Intracellular trafficking and secretion]; Region: CpaE; COG4963 859655008259 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 859655008260 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 859655008261 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 859655008262 ATP binding site [chemical binding]; other site 859655008263 Walker A motif; other site 859655008264 hexamer interface [polypeptide binding]; other site 859655008265 Walker B motif; other site 859655008266 Flp pilus assembly protein TadB [Intracellular trafficking and secretion]; Region: TadB; COG4965 859655008267 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 859655008268 Flp pilus assembly protein TadC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: TadC; COG2064 859655008269 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 859655008270 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 859655008271 Putative Tad-like Flp pilus-assembly; Region: Tad_C; pfam09977 859655008272 Zn-dependent protease with chaperone function [Posttranslational modification, protein turnover, chaperones]; Region: HtpX; COG0501 859655008273 Bacterial protein of unknown function (DUF898); Region: DUF898; cl01738 859655008274 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 859655008275 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 859655008276 ring oligomerisation interface [polypeptide binding]; other site 859655008277 ATP/Mg binding site [chemical binding]; other site 859655008278 stacking interactions; other site 859655008279 hinge regions; other site 859655008280 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 859655008281 oligomerisation interface [polypeptide binding]; other site 859655008282 mobile loop; other site 859655008283 roof hairpin; other site 859655008284 recombination associated protein; Reviewed; Region: rdgC; PRK00321 859655008285 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4922 859655008286 Transcriptional regulator [Transcription]; Region: LysR; COG0583 859655008287 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 859655008288 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 859655008289 dimerization interface [polypeptide binding]; other site 859655008290 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 859655008291 EamA-like transporter family; Region: EamA; pfam00892 859655008292 EamA-like transporter family; Region: EamA; pfam00892 859655008293 Inclusion body protein; Region: PixA; pfam12306 859655008294 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 859655008295 ApbE family; Region: ApbE; pfam02424 859655008296 FMN-binding domain; Region: FMN_bind; pfam04205 859655008297 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; cl01768 859655008298 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 859655008299 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 859655008300 C-terminal, alpha helical domain of an unknown subfamily 8 of Glutathione S-transferases; Region: GST_C_8; cd03207 859655008301 dimer interface [polypeptide binding]; other site 859655008302 N-terminal domain interface [polypeptide binding]; other site 859655008303 putative substrate binding pocket (H-site) [chemical binding]; other site 859655008304 Cache domain; Region: Cache_1; pfam02743 859655008305 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 859655008306 dimerization interface [polypeptide binding]; other site 859655008307 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 859655008308 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 859655008309 dimer interface [polypeptide binding]; other site 859655008310 putative CheW interface [polypeptide binding]; other site 859655008311 Zn-dependent alcohol dehydrogenases, class III [Energy production and conversion]; Region: AdhC; COG1062 859655008312 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 859655008313 substrate binding site [chemical binding]; other site 859655008314 catalytic Zn binding site [ion binding]; other site 859655008315 NAD binding site [chemical binding]; other site 859655008316 structural Zn binding site [ion binding]; other site 859655008317 dimer interface [polypeptide binding]; other site 859655008318 S-formylglutathione hydrolase; Region: PLN02442 859655008319 S-formylglutathione hydrolase; Region: fghA_ester_D; TIGR02821 859655008320 Paraquat-inducible protein A; Region: PqiA; pfam04403 859655008321 Uncharacterized paraquat-inducible protein A [Function unknown]; Region: PqiA; COG2995 859655008322 Paraquat-inducible protein A; Region: PqiA; pfam04403 859655008323 Paraquat-inducible protein B [General function prediction only]; Region: PqiB; COG3008 859655008324 mce related protein; Region: MCE; pfam02470 859655008325 mce related protein; Region: MCE; pfam02470 859655008326 mce related protein; Region: MCE; pfam02470 859655008327 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3009 859655008328 Protein of unknown function (DUF330); Region: DUF330; pfam03886 859655008329 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 859655008330 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 859655008331 DNA-binding site [nucleotide binding]; DNA binding site 859655008332 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 859655008333 pyridoxal 5'-phosphate binding site [chemical binding]; other site 859655008334 homodimer interface [polypeptide binding]; other site 859655008335 catalytic residue [active] 859655008336 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 859655008337 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 859655008338 Domain of unknown function (DUF3391); Region: DUF3391; pfam11871 859655008339 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 859655008340 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 859655008341 Zn2+ binding site [ion binding]; other site 859655008342 Mg2+ binding site [ion binding]; other site 859655008343 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 859655008344 MarR family; Region: MarR; pfam01047 859655008345 amidase; Provisional; Region: PRK07056 859655008346 Amidase; Region: Amidase; cl11426 859655008347 PAS domain S-box; Region: sensory_box; TIGR00229 859655008348 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 859655008349 putative active site [active] 859655008350 heme pocket [chemical binding]; other site 859655008351 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 859655008352 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 859655008353 PAS fold; Region: PAS; pfam00989 859655008354 PAS domain; Region: PAS; smart00091 859655008355 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 859655008356 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 859655008357 metal binding site [ion binding]; metal-binding site 859655008358 active site 859655008359 I-site; other site 859655008360 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 859655008361 carotene biosynthesis associated membrane protein; Region: crt_membr; TIGR03459 859655008362 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 859655008363 Major Facilitator Superfamily; Region: MFS_1; pfam07690 859655008364 D-alanyl-D-alanine carboxypeptidase (penicillin-binding protein 4) [Cell envelope biogenesis, outer membrane]; Region: DacB; COG2027 859655008365 Molybdenum is an essential trace element in the form of molybdenum cofactor (Moco) which is associated with the metabolism of nitrogen, carbon and sulfur by redox active enzymes. In E. coli, the synthesis of Moco involves genes from several loci: moa; Region: MobB; cd03116 859655008366 Phospholipase/lecithinase/hemolysin [Lipid metabolism / General function prediction only]; Region: COG3240 859655008367 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 859655008368 active site 859655008369 catalytic triad [active] 859655008370 oxyanion hole [active] 859655008371 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 859655008372 Putative GTP-binding controlling metal-binding; Region: SUA5; pfam03481 859655008373 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 859655008374 ATP-grasp domain; Region: ATP-grasp; pfam02222 859655008375 AIR carboxylase; Region: AIRC; pfam00731 859655008376 non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_Sc; cd01414 859655008377 ATP binding site [chemical binding]; other site 859655008378 active site 859655008379 substrate binding site [chemical binding]; other site 859655008380 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 859655008381 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 859655008382 intersubunit interface [polypeptide binding]; other site 859655008383 active site 859655008384 zinc binding site [ion binding]; other site 859655008385 Na+ binding site [ion binding]; other site 859655008386 pyruvate kinase; Provisional; Region: PRK05826 859655008387 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 859655008388 domain interfaces; other site 859655008389 active site 859655008390 phosphoglycerate kinase; Provisional; Region: pgk; PRK00073 859655008391 Phosphoglycerate kinase; Region: PGK; pfam00162 859655008392 substrate binding site [chemical binding]; other site 859655008393 hinge regions; other site 859655008394 ADP binding site [chemical binding]; other site 859655008395 catalytic site [active] 859655008396 Predicted permeases [General function prediction only]; Region: RarD; COG2962 859655008397 Predicted membrane protein [Function unknown]; Region: COG4392 859655008398 AzlC protein; Region: AzlC; pfam03591 859655008399 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 859655008400 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 859655008401 homodimer interface [polypeptide binding]; other site 859655008402 substrate-cofactor binding pocket; other site 859655008403 catalytic residue [active] 859655008404 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4391 859655008405 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 859655008406 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 859655008407 putative active site [active] 859655008408 SnoaL-like domain; Region: SnoaL_3; pfam13474 859655008409 Predicted hydrolase of the alpha/beta-hydrolase fold [General function prediction only]; Region: COG0429 859655008410 Protein of unknown function (DUF2946); Region: DUF2944; pfam11161 859655008411 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]; Region: COG4783 859655008412 Peptidase family M48; Region: Peptidase_M48; pfam01435 859655008413 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 859655008414 trimer interface [polypeptide binding]; other site 859655008415 dimer interface [polypeptide binding]; other site 859655008416 putative active site [active] 859655008417 Evidence 2b : Function of strongly homologous gene; Product type h : extrachromosomal origin 859655008418 Evidence 2b : Function of strongly homologous gene; Product type h : extrachromosomal origin 859655008419 Transposase domain (DUF772); Region: DUF772; pfam05598 859655008420 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 859655008421 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 859655008422 O-Antigen ligase; Region: Wzy_C; pfam04932 859655008423 Domain of unknown function (DUF3366); Region: DUF3366; pfam11846 859655008424 Tfp pilus assembly protein, major pilin PilA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilA; COG4969 859655008425 Pilin (bacterial filament); Region: Pilin; pfam00114 859655008426 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 859655008427 Tfp pilus assembly protein, major pilin PilA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilA; COG4969 859655008428 Pilin (bacterial filament); Region: Pilin; pfam00114 859655008429 integral membrane protein, YjbE family; Region: R_switched_YjbE; TIGR03717 859655008430 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 859655008431 CoA binding domain; Region: CoA_binding; smart00881 859655008432 CoA-ligase; Region: Ligase_CoA; pfam00549 859655008433 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 859655008434 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 859655008435 CoA-ligase; Region: Ligase_CoA; pfam00549 859655008436 Protein of unknown function (DUF2889); Region: DUF2889; pfam11136 859655008437 RecX family; Region: RecX; cl00936 859655008438 recombinase A; Provisional; Region: recA; PRK09354 859655008439 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 859655008440 hexamer interface [polypeptide binding]; other site 859655008441 Walker A motif; other site 859655008442 ATP binding site [chemical binding]; other site 859655008443 Walker B motif; other site 859655008444 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 859655008445 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 859655008446 active site 859655008447 phosphorylation site [posttranslational modification] 859655008448 intermolecular recognition site; other site 859655008449 dimerization interface [polypeptide binding]; other site 859655008450 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 859655008451 DNA binding site [nucleotide binding] 859655008452 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 859655008453 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 859655008454 HAMP domain; Region: HAMP; pfam00672 859655008455 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 859655008456 dimer interface [polypeptide binding]; other site 859655008457 phosphorylation site [posttranslational modification] 859655008458 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 859655008459 ATP binding site [chemical binding]; other site 859655008460 Mg2+ binding site [ion binding]; other site 859655008461 G-X-G motif; other site 859655008462 Predicted membrane protein [Function unknown]; Region: COG4327 859655008463 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 859655008464 putative substrate translocation pore; other site 859655008465 2-polyprenyl-6-methoxyphenol hydroxylase and related FAD-dependent oxidoreductases [Coenzyme metabolism / Energy production and conversion]; Region: UbiH; COG0654 859655008466 hypothetical protein; Provisional; Region: PRK07236 859655008467 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 859655008468 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 859655008469 active site 859655008470 phosphorylation site [posttranslational modification] 859655008471 intermolecular recognition site; other site 859655008472 dimerization interface [polypeptide binding]; other site 859655008473 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 859655008474 DNA binding site [nucleotide binding] 859655008475 LysR family transcriptional regulator; Provisional; Region: PRK14997 859655008476 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 859655008477 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 859655008478 putative effector binding pocket; other site 859655008479 dimerization interface [polypeptide binding]; other site 859655008480 Pirin-related protein [General function prediction only]; Region: COG1741 859655008481 Pirin; Region: Pirin; pfam02678 859655008482 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 859655008483 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 859655008484 Transposase; Region: DEDD_Tnp_IS110; pfam01548 859655008485 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 859655008486 Putative homoserine kinase type II (protein kinase fold) [General function prediction only]; Region: COG2334 859655008487 serine/threonine protein kinase; Provisional; Region: PRK11768 859655008488 ATP-dependent RNA helicase RhlB; Provisional; Region: PRK04837 859655008489 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 859655008490 ATP binding site [chemical binding]; other site 859655008491 Mg++ binding site [ion binding]; other site 859655008492 motif III; other site 859655008493 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 859655008494 nucleotide binding region [chemical binding]; other site 859655008495 ATP-binding site [chemical binding]; other site 859655008496 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 859655008497 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 859655008498 acyl-CoA dehydrogenase; Reviewed; Region: fadE; PRK09463 859655008499 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 859655008500 active site 859655008501 Domain of unknown function (DUF1974); Region: DUF1974; pfam09317 859655008502 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK08261 859655008503 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 859655008504 NAD(P) binding site [chemical binding]; other site 859655008505 active site 859655008506 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme 859655008507 Protein of unknown function (DUF1571); Region: DUF1571; pfam07608 859655008508 Predicted NAD/FAD-dependent oxidoreductase [General function prediction only]; Region: COG3380 859655008509 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 859655008510 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 859655008511 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 859655008512 FeS/SAM binding site; other site 859655008513 TRAM domain; Region: TRAM; pfam01938 859655008514 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 859655008515 PhoH-like protein; Region: PhoH; pfam02562 859655008516 unkown domain/putative metalloprotease fusion protein; Provisional; Region: PRK13963 859655008517 Putative Mg2+ and Co2+ transporter CorC [Inorganic ion transport and metabolism]; Region: CorC; COG4535 859655008518 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 859655008519 Transporter associated domain; Region: CorC_HlyC; smart01091 859655008520 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 859655008521 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 859655008522 putative active site [active] 859655008523 catalytic triad [active] 859655008524 putative dimer interface [polypeptide binding]; other site 859655008525 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 859655008526 dimer interface [polypeptide binding]; other site 859655008527 motif 1; other site 859655008528 active site 859655008529 motif 2; other site 859655008530 motif 3; other site 859655008531 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 859655008532 DALR anticodon binding domain; Region: DALR_1; pfam05746 859655008533 D,D-heptose 1,7-bisphosphate phosphatase; Validated; Region: PRK08942 859655008534 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 859655008535 active site 859655008536 motif I; other site 859655008537 motif II; other site 859655008538 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 859655008539 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 859655008540 putative acyl-acceptor binding pocket; other site 859655008541 Protein of unknown function DUF45; Region: DUF45; pfam01863 859655008542 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 859655008543 dimer interface [polypeptide binding]; other site 859655008544 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 859655008545 active site 859655008546 metal binding site [ion binding]; metal-binding site 859655008547 glutathione binding site [chemical binding]; other site 859655008548 putative DMT superfamily transporter inner membrane protein; Provisional; Region: PRK11272 859655008549 EamA-like transporter family; Region: EamA; pfam00892 859655008550 EamA-like transporter family; Region: EamA; pfam00892 859655008551 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 859655008552 Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]; Region: KsgA; COG0030 859655008553 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK01909 859655008554 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 859655008555 peptidyl-prolyl cis-trans isomerase SurA; Provisional; Region: PRK10770 859655008556 SurA N-terminal domain; Region: SurA_N; pfam09312 859655008557 PPIC-type PPIASE domain; Region: Rotamase_3; pfam13616 859655008558 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 859655008559 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 859655008560 Organic solvent tolerance protein; Region: OstA_C; pfam04453 859655008561 Predicted phosphotransferase related to Ser/Thr protein kinases [General function prediction only]; Region: COG3178 859655008562 Phosphotransferase enzyme family; Region: APH; pfam01636 859655008563 Predicted branched-chain amino acid permease (azaleucine resistance) [Amino acid transport and metabolism]; Region: AzlC; COG1296 859655008564 Predicted membrane protein [Function unknown]; Region: COG4392 859655008565 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 859655008566 NTP_transferase_like_1 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_1; cd06422 859655008567 Substrate binding site; other site 859655008568 metal-binding site 859655008569 MHYT domain (predicted integral membrane sensor domain) [Signal transduction mechanisms]; Region: COG3300 859655008570 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 859655008571 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 859655008572 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 859655008573 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 859655008574 metal binding site [ion binding]; metal-binding site 859655008575 active site 859655008576 I-site; other site 859655008577 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 859655008578 Aminopeptidase P, N-terminal domain; Region: AMP_N; pfam05195 859655008579 proline aminopeptidase P II; Provisional; Region: PRK10879 859655008580 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 859655008581 active site 859655008582 hypothetical protein; Provisional; Region: PRK06996 859655008583 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 859655008584 Uncharacterized protein conserved in bacteria (DUF2136); Region: DUF2136; pfam09907 859655008585 Predicted transcription regulator containing HTH domain [Transcription]; Region: COG5499 859655008586 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 859655008587 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 859655008588 FMN binding site [chemical binding]; other site 859655008589 active site 859655008590 catalytic residues [active] 859655008591 substrate binding site [chemical binding]; other site 859655008592 Factor for inversion stimulation Fis, transcriptional activator [Transcription / DNA replication, recombination, and repair]; Region: Fis; COG2901 859655008593 DNA-binding protein Fis; Provisional; Region: PRK01905 859655008594 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 859655008595 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 859655008596 purine monophosphate binding site [chemical binding]; other site 859655008597 dimer interface [polypeptide binding]; other site 859655008598 putative catalytic residues [active] 859655008599 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 859655008600 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 859655008601 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 859655008602 active site 859655008603 putative DNA-binding cleft [nucleotide binding]; other site 859655008604 dimer interface [polypeptide binding]; other site 859655008605 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 859655008606 Glycerophosphodiester phosphodiesterase domain of Streptomycin coelicolor (GlpQ1) and similar proteins; Region: GDPD_ScGlpQ1_like; cd08602 859655008607 putative active site [active] 859655008608 catalytic site [active] 859655008609 putative metal binding site [ion binding]; other site 859655008610 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 859655008611 RuvA N terminal domain; Region: RuvA_N; pfam01330 859655008612 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 859655008613 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 859655008614 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 859655008615 Walker A motif; other site 859655008616 ATP binding site [chemical binding]; other site 859655008617 Walker B motif; other site 859655008618 arginine finger; other site 859655008619 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 859655008620 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 859655008621 catalytic core [active] 859655008622 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 859655008623 putative active site [active] 859655008624 dimerization interface [polypeptide binding]; other site 859655008625 putative tRNAtyr binding site [nucleotide binding]; other site 859655008626 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 859655008627 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 859655008628 active site 859655008629 HIGH motif; other site 859655008630 dimer interface [polypeptide binding]; other site 859655008631 KMSKS motif; other site 859655008632 RNA recognition motif (RRM) superfamily; Region: RRM_SF; cl17169 859655008633 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 859655008634 RNA binding surface [nucleotide binding]; other site 859655008635 anhydro-N-acetylmuramic acid kinase; Reviewed; Region: anmK; PRK09585 859655008636 iron-sulfur cluster insertion protein ErpA; Provisional; Region: PRK13623 859655008637 Integral membrane protein CcmA involved in cell shape determination [Cell envelope biogenesis, outer membrane]; Region: CcmA; COG1664 859655008638 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 859655008639 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 859655008640 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 859655008641 23S rRNA interface [nucleotide binding]; other site 859655008642 L3 interface [polypeptide binding]; other site 859655008643 OsmC-like protein; Region: OsmC; cl00767 859655008644 Protein of unknown function (DUF3025); Region: DUF3025; pfam11227 859655008645 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 859655008646 active site 859655008647 substrate binding pocket [chemical binding]; other site 859655008648 dimer interface [polypeptide binding]; other site 859655008649 Putative glycerate kinase [Carbohydrate transport and metabolism]; Region: GckA; COG2379 859655008650 Domain of unknown function (DUF4147); Region: DUF4147; pfam13660 859655008651 MOFRL family; Region: MOFRL; pfam05161 859655008652 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 859655008653 Predicted glutamine amidotransferase [General function prediction only]; Region: COG0121 859655008654 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 859655008655 putative active site [active] 859655008656 putative dimer interface [polypeptide binding]; other site 859655008657 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 859655008658 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 859655008659 Walker A/P-loop; other site 859655008660 ATP binding site [chemical binding]; other site 859655008661 Q-loop/lid; other site 859655008662 ABC transporter signature motif; other site 859655008663 Walker B; other site 859655008664 D-loop; other site 859655008665 H-loop/switch region; other site 859655008666 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 859655008667 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 859655008668 dimer interface [polypeptide binding]; other site 859655008669 conserved gate region; other site 859655008670 putative PBP binding loops; other site 859655008671 ABC-ATPase subunit interface; other site 859655008672 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 859655008673 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 859655008674 dimer interface [polypeptide binding]; other site 859655008675 conserved gate region; other site 859655008676 putative PBP binding loops; other site 859655008677 ABC-ATPase subunit interface; other site 859655008678 glutamate and aspartate transporter subunit; Provisional; Region: PRK10797 859655008679 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 859655008680 substrate binding pocket [chemical binding]; other site 859655008681 membrane-bound complex binding site; other site 859655008682 hinge residues; other site 859655008683 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 859655008684 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 859655008685 NAD(P) binding domain of glutamate dehydrogenase, subgroup 1; Region: NAD_bind_1_Glu_DH; cd01076 859655008686 NAD(P) binding site [chemical binding]; other site 859655008687 cell density-dependent motility repressor; Provisional; Region: PRK10082 859655008688 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 859655008689 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 859655008690 dimerization interface [polypeptide binding]; other site 859655008691 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 859655008692 ABC-type transport system involved in Fe-S cluster assembly, permease and ATPase components [Posttranslational modification, protein turnover, chaperones]; Region: ATM1; COG5265 859655008693 ATP-binding cassette domain of iron-sulfur clusters transporter, subfamily C; Region: ABCC_ATM1_transporter; cd03253 859655008694 Walker A/P-loop; other site 859655008695 ATP binding site [chemical binding]; other site 859655008696 Q-loop/lid; other site 859655008697 ABC transporter signature motif; other site 859655008698 Walker B; other site 859655008699 D-loop; other site 859655008700 H-loop/switch region; other site 859655008701 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 859655008702 enoyl-CoA hydratase; Provisional; Region: PRK06688 859655008703 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 859655008704 substrate binding site [chemical binding]; other site 859655008705 oxyanion hole (OAH) forming residues; other site 859655008706 trimer interface [polypeptide binding]; other site 859655008707 acetyl-CoA acetyltransferase; Provisional; Region: PRK09052 859655008708 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 859655008709 dimer interface [polypeptide binding]; other site 859655008710 active site 859655008711 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism]; Region: FadB; COG1250 859655008712 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 859655008713 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 859655008714 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 859655008715 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 859655008716 substrate binding site [chemical binding]; other site 859655008717 oxyanion hole (OAH) forming residues; other site 859655008718 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 859655008719 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 859655008720 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 859655008721 active site 859655008722 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 859655008723 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 859655008724 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 859655008725 Acyl CoA:acetate/3-ketoacid CoA transferase [Lipid metabolism]; Region: COG4670 859655008726 Coenzyme A transferase; Region: CoA_trans; smart00882 859655008727 Coenzyme A transferase; Region: CoA_trans; cl17247 859655008728 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 859655008729 putative active site [active] 859655008730 catalytic site [active] 859655008731 Catalytic domain, repeat 2, of Escherichia coli cardiolipin synthase ybhO and similar proteins; Region: PLDc_ybhO_like_2; cd09159 859655008732 PLD-like domain; Region: PLDc_2; pfam13091 859655008733 putative active site [active] 859655008734 catalytic site [active] 859655008735 Metal-dependent hydrolase [General function prediction only]; Region: ElsH; COG3568 859655008736 putative catalytic site [active] 859655008737 putative metal binding site [ion binding]; other site 859655008738 putative phosphate binding site [ion binding]; other site 859655008739 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 859655008740 nudix motif; other site 859655008741 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 859655008742 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 859655008743 dimer interface [polypeptide binding]; other site 859655008744 anticodon binding site; other site 859655008745 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 859655008746 homodimer interface [polypeptide binding]; other site 859655008747 motif 1; other site 859655008748 active site 859655008749 motif 2; other site 859655008750 GAD domain; Region: GAD; pfam02938 859655008751 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 859655008752 motif 3; other site 859655008753 Uncharacterized conserved protein [Function unknown]; Region: COG2928 859655008754 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2331 859655008755 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 859655008756 Na(+)- and Cl(-)-dependent choline cotransporter CHT and related proteins; solute-binding domain; Region: SLC5sbd_CHT; cd11474 859655008757 Na binding site [ion binding]; other site 859655008758 putative glycosylation site [posttranslational modification]; other site 859655008759 putative glycosylation site [posttranslational modification]; other site 859655008760 Thiopurine S-methyltransferase (TPMT); Region: TPMT; pfam05724 859655008761 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 859655008762 S-adenosylmethionine binding site [chemical binding]; other site 859655008763 putative ubiquinone biosynthesis protein UbiB; Reviewed; Region: ubiB; PRK04750 859655008764 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 859655008765 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3165 859655008766 SCP-2 sterol transfer family; Region: SCP2; pfam02036 859655008767 Tim44-like domain; Region: Tim44; pfam04280 859655008768 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 859655008769 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 859655008770 S-adenosylmethionine binding site [chemical binding]; other site 859655008771 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3536 859655008772 ABC-type uncharacterized transport system, permease and ATPase components [General function prediction only]; Region: COG4178 859655008773 ABC transporter transmembrane region 2; Region: ABC_membrane_2; cl00549 859655008774 ATP-binding cassette domain of peroxisomal transporter, subfamily D; Region: ABCD_peroxisomal_ALDP; cd03223 859655008775 Diadenosine tetraphosphate (Ap4A) hydrolase and other HIT family hydrolases [Nucleotide transport and metabolism / Carbohydrate transport and metabolism / General function prediction only]; Region: Hit; COG0537 859655008776 HIT family signature motif; other site 859655008777 catalytic residue [active] 859655008778 Protein of unknown function (DUF3683); Region: DUF3683; pfam12447 859655008779 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 859655008780 FAD binding domain; Region: FAD_binding_4; pfam01565 859655008781 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 859655008782 4Fe-4S dicluster domain; Region: Fer4_8; pfam13183 859655008783 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 859655008784 Cysteine-rich domain; Region: CCG; pfam02754 859655008785 Domain of unknown function (DUF3400); Region: DUF3400; pfam11880 859655008786 Predicted membrane protein [Function unknown]; Region: COG1238 859655008787 Uncharacterized membrane protein, required for spore maturation in B.subtilis. [General function prediction only]; Region: SpmA; COG2715 859655008788 Uncharacterized membrane protein [Function unknown]; Region: SpmB; COG0700 859655008789 threonine dehydratase; Reviewed; Region: PRK09224 859655008790 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 859655008791 tetramer interface [polypeptide binding]; other site 859655008792 pyridoxal 5'-phosphate binding site [chemical binding]; other site 859655008793 catalytic residue [active] 859655008794 First of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_1; cd04906 859655008795 putative Ile/Val binding site [chemical binding]; other site 859655008796 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 859655008797 putative Ile/Val binding site [chemical binding]; other site 859655008798 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2904 859655008799 7-cyano-7-deazaguanine reductase; Provisional; Region: queF; PRK11792 859655008800 Enzyme related to GTP cyclohydrolase I [General function prediction only]; Region: COG0780 859655008801 A sub-family of peptidase family C39. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various...; Region: Peptidase_C39G; cd02423 859655008802 putative active site [active] 859655008803 AMP-binding domain protein; Validated; Region: PRK08315 859655008804 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 859655008805 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_2; cd05917 859655008806 acyl-activating enzyme (AAE) consensus motif; other site 859655008807 putative AMP binding site [chemical binding]; other site 859655008808 putative active site [active] 859655008809 putative CoA binding site [chemical binding]; other site 859655008810 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 859655008811 ATP-binding site [chemical binding]; other site 859655008812 Gluconate-6-phosphate binding site [chemical binding]; other site 859655008813 Shikimate kinase; Region: SKI; pfam01202 859655008814 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 859655008815 Predicted transporter component [General function prediction only]; Region: COG2391 859655008816 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 859655008817 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 859655008818 Ligand binding site; other site 859655008819 Putative Catalytic site; other site 859655008820 DXD motif; other site 859655008821 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 859655008822 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 859655008823 NAD(P) binding site [chemical binding]; other site 859655008824 active site 859655008825 acyl carrier protein; Provisional; Region: PRK09184 859655008826 Predicted membrane protein [Function unknown]; Region: COG4648 859655008827 O-succinylbenzoate-CoA ligase; Region: menE; TIGR01923 859655008828 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 859655008829 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 859655008830 acyl-activating enzyme (AAE) consensus motif; other site 859655008831 AMP binding site [chemical binding]; other site 859655008832 active site 859655008833 acyl-activating enzyme (AAE) consensus motif; other site 859655008834 CoA binding site [chemical binding]; other site 859655008835 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 859655008836 active site 2 [active] 859655008837 dimer interface [polypeptide binding]; other site 859655008838 active site 1 [active] 859655008839 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 859655008840 putative acyl-acceptor binding pocket; other site 859655008841 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl17548 859655008842 Predicted exporter [General function prediction only]; Region: COG4258 859655008843 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 859655008844 Catalytic NodB homology domain of rhizobial NodB-like proteins; Region: CE4_NodB_like_6s_7s; cd10917 859655008845 NodB motif; other site 859655008846 active site 859655008847 catalytic site [active] 859655008848 metal binding site [ion binding]; metal-binding site 859655008849 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK09185 859655008850 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 859655008851 dimer interface [polypeptide binding]; other site 859655008852 active site 859655008853 Beta-ketoacyl synthase, N-terminal domain; Region: Ketoacyl-synt_2; pfam13723 859655008854 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 859655008855 putative active site 1 [active] 859655008856 Protein of unknown function DUF262; Region: DUF262; pfam03235 859655008857 Protein of unknown function (DUF1524); Region: DUF1524; pfam07510 859655008858 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 859655008859 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 859655008860 dimer interface [polypeptide binding]; other site 859655008861 ssDNA binding site [nucleotide binding]; other site 859655008862 tetramer (dimer of dimers) interface [polypeptide binding]; other site 859655008863 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 859655008864 Major Facilitator Superfamily; Region: MFS_1; pfam07690 859655008865 putative substrate translocation pore; other site 859655008866 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 859655008867 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 859655008868 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 859655008869 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 859655008870 Adenosine specific kinase; Region: Adenosine_kin; pfam04008 859655008871 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 859655008872 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 859655008873 active site 859655008874 intracellular protease, PfpI family; Region: PfpI; TIGR01382 859655008875 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_1; cd03169 859655008876 conserved cys residue [active] 859655008877 Uncharacterized protein related to arylsulfate sulfotransferase involved in siderophore biosynthesis [General function prediction only]; Region: COG4321 859655008878 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 859655008879 putative cation:proton antiport protein; Provisional; Region: PRK10669 859655008880 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 859655008881 TrkA-N domain; Region: TrkA_N; pfam02254 859655008882 TrkA-C domain; Region: TrkA_C; pfam02080 859655008883 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 859655008884 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 859655008885 putative active site [active] 859655008886 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 859655008887 Low specificity phosphatase (HAD superfamily) [General function prediction only]; Region: COG1778 859655008888 HAD-superfamily hydrolase, subfamily IIIA; Region: HAD-SF-IIIA; TIGR01662 859655008889 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3117 859655008890 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 859655008891 lipopolysaccharide transport periplasmic protein LptA; Region: outer_YhbN_LptA; TIGR03002 859655008892 OstA-like protein; Region: OstA; pfam03968 859655008893 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 859655008894 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 859655008895 Walker A/P-loop; other site 859655008896 ATP binding site [chemical binding]; other site 859655008897 Q-loop/lid; other site 859655008898 ABC transporter signature motif; other site 859655008899 Walker B; other site 859655008900 D-loop; other site 859655008901 H-loop/switch region; other site 859655008902 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 859655008903 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 859655008904 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 859655008905 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 859655008906 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 859655008907 30S subunit binding site; other site 859655008908 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 859655008909 active site 859655008910 phosphorylation site [posttranslational modification] 859655008911 HPr kinase/phosphorylase; Provisional; Region: PRK05428 859655008912 HPr Serine kinase N terminus; Region: Hpr_kinase_N; pfam02603 859655008913 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 859655008914 Hpr binding site; other site 859655008915 active site 859655008916 homohexamer subunit interaction site [polypeptide binding]; other site 859655008917 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 859655008918 AAA domain; Region: AAA_18; pfam13238 859655008919 ATP-dependent protease La (LON) domain; Region: LON; pfam02190 859655008920 A/G-specific DNA glycosylase [DNA replication, recombination, and repair]; Region: MutY; COG1194 859655008921 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 859655008922 minor groove reading motif; other site 859655008923 helix-hairpin-helix signature motif; other site 859655008924 substrate binding pocket [chemical binding]; other site 859655008925 active site 859655008926 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 859655008927 DNA binding and oxoG recognition site [nucleotide binding] 859655008928 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 859655008929 G1 box; other site 859655008930 GTP/Mg2+ binding site [chemical binding]; other site 859655008931 Predicted GTPases (dynamin-related) [General function prediction only]; Region: COG0699 859655008932 G2 box; other site 859655008933 Switch I region; other site 859655008934 Dynamin-like protein including dynamins, mitofusins, and guanylate-binding proteins; Region: DLP_2; cd09912 859655008935 G3 box; other site 859655008936 Switch II region; other site 859655008937 GTP/Mg2+ binding site [chemical binding]; other site 859655008938 G4 box; other site 859655008939 G5 box; other site 859655008940 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 859655008941 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 859655008942 DNA binding site [nucleotide binding] 859655008943 catalytic residue [active] 859655008944 H2TH interface [polypeptide binding]; other site 859655008945 putative catalytic residues [active] 859655008946 turnover-facilitating residue; other site 859655008947 intercalation triad [nucleotide binding]; other site 859655008948 8OG recognition residue [nucleotide binding]; other site 859655008949 putative reading head residues; other site 859655008950 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 859655008951 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 859655008952 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 859655008953 binding surface 859655008954 TPR motif; other site 859655008955 Tetratricopeptide repeat; Region: TPR_16; pfam13432 859655008956 FOG: TPR repeat [General function prediction only]; Region: NrfG; COG0457 859655008957 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 859655008958 binding surface 859655008959 TPR motif; other site 859655008960 Outer membrane lipoprotein involved in outer membrane biogenesis [Cell envelope biogenesis, outer membrane]; Region: LolB; COG3017 859655008961 Outer membrane lipoprotein LolB; Region: LolB; pfam03550 859655008962 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00343 859655008963 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 859655008964 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 859655008965 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 859655008966 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 859655008967 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 859655008968 active site 859655008969 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 859655008970 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 859655008971 5S rRNA interface [nucleotide binding]; other site 859655008972 CTC domain interface [polypeptide binding]; other site 859655008973 L16 interface [polypeptide binding]; other site 859655008974 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 859655008975 putative active site [active] 859655008976 catalytic residue [active] 859655008977 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 859655008978 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 859655008979 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 859655008980 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 859655008981 active site 859655008982 (T/H)XGH motif; other site 859655008983 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 859655008984 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 859655008985 S-adenosylmethionine binding site [chemical binding]; other site 859655008986 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 859655008987 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 859655008988 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 859655008989 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 859655008990 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 859655008991 signal recognition particle-docking protein FtsY; Region: ftsY; TIGR00064 859655008992 SRP54-type protein, helical bundle domain; Region: SRP54_N; cl03758 859655008993 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 859655008994 P loop; other site 859655008995 GTP binding site [chemical binding]; other site 859655008996 Lysine efflux permease [General function prediction only]; Region: COG1279 859655008997 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 859655008998 maleylacetoacetate isomerase; Region: maiA; TIGR01262 859655008999 C-terminal domain interface [polypeptide binding]; other site 859655009000 GSH binding site (G-site) [chemical binding]; other site 859655009001 putative dimer interface [polypeptide binding]; other site 859655009002 C-terminal, alpha helical domain of Class Zeta Glutathione S-transferases; Region: GST_C_Zeta; cd03191 859655009003 dimer interface [polypeptide binding]; other site 859655009004 maleylacetoacetate (MAA) substrate binding site (H site) [chemical binding]; other site 859655009005 N-terminal domain interface [polypeptide binding]; other site 859655009006 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 859655009007 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 859655009008 Response regulator with putative antiterminator output domain [Signal transduction mechanisms]; Region: AmiR; COG3707 859655009009 ANTAR domain; Region: ANTAR; pfam03861 859655009010 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 859655009011 NMT1-like family; Region: NMT1_2; pfam13379 859655009012 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 859655009013 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 859655009014 dimer interface [polypeptide binding]; other site 859655009015 conserved gate region; other site 859655009016 putative PBP binding loops; other site 859655009017 ABC-ATPase subunit interface; other site 859655009018 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 859655009019 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 859655009020 Walker A/P-loop; other site 859655009021 ATP binding site [chemical binding]; other site 859655009022 Q-loop/lid; other site 859655009023 ABC transporter signature motif; other site 859655009024 Walker B; other site 859655009025 D-loop; other site 859655009026 H-loop/switch region; other site 859655009027 glycosyl transferase family protein; Provisional; Region: PRK08136 859655009028 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 859655009029 Pirin-related protein [General function prediction only]; Region: COG1741 859655009030 Pirin; Region: Pirin; pfam02678 859655009031 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 859655009032 Predicted redox protein, regulator of disulfide bond formation [Posttranslational modification, protein turnover, chaperones]; Region: COG1765 859655009033 PAS domain; Region: PAS_9; pfam13426 859655009034 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 859655009035 putative active site [active] 859655009036 heme pocket [chemical binding]; other site 859655009037 PAS domain; Region: PAS_9; pfam13426 859655009038 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 859655009039 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 859655009040 metal binding site [ion binding]; metal-binding site 859655009041 active site 859655009042 I-site; other site 859655009043 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 859655009044 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 859655009045 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 859655009046 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 859655009047 DNA binding residues [nucleotide binding] 859655009048 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 859655009049 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 859655009050 Cu(I) binding site [ion binding]; other site 859655009051 protoheme IX farnesyltransferase; Provisional; Region: PRK04375 859655009052 UbiA prenyltransferase family; Region: UbiA; pfam01040 859655009053 Uncharacterized protein required for cytochrome oxidase assembly [Posttranslational modification, protein turnover, chaperones]; Region: CtaA; COG1612 859655009054 Cytochrome oxidase assembly protein; Region: COX15-CtaA; pfam02628 859655009055 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 859655009056 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 859655009057 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 859655009058 Protein of unknown function (DUF2909); Region: DUF2909; pfam11137 859655009059 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 859655009060 Subunit III/VIIa interface [polypeptide binding]; other site 859655009061 Phospholipid binding site [chemical binding]; other site 859655009062 Subunit I/III interface [polypeptide binding]; other site 859655009063 Subunit III/VIb interface [polypeptide binding]; other site 859655009064 Subunit III/VIa interface; other site 859655009065 Subunit III/Vb interface [polypeptide binding]; other site 859655009066 Protein of unknown function (DUF2970); Region: DUF2970; pfam11174 859655009067 cytochrome C oxidase assembly protein; Provisional; Region: PRK05089 859655009068 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 859655009069 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 859655009070 Subunit I/III interface [polypeptide binding]; other site 859655009071 D-pathway; other site 859655009072 Subunit I/VIIc interface [polypeptide binding]; other site 859655009073 Subunit I/IV interface [polypeptide binding]; other site 859655009074 Subunit I/II interface [polypeptide binding]; other site 859655009075 Low-spin heme (heme a) binding site [chemical binding]; other site 859655009076 Subunit I/VIIa interface [polypeptide binding]; other site 859655009077 Subunit I/VIa interface [polypeptide binding]; other site 859655009078 Dimer interface; other site 859655009079 Putative water exit pathway; other site 859655009080 Binuclear center (heme a3/CuB) [ion binding]; other site 859655009081 K-pathway; other site 859655009082 Subunit I/Vb interface [polypeptide binding]; other site 859655009083 Putative proton exit pathway; other site 859655009084 Subunit I/VIb interface; other site 859655009085 Subunit I/VIc interface [polypeptide binding]; other site 859655009086 Electron transfer pathway; other site 859655009087 Subunit I/VIIIb interface [polypeptide binding]; other site 859655009088 Subunit I/VIIb interface [polypeptide binding]; other site 859655009089 Heme/copper-type cytochrome/quinol oxidases, subunit 2 [Energy production and conversion]; Region: CyoA; COG1622 859655009090 Cytochrome C oxidase subunit II, transmembrane domain; Region: COX2_TM; pfam02790 859655009091 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 859655009092 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 859655009093 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 859655009094 Integral membrane protein [Function unknown]; Region: COG5488 859655009095 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 859655009096 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 859655009097 S-adenosylmethionine binding site [chemical binding]; other site 859655009098 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 859655009099 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 859655009100 active site 859655009101 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 859655009102 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 859655009103 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 859655009104 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 859655009105 preprotein translocase subunit SecB; Validated; Region: PRK05751 859655009106 SecA binding site; other site 859655009107 Preprotein binding site; other site 859655009108 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 859655009109 GSH binding site [chemical binding]; other site 859655009110 catalytic residues [active] 859655009111 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 859655009112 active site residue [active] 859655009113 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 859655009114 catalytic core [active] 859655009115 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 859655009116 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 859655009117 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 859655009118 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 859655009119 protein binding site [polypeptide binding]; other site 859655009120 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 859655009121 Catalytic dyad [active] 859655009122 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 859655009123 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 859655009124 ATP binding site [chemical binding]; other site 859655009125 substrate interface [chemical binding]; other site 859655009126 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 859655009127 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 859655009128 heme binding site [chemical binding]; other site 859655009129 ferroxidase pore; other site 859655009130 ferroxidase diiron center [ion binding]; other site 859655009131 Bacterioferritin-associated ferredoxin [Inorganic ion transport and metabolism]; Region: Bfd; COG2906 859655009132 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 859655009133 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 859655009134 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 859655009135 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 859655009136 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 859655009137 dimerization domain swap beta strand [polypeptide binding]; other site 859655009138 regulatory protein interface [polypeptide binding]; other site 859655009139 active site 859655009140 regulatory phosphorylation site [posttranslational modification]; other site 859655009141 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 859655009142 active pocket/dimerization site; other site 859655009143 active site 859655009144 phosphorylation site [posttranslational modification] 859655009145 glutathione synthetase; Provisional; Region: PRK05246 859655009146 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 859655009147 Prokaryotic glutathione synthetase, ATP-grasp domain; Region: GSH-S_ATP; pfam02955 859655009148 Glutamate-cysteine ligase; Region: GshA; pfam08886 859655009149 glutamate--cysteine ligase, T. ferrooxidans family; Region: gshA_ferroox; TIGR02049 859655009150 Ammonium Transporter Family; Region: Ammonium_transp; cl03012 859655009151 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 859655009152 Nitrogen regulatory protein P-II; Region: P-II; smart00938 859655009153 conserved hypothetical protein, proteobacterial; Region: gcw_chp; TIGR02001 859655009154 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2960 859655009155 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme 859655009156 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 859655009157 DNA binding site [nucleotide binding] 859655009158 active site 859655009159 Int/Topo IB signature motif; other site 859655009160 catalytic residues [active] 859655009161 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 859655009162 active site 859655009163 catalytic residues [active] 859655009164 DNA binding site [nucleotide binding] 859655009165 Int/Topo IB signature motif; other site 859655009166 helicase, putative, RecD/TraA family; Region: recD_rel; TIGR01448 859655009167 AAA domain; Region: AAA_30; pfam13604 859655009168 Family description; Region: UvrD_C_2; pfam13538 859655009169 Divergent AAA domain; Region: AAA_4; pfam04326 859655009170 Transposase; Region: HTH_Tnp_1; pfam01527 859655009171 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 859655009172 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 859655009173 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 859655009174 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 859655009175 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 859655009176 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 859655009177 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 859655009178 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 859655009179 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 859655009180 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 859655009181 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 859655009182 ATP binding site [chemical binding]; other site 859655009183 putative Mg++ binding site [ion binding]; other site 859655009184 EcoKI restriction-modification system protein HsdS; Provisional; Region: PRK09737 859655009185 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 859655009186 HsdM N-terminal domain; Region: HsdM_N; pfam12161 859655009187 Methyltransferase domain; Region: Methyltransf_26; pfam13659 859655009188 Protein of unknown function (DUF3732); Region: DUF3732; pfam12532 859655009189 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; pfam13808 859655009190 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; cl17880 859655009191 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 859655009192 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pr : putative regulator 859655009193 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme 859655009194 Common central domain of tyrosinase; Region: Tyrosinase; pfam00264 859655009195 Polyphenol oxidase middle domain; Region: PPO1_DWL; pfam12142 859655009196 Protein of unknown function (DUF_B2219); Region: PPO1_KFDV; pfam12143 859655009197 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 859655009198 putative ADP-ribose binding site [chemical binding]; other site 859655009199 putative active site [active] 859655009200 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 859655009201 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 859655009202 catalytic residues [active] 859655009203 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 859655009204 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 859655009205 active site 859655009206 phosphorylation site [posttranslational modification] 859655009207 intermolecular recognition site; other site 859655009208 dimerization interface [polypeptide binding]; other site 859655009209 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 859655009210 Walker A motif; other site 859655009211 ATP binding site [chemical binding]; other site 859655009212 Walker B motif; other site 859655009213 arginine finger; other site 859655009214 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 859655009215 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 859655009216 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 859655009217 dimer interface [polypeptide binding]; other site 859655009218 phosphorylation site [posttranslational modification] 859655009219 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 859655009220 ATP binding site [chemical binding]; other site 859655009221 Mg2+ binding site [ion binding]; other site 859655009222 G-X-G motif; other site 859655009223 C4-dicarboxylate transporter DctA; Reviewed; Region: PRK01663 859655009224 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 859655009225 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 859655009226 dimer interface [polypeptide binding]; other site 859655009227 [2Fe-2S] cluster binding site [ion binding]; other site 859655009228 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2945 859655009229 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 859655009230 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 859655009231 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; pfam07943 859655009232 hypothetical protein; Provisional; Region: PRK02047 859655009233 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 859655009234 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 859655009235 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 859655009236 dimerization interface [polypeptide binding]; other site 859655009237 substrate binding pocket [chemical binding]; other site 859655009238 Protein of unknown function (DUF2917); Region: DUF2917; pfam11142 859655009239 lipoate-protein ligase B; Provisional; Region: PRK14343 859655009240 lipoyl synthase; Provisional; Region: PRK05481 859655009241 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 859655009242 FeS/SAM binding site; other site 859655009243 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 859655009244 Transposase; Region: DEDD_Tnp_IS110; pfam01548 859655009245 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 859655009246 Predicted secreted protein [Function unknown]; Region: COG5445 859655009247 Evidence 2b : Function of strongly homologous gene; Product type e : enzyme 859655009248 Evidence 2b : Function of strongly homologous gene; Product type e : enzyme 859655009249 Predicted integral membrane protein [Function unknown]; Region: COG5652 859655009250 Protein of unknown function (DUF330); Region: DUF330; cl01135 859655009251 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 859655009252 mce related protein; Region: MCE; pfam02470 859655009253 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 859655009254 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 859655009255 Walker A/P-loop; other site 859655009256 ATP binding site [chemical binding]; other site 859655009257 Q-loop/lid; other site 859655009258 ABC transporter signature motif; other site 859655009259 Walker B; other site 859655009260 D-loop; other site 859655009261 H-loop/switch region; other site 859655009262 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 859655009263 Permease; Region: Permease; pfam02405 859655009264 biotin--protein ligase; Provisional; Region: PRK06955 859655009265 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 859655009266 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 859655009267 pantothenate kinase; Reviewed; Region: PRK13328 859655009268 Sporulation related domain; Region: SPOR; pfam05036 859655009269 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 859655009270 Cytidylyltransferase; Region: CTP_transf_2; pfam01467 859655009271 active site 859655009272 nucleotide binding site [chemical binding]; other site 859655009273 HIGH motif; other site 859655009274 KMSKS motif; other site 859655009275 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 859655009276 dinuclear metal binding motif [ion binding]; other site 859655009277 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 859655009278 catalytic residues [active] 859655009279 dimer interface [polypeptide binding]; other site 859655009280 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 859655009281 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 859655009282 active site 859655009283 nucleophile elbow; other site 859655009284 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 859655009285 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 859655009286 substrate binding site [chemical binding]; other site 859655009287 oxyanion hole (OAH) forming residues; other site 859655009288 trimer interface [polypeptide binding]; other site 859655009289 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 859655009290 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 859655009291 Transcriptional regulator [Transcription]; Region: IclR; COG1414 859655009292 Bacterial transcriptional regulator; Region: IclR; pfam01614 859655009293 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 859655009294 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 859655009295 Transcriptional regulator [Transcription]; Region: IclR; COG1414 859655009296 IclR helix-turn-helix domain; Region: HTH_IclR; pfam09339 859655009297 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 859655009298 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 859655009299 Protein of unknown function (DUF3567); Region: DUF3567; pfam12091 859655009300 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 859655009301 active site residue [active] 859655009302 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; COG0646 859655009303 Homocysteine S-methyltransferase; Region: S-methyl_trans; pfam02574 859655009304 Methionine synthase I, cobalamin-binding domain [Amino acid transport and metabolism]; Region: MetH; COG1410 859655009305 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 859655009306 substrate binding pocket [chemical binding]; other site 859655009307 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 859655009308 B12 binding site [chemical binding]; other site 859655009309 cobalt ligand [ion binding]; other site 859655009310 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 859655009311 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 859655009312 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 859655009313 active site 859655009314 phosphorylation site [posttranslational modification] 859655009315 intermolecular recognition site; other site 859655009316 dimerization interface [polypeptide binding]; other site 859655009317 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 859655009318 DNA binding residues [nucleotide binding] 859655009319 dimerization interface [polypeptide binding]; other site 859655009320 Response regulator receiver domain; Region: Response_reg; pfam00072 859655009321 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 859655009322 active site 859655009323 phosphorylation site [posttranslational modification] 859655009324 intermolecular recognition site; other site 859655009325 dimerization interface [polypeptide binding]; other site 859655009326 Predicted small secreted protein [Function unknown]; Region: COG5510 859655009327 Insertion element 4 transposase N-terminal; Region: Nterm_IS4; pfam13006 859655009328 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 859655009329 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG5278 859655009330 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 859655009331 Histidine kinase; Region: HisKA_3; pfam07730 859655009332 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 859655009333 ATP binding site [chemical binding]; other site 859655009334 Mg2+ binding site [ion binding]; other site 859655009335 G-X-G motif; other site 859655009336 Domain of unknown function (DUF1840); Region: DUF1840; pfam08895 859655009337 arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611 859655009338 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 859655009339 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 859655009340 active site 859655009341 HIGH motif; other site 859655009342 KMSK motif region; other site 859655009343 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 859655009344 tRNA binding surface [nucleotide binding]; other site 859655009345 anticodon binding site; other site 859655009346 Cell division protein [Cell division and chromosome partitioning]; Region: FtsN; COG3087 859655009347 Sporulation related domain; Region: SPOR; pfam05036 859655009348 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 859655009349 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 859655009350 catalytic residues [active] 859655009351 hinge region; other site 859655009352 alpha helical domain; other site 859655009353 short chain dehydrogenase; Provisional; Region: PRK07024 859655009354 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 859655009355 NAD(P) binding site [chemical binding]; other site 859655009356 active site 859655009357 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 859655009358 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 859655009359 intersubunit interface [polypeptide binding]; other site 859655009360 Uncharacterized enzyme involved in biosynthesis of extracellular polysaccharides [General function prediction only]; Region: COG2329 859655009361 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 859655009362 Helix-Turn-Helix DNA binding domain of the regulatory protein GnyR; Region: HTH_GnyR; cd04776 859655009363 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 859655009364 DNA binding residues [nucleotide binding] 859655009365 putative dimer interface [polypeptide binding]; other site 859655009366 isovaleryl-CoA dehydrogenase; Region: PLN02519 859655009367 Isovaleryl-CoA dehydrogenase; Region: IVD; cd01156 859655009368 substrate binding site [chemical binding]; other site 859655009369 FAD binding site [chemical binding]; other site 859655009370 catalytic base [active] 859655009371 Isocitrate dehydrogenase kinase/phosphatase [Signal transduction mechanisms]; Region: COG4579 859655009372 bifunctional isocitrate dehydrogenase kinase/phosphatase protein; Validated; Region: aceK; PRK02946 859655009373 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 859655009374 active site clefts [active] 859655009375 zinc binding site [ion binding]; other site 859655009376 dimer interface [polypeptide binding]; other site 859655009377 acetyl-CoA acetyltransferase; Provisional; Region: PRK06954 859655009378 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 859655009379 dimer interface [polypeptide binding]; other site 859655009380 active site 859655009381 carbonyl reductase sniffer-like, classical (c) SDRs; Region: carb_red_sniffer_like_SDR_c; cd05325 859655009382 C factor cell-cell signaling protein; Provisional; Region: PRK09009 859655009383 NADP binding site [chemical binding]; other site 859655009384 homodimer interface [polypeptide binding]; other site 859655009385 active site 859655009386 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 859655009387 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 859655009388 active site 859655009389 2-hydroxychromene-2-carboxylate isomerase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: NahD; COG3917 859655009390 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 859655009391 putative catalytic residue [active] 859655009392 Polysulfide-sulfurtransferase - Rhodanese Homology Domain. This domain is believed to serve as a polysulfide binding and transferase domain in anaerobic gram-negative bacteria, functioning in oxidative phosphorylation with polysulfide-sulfur as a...; Region: Polysulfide_ST; cd01447 859655009393 active site 859655009394 catalytic residue [active] 859655009395 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 859655009396 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 859655009397 motif II; other site 859655009398 hypothetical protein; Provisional; Region: PRK01842 859655009399 3-methylcrotonyl-CoA carboxylase, beta chain; Region: PLN02820 859655009400 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 859655009401 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 859655009402 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 859655009403 enoyl-CoA hydratase; Provisional; Region: PRK05995 859655009404 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 859655009405 substrate binding site [chemical binding]; other site 859655009406 oxyanion hole (OAH) forming residues; other site 859655009407 trimer interface [polypeptide binding]; other site 859655009408 biotin synthase; Region: bioB; TIGR00433 859655009409 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 859655009410 FeS/SAM binding site; other site 859655009411 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 859655009412 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 859655009413 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 859655009414 ATP-grasp domain; Region: ATP-grasp_4; cl17255 859655009415 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 859655009416 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 859655009417 carboxyltransferase (CT) interaction site; other site 859655009418 biotinylation site [posttranslational modification]; other site 859655009419 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 859655009420 Plasmid stabilisation system protein; Region: Plasmid_stabil; pfam05016 859655009421 bifunctional glyoxylate/hydroxypyruvate reductase A; Provisional; Region: ghrA; PRK15469 859655009422 Putative glycerate dehydrogenase and related proteins of the D-specific 2-hydroxy dehydrogenase family; Region: GDH_like_2; cd12164 859655009423 putative ligand binding site [chemical binding]; other site 859655009424 NAD binding site [chemical binding]; other site 859655009425 dimerization interface [polypeptide binding]; other site 859655009426 catalytic site [active] 859655009427 Isopropylmalate/homocitrate/citramalate synthases [Amino acid transport and metabolism]; Region: LeuA; COG0119 859655009428 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 859655009429 active site 859655009430 catalytic residues [active] 859655009431 metal binding site [ion binding]; metal-binding site 859655009432 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 859655009433 putative deacylase active site [active] 859655009434 Protein of unknown function (DUF1289); Region: DUF1289; pfam06945 859655009435 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 859655009436 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 859655009437 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 859655009438 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 859655009439 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 859655009440 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 859655009441 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 859655009442 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 859655009443 FMN binding site [chemical binding]; other site 859655009444 substrate binding site [chemical binding]; other site 859655009445 putative catalytic residue [active] 859655009446 Uncharacterized conserved protein [Function unknown]; Region: COG5361 859655009447 Protein of unknown function (DUF1254); Region: DUF1254; pfam06863 859655009448 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 859655009449 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 859655009450 sequence-specific DNA binding site [nucleotide binding]; other site 859655009451 salt bridge; other site 859655009452 Cupin domain; Region: Cupin_2; pfam07883 859655009453 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 859655009454 Coenzyme A binding pocket [chemical binding]; other site 859655009455 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 859655009456 RTX toxins and related Ca2+-binding proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2931 859655009457 Haemolysin-type calcium binding protein related domain; Region: HCBP_related; pfam06594 859655009458 Haemolysin-type calcium binding protein related domain; Region: HCBP_related; pfam06594 859655009459 Haemolysin-type calcium binding protein related domain; Region: HCBP_related; pfam06594 859655009460 RTX toxins and related Ca2+-binding proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2931 859655009461 Haemolysin-type calcium binding protein related domain; Region: HCBP_related; pfam06594 859655009462 Haemolysin-type calcium binding protein related domain; Region: HCBP_related; pfam06594 859655009463 Haemolysin-type calcium binding protein related domain; Region: HCBP_related; pfam06594 859655009464 NH_2: A subgroup of nucleoside hydrolases. This group contains eukaryotic and bacterial proteins similar to nucleoside hydrolases. Nucleoside hydrolases cleave the N-glycosidic bond in nucleosides generating ribose and the respective base. These enzymes...; Region: nuc_hydro_2; cd02652 859655009465 active site 859655009466 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK05808 859655009467 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 859655009468 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 859655009469 Transcriptional regulator [Transcription]; Region: LysR; COG0583 859655009470 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 859655009471 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 859655009472 putative effector binding pocket; other site 859655009473 dimerization interface [polypeptide binding]; other site 859655009474 YcaC related amidohydrolases; E.coli YcaC is an homooctameric hydrolase with unknown specificity. Despite its weak sequence similarity, it is structurally related to other amidohydrolases and shares conserved active site residues with them; Region: YcaC_related; cd01012 859655009475 Isochorismatase family; Region: Isochorismatase; pfam00857 859655009476 catalytic triad [active] 859655009477 dimer interface [polypeptide binding]; other site 859655009478 conserved cis-peptide bond; other site 859655009479 Protein of unknown function (DUF1427); Region: DUF1427; cl01771 859655009480 Predicted membrane protein [Function unknown]; Region: COG2259 859655009481 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 859655009482 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 859655009483 active site 859655009484 Predicted membrane protein [Function unknown]; Region: COG3619 859655009485 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 859655009486 B12 binding site [chemical binding]; other site 859655009487 cobalt ligand [ion binding]; other site 859655009488 The function of this protein family is unkown. The protein sequences are similar to the ArgK protein in E. coli. ArgK protein is a membrane ATPase which is required for transporting arginine, ornithine and lysine into the cells by the arginine and...; Region: ArgK-like; cd03114 859655009489 Walker A; other site 859655009490 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 859655009491 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2343 859655009492 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 859655009493 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 859655009494 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 859655009495 Mitochondrial import protein Pam17; Region: Pam17; pfam08566 859655009496 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 859655009497 Predicted membrane protein [Function unknown]; Region: COG4292 859655009498 Chromate transport protein ChrA [Inorganic ion transport and metabolism]; Region: ChrA; COG2059 859655009499 Chromate transporter; Region: Chromate_transp; pfam02417 859655009500 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 859655009501 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 859655009502 Walker A motif; other site 859655009503 ATP binding site [chemical binding]; other site 859655009504 Walker B motif; other site 859655009505 arginine finger; other site 859655009506 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 859655009507 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 859655009508 pyridoxal 5'-phosphate binding site [chemical binding]; other site 859655009509 homodimer interface [polypeptide binding]; other site 859655009510 catalytic residue [active] 859655009511 RNA 3'-terminal-phosphate cyclase; Provisional; Region: PRK04204 859655009512 RNA 3' phosphate cyclase domain (class II). These proteins function as RNA cyclase to catalyze the ATP-dependent conversion of 3'-phosphate to a 2'.3'-cyclic phosphodiester at the end of RNA molecule. A conserved catalytic histidine...; Region: RNA_Cyclase_Class_II; cd00874 859655009513 putative active site [active] 859655009514 adenylation catalytic residue [active] 859655009515 Predicted nucleotidyltransferase; Region: Nuc-transf; pfam10127 859655009516 Uncharacterized protein family UPF0027; Region: UPF0027; pfam01139 859655009517 hypothetical protein; Reviewed; Region: PRK09588 859655009518 Probable zinc-binding domain; Region: zf-trcl; pfam13451 859655009519 Sigma54-dependent transcription regulator containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]; Region: RtcR; COG4650 859655009520 Regulator of RNA terminal phosphate cyclase; Region: RtcR; pfam06956 859655009521 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 859655009522 Walker A motif; other site 859655009523 ATP binding site [chemical binding]; other site 859655009524 Walker B motif; other site 859655009525 arginine finger; other site 859655009526 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 859655009527 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 859655009528 active site 859655009529 nucleophile elbow; other site 859655009530 Cupin domain; Region: Cupin_2; cl17218 859655009531 Acylphosphatases [Energy production and conversion]; Region: AcyP; COG1254 859655009532 short chain dehydrogenase; Provisional; Region: PRK06940 859655009533 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 859655009534 NAD(P) binding site [chemical binding]; other site 859655009535 active site 859655009536 Protein of unknown function (DUF1311); Region: DUF1311; pfam07007 859655009537 Evidence 4 : Homologs of previously reported genes of unknown function 859655009538 Evidence 4 : Homologs of previously reported genes of unknown function 859655009539 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 859655009540 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 859655009541 glutaminase active site [active] 859655009542 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 859655009543 dimer interface [polypeptide binding]; other site 859655009544 active site 859655009545 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 859655009546 dimer interface [polypeptide binding]; other site 859655009547 active site 859655009548 N-acetylglucosamine-1-phosphate uridyltransferase (contains nucleotidyltransferase and I-patch acetyltransferase domains) [Cell envelope biogenesis, outer membrane]; Region: GlmU; COG1207 859655009549 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 859655009550 Substrate binding site; other site 859655009551 Mg++ binding site; other site 859655009552 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 859655009553 active site 859655009554 substrate binding site [chemical binding]; other site 859655009555 CoA binding site [chemical binding]; other site 859655009556 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 859655009557 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 859655009558 Ligand Binding Site [chemical binding]; other site 859655009559 2-dehydropantoate 2-reductase; Provisional; Region: PRK12921 859655009560 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 859655009561 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 859655009562 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 859655009563 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 859655009564 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 859655009565 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 859655009566 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 859655009567 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 859655009568 Walker A/P-loop; other site 859655009569 ATP binding site [chemical binding]; other site 859655009570 Q-loop/lid; other site 859655009571 ABC transporter signature motif; other site 859655009572 Walker B; other site 859655009573 D-loop; other site 859655009574 H-loop/switch region; other site 859655009575 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 859655009576 HlyD family secretion protein; Region: HlyD_3; pfam13437 859655009577 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 859655009578 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 859655009579 NAD+-dependent alpha-aminoadipic semialdehyde dehydrogenase, ALDH family members 7A1 and 7B; Region: ALDH_F7_AASADH; cd07130 859655009580 aldehyde dehydrogenase family 7 member; Region: PLN02315 859655009581 tetrameric interface [polypeptide binding]; other site 859655009582 NAD binding site [chemical binding]; other site 859655009583 catalytic residues [active] 859655009584 Transcriptional regulator [Transcription]; Region: LysR; COG0583 859655009585 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 859655009586 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 859655009587 dimerization interface [polypeptide binding]; other site 859655009588 Ornithine/acetylornithine aminotransferase [Amino acid transport and metabolism]; Region: ArgD; COG4992 859655009589 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 859655009590 inhibitor-cofactor binding pocket; inhibition site 859655009591 pyridoxal 5'-phosphate binding site [chemical binding]; other site 859655009592 catalytic residue [active] 859655009593 Arginase family; Region: Arginase; cd09989 859655009594 active site 859655009595 Mn binding site [ion binding]; other site 859655009596 oligomer interface [polypeptide binding]; other site 859655009597 Dihydroneopterin aldolase; Region: FolB; smart00905 859655009598 active site 859655009599 short chain dehydrogenase; Provisional; Region: PRK09134 859655009600 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 859655009601 NAD(P) binding site [chemical binding]; other site 859655009602 active site 859655009603 Uncharacterized conserved protein [Function unknown]; Region: COG1565 859655009604 muropeptide transporter; Validated; Region: ampG; cl17669 859655009605 muropeptide transporter; Reviewed; Region: ampG; PRK11902 859655009606 Peptidase family M48; Region: Peptidase_M48; cl12018 859655009607 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 859655009608 EamA-like transporter family; Region: EamA; pfam00892 859655009609 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 859655009610 putative FMN binding site [chemical binding]; other site 859655009611 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 859655009612 MarR family; Region: MarR; pfam01047 859655009613 Uncharacterized conserved protein [Function unknown]; Region: COG1434 859655009614 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 859655009615 putative active site [active] 859655009616 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 859655009617 The band 7 domain of flotillin (reggie) like proteins. This group contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. Many of these band 7 domain-containing proteins are lipid raft-associated. Individual proteins of this...; Region: Band_7; cd02106 859655009618 N-acetyl-gamma-glutamyl-phosphate reductase; Provisional; Region: PRK11863 859655009619 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 859655009620 Predicted membrane protein [Function unknown]; Region: COG4682 859655009621 yiaA/B two helix domain; Region: YiaAB; pfam05360 859655009622 yiaA/B two helix domain; Region: YiaAB; pfam05360 859655009623 Neisseria meningitides Nape-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Nape_like_AP-endo; cd10281 859655009624 putative active site [active] 859655009625 putative catalytic site [active] 859655009626 putative DNA binding site [nucleotide binding]; other site 859655009627 putative phosphate binding site [ion binding]; other site 859655009628 metal binding site A [ion binding]; metal-binding site 859655009629 putative AP binding site [nucleotide binding]; other site 859655009630 putative metal binding site B [ion binding]; other site 859655009631 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 859655009632 active site 859655009633 polyphosphate:nucleotide phosphotransferase, PPK2 family; Region: PPK2_rel_1; TIGR03709 859655009634 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 859655009635 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 859655009636 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 859655009637 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 859655009638 putative acyl-acceptor binding pocket; other site 859655009639 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 859655009640 putative acyl-acceptor binding pocket; other site 859655009641 S-adenosylmethionine synthetase; Validated; Region: PRK05250 859655009642 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 859655009643 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 859655009644 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 859655009645 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 859655009646 Transposase; Region: DEDD_Tnp_IS110; pfam01548 859655009647 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme 859655009648 Uncharacterized conserved protein [Function unknown]; Region: COG4274 859655009649 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 859655009650 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 859655009651 DNA gyrase inhibitor [DNA replication, recombination, and repair]; Region: COG3449 859655009652 PAP2, bacterial acid phosphatase or class A non-specific acid phosphatases. These enzymes catalyze phosphomonoester hydrolysis, with optimal activity in low pH conditions. They are secreted into the periplasmic space, and their physiological role remains...; Region: PAP2_acid_phosphatase; cd03397 859655009653 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 859655009654 active site 859655009655 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 859655009656 CBS-domain-containing membrane protein [Signal transduction mechanisms]; Region: COG3448 859655009657 HPP family; Region: HPP; pfam04982 859655009658 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 859655009659 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 859655009660 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 859655009661 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 859655009662 C-terminal domain interface [polypeptide binding]; other site 859655009663 GSH binding site (G-site) [chemical binding]; other site 859655009664 dimer interface [polypeptide binding]; other site 859655009665 C-terminal, alpha helical domain of an unknown subfamily 6 of Glutathione S-transferases; Region: GST_C_6; cd03205 859655009666 N-terminal domain interface [polypeptide binding]; other site 859655009667 dimer interface [polypeptide binding]; other site 859655009668 putative substrate binding pocket (H-site) [chemical binding]; other site 859655009669 helix_turn_helix ASNC type; Region: HTH_ASNC; smart00344 859655009670 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 859655009671 putative DNA binding site [nucleotide binding]; other site 859655009672 putative Zn2+ binding site [ion binding]; other site 859655009673 AsnC family; Region: AsnC_trans_reg; pfam01037 859655009674 Evidence 2b : Function of strongly homologous gene; Product type e : enzyme 859655009675 Evidence 2b : Function of strongly homologous gene; Product type e : enzyme 859655009676 glutamate and aspartate transporter subunit; Provisional; Region: PRK10797 859655009677 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 859655009678 substrate binding pocket [chemical binding]; other site 859655009679 membrane-bound complex binding site; other site 859655009680 hinge residues; other site 859655009681 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 859655009682 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 859655009683 active site 859655009684 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 859655009685 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 859655009686 Coenzyme A binding pocket [chemical binding]; other site 859655009687 Microcystin-dependent protein [Function unknown]; Region: MdpB; COG4675 859655009688 Phage Tail Collar Domain; Region: Collar; pfam07484 859655009689 Microcystin-dependent protein [Function unknown]; Region: MdpB; COG4675 859655009690 Phage Tail Collar Domain; Region: Collar; pfam07484 859655009691 Microcystin-dependent protein [Function unknown]; Region: MdpB; COG4675 859655009692 Autotransporter beta-domain; Region: Autotransporter; pfam03797 859655009693 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 859655009694 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 859655009695 FMN binding site [chemical binding]; other site 859655009696 substrate binding site [chemical binding]; other site 859655009697 putative catalytic residue [active] 859655009698 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 859655009699 ThiC-associated domain; Region: ThiC-associated; pfam13667 859655009700 Thiamine biosynthesis protein ThiC [Coenzyme metabolism]; Region: ThiC; COG0422 859655009701 glycine oxidase ThiO; Region: thiamin_ThiO; TIGR02352 859655009702 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 859655009703 thiS-thiF/thiG interaction site; other site 859655009704 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 859655009705 ThiS interaction site; other site 859655009706 putative active site [active] 859655009707 tetramer interface [polypeptide binding]; other site 859655009708 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 859655009709 thiamine phosphate binding site [chemical binding]; other site 859655009710 active site 859655009711 pyrophosphate binding site [ion binding]; other site 859655009712 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 859655009713 putative dimer interface [polypeptide binding]; other site 859655009714 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 859655009715 RTX toxins and related Ca2+-binding proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2931 859655009716 Haemolysin-type calcium binding protein related domain; Region: HCBP_related; pfam06594 859655009717 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 859655009718 dimer interface [polypeptide binding]; other site 859655009719 substrate binding site [chemical binding]; other site 859655009720 ATP binding site [chemical binding]; other site 859655009721 Alkaline phosphatase homologues; alkaline phosphatases are non-specific phosphomonoesterases that catalyze the hydrolysis reaction via a phosphoseryl intermediate to produce inorganic phosphate and the corresponding alcohol, optimally at high pH; Region: alkPPc; cd00016 859655009722 Alkaline phosphatase homologues; Region: alkPPc; smart00098 859655009723 active site 859655009724 dimer interface [polypeptide binding]; other site 859655009725 Alkaline phosphatase [Inorganic ion transport and metabolism]; Region: PhoA; COG1785 859655009726 Alkaline phosphatase homologues; alkaline phosphatases are non-specific phosphomonoesterases that catalyze the hydrolysis reaction via a phosphoseryl intermediate to produce inorganic phosphate and the corresponding alcohol, optimally at high pH; Region: alkPPc; cd00016 859655009727 dimer interface [polypeptide binding]; other site 859655009728 active site 859655009729 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 859655009730 S-Adenosylhomocysteine Hydrolase, NAD-binding and catalytic domains; Region: SAHH; cd00401 859655009731 homotetramer interface [polypeptide binding]; other site 859655009732 ligand binding site [chemical binding]; other site 859655009733 catalytic site [active] 859655009734 NAD binding site [chemical binding]; other site 859655009735 Predicted membrane protein [Function unknown]; Region: COG1950 859655009736 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 859655009737 FAD binding site [chemical binding]; other site 859655009738 Regulator of competence-specific genes [Transcription]; Region: TfoX; COG3070 859655009739 5-formyltetrahydrofolate cyclo-ligase [Coenzyme metabolism]; Region: COG0212 859655009740 lytic murein transglycosylase; Provisional; Region: PRK11619 859655009741 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 859655009742 N-acetyl-D-glucosamine binding site [chemical binding]; other site 859655009743 catalytic residue [active] 859655009744 NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, subunit 9, 39 kDa, (NDUFA9) -like, atypical (a) SDRs; Region: NDUFA9_like_SDR_a; cd05271 859655009745 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 859655009746 putative NAD(P) binding site [chemical binding]; other site 859655009747 active site 859655009748 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 859655009749 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 859655009750 putative C-terminal domain interface [polypeptide binding]; other site 859655009751 putative GSH binding site (G-site) [chemical binding]; other site 859655009752 putative dimer interface [polypeptide binding]; other site 859655009753 C-terminal, alpha helical domain of an unknown subfamily 3 of Glutathione S-transferases; Region: GST_C_3; cd03194 859655009754 putative N-terminal domain interface [polypeptide binding]; other site 859655009755 putative dimer interface [polypeptide binding]; other site 859655009756 putative substrate binding pocket (H-site) [chemical binding]; other site 859655009757 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 859655009758 multifunctional tRNA nucleotidyl transferase/2'3'-cyclic phosphodiesterase/2'nucleotidase/phosphatase; Reviewed; Region: cca; PRK10885 859655009759 active site 859655009760 NTP binding site [chemical binding]; other site 859655009761 metal binding triad [ion binding]; metal-binding site 859655009762 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 859655009763 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 859655009764 Zn2+ binding site [ion binding]; other site 859655009765 Mg2+ binding site [ion binding]; other site 859655009766 glutamate and aspartate transporter subunit; Provisional; Region: PRK10797 859655009767 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 859655009768 substrate binding pocket [chemical binding]; other site 859655009769 membrane-bound complex binding site; other site 859655009770 hinge residues; other site 859655009771 Uncharacterized conserved protein [Function unknown]; Region: COG3246 859655009772 hypothetical protein; Provisional; Region: PRK07483 859655009773 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 859655009774 inhibitor-cofactor binding pocket; inhibition site 859655009775 pyridoxal 5'-phosphate binding site [chemical binding]; other site 859655009776 catalytic residue [active] 859655009777 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 859655009778 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 859655009779 putative active site [active] 859655009780 Response regulator receiver domain; Region: Response_reg; pfam00072 859655009781 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 859655009782 active site 859655009783 phosphorylation site [posttranslational modification] 859655009784 intermolecular recognition site; other site 859655009785 dimerization interface [polypeptide binding]; other site 859655009786 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 859655009787 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 859655009788 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 859655009789 dimerization interface [polypeptide binding]; other site 859655009790 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 859655009791 dimer interface [polypeptide binding]; other site 859655009792 phosphorylation site [posttranslational modification] 859655009793 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 859655009794 ATP binding site [chemical binding]; other site 859655009795 Mg2+ binding site [ion binding]; other site 859655009796 G-X-G motif; other site 859655009797 Domain of unknown function (DUF4390); Region: DUF4390; pfam14334 859655009798 16S rRNA methyltransferase B; Provisional; Region: PRK10901 859655009799 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 859655009800 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 859655009801 S-adenosylmethionine binding site [chemical binding]; other site 859655009802 M48 family peptidase; Provisional; Region: PRK03001 859655009803 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 859655009804 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 859655009805 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 859655009806 putative active site [active] 859655009807 substrate binding site [chemical binding]; other site 859655009808 putative cosubstrate binding site; other site 859655009809 catalytic site [active] 859655009810 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 859655009811 substrate binding site [chemical binding]; other site 859655009812 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 859655009813 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 859655009814 active site 859655009815 catalytic residues [active] 859655009816 metal binding site [ion binding]; metal-binding site 859655009817 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 859655009818 Uncharacterized protein containing LysM domain [Function unknown]; Region: XkdP; COG1652 859655009819 Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]; Region: Smf; COG0758 859655009820 DNA protecting protein DprA; Region: dprA; TIGR00732 859655009821 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 859655009822 catalytic residues [active] 859655009823 DNA topoisomerase III; Validated; Region: PRK08173 859655009824 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 859655009825 active site 859655009826 putative interdomain interaction site [polypeptide binding]; other site 859655009827 putative metal-binding site [ion binding]; other site 859655009828 putative nucleotide binding site [chemical binding]; other site 859655009829 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 859655009830 domain I; other site 859655009831 DNA binding groove [nucleotide binding] 859655009832 phosphate binding site [ion binding]; other site 859655009833 domain II; other site 859655009834 domain III; other site 859655009835 nucleotide binding site [chemical binding]; other site 859655009836 catalytic site [active] 859655009837 domain IV; other site 859655009838 C-terminal repeat of topoisomerase; Region: Toprim_Crpt; pfam13342 859655009839 C-terminal repeat of topoisomerase; Region: Toprim_Crpt; pfam13342 859655009840 Transcriptional regulator [Transcription]; Region: LysR; COG0583 859655009841 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 859655009842 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 859655009843 putative effector binding pocket; other site 859655009844 dimerization interface [polypeptide binding]; other site 859655009845 acyl-CoA synthetase; Validated; Region: PRK06178 859655009846 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 859655009847 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 859655009848 acyl-activating enzyme (AAE) consensus motif; other site 859655009849 acyl-activating enzyme (AAE) consensus motif; other site 859655009850 AMP binding site [chemical binding]; other site 859655009851 active site 859655009852 CoA binding site [chemical binding]; other site 859655009853 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 859655009854 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 859655009855 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 859655009856 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 859655009857 Cell shape-determining protein [Cell envelope biogenesis, outer membrane]; Region: MreD; COG2891 859655009858 rod shape-determining protein MreC; Provisional; Region: PRK13922 859655009859 rod shape-determining protein MreC; Region: MreC; pfam04085 859655009860 rod shape-determining protein MreB; Provisional; Region: PRK13927 859655009861 MreB and similar proteins; Region: MreB_like; cd10225 859655009862 nucleotide binding site [chemical binding]; other site 859655009863 Mg binding site [ion binding]; other site 859655009864 putative protofilament interaction site [polypeptide binding]; other site 859655009865 RodZ interaction site [polypeptide binding]; other site 859655009866 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 859655009867 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 859655009868 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 859655009869 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 859655009870 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 859655009871 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 859655009872 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 859655009873 GatB domain; Region: GatB_Yqey; smart00845 859655009874 Protein of unknown function, DUF484; Region: DUF484; cl17449 859655009875 Site-specific recombinase XerC [DNA replication, recombination, and repair]; Region: XerC; COG4973 859655009876 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 859655009877 active site 859655009878 Int/Topo IB signature motif; other site 859655009879 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 859655009880 Putative RNA-binding Domain in PseudoUridine synthase and Archaeosine transglycosylase; Region: PUA; smart00359 859655009881 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 859655009882 putative RNA binding site [nucleotide binding]; other site 859655009883 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 859655009884 S-adenosylmethionine binding site [chemical binding]; other site 859655009885 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 859655009886 FAD binding domain; Region: FAD_binding_4; pfam01565 859655009887 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 859655009888 Berberine and berberine like; Region: BBE; pfam08031 859655009889 3-carboxymuconate cyclase [Carbohydrate transport and metabolism]; Region: COG2706 859655009890 Protein of unknown function (DUF433); Region: DUF433; cl01030 859655009891 Fe2+/Zn2+ uptake regulation proteins [Inorganic ion transport and metabolism]; Region: Fur; COG0735 859655009892 metal binding site 2 [ion binding]; metal-binding site 859655009893 putative DNA binding helix; other site 859655009894 metal binding site 1 [ion binding]; metal-binding site 859655009895 dimer interface [polypeptide binding]; other site 859655009896 structural Zn2+ binding site [ion binding]; other site 859655009897 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 859655009898 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 859655009899 P-loop, Walker A motif; other site 859655009900 Base recognition motif; other site 859655009901 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 859655009902 RNA polymerase-binding protein DksA; Region: dksA; TIGR02420 859655009903 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 859655009904 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 859655009905 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; smart00833 859655009906 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 859655009907 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_2; cd08498 859655009908 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 859655009909 active site 859655009910 HslU subunit interaction site [polypeptide binding]; other site 859655009911 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 859655009912 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 859655009913 Walker A motif; other site 859655009914 ATP binding site [chemical binding]; other site 859655009915 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 859655009916 Walker B motif; other site 859655009917 arginine finger; other site 859655009918 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 859655009919 Response regulator consisting of a CheY-like receiver domain and a Fis-type HTH domain [Signal transduction mechanisms / Transcription]; Region: COG4567 859655009920 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 859655009921 active site 859655009922 phosphorylation site [posttranslational modification] 859655009923 intermolecular recognition site; other site 859655009924 dimerization interface [polypeptide binding]; other site 859655009925 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 859655009926 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 859655009927 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 859655009928 ATP binding site [chemical binding]; other site 859655009929 Mg2+ binding site [ion binding]; other site 859655009930 G-X-G motif; other site 859655009931 Copper(I)-binding protein [Inorganic ion transport and metabolism]; Region: COG2847 859655009932 Putative zinc-finger; Region: zf-HC2; pfam13490 859655009933 RNA polymerase sigma factor; Provisional; Region: PRK12520 859655009934 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 859655009935 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 859655009936 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 859655009937 feedback inhibition sensing region; other site 859655009938 homohexameric interface [polypeptide binding]; other site 859655009939 nucleotide binding site [chemical binding]; other site 859655009940 N-acetyl-L-glutamate binding site [chemical binding]; other site 859655009941 pyrimidine 5'-nucleotidase; Region: Pyr-5-nucltdase; TIGR01993 859655009942 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 859655009943 motif II; other site 859655009944 division inhibitor protein; Provisional; Region: slmA; PRK09480 859655009945 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 859655009946 inner membrane protein; Provisional; Region: PRK11715 859655009947 sensory histidine kinase CreC; Provisional; Region: PRK11100 859655009948 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 859655009949 dimerization interface [polypeptide binding]; other site 859655009950 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 859655009951 dimer interface [polypeptide binding]; other site 859655009952 phosphorylation site [posttranslational modification] 859655009953 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 859655009954 ATP binding site [chemical binding]; other site 859655009955 Mg2+ binding site [ion binding]; other site 859655009956 G-X-G motif; other site 859655009957 DNA-binding response regulator CreB; Provisional; Region: PRK11083 859655009958 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 859655009959 active site 859655009960 phosphorylation site [posttranslational modification] 859655009961 intermolecular recognition site; other site 859655009962 dimerization interface [polypeptide binding]; other site 859655009963 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 859655009964 DNA binding site [nucleotide binding] 859655009965 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 859655009966 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 859655009967 DNA-binding site [nucleotide binding]; DNA binding site 859655009968 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 859655009969 pyridoxal 5'-phosphate binding site [chemical binding]; other site 859655009970 homodimer interface [polypeptide binding]; other site 859655009971 catalytic residue [active] 859655009972 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 859655009973 4-aminobutyrate aminotransferase; Provisional; Region: PRK07495 859655009974 inhibitor-cofactor binding pocket; inhibition site 859655009975 pyridoxal 5'-phosphate binding site [chemical binding]; other site 859655009976 catalytic residue [active] 859655009977 succinic semialdehyde dehydrogenase; Region: PLN02278 859655009978 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 859655009979 tetramerization interface [polypeptide binding]; other site 859655009980 NAD(P) binding site [chemical binding]; other site 859655009981 catalytic residues [active] 859655009982 homoserine O-acetyltransferase; Provisional; Region: metX; PRK00175 859655009983 homoserine O-acetyltransferase; Region: homoserO_Ac_trn; TIGR01392 859655009984 Methyltransferase domain; Region: Methyltransf_23; pfam13489 859655009985 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 859655009986 S-adenosylmethionine binding site [chemical binding]; other site 859655009987 Transposase domain (DUF772); Region: DUF772; pfam05598 859655009988 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 859655009989 phasin family protein; Region: phasin; TIGR01841 859655009990 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 859655009991 Sel1-like repeats; Region: SEL1; smart00671 859655009992 Sel1-like repeats; Region: SEL1; smart00671 859655009993 Sel1-like repeats; Region: SEL1; smart00671 859655009994 Sel1-like repeats; Region: SEL1; smart00671 859655009995 Uncharacterized small protein [Function unknown]; Region: COG2879 859655009996 carbon starvation protein A; Provisional; Region: PRK15015 859655009997 Carbon starvation protein CstA; Region: CstA; pfam02554 859655009998 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 859655009999 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4564 859655010000 Cache domain; Region: Cache_2; pfam08269 859655010001 Histidine kinase; Region: HisKA_3; pfam07730 859655010002 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 859655010003 ATP binding site [chemical binding]; other site 859655010004 Mg2+ binding site [ion binding]; other site 859655010005 G-X-G motif; other site 859655010006 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 859655010007 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 859655010008 active site 859655010009 phosphorylation site [posttranslational modification] 859655010010 intermolecular recognition site; other site 859655010011 dimerization interface [polypeptide binding]; other site 859655010012 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 859655010013 DNA binding residues [nucleotide binding] 859655010014 dimerization interface [polypeptide binding]; other site 859655010015 Hydroxypyruvate isomerase [Carbohydrate transport and metabolism]; Region: Hfi; COG3622 859655010016 Protein of unknown function (DUF3617); Region: DUF3617; pfam12276 859655010017 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 859655010018 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 859655010019 active site 859655010020 phosphorylation site [posttranslational modification] 859655010021 intermolecular recognition site; other site 859655010022 dimerization interface [polypeptide binding]; other site 859655010023 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 859655010024 DNA binding site [nucleotide binding] 859655010025 Transposase domain (DUF772); Region: DUF772; pfam05598 859655010026 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 859655010027 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 859655010028 active site 859655010029 substrate-binding site [chemical binding]; other site 859655010030 metal-binding site [ion binding] 859655010031 GTP binding site [chemical binding]; other site 859655010032 Putative D-3-Phosphoglycerate Dehydrogenases; Region: PGDH_like_1; cd12169 859655010033 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 859655010034 dimerization interface [polypeptide binding]; other site 859655010035 NAD binding site [chemical binding]; other site 859655010036 ligand binding site [chemical binding]; other site 859655010037 catalytic site [active] 859655010038 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 859655010039 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 859655010040 putative active site [active] 859655010041 metal binding site [ion binding]; metal-binding site 859655010042 Pyruvate/2-oxoglutarate dehydrogenase complex, dihydrolipoamide dehydrogenase (E3) component, and related enzymes [Energy production and conversion]; Region: Lpd; COG1249 859655010043 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 859655010044 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 859655010045 Patatin-like phospholipase; Region: Patatin; pfam01734 859655010046 active site 859655010047 nucleophile elbow; other site 859655010048 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 859655010049 DNA-binding transcriptional repressor AcrR; Provisional; Region: PRK10668 859655010050 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 859655010051 MAATS-type transcriptional repressor, C-terminal region; Region: TetR_C_2; pfam08361 859655010052 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 859655010053 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 859655010054 HlyD family secretion protein; Region: HlyD_3; pfam13437 859655010055 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 859655010056 Protein export membrane protein; Region: SecD_SecF; cl14618 859655010057 copper/silver efflux system outer membrane protein CusC; Provisional; Region: PRK09837 859655010058 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 859655010059 Predicted protein tyrosine phosphatase [General function prediction only]; Region: COG4551 859655010060 active site 859655010061 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 859655010062 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 859655010063 trmE is a tRNA modification GTPase; Region: trmE; cd04164 859655010064 G1 box; other site 859655010065 GTP/Mg2+ binding site [chemical binding]; other site 859655010066 Switch I region; other site 859655010067 G2 box; other site 859655010068 Switch II region; other site 859655010069 G3 box; other site 859655010070 G4 box; other site 859655010071 G5 box; other site 859655010072 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 859655010073 membrane protein insertase; Provisional; Region: PRK01318 859655010074 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 859655010075 hypothetical protein; Validated; Region: PRK00041 859655010076 Ribonuclease P; Region: Ribonuclease_P; cl00457 859655010077 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399 859655010078 Plasmid encoded RepA protein; Region: RepA_C; pfam04796 859655010079 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 859655010080 DNA-binding site [nucleotide binding]; DNA binding site 859655010081 RNA-binding motif; other site 859655010082 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 859655010083 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 859655010084 P-loop; other site 859655010085 Magnesium ion binding site [ion binding]; other site 859655010086 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 859655010087 ParB-like nuclease domain; Region: ParBc; pfam02195 859655010088 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 859655010089 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 859655010090 active site 859655010091 tetramer interface; other site 859655010092 alpha-ketoglutarate transporter; Provisional; Region: PRK10406 859655010093 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 859655010094 putative substrate translocation pore; other site 859655010095 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 859655010096 EAL-domain associated signalling protein domain; Region: YkuI_C; pfam10388 859655010097 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 859655010098 dimer interface [polypeptide binding]; other site 859655010099 phosphorylation site [posttranslational modification] 859655010100 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 859655010101 ATP binding site [chemical binding]; other site 859655010102 Mg2+ binding site [ion binding]; other site 859655010103 G-X-G motif; other site 859655010104 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 859655010105 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 859655010106 active site 859655010107 phosphorylation site [posttranslational modification] 859655010108 intermolecular recognition site; other site 859655010109 dimerization interface [polypeptide binding]; other site 859655010110 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 859655010111 Walker A motif; other site 859655010112 ATP binding site [chemical binding]; other site 859655010113 Walker B motif; other site 859655010114 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 859655010115 Putative membrane peptidase family (DUF2324); Region: DUF2324; cl01810 859655010116 Cache domain; Region: Cache_1; pfam02743 859655010117 FOG: HAMP domain [Signal transduction mechanisms]; Region: ResE; COG2770 859655010118 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 859655010119 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 859655010120 putative active site [active] 859655010121 heme pocket [chemical binding]; other site 859655010122 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 859655010123 putative active site [active] 859655010124 heme pocket [chemical binding]; other site 859655010125 PAS fold; Region: PAS_4; pfam08448 859655010126 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 859655010127 putative active site [active] 859655010128 heme pocket [chemical binding]; other site 859655010129 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 859655010130 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 859655010131 metal binding site [ion binding]; metal-binding site 859655010132 active site 859655010133 I-site; other site 859655010134 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 859655010135 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 859655010136 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 859655010137 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 859655010138 TM-ABC transporter signature motif; other site 859655010139 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 859655010140 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 859655010141 TM-ABC transporter signature motif; other site 859655010142 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 859655010143 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 859655010144 Walker A/P-loop; other site 859655010145 ATP binding site [chemical binding]; other site 859655010146 Q-loop/lid; other site 859655010147 ABC transporter signature motif; other site 859655010148 Walker B; other site 859655010149 D-loop; other site 859655010150 H-loop/switch region; other site 859655010151 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 859655010152 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 859655010153 Walker A/P-loop; other site 859655010154 ATP binding site [chemical binding]; other site 859655010155 Q-loop/lid; other site 859655010156 ABC transporter signature motif; other site 859655010157 Walker B; other site 859655010158 D-loop; other site 859655010159 H-loop/switch region; other site 859655010160 Transcriptional regulator [Transcription]; Region: LysR; COG0583 859655010161 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 859655010162 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 859655010163 dimerization interface [polypeptide binding]; other site 859655010164 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2350 859655010165 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 859655010166 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 859655010167 Cl- selectivity filter; other site 859655010168 Cl- binding residues [ion binding]; other site 859655010169 pore gating glutamate residue; other site 859655010170 dimer interface [polypeptide binding]; other site 859655010171 Spherulation-specific family 4; Region: Spherulin4; pfam12138 859655010172 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 859655010173 substrate binding site [chemical binding]; other site 859655010174 Carbohydrate-selective porin, OprB family; Region: OprB; cl17816 859655010175 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; COG1914 859655010176 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 859655010177 Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily. LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs correspond...; Region: LRR_RI; cl15309 859655010178 Substrate binding site [chemical binding]; other site 859655010179 Leucine-rich repeats; other site 859655010180 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 859655010181 H-NS histone family; Region: Histone_HNS; pfam00816 859655010182 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 859655010183 Beta-lactamase class D [Defense mechanisms]; Region: COG2602 859655010184 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3416 859655010185 salicylyl-CoA 5-hydroxylase; Reviewed; Region: PRK08255 859655010186 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 859655010187 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 859655010188 active site 859655010189 FMN binding site [chemical binding]; other site 859655010190 substrate binding site [chemical binding]; other site 859655010191 homotetramer interface [polypeptide binding]; other site 859655010192 catalytic residue [active] 859655010193 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 859655010194 classical (c) SDRs; Region: SDR_c; cd05233 859655010195 NAD(P) binding site [chemical binding]; other site 859655010196 active site 859655010197 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 859655010198 MarR family; Region: MarR; pfam01047 859655010199 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 859655010200 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 859655010201 substrate binding site [chemical binding]; other site 859655010202 oxyanion hole (OAH) forming residues; other site 859655010203 trimer interface [polypeptide binding]; other site 859655010204 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 859655010205 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 859655010206 active site 859655010207 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 859655010208 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 859655010209 acyl-activating enzyme (AAE) consensus motif; other site 859655010210 AMP binding site [chemical binding]; other site 859655010211 active site 859655010212 CoA binding site [chemical binding]; other site 859655010213 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 859655010214 active site 859655010215 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 859655010216 homotrimer interaction site [polypeptide binding]; other site 859655010217 putative active site [active] 859655010218 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; pfam08843 859655010219 Protein of unknown function (DUF3375); Region: DUF3375; pfam11855 859655010220 Domain of unknown function (DUF4194); Region: DUF4194; pfam13835 859655010221 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4913 859655010222 P-loop containing region of AAA domain; Region: AAA_29; pfam13555 859655010223 Putative exonuclease SbcCD, C subunit; Region: SbcCD_C; pfam13558 859655010224 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4924 859655010225 Uncharacterized protein conserved in bacteria N-term (DUF3322); Region: DUF3322; pfam11795 859655010226 Uncharacterized protein conserved in bacteria C-term(DUF2220); Region: DUF2220; pfam09983 859655010227 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 859655010228 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 859655010229 NAD(P) binding site [chemical binding]; other site 859655010230 Helix-turn-helix domain; Region: HTH_18; pfam12833 859655010231 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 859655010232 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme 859655010233 alpha-ketoglutarate transporter; Provisional; Region: PRK10406 859655010234 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 859655010235 putative substrate translocation pore; other site 859655010236 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 859655010237 non-specific DNA binding site [nucleotide binding]; other site 859655010238 sequence-specific DNA binding site [nucleotide binding]; other site 859655010239 salt bridge; other site 859655010240 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3657 859655010241 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 859655010242 putative substrate translocation pore; other site 859655010243 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 859655010244 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 859655010245 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 859655010246 DNA-binding site [nucleotide binding]; DNA binding site 859655010247 UTRA domain; Region: UTRA; pfam07702 859655010248 Predicted transcriptional regulators [Transcription]; Region: COG1733 859655010249 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 859655010250 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 859655010251 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 859655010252 putative metal binding site [ion binding]; other site 859655010253 Evidence 7 : Gene remnant; Product type h : extrachromosomal origin 859655010254 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 859655010255 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 859655010256 Transcriptional regulator [Transcription]; Region: LysR; COG0583 859655010257 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 859655010258 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 859655010259 putative dimerization interface [polypeptide binding]; other site 859655010260 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 859655010261 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 859655010262 N-terminal plug; other site 859655010263 ligand-binding site [chemical binding]; other site 859655010264 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 859655010265 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 859655010266 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 859655010267 Major Facilitator Superfamily; Region: MFS_1; pfam07690 859655010268 putative substrate translocation pore; other site 859655010269 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 859655010270 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 859655010271 MoxR-like ATPases [General function prediction only]; Region: COG0714 859655010272 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 859655010273 ATP binding site [chemical binding]; other site 859655010274 Walker A motif; other site 859655010275 Walker B motif; other site 859655010276 arginine finger; other site 859655010277 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 859655010278 Protein of unknown function DUF58; Region: DUF58; pfam01882 859655010279 Domain of unknown function (DUF3488); Region: DUF3488; pfam11992 859655010280 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 859655010281 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 859655010282 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 859655010283 active site clefts [active] 859655010284 zinc binding site [ion binding]; other site 859655010285 dimer interface [polypeptide binding]; other site 859655010286 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 859655010287 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 859655010288 Sulfate transporter family; Region: Sulfate_transp; pfam00916 859655010289 Uncharacterized membrane-anchored protein conserved in bacteria [Function unknown]; Region: COG4705 859655010290 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 859655010291 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 859655010292 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 859655010293 Domain of unknown function (DUF1869); Region: DUF1869; pfam08956 859655010294 probable AcnD-accessory protein PrpF; Region: prpF; TIGR02334 859655010295 2-methylisocitrate dehydratase, Fe/S-dependent; Region: 2met_isocit_dHY; TIGR02333 859655010296 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 859655010297 substrate binding site [chemical binding]; other site 859655010298 ligand binding site [chemical binding]; other site 859655010299 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 859655010300 substrate binding site [chemical binding]; other site 859655010301 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 859655010302 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 859655010303 dimer interface [polypeptide binding]; other site 859655010304 active site 859655010305 citrylCoA binding site [chemical binding]; other site 859655010306 oxalacetate/citrate binding site [chemical binding]; other site 859655010307 coenzyme A binding site [chemical binding]; other site 859655010308 catalytic triad [active] 859655010309 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 859655010310 tetramer interface [polypeptide binding]; other site 859655010311 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 859655010312 active site 859655010313 Mg2+/Mn2+ binding site [ion binding]; other site 859655010314 Propionate catabolism activator; Region: PrpR_N; pfam06506 859655010315 Transcriptional regulator containing PAS, AAA-type ATPase, and DNA-binding domains [Transcription / Signal transduction mechanisms]; Region: RocR; COG3829 859655010316 PAS domain; Region: PAS; smart00091 859655010317 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 859655010318 Walker A motif; other site 859655010319 ATP binding site [chemical binding]; other site 859655010320 Walker B motif; other site 859655010321 arginine finger; other site 859655010322 Predicted transcriptional regulator [Transcription]; Region: COG2944 859655010323 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; pfam13808 859655010324 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 859655010325 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; cl17880 859655010326 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type h : extrachromosomal origin 859655010327 Evidence 2b : Function of strongly homologous gene; Product type e : enzyme 859655010328 Transcriptional regulator [Transcription]; Region: LysR; COG0583 859655010329 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 859655010330 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 859655010331 dimerization interface [polypeptide binding]; other site 859655010332 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 859655010333 S-adenosylmethionine binding site [chemical binding]; other site 859655010334 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 859655010335 Predicted thioesterase [General function prediction only]; Region: COG5496 859655010336 Uncharacterized protein conserved in bacteria (DUF2242); Region: DUF2242; pfam10001 859655010337 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 859655010338 Calcineurin-like phosphoesterase superfamily domain; Region: Metallophos_2; pfam12850 859655010339 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 859655010340 active site 859655010341 metal binding site [ion binding]; metal-binding site 859655010342 Nuclease-related domain; Region: NERD; pfam08378 859655010343 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 859655010344 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 859655010345 ATP binding site [chemical binding]; other site 859655010346 putative Mg++ binding site [ion binding]; other site 859655010347 Family description; Region: UvrD_C_2; pfam13538 859655010348 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 859655010349 AAA domain; Region: AAA_21; pfam13304 859655010350 Walker A/P-loop; other site 859655010351 ATP binding site [chemical binding]; other site 859655010352 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 859655010353 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 859655010354 metal binding site [ion binding]; metal-binding site 859655010355 active site 859655010356 I-site; other site 859655010357 Predicted membrane protein [Function unknown]; Region: COG1289 859655010358 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 859655010359 Streptogramin lyase [Defense mechanisms]; Region: Vgb; COG4257 859655010360 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 859655010361 Old yellow enzyme (OYE)-related FMN binding domain, group 2. 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_2_FMN; cd04733 859655010362 putative active site [active] 859655010363 putative FMN binding site [chemical binding]; other site 859655010364 putative substrate binding site [chemical binding]; other site 859655010365 putative catalytic residue [active] 859655010366 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 859655010367 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 859655010368 DNA binding residues [nucleotide binding] 859655010369 acyl-CoA thioesterase; Provisional; Region: PRK10531 859655010370 putative pectinesterase; Region: PLN02432; cl01911 859655010371 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 859655010372 Coenzyme A binding pocket [chemical binding]; other site 859655010373 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 859655010374 Evidence 2b : Function of strongly homologous gene; Product type m : membrane component 859655010375 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 859655010376 RHS Repeat; Region: RHS_repeat; cl11982 859655010377 YD repeat (two copies); Region: YD_repeat_2x; TIGR01643 859655010378 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 859655010379 RHS Repeat; Region: RHS_repeat; cl11982 859655010380 RHS Repeat; Region: RHS_repeat; pfam05593 859655010381 RHS Repeat; Region: RHS_repeat; pfam05593 859655010382 RHS Repeat; Region: RHS_repeat; pfam05593 859655010383 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 859655010384 PhoPQ-activated pathogenicity-related protein [General function prediction only]; Region: PqaA; COG4287 859655010385 Endoglucanase [Carbohydrate transport and metabolism]; Region: BglC; COG2730 859655010386 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; pfam00150 859655010387 Phosphopantetheinyl transferase [Coenzyme metabolism]; Region: Sfp; COG2091 859655010388 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 859655010389 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Bacillus subtilis yoeA; Region: MATE_yoeA_like; cd13138 859655010390 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 859655010391 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3251 859655010392 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 859655010393 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 859655010394 Condensation domain; Region: Condensation; pfam00668 859655010395 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 859655010396 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 859655010397 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 859655010398 acyl-activating enzyme (AAE) consensus motif; other site 859655010399 AMP binding site [chemical binding]; other site 859655010400 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 859655010401 Condensation domain; Region: Condensation; pfam00668 859655010402 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 859655010403 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 859655010404 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 859655010405 acyl-activating enzyme (AAE) consensus motif; other site 859655010406 AMP binding site [chemical binding]; other site 859655010407 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 859655010408 Condensation domain; Region: Condensation; pfam00668 859655010409 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 859655010410 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 859655010411 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 859655010412 acyl-activating enzyme (AAE) consensus motif; other site 859655010413 AMP binding site [chemical binding]; other site 859655010414 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 859655010415 enterobactin synthase subunit F; Provisional; Region: entF; PRK10252 859655010416 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 859655010417 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 859655010418 acyl-activating enzyme (AAE) consensus motif; other site 859655010419 AMP binding site [chemical binding]; other site 859655010420 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 859655010421 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 859655010422 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 859655010423 acyl-activating enzyme (AAE) consensus motif; other site 859655010424 AMP binding site [chemical binding]; other site 859655010425 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 859655010426 ligand-binding site [chemical binding]; other site 859655010427 Sulfotransferase domain; Region: Sulfotransfer_1; pfam00685 859655010428 Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily. LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs correspond...; Region: LRR_RI; cl15309 859655010429 Leucine-rich repeats; other site 859655010430 Substrate binding site [chemical binding]; other site 859655010431 Leucine rich repeat; Region: LRR_8; pfam13855 859655010432 Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily. LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs correspond...; Region: LRR_RI; cl15309 859655010433 Leucine-rich repeats; other site 859655010434 Leucine rich repeat; Region: LRR_8; pfam13855 859655010435 Substrate binding site [chemical binding]; other site 859655010436 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 859655010437 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 859655010438 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 859655010439 catalytic residue [active] 859655010440 Methyltransferase domain; Region: Methyltransf_31; pfam13847 859655010441 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 859655010442 S-adenosylmethionine binding site [chemical binding]; other site 859655010443 Uncharacterized protein conserved in bacteria [Function unknown]; Region: VgrG; COG3501 859655010444 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 859655010445 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 859655010446 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 859655010447 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4253 859655010448 Domain of unknown function (DUF4123); Region: DUF4123; pfam13503 859655010449 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 859655010450 Switch I region; other site 859655010451 G3 box; other site 859655010452 Switch II region; other site 859655010453 Protein of unknown function (DUF3304); Region: DUF3304; pfam11745 859655010454 Protein of unknown function (DUF3304); Region: DUF3304; pfam11745 859655010455 Uncharacterized conserved protein (DUF2235); Region: DUF2235; cl01480 859655010456 Uncharacterized conserved protein (DUF2235); Region: DUF2235; cl01480 859655010457 Type IV secretory pathway, VirB10 components [Intracellular trafficking and secretion]; Region: VirB10; COG2948 859655010458 Domain of unknown function (DUF4259); Region: DUF4259; pfam14078 859655010459 Putative hydrophobic ligand-binding SRPBCC domain of Micromonospora echinospora CalC, human Aha1, and related proteins; Region: SRPBCC_CalC_Aha1-like; cd07814 859655010460 putative hydrophobic ligand binding site [chemical binding]; other site 859655010461 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 859655010462 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 859655010463 substrate binding pocket [chemical binding]; other site 859655010464 membrane-bound complex binding site; other site 859655010465 hinge residues; other site 859655010466 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme 859655010467 Tfp pilus assembly protein FimV [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimV; COG3170 859655010468 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 859655010469 Tfp pilus assembly protein FimV [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimV; COG3170 859655010470 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 859655010471 SMI1 / KNR4 family (SUKH-1); Region: SMI1_KNR4; cl01747 859655010472 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 859655010473 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 859655010474 PPR repeat family; Region: PPR_2; pfam13041 859655010475 PPR repeat; Region: PPR; pfam01535 859655010476 PPR repeat family; Region: PPR_2; pfam13041 859655010477 PPR repeat family; Region: PPR_2; pfam13041 859655010478 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK07515 859655010479 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 859655010480 dimer interface [polypeptide binding]; other site 859655010481 active site 859655010482 CoA binding pocket [chemical binding]; other site 859655010483 proline iminopeptidase, Neisseria-type subfamily; Region: pro_imino_pep_1; TIGR01249 859655010484 chorismate mutase; Provisional; Region: PRK09269 859655010485 Chorismate mutase type II; Region: CM_2; cl00693 859655010486 Evidence 5 : No homology to any previously reported sequences 859655010487 Disulfide bond formation protein DsbB; Region: DsbB; cl00649 859655010488 Predicted dehydrogenase [General function prediction only]; Region: COG5322 859655010489 NAD(P) binding domain of amino acid dehydrogenase-like proteins; Region: NAD_bind_amino_acid_DH; cl17226 859655010490 NAD(P) binding pocket [chemical binding]; other site 859655010491 Ornithine/acetylornithine aminotransferase [Amino acid transport and metabolism]; Region: ArgD; COG4992 859655010492 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 859655010493 inhibitor-cofactor binding pocket; inhibition site 859655010494 pyridoxal 5'-phosphate binding site [chemical binding]; other site 859655010495 catalytic residue [active] 859655010496 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 859655010497 Thiamine pyrophosphate-requiring enzymes [acetolactate synthase, pyruvate dehydrogenase (cytochrome), glyoxylate carboligase, phosphonopyruvate decarboxylase] [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvB; COG0028 859655010498 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 859655010499 Protein involved in biosynthesis of mitomycin antibiotics/polyketide fumonisin [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG5285 859655010500 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4704 859655010501 Lignostilbene-alpha,beta-dioxygenase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3670 859655010502 Retinal pigment epithelial membrane protein; Region: RPE65; pfam03055 859655010503 AMP nucleosidase; Provisional; Region: PRK08292 859655010504 Bacterial AMP nucleoside phosphorylase N-terminus; Region: AMNp_N; pfam10423 859655010505 Nucleoside phosphorylase [Nucleotide transport and metabolism]; Region: Pfs; COG0775 859655010506 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme 859655010507 Protein kinase domain; Region: Pkinase; pfam00069 859655010508 Catalytic domain of Protein Kinases; Region: PKc; cd00180 859655010509 active site 859655010510 ATP binding site [chemical binding]; other site 859655010511 substrate binding site [chemical binding]; other site 859655010512 activation loop (A-loop); other site 859655010513 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; pfam13808 859655010514 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; cl17880 859655010515 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme 859655010516 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 859655010517 dimer interface [polypeptide binding]; other site 859655010518 conserved gate region; other site 859655010519 putative PBP binding loops; other site 859655010520 ABC-ATPase subunit interface; other site 859655010521 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type h : extrachromosomal origin 859655010522 Evidence 4 : Homologs of previously reported genes of unknown function 859655010523 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 859655010524 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 859655010525 dimer interface [polypeptide binding]; other site 859655010526 phosphorylation site [posttranslational modification] 859655010527 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 859655010528 ATP binding site [chemical binding]; other site 859655010529 Mg2+ binding site [ion binding]; other site 859655010530 G-X-G motif; other site 859655010531 leucine transcriptional activator; Reviewed; Region: leuO; PRK09508 859655010532 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 859655010533 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 859655010534 substrate binding pocket [chemical binding]; other site 859655010535 dimerization interface [polypeptide binding]; other site 859655010536 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 859655010537 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 859655010538 iron-sulfur cluster [ion binding]; other site 859655010539 [2Fe-2S] cluster binding site [ion binding]; other site 859655010540 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 859655010541 alpha subunit interface [polypeptide binding]; other site 859655010542 active site 859655010543 substrate binding site [chemical binding]; other site 859655010544 Fe binding site [ion binding]; other site 859655010545 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 859655010546 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 859655010547 FMN-binding pocket [chemical binding]; other site 859655010548 flavin binding motif; other site 859655010549 phosphate binding motif [ion binding]; other site 859655010550 beta-alpha-beta structure motif; other site 859655010551 NAD binding pocket [chemical binding]; other site 859655010552 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 859655010553 catalytic loop [active] 859655010554 iron binding site [ion binding]; other site 859655010555 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 859655010556 MarR family; Region: MarR; pfam01047 859655010557 p-hydroxycinnamoyl CoA hydratase/lyase; Validated; Region: PRK09120 859655010558 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 859655010559 substrate binding site [chemical binding]; other site 859655010560 oxyanion hole (OAH) forming residues; other site 859655010561 trimer interface [polypeptide binding]; other site 859655010562 succinic semialdehyde dehydrogenase; Region: PLN02278 859655010563 Salicylaldehyde dehydrogenase, DoxF-like; Region: ALDH_SaliADH; cd07105 859655010564 NAD(P) binding site [chemical binding]; other site 859655010565 catalytic residues [active] 859655010566 feruloyl-CoA synthase; Reviewed; Region: PRK08180 859655010567 Feruloyl-CoA synthetase (FCS); Region: FCS; cd05921 859655010568 acyl-activating enzyme (AAE) consensus motif; other site 859655010569 putative AMP binding site [chemical binding]; other site 859655010570 putative active site [active] 859655010571 putative CoA binding site [chemical binding]; other site 859655010572 Activator of aromatic catabolism; Region: XylR_N; pfam06505 859655010573 V4R domain; Region: V4R; pfam02830 859655010574 Transcriptional regulators containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]; Region: PspF; COG1221 859655010575 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 859655010576 Walker A motif; other site 859655010577 ATP binding site [chemical binding]; other site 859655010578 Walker B motif; other site 859655010579 arginine finger; other site 859655010580 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 859655010581 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 859655010582 NAD-dependent benzaldehyde dehydrogenase II-like; Region: ALDH_BenzADH; cd07152 859655010583 NAD(P) binding site [chemical binding]; other site 859655010584 catalytic residues [active] 859655010585 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 859655010586 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 859655010587 NAD(P) binding site [chemical binding]; other site 859655010588 3-alpha-hydroxysteroid dehydrogenase; Provisional; Region: PRK12428 859655010589 active site 859655010590 Protein involved in meta-pathway of phenol degradation [Energy production and conversion]; Region: COG4313 859655010591 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 859655010592 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 859655010593 substrate binding pocket [chemical binding]; other site 859655010594 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 859655010595 S-adenosylmethionine binding site [chemical binding]; other site 859655010596 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 859655010597 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 859655010598 active site 859655010599 benzoate transport; Region: 2A0115; TIGR00895 859655010600 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 859655010601 putative substrate translocation pore; other site 859655010602 Maltooligosyl trehalose synthase [Carbohydrate transport and metabolism]; Region: TreY; COG3280 859655010603 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 859655010604 Alpha amylase catalytic domain found in maltooligosyl trehalose synthase (MTSase); Region: AmyAc_MTSase; cd11336 859655010605 active site 859655010606 catalytic site [active] 859655010607 4-alpha-glucanotransferase [Carbohydrate transport and metabolism]; Region: MalQ; COG1640 859655010608 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 859655010609 malto-oligosyltrehalose trehalohydrolase; Region: trehalose_TreZ; TIGR02402 859655010610 Alpha amylase catalytic domain found in Glycosyltrehalose trehalohydrolase (also called Maltooligosyl trehalose Trehalohydrolase); Region: AmyAc_GTHase; cd11325 859655010611 catalytic site [active] 859655010612 active site 859655010613 Domain of unknown function (DUF3459); Region: DUF3459; pfam11941 859655010614 glycogen debranching enzyme GlgX; Region: glgX_debranch; TIGR02100 859655010615 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 859655010616 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 859655010617 active site 859655010618 catalytic site [active] 859655010619 glycogen branching enzyme; Provisional; Region: PRK05402 859655010620 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 859655010621 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 859655010622 active site 859655010623 catalytic site [active] 859655010624 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 859655010625 trehalose synthase; Region: treS_nterm; TIGR02456 859655010626 Alpha amylase catalytic domain found in Trehalose synthetase; Region: AmyAc_TreS; cd11334 859655010627 active site 859655010628 catalytic site [active] 859655010629 trehalose synthase-fused probable maltokinase; Region: TreS_Cterm; TIGR02457 859655010630 Uncharacterized protein, probably involved in trehalose biosynthesis [Carbohydrate transport and metabolism]; Region: Ble; COG3281 859655010631 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme 859655010632 glycogen synthase; Provisional; Region: glgA; PRK00654 859655010633 This family is most closely related to the GT1 family of glycosyltransferases. Glycogen synthase catalyzes the formation and elongation of the alpha-1,4-glucose backbone using ADP-glucose, the second and key step of glycogen biosynthesis. This family...; Region: GT1_Glycogen_synthase_DULL1_like; cd03791 859655010634 homodimer interface [polypeptide binding]; other site 859655010635 ADP-binding pocket [chemical binding]; other site 859655010636 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pt : putative transporter 859655010637 peroxiredoxin; Region: AhpC; TIGR03137 859655010638 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 859655010639 dimer interface [polypeptide binding]; other site 859655010640 decamer (pentamer of dimers) interface [polypeptide binding]; other site 859655010641 catalytic triad [active] 859655010642 peroxidatic and resolving cysteines [active] 859655010643 alkyl hydroperoxide reductase subunit F; Provisional; Region: PRK15317 859655010644 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 859655010645 catalytic residue [active] 859655010646 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 859655010647 catalytic residues [active] 859655010648 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 859655010649 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 859655010650 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 859655010651 metal binding site 2 [ion binding]; metal-binding site 859655010652 putative DNA binding helix; other site 859655010653 metal binding site 1 [ion binding]; metal-binding site 859655010654 dimer interface [polypeptide binding]; other site 859655010655 structural Zn2+ binding site [ion binding]; other site 859655010656 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 859655010657 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 859655010658 G1 box; other site 859655010659 GTP/Mg2+ binding site [chemical binding]; other site 859655010660 Switch I region; other site 859655010661 G2 box; other site 859655010662 G3 box; other site 859655010663 Switch II region; other site 859655010664 G4 box; other site 859655010665 G5 box; other site 859655010666 Nucleoside recognition; Region: Gate; pfam07670 859655010667 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 859655010668 Nucleoside recognition; Region: Gate; pfam07670 859655010669 Fe2+ transport system protein A [Inorganic ion transport and metabolism]; Region: FeoA; COG1918 859655010670 Cache domain; Region: Cache_1; pfam02743 859655010671 PAS fold; Region: PAS; pfam00989 859655010672 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 859655010673 putative active site [active] 859655010674 heme pocket [chemical binding]; other site 859655010675 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 859655010676 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 859655010677 metal binding site [ion binding]; metal-binding site 859655010678 active site 859655010679 I-site; other site 859655010680 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 859655010681 dimerization interface [polypeptide binding]; other site 859655010682 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 859655010683 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 859655010684 putative active site [active] 859655010685 heme pocket [chemical binding]; other site 859655010686 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 859655010687 putative active site [active] 859655010688 heme pocket [chemical binding]; other site 859655010689 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 859655010690 PAS domain; Region: PAS_9; pfam13426 859655010691 putative active site [active] 859655010692 heme pocket [chemical binding]; other site 859655010693 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 859655010694 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 859655010695 metal binding site [ion binding]; metal-binding site 859655010696 active site 859655010697 I-site; other site 859655010698 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 859655010699 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 859655010700 PAS fold; Region: PAS_3; pfam08447 859655010701 putative active site [active] 859655010702 heme pocket [chemical binding]; other site 859655010703 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 859655010704 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 859655010705 dimer interface [polypeptide binding]; other site 859655010706 putative CheW interface [polypeptide binding]; other site 859655010707 Siderophore-interacting protein [Inorganic ion transport and metabolism]; Region: ViuB; COG2375 859655010708 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 859655010709 FAD binding pocket [chemical binding]; other site 859655010710 FAD binding motif [chemical binding]; other site 859655010711 phosphate binding motif [ion binding]; other site 859655010712 NAD binding pocket [chemical binding]; other site 859655010713 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 859655010714 Predicted transcriptional regulators [Transcription]; Region: COG1695 859655010715 Pyroglutamyl peptidase (PGP) type I, also known as pyrrolidone carboxyl peptidase (pcp) type I: Enzymes responsible for cleaving pyroglutamate (pGlu) from the N-terminal end of specialized proteins. The N-terminal pGlu protects these proteins from...; Region: Peptidase_C15; cd00501 859655010716 putative substrate binding pocket [chemical binding]; other site 859655010717 AC domain interface; other site 859655010718 catalytic triad [active] 859655010719 AB domain interface; other site 859655010720 interchain disulfide; other site 859655010721 Transcriptional regulators [Transcription]; Region: MarR; COG1846 859655010722 MarR family; Region: MarR_2; pfam12802 859655010723 Protein of unknown function (DUF3757); Region: DUF3757; pfam12582 859655010724 Periplasmic glucans biosynthesis protein [Inorganic ion transport and metabolism]; Region: MdoG; COG3131 859655010725 glucan biosynthesis protein D; Provisional; Region: mdoD; PRK13273 859655010726 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 859655010727 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 859655010728 Coenzyme A binding pocket [chemical binding]; other site 859655010729 glutamate carboxypeptidase; Reviewed; Region: PRK06133 859655010730 M20 Peptidase Glutamate carboxypeptidase, a periplasmic enzyme; Region: M20_CPDG2; cd03885 859655010731 metal binding site [ion binding]; metal-binding site 859655010732 dimer interface [polypeptide binding]; other site 859655010733 phosphatidylserine decarboxylase; Reviewed; Region: psd; PRK00044 859655010734 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme 859655010735 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 859655010736 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD_like; cd08296 859655010737 putative NAD(P) binding site [chemical binding]; other site 859655010738 putative substrate binding site [chemical binding]; other site 859655010739 catalytic Zn binding site [ion binding]; other site 859655010740 structural Zn binding site [ion binding]; other site 859655010741 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 859655010742 Monoamine oxidase [Amino acid transport and metabolism]; Region: COG1231 859655010743 Transcriptional activator [Transcription]; Region: ChrR; COG3806 859655010744 ChrR Cupin-like domain; Region: Cupin_7; pfam12973 859655010745 ChrR Cupin-like domain; Region: Cupin_7; pfam12973 859655010746 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 859655010747 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 859655010748 classical (c) SDRs; Region: SDR_c; cd05233 859655010749 NAD(P) binding site [chemical binding]; other site 859655010750 active site 859655010751 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 859655010752 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 859655010753 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 859655010754 dimerization interface [polypeptide binding]; other site 859655010755 substrate binding pocket [chemical binding]; other site 859655010756 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 859655010757 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 859655010758 PF-ChiA is an uncharacterized chitinase found in the hyperthermophilic archaeon Pyrococcus furiosus with a glycosyl hydrolase family 18 (GH18) catalytic domain as well as a cellulose-binding domain. Members of this domain family are found not only in...; Region: GH18_PF-ChiA-like; cd06543 859655010759 active site 859655010760 Chitin-binding domain of chitinase C; Region: ChiC_BD; cd12215 859655010761 aromatic chitin/cellulose binding site residues [chemical binding]; other site 859655010762 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 859655010763 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 859655010764 dimer interface [polypeptide binding]; other site 859655010765 pyridoxal 5'-phosphate binding site [chemical binding]; other site 859655010766 catalytic residue [active] 859655010767 Neutral trehalase [Carbohydrate transport and metabolism]; Region: TreA; COG1626 859655010768 Trehalase; Region: Trehalase; cl17346 859655010769 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_3; pfam13640 859655010770 Periplasmic component of the Tol biopolymer transport system [Intracellular trafficking and secretion]; Region: TolB; COG0823 859655010771 F5/8 type C domain; Region: F5_F8_type_C; pfam00754 859655010772 amino acid transporter; Region: 2A0306; TIGR00909 859655010773 DinF and similar proteins, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_DinF_like; cd13136 859655010774 DNA-damage-inducible SOS response protein; Provisional; Region: PRK10367 859655010775 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 859655010776 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; cl17736 859655010777 active site 859655010778 phosphorylation site [posttranslational modification] 859655010779 dimerization interface [polypeptide binding]; other site 859655010780 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 859655010781 DNA binding residues [nucleotide binding] 859655010782 dimerization interface [polypeptide binding]; other site 859655010783 poly-beta-1,6 N-acetyl-D-glucosamine export porin PgaA; Region: PGA_TPR_OMP; TIGR03939 859655010784 poly-beta-1,6-N-acetyl-D-glucosamine N-deacetylase PgaB; Region: deacetyl_PgaB; TIGR03938 859655010785 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 859655010786 putative active site [active] 859655010787 putative metal binding site [ion binding]; other site 859655010788 N-glycosyltransferase; Provisional; Region: PRK11204 859655010789 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 859655010790 DXD motif; other site 859655010791 PgaD-like protein; Region: PgaD; pfam13994 859655010792 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 859655010793 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 859655010794 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 859655010795 HlyD family secretion protein; Region: HlyD_3; pfam13437 859655010796 A sub-family of peptidase C39 which contains Cyclolysin and Hemolysin processing peptidases. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine...; Region: Peptidase_C39_likeA; cd02417 859655010797 type I secretion system ABC transporter, HlyB family; Region: type_I_sec_HlyB; TIGR01846 859655010798 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 859655010799 ATP-binding cassette domain of hemolysin B, subfamily C; Region: ABCC_Hemolysin; cd03252 859655010800 Walker A/P-loop; other site 859655010801 ATP binding site [chemical binding]; other site 859655010802 Q-loop/lid; other site 859655010803 ABC transporter signature motif; other site 859655010804 Walker B; other site 859655010805 D-loop; other site 859655010806 H-loop/switch region; other site 859655010807 RTX toxins and related Ca2+-binding proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2931 859655010808 hypothetical protein; Validated; Region: PRK09169 859655010809 RelA- and SpoT-like ppGpp Synthetases and Hydrolases, catalytic domain; Region: Rel-Spo_like; cl11966 859655010810 metal binding triad [ion binding]; metal-binding site 859655010811 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 859655010812 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 859655010813 Coenzyme A binding pocket [chemical binding]; other site 859655010814 Tar ligand binding domain homologue; Region: TarH; pfam02203 859655010815 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 859655010816 dimerization interface [polypeptide binding]; other site 859655010817 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 859655010818 dimer interface [polypeptide binding]; other site 859655010819 putative CheW interface [polypeptide binding]; other site 859655010820 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 859655010821 classical (c) SDRs; Region: SDR_c; cd05233 859655010822 NAD(P) binding site [chemical binding]; other site 859655010823 active site 859655010824 Conserved protein containing a Zn-ribbon-like motif, possibly RNA-binding [General function prediction only]; Region: COG5516 859655010825 Protein of unknown function (DUF1470); Region: DUF1470; pfam07336 859655010826 CGNR zinc finger; Region: zf-CGNR; pfam11706 859655010827 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 859655010828 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 859655010829 FMN binding site [chemical binding]; other site 859655010830 substrate binding site [chemical binding]; other site 859655010831 putative catalytic residue [active] 859655010832 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pr : putative regulator 859655010833 Predicted transcriptional regulators [Transcription]; Region: COG1695 859655010834 Transcriptional regulator PadR-like family; Region: PadR; cl17335 859655010835 Virulence activator alpha C-term; Region: Vir_act_alpha_C; pfam10400 859655010836 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 859655010837 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 859655010838 FMN binding site [chemical binding]; other site 859655010839 substrate binding site [chemical binding]; other site 859655010840 putative catalytic residue [active] 859655010841 SnoaL-like domain; Region: SnoaL_2; pfam12680 859655010842 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 859655010843 Ligand Binding Site [chemical binding]; other site 859655010844 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 859655010845 Walker A/P-loop; other site 859655010846 ATP binding site [chemical binding]; other site 859655010847 ABC transporter signature motif; other site 859655010848 Walker B; other site 859655010849 D-loop; other site 859655010850 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 859655010851 Heavy-metal-associated domain; Region: HMA; pfam00403 859655010852 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 859655010853 Soluble P-type ATPase [General function prediction only]; Region: COG4087 859655010854 conserved hypothetical protein; Region: TIGR02231 859655010855 N-terminal domain of unknown function (DUF4140); Region: DUF4140; pfam13600 859655010856 Domain of unknown function (DUF4139); Region: DUF4139; pfam13598 859655010857 Domain of unknown function (DUF4139); Region: DUF4139; pfam13598 859655010858 Cd(II)/Pb(II)-responsive transcriptional regulator; Region: CadR-PbrR; TIGR02047 859655010859 Helix-Turn-Helix DNA binding domain of the CadR and PbrR transcription regulators; Region: HTH_CadR-PbrR; cd04784 859655010860 DNA binding residues [nucleotide binding] 859655010861 dimer interface [polypeptide binding]; other site 859655010862 putative metal binding site [ion binding]; other site 859655010863 Cysteine-rich 4 helical bundle widely conserved in bacteria; Region: DUF326; cd08026 859655010864 dimerization interface [polypeptide binding]; other site 859655010865 2-isopropylmalate synthase; Validated; Region: PRK03739 859655010866 Mycobacterium tuberculosis LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA; cd07942 859655010867 active site 859655010868 catalytic residues [active] 859655010869 metal binding site [ion binding]; metal-binding site 859655010870 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 859655010871 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 859655010872 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 859655010873 catalytic loop [active] 859655010874 iron binding site [ion binding]; other site 859655010875 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 859655010876 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 859655010877 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 859655010878 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 859655010879 peroxiredoxin, Ohr subfamily; Region: organ_hyd_perox; TIGR03561 859655010880 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 859655010881 Ligand binding site; other site 859655010882 metal-binding site 859655010883 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 859655010884 DNA-binding site [nucleotide binding]; DNA binding site 859655010885 Transcriptional regulators [Transcription]; Region: GntR; COG1802 859655010886 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl17414 859655010887 DNA-binding site [nucleotide binding]; DNA binding site 859655010888 FCD domain; Region: FCD; pfam07729 859655010889 Isocitrate/isopropylmalate dehydrogenase [Amino acid transport and metabolism]; Region: LeuB; COG0473 859655010890 tartrate dehydrogenase; Region: TTC; TIGR02089 859655010891 aconitate hydratase; Provisional; Region: acnA; PRK12881 859655010892 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 859655010893 substrate binding site [chemical binding]; other site 859655010894 ligand binding site [chemical binding]; other site 859655010895 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 859655010896 substrate binding site [chemical binding]; other site 859655010897 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 859655010898 DNA-binding site [nucleotide binding]; DNA binding site 859655010899 Transcriptional regulators [Transcription]; Region: GntR; COG1802 859655010900 FCD domain; Region: FCD; pfam07729 859655010901 bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase; Validated; Region: PRK09238 859655010902 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 859655010903 substrate binding site [chemical binding]; other site 859655010904 Aconitate hydratase B catalyses the formation of cis-aconitate from citrate as part of the TCA cycle; Region: AcnB; cd01581 859655010905 substrate binding site [chemical binding]; other site 859655010906 ligand binding site [chemical binding]; other site 859655010907 PAS fold; Region: PAS_4; pfam08448 859655010908 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 859655010909 putative active site [active] 859655010910 heme pocket [chemical binding]; other site 859655010911 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 859655010912 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 859655010913 metal binding site [ion binding]; metal-binding site 859655010914 active site 859655010915 I-site; other site 859655010916 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 859655010917 Evidence 4 : Homologs of previously reported genes of unknown function 859655010918 H-NS histone family; Region: Histone_HNS; pfam00816 859655010919 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 859655010920 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 859655010921 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 859655010922 DNA-binding site [nucleotide binding]; DNA binding site 859655010923 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 859655010924 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 859655010925 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 859655010926 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 859655010927 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 859655010928 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 859655010929 trimer interface [polypeptide binding]; other site 859655010930 eyelet of channel; other site 859655010931 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 859655010932 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 859655010933 active site 859655010934 phosphorylation site [posttranslational modification] 859655010935 intermolecular recognition site; other site 859655010936 dimerization interface [polypeptide binding]; other site 859655010937 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 859655010938 DNA binding residues [nucleotide binding] 859655010939 dimerization interface [polypeptide binding]; other site 859655010940 FlgN protein; Region: FlgN; pfam05130 859655010941 Negative regulator of flagellin synthesis (anti-sigma28 factor) [Transcription / Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlgM; COG2747 859655010942 SAF-like; Region: SAF_2; pfam13144 859655010943 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 859655010944 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK05680 859655010945 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK07182 859655010946 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK05681 859655010947 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 859655010948 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 859655010949 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 859655010950 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 859655010951 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 859655010952 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 859655010953 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 859655010954 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 859655010955 Flagellar basal body rod protein [Cell motility and secretion]; Region: FlgF; COG4787 859655010956 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 859655010957 flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12693 859655010958 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 859655010959 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 859655010960 Flagellar basal body L-ring protein [Cell motility and secretion]; Region: FlgH; COG2063 859655010961 Flagellar L-ring protein; Region: FlgH; pfam02107 859655010962 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 859655010963 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 859655010964 Rod binding protein [Cell envelope biogenesis, outer membrane / Cell motility and secretion / Posttranslational modification, protein turnover, chaperones]; Region: COG3951 859655010965 flagellar rod assembly protein/muramidase FlgJ; Validated; Region: flgJ; PRK05684 859655010966 Muramidase (flagellum-specific) [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlgJ; COG1705 859655010967 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK06945 859655010968 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 859655010969 flagellar hook-associated protein 3; Region: flagell_flgL; TIGR02550 859655010970 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 859655010971 Protein of unknown function (DUF1275); Region: DUF1275; pfam06912 859655010972 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 859655010973 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme 859655010974 Transposase domain (DUF772); Region: DUF772; pfam05598 859655010975 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 859655010976 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 859655010977 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK07967 859655010978 dimer interface [polypeptide binding]; other site 859655010979 active site 859655010980 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK09116 859655010981 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 859655010982 dimer interface [polypeptide binding]; other site 859655010983 active site 859655010984 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 859655010985 3-oxoacyl-(acyl-carrier-protein) reductase, putative; Region: fabG_rel; TIGR01831 859655010986 NAD(P) binding site [chemical binding]; other site 859655010987 homotetramer interface [polypeptide binding]; other site 859655010988 homodimer interface [polypeptide binding]; other site 859655010989 active site 859655010990 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 859655010991 putative active site 1 [active] 859655010992 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK09185 859655010993 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 859655010994 dimer interface [polypeptide binding]; other site 859655010995 active site 859655010996 Predicted exporter [General function prediction only]; Region: COG4258 859655010997 Outer membrane lipoprotein-sorting protein [Cell envelope biogenesis, outer membrane]; Region: LolA; COG2834 859655010998 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 859655010999 active site 859655011000 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 859655011001 active sites [active] 859655011002 tetramer interface [polypeptide binding]; other site 859655011003 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 859655011004 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 859655011005 Ligand binding site; other site 859655011006 Putative Catalytic site; other site 859655011007 DXD motif; other site 859655011008 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 859655011009 putative acyl-acceptor binding pocket; other site 859655011010 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 859655011011 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 859655011012 AMP binding site [chemical binding]; other site 859655011013 active site 859655011014 acyl-activating enzyme (AAE) consensus motif; other site 859655011015 CoA binding site [chemical binding]; other site 859655011016 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 859655011017 active site 2 [active] 859655011018 dimer interface [polypeptide binding]; other site 859655011019 active site 1 [active] 859655011020 Predicted membrane protein [Function unknown]; Region: COG4648 859655011021 acyl carrier protein; Provisional; Region: PRK05350 859655011022 Phosphopantetheine attachment site; Region: PP-binding; cl09936 859655011023 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 859655011024 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 859655011025 putative acyl-acceptor binding pocket; other site 859655011026 Beta-ketoacyl synthase, N-terminal domain; Region: Ketoacyl-synt_2; pfam13723 859655011027 Flagellar biosynthesis pathway, component FliR [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FliR; COG1684 859655011028 flagellar biosynthesis protein FliQ; Validated; Region: fliQ; PRK05700 859655011029 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 859655011030 Flagellar biogenesis protein [Cell motility and secretion]; Region: FliO; COG3190 859655011031 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 859655011032 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 859655011033 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 859655011034 flagellar basal body-associated protein FliL; Reviewed; Region: fliL; PRK07021 859655011035 PAS fold; Region: PAS_4; pfam08448 859655011036 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 859655011037 putative active site [active] 859655011038 heme pocket [chemical binding]; other site 859655011039 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 859655011040 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 859655011041 metal binding site [ion binding]; metal-binding site 859655011042 active site 859655011043 I-site; other site 859655011044 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 859655011045 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 859655011046 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 859655011047 active site 859655011048 phosphorylation site [posttranslational modification] 859655011049 intermolecular recognition site; other site 859655011050 dimerization interface [polypeptide binding]; other site 859655011051 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 859655011052 DNA binding residues [nucleotide binding] 859655011053 dimerization interface [polypeptide binding]; other site 859655011054 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 859655011055 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 859655011056 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 859655011057 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 859655011058 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 859655011059 Flagellin-specific chaperone FliS [Cell motility and secretion / Intracellular trafficking and secretion / Posttranslational modification, protein turnover, chaperones]; Region: FliS; COG1516 859655011060 Flagellar protein FliT; Region: FliT; pfam05400 859655011061 MarR family; Region: MarR; pfam01047 859655011062 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 859655011063 putative metal binding site; other site 859655011064 Mannosyltransferase OCH1 and related enzymes [Cell envelope biogenesis, outer membrane]; Region: OCH1; COG3774 859655011065 Glycosyltransferase sugar-binding region containing DXD motif; Region: Gly_transf_sug; pfam04488 859655011066 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 859655011067 flagellar hook-basal body protein FliE; Reviewed; Region: fliE; PRK00253 859655011068 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 859655011069 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; pfam01514 859655011070 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 859655011071 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 859655011072 FliG C-terminal domain; Region: FliG_C; pfam01706 859655011073 flagellar assembly protein H; Validated; Region: fliH; PRK05687 859655011074 Essential protein Yae1, N terminal; Region: Yae1_N; pfam09811 859655011075 Flagellar assembly protein FliH; Region: FliH; pfam02108 859655011076 flagellar protein export ATPase FliI; Region: FliI_clade1; TIGR03496 859655011077 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 859655011078 Walker A motif/ATP binding site; other site 859655011079 Walker B motif; other site 859655011080 Flagellar biosynthesis chaperone [Cell motility and secretion / Intracellular trafficking and secretion / Posttranslational modification, protein turnover, chaperones]; Region: FliJ; COG2882 859655011081 flagellar biosynthesis chaperone; Validated; Region: fliJ; PRK05689 859655011082 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 859655011083 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 859655011084 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 859655011085 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 859655011086 active site residue [active] 859655011087 Cache domain; Region: Cache_1; pfam02743 859655011088 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 859655011089 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 859655011090 metal binding site [ion binding]; metal-binding site 859655011091 active site 859655011092 I-site; other site 859655011093 Phage virion morphogenesis family; Region: Phage_tail_S; cl02089 859655011094 Phage Mu protein F like protein; Region: Phage_Mu_F; cl10072 859655011095 Protein of unknown function (DUF935); Region: DUF935; pfam06074 859655011096 Mu-like prophage protein gp29 [Function unknown]; Region: COG4383 859655011097 Phage-related terminase [General function prediction only]; Region: COG5362; cl02216 859655011098 Protein of unknown function (DUF1804); Region: DUF1804; pfam08822 859655011099 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 859655011100 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 859655011101 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 859655011102 N-acetyl-D-glucosamine binding site [chemical binding]; other site 859655011103 catalytic residue [active] 859655011104 Protein of unknown function (DUF4063); Region: DUF4063; pfam13272 859655011105 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type h : extrachromosomal origin 859655011106 Bacteriophage CI repressor helix-turn-helix domain; Region: Phage_CI_repr; pfam07022 859655011107 phage-associated protein, BcepMu gp16 family; Region: BcepMu_gp16; TIGR04111 859655011108 Integrase core domain; Region: rve; pfam00665 859655011109 Mu transposase, C-terminal; Region: Mu-transpos_C; pfam09299 859655011110 AAA domain; Region: AAA_22; pfam13401 859655011111 Protein of unknown function (DUF3164); Region: DUF3164; pfam11363 859655011112 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 859655011113 IHF - DNA interface [nucleotide binding]; other site 859655011114 IHF dimer interface [polypeptide binding]; other site 859655011115 Protein of unknown function (DUF1018); Region: DUF1018; pfam06252 859655011116 Mor transcription activator family; Region: Mor; cl02360 859655011117 Mu-like prophage I protein; Region: Mu-like_Pro; pfam10123 859655011118 Mu-like prophage major head subunit gpT; Region: Mu-like_gpT; cl01826 859655011119 Protein of unknown function (DUF1320); Region: DUF1320; pfam07030 859655011120 Mu-like prophage tail sheath protein gpL [General function prediction only]; Region: COG4386 859655011121 Phage tail sheath protein; Region: Phage_sheath_1; cl01389 859655011122 Phage tail tube protein; Region: Tail_tube; pfam10618 859655011123 Mu-like prophage FluMu protein gp41; Region: FluMu_gp41; pfam10109 859655011124 Phage-related minor tail protein; Region: PhageMin_Tail; pfam10145 859655011125 DNA circulation protein N-terminus; Region: DNA_circ_N; pfam07157 859655011126 Mu-like prophage tail protein gpP [General function prediction only]; Region: COG4379 859655011127 phage baseplate assembly protein V; Region: phage_P2_V; TIGR01644 859655011128 Bacteriophage Mu Gp45 protein; Region: Phage_Mu_Gp45; cl15410 859655011129 Phage protein GP46; Region: GP46; cl01814 859655011130 Baseplate J-like protein; Region: Baseplate_J; pfam04865 859655011131 Phage Tail Collar Domain; Region: Collar; pfam07484 859655011132 Caudovirales tail fibre assembly protein; Region: Caudo_TAP; pfam02413 859655011133 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 859655011134 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 859655011135 metal binding site [ion binding]; metal-binding site 859655011136 active site 859655011137 I-site; other site 859655011138 BON domain; Region: BON; cl02771 859655011139 Predicted membrane protein [Function unknown]; Region: COG4291 859655011140 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 859655011141 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 859655011142 Major Facilitator Superfamily; Region: MFS_1; pfam07690 859655011143 putative substrate translocation pore; other site 859655011144 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 859655011145 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 859655011146 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 859655011147 N-terminal plug; other site 859655011148 ligand-binding site [chemical binding]; other site 859655011149 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 859655011150 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 859655011151 DNA binding residues [nucleotide binding] 859655011152 Secretin and TonB N terminus short domain; Region: STN; smart00965 859655011153 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 859655011154 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 859655011155 N-terminal plug; other site 859655011156 ligand-binding site [chemical binding]; other site 859655011157 2,3-diaminopropionate biosynthesis protein SbnA; Region: PLP_SbnA_fam; TIGR03945 859655011158 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 859655011159 dimer interface [polypeptide binding]; other site 859655011160 pyridoxal 5'-phosphate binding site [chemical binding]; other site 859655011161 catalytic residue [active] 859655011162 2,3-diaminopropionate biosynthesis protein SbnB; Region: dehyd_SbnB_fam; TIGR03944 859655011163 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 859655011164 Siderophore synthetase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: RhbC; COG4264 859655011165 IucA / IucC family; Region: IucA_IucC; pfam04183 859655011166 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 859655011167 Major Facilitator Superfamily; Region: MFS_1; pfam07690 859655011168 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 859655011169 Siderophore synthetase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: RhbC; COG4264 859655011170 IucA / IucC family; Region: IucA_IucC; pfam04183 859655011171 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 859655011172 Siderophore synthetase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: RhbC; COG4264 859655011173 IucA / IucC family; Region: IucA_IucC; pfam04183 859655011174 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 859655011175 HpcH/HpaI aldolase/citrate lyase family; Region: HpcH_HpaI; cl17231 859655011176 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 859655011177 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme PvsE; Region: PLPDE_III_PvsE_like; cd06843 859655011178 dimer interface [polypeptide binding]; other site 859655011179 active site 859655011180 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 859655011181 catalytic residues [active] 859655011182 substrate binding site [chemical binding]; other site 859655011183 Predicted phosphoribosyltransferases [General function prediction only]; Region: COG1926 859655011184 Uncharacterized conserved protein [Function unknown]; Region: HdeD; COG3247 859655011185 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 859655011186 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 859655011187 HlyD family secretion protein; Region: HlyD_3; pfam13437 859655011188 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 859655011189 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 859655011190 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 859655011191 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 859655011192 AefR-like transcriptional repressor, C-terminal region; Region: TetR_C_7; pfam14246 859655011193 Pirin-related protein [General function prediction only]; Region: COG1741 859655011194 Pirin; Region: Pirin; pfam02678 859655011195 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 859655011196 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 859655011197 FMN binding site [chemical binding]; other site 859655011198 active site 859655011199 substrate binding site [chemical binding]; other site 859655011200 catalytic residue [active] 859655011201 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 859655011202 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 859655011203 NAD(P) binding site [chemical binding]; other site 859655011204 active site 859655011205 LysR family transcriptional regulator; Provisional; Region: PRK14997 859655011206 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 859655011207 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 859655011208 putative effector binding pocket; other site 859655011209 dimerization interface [polypeptide binding]; other site 859655011210 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 859655011211 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 859655011212 Walker A/P-loop; other site 859655011213 ATP binding site [chemical binding]; other site 859655011214 Q-loop/lid; other site 859655011215 ABC transporter signature motif; other site 859655011216 Walker B; other site 859655011217 D-loop; other site 859655011218 H-loop/switch region; other site 859655011219 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 859655011220 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 859655011221 dimer interface [polypeptide binding]; other site 859655011222 conserved gate region; other site 859655011223 putative PBP binding loops; other site 859655011224 ABC-ATPase subunit interface; other site 859655011225 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 859655011226 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 859655011227 substrate binding pocket [chemical binding]; other site 859655011228 membrane-bound complex binding site; other site 859655011229 hinge residues; other site 859655011230 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 859655011231 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 859655011232 putative DNA binding site [nucleotide binding]; other site 859655011233 putative Zn2+ binding site [ion binding]; other site 859655011234 AsnC family; Region: AsnC_trans_reg; pfam01037 859655011235 ornithine cyclodeaminase; Validated; Region: PRK07589 859655011236 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 859655011237 Uncharacterized protein conserved in bacteria containing a pentein-type domain [Function unknown]; Region: COG4874 859655011238 Amidinotransferase; Region: Amidinotransf; pfam02274 859655011239 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 859655011240 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 859655011241 motif II; other site 859655011242 Protein of unknown function (DUF3005); Region: DUF3005; pfam11448 859655011243 hypothetical protein; Provisional; Region: PRK08262 859655011244 M20 Peptidase, carboxypeptidase yscS; Region: M20_yscS; cd05674 859655011245 metal binding site [ion binding]; metal-binding site 859655011246 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 859655011247 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 859655011248 dimer interface [polypeptide binding]; other site 859655011249 phosphorylation site [posttranslational modification] 859655011250 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 859655011251 ATP binding site [chemical binding]; other site 859655011252 Mg2+ binding site [ion binding]; other site 859655011253 G-X-G motif; other site 859655011254 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 859655011255 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 859655011256 active site 859655011257 phosphorylation site [posttranslational modification] 859655011258 intermolecular recognition site; other site 859655011259 dimerization interface [polypeptide binding]; other site 859655011260 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 859655011261 DNA binding site [nucleotide binding] 859655011262 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 859655011263 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 859655011264 HlyD family secretion protein; Region: HlyD_3; pfam13437 859655011265 heavy metal efflux pump, CzcA family; Region: 2A0601; TIGR00914 859655011266 HIT family: HIT (Histidine triad) proteins, named for a motif related to the sequence HxHxH/Qxx (x, a hydrophobic amino acid), are a superfamily of nucleotide hydrolases and transferases, which act on the alpha-phosphate of ribonucleotides. On the basis...; Region: HIT_like; cl00228 859655011267 nucleotide binding site/active site [active] 859655011268 HIT family signature motif; other site 859655011269 catalytic residue [active] 859655011270 Methyltransferase domain; Region: Methyltransf_24; pfam13578 859655011271 Uncharacterized protein conserved in bacteria (DUF2087); Region: DUF2087; pfam09860 859655011272 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 859655011273 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 859655011274 Hydroxy(phenyl)pyruvate Reductase, D-isomer-specific 2-hydroxyacid-related dehydrogenase; Region: HPPR; cd12156 859655011275 putative ligand binding site [chemical binding]; other site 859655011276 NAD binding site [chemical binding]; other site 859655011277 catalytic site [active] 859655011278 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 859655011279 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cd00181 859655011280 dimer interface [polypeptide binding]; other site 859655011281 ligand binding site [chemical binding]; other site 859655011282 HAMP domain; Region: HAMP; pfam00672 859655011283 dimerization interface [polypeptide binding]; other site 859655011284 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 859655011285 dimer interface [polypeptide binding]; other site 859655011286 putative CheW interface [polypeptide binding]; other site 859655011287 bacteriophage N4 adsorption protein B; Provisional; Region: nfrB; PRK15489 859655011288 active site 859655011289 Glycosyl transferase family group 2; Region: Glyco_trans_2_3; pfam13632 859655011290 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 859655011291 Bacteriophage N adsorption protein A C-term; Region: NfrA_C; pfam13283 859655011292 UDP-N-acetylglucosamine 2-epimerase [Cell envelope biogenesis, outer membrane]; Region: WecB; COG0381 859655011293 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 859655011294 active site 859655011295 homodimer interface [polypeptide binding]; other site 859655011296 Putative NodB-like catalytic domain of uncharacterized proteins found in bacteria; Region: CE4_COG5298; cd10923 859655011297 Uncharacterized protein conserved in bacteria (DUF2334); Region: DUF2334; pfam10096 859655011298 NodB motif; other site 859655011299 putative active site [active] 859655011300 putative catalytic site [active] 859655011301 putative Zn binding site [ion binding]; other site 859655011302 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 859655011303 Mechanosensitive ion channel; Region: MS_channel; pfam00924 859655011304 Uncharacterized conserved protein [Function unknown]; Region: COG4104 859655011305 PGAP1-like protein; Region: PGAP1; pfam07819 859655011306 Uncharacterized protein conserved in bacteria [Function unknown]; Region: VgrG; COG3501 859655011307 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 859655011308 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 859655011309 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 859655011310 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4253 859655011311 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 859655011312 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 859655011313 metal binding site [ion binding]; metal-binding site 859655011314 active site 859655011315 I-site; other site 859655011316 manganese transport protein MntH; Reviewed; Region: PRK00701 859655011317 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 859655011318 Molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: DnaK; COG0443 859655011319 Nucleotide-binding domain of Escherichia coli HscC and similar proteins; Region: HscC_like_NBD; cd10235 859655011320 nucleotide binding site [chemical binding]; other site 859655011321 putative NEF/HSP70 interaction site [polypeptide binding]; other site 859655011322 SBD interface [polypeptide binding]; other site 859655011323 DnaJ domain; Region: DnaJ; pfam00226 859655011324 HSP70 interaction site [polypeptide binding]; other site 859655011325 DNA-binding transcriptional regulator BasR; Provisional; Region: PRK10643 859655011326 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 859655011327 active site 859655011328 phosphorylation site [posttranslational modification] 859655011329 intermolecular recognition site; other site 859655011330 dimerization interface [polypeptide binding]; other site 859655011331 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 859655011332 DNA binding site [nucleotide binding] 859655011333 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 859655011334 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 859655011335 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 859655011336 ATP binding site [chemical binding]; other site 859655011337 Mg2+ binding site [ion binding]; other site 859655011338 G-X-G motif; other site 859655011339 biliverdin IX beta reductase (BVR-B, aka flavin reductase)-like proteins; atypical (a) SDRs; Region: BVR-B_like_SDR_a; cd05244 859655011340 NADH(P)-binding; Region: NAD_binding_10; pfam13460 859655011341 NAD binding site [chemical binding]; other site 859655011342 putative active site [active] 859655011343 substrate binding site [chemical binding]; other site 859655011344 Predicted transcriptional regulator [Transcription]; Region: COG1959 859655011345 Transcriptional regulator; Region: Rrf2; pfam02082 859655011346 Transcriptional regulator; Region: Rrf2; cl17282 859655011347 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 859655011348 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 859655011349 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 859655011350 HlyD family secretion protein; Region: HlyD_3; pfam13437 859655011351 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 859655011352 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 859655011353 Nitrogen regulatory protein P-II; Region: P-II; smart00938 859655011354 Peptidase family M1; Region: Peptidase_M1; pfam01433 859655011355 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 859655011356 Zn binding site [ion binding]; other site 859655011357 Enterobacter aerogenes GpdQ and related proteins, metallophosphatase domain; Region: MPP_GpdQ; cd07402 859655011358 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 859655011359 active site 859655011360 metal binding site [ion binding]; metal-binding site 859655011361 hexamer interface [polypeptide binding]; other site 859655011362 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 859655011363 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 859655011364 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 859655011365 dimerization interface [polypeptide binding]; other site 859655011366 substrate binding pocket [chemical binding]; other site 859655011367 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 859655011368 metabolite-proton symporter; Region: 2A0106; TIGR00883 859655011369 putative substrate translocation pore; other site 859655011370 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 859655011371 Type I periplasmic binding domain of uncharacterized extracellular ligand-binding proteins; Region: PBP1_STKc_like; cd06326 859655011372 putative ligand binding site [chemical binding]; other site 859655011373 haemagglutination activity domain; Region: Haemagg_act; cl05436 859655011374 haemagglutination activity domain; Region: Haemagg_act; cl05436 859655011375 Large exoproteins involved in heme utilization or adhesion [Intracellular trafficking and secretion]; Region: FhaB; COG3210 859655011376 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 859655011377 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 859655011378 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 859655011379 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 859655011380 Evidence 4 : Homologs of previously reported genes of unknown function 859655011381 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 859655011382 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 859655011383 Haemolysin secretion/activation protein ShlB/FhaC/HecB; Region: ShlB; pfam03865 859655011384 Cytosine deaminase and related metal-dependent hydrolases [Nucleotide transport and metabolism / General function prediction only]; Region: SsnA; COG0402 859655011385 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 859655011386 active site 859655011387 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type ph : phenotype 859655011388 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type ph : phenotype 859655011389 High-affinity nickel-transport protein; Region: NicO; cl00964 859655011390 High-affinity nickel-transport protein; Region: NicO; cl00964 859655011391 Transcriptional regulators RcnR and FrmR, and related domains; this domain family was previously known as part of DUF156; Region: RcnR-FrmR-like_DUF156; cd10153 859655011392 putative metal binding site [ion binding]; other site 859655011393 putative homodimer interface [polypeptide binding]; other site 859655011394 putative homotetramer interface [polypeptide binding]; other site 859655011395 putative homodimer-homodimer interface [polypeptide binding]; other site 859655011396 putative allosteric switch controlling residues; other site 859655011397 Chromate resistance exported protein; Region: Chrome_Resist; cl01744 859655011398 Chromate transport protein ChrA [Inorganic ion transport and metabolism]; Region: ChrA; COG2059 859655011399 chromate transporter, chromate ion transporter (CHR) family; Region: 2A51; TIGR00937 859655011400 Chromate transporter; Region: Chromate_transp; pfam02417 859655011401 Uncharacterized conserved protein [Function unknown]; Region: COG4275 859655011402 Evidence 2b : Function of strongly homologous gene; Product type pe : putative enzyme 859655011403 Evidence 2b : Function of strongly homologous gene; Product type pe : putative enzyme 859655011404 Evidence 2b : Function of strongly homologous gene; PubMedId : 6261245, 6271455; Product type h : extrachromosomal origin 859655011405 Evidence 2b : Function of strongly homologous gene; PubMedId : 6261245, 6271455; Product type h : extrachromosomal origin 859655011406 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 859655011407 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 859655011408 dimer interface [polypeptide binding]; other site 859655011409 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 859655011410 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 859655011411 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 859655011412 active site 859655011413 phosphorylation site [posttranslational modification] 859655011414 intermolecular recognition site; other site 859655011415 dimerization interface [polypeptide binding]; other site 859655011416 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 859655011417 WHG domain; Region: WHG; pfam13305 859655011418 Ketosteroid isomerase homolog [Function unknown]; Region: COG4319 859655011419 SnoaL-like domain; Region: SnoaL_3; pfam13474 859655011420 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 859655011421 dimer interface [polypeptide binding]; other site 859655011422 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 859655011423 Subtilisin-like serine proteases [Posttranslational modification, protein turnover, chaperones]; Region: AprE; COG1404 859655011424 Peptidase domain in the S53 family; Region: Peptidases_S53_like; cd05562 859655011425 putative active site [active] 859655011426 putative catalytic triad [active] 859655011427 Peptidase domain in the S53 family; Region: Peptidases_S53_like; cd05562 859655011428 phenylacetate-CoA oxygenase subunit PaaA; Provisional; Region: paaA; PRK13778 859655011429 phenylacetate-CoA oxygenase, PaaG subunit; Region: PA_CoA_Oxy1; TIGR02156 859655011430 phenylacetate-CoA oxygenase subunit PaaB; Provisional; Region: paaB; PRK13781 859655011431 Phenylacetic acid catabolic protein; Region: PaaA_PaaC; pfam05138 859655011432 phenylacetate-CoA oxygenase, PaaJ subunit; Region: PA_CoA_Oxy4; TIGR02159 859655011433 Predicted metal-sulfur cluster biosynthetic enzyme [General function prediction only]; Region: PaaD; COG2151 859655011434 phenylacetate-CoA oxygenase/reductase, PaaK subunit; Region: PA_CoA_Oxy5; TIGR02160 859655011435 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 859655011436 FAD binding pocket [chemical binding]; other site 859655011437 FAD binding motif [chemical binding]; other site 859655011438 phosphate binding motif [ion binding]; other site 859655011439 beta-alpha-beta structure motif; other site 859655011440 NAD(p) ribose binding residues [chemical binding]; other site 859655011441 NAD binding pocket [chemical binding]; other site 859655011442 NAD(P)-pyrophosphate-nicotinamide binding residues [chemical binding]; other site 859655011443 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 859655011444 catalytic loop [active] 859655011445 iron binding site [ion binding]; other site 859655011446 Domain of unknown function (DUF4285); Region: DUF4285; pfam14113 859655011447 Uncharacterized protein conserved in bacteria (DUF2322); Region: DUF2322; cl01820 859655011448 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 859655011449 putative substrate translocation pore; other site 859655011450 Major Facilitator Superfamily; Region: MFS_1; pfam07690 859655011451 AAA domain; Region: AAA_33; pfam13671 859655011452 Protein of Unknown function (DUF2784); Region: DUF2784; pfam10861 859655011453 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 859655011454 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 859655011455 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 859655011456 putative FMN binding site [chemical binding]; other site 859655011457 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 859655011458 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 859655011459 catalytic triad [active] 859655011460 ATP:corrinoid adenosyltransferase [Coenzyme metabolism]; Region: BtuR; COG2109 859655011461 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 859655011462 Walker A motif; other site 859655011463 homodimer interface [polypeptide binding]; other site 859655011464 ATP binding site [chemical binding]; other site 859655011465 hydroxycobalamin binding site [chemical binding]; other site 859655011466 Walker B motif; other site 859655011467 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 859655011468 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 859655011469 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 859655011470 Precorrin-3B C(17)-methyltransferase (CobJ/CbiH); Region: Precorrin_3B_C17_MT; cd11646 859655011471 active site 859655011472 SAM binding site [chemical binding]; other site 859655011473 homodimer interface [polypeptide binding]; other site 859655011474 Precorrin-6x reductase [Coenzyme metabolism]; Region: CobK; COG2099 859655011475 Precorrin-6x reductase CbiJ/CobK; Region: CbiJ; pfam02571 859655011476 Cobalamin biosynthesis protein CbiG [Coenzyme metabolism]; Region: CbiG; COG2073 859655011477 Cobalamin synthesis G N-terminal; Region: CbiG_N; pfam11760 859655011478 cobalamin biosynthesis protein CbiG; Provisional; Region: PRK07027 859655011479 Precorrin-4 C11-methyltransferase (CbiF/CobM); Region: Precorrin-4_C11-MT; cd11641 859655011480 active site 859655011481 SAM binding site [chemical binding]; other site 859655011482 homodimer interface [polypeptide binding]; other site 859655011483 Precorrin-2 C20-methyltransferase, also named CobI or CbiL; Region: Precorrin_2_C20_MT; cd11645 859655011484 active site 859655011485 SAM binding site [chemical binding]; other site 859655011486 homodimer interface [polypeptide binding]; other site 859655011487 Cobalamin biosynthesis protein CbiD [Coenzyme metabolism]; Region: CbiD; COG1903 859655011488 Sirohydrochlorin ferrochelatase [Inorganic ion transport and metabolism]; Region: COG2138 859655011489 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 859655011490 putative active site [active] 859655011491 Sirohydrochlorin cobalt chelatase (CbiX) and sirohydrochlorin iron chelatase (SirB), C-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_C; cd03414 859655011492 putative active site [active] 859655011493 cobalt-precorrin-8X methylmutase; Validated; Region: cbiC; cl00913 859655011494 Precorrin-8X methylmutase; Region: CbiC; pfam02570 859655011495 Precorrin-6Y methyltransferase, the cobalamin biosynthesis enzyme CbiE; Region: Precorrin-6Y-methylase; cd11644 859655011496 active site 859655011497 putative homodimer interface [polypeptide binding]; other site 859655011498 SAM binding site [chemical binding]; other site 859655011499 cobaltochelatase subunit; Region: Cob-chelat-sub; TIGR02442 859655011500 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 859655011501 Magnesium chelatase: Mg-chelatase catalyses the insertion of Mg into protoporphyrin IX (Proto). In chlorophyll biosynthesis, insertion of Mg2+ into protoporphyrin IX is catalysed by magnesium chelatase in an ATP-dependent reaction. Magnesium chelatase is...; Region: vWA_Magnesium_chelatase; cd01451 859655011502 metal ion-dependent adhesion site (MIDAS); other site 859655011503 cobaltochelatase subunit CobN; Reviewed; Region: cobN; PRK05989 859655011504 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 859655011505 cobaltochelatase subunit CobN; Reviewed; Region: cobN; PRK05989 859655011506 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 859655011507 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 859655011508 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 859655011509 dimer interface [polypeptide binding]; other site 859655011510 [2Fe-2S] cluster binding site [ion binding]; other site 859655011511 High-affinity nickel permease [Inorganic ion transport and metabolism]; Region: HoxN; COG3376 859655011512 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 859655011513 D-loop; other site 859655011514 H-loop/switch region; other site 859655011515 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 859655011516 Glycosyltransferase family 9 (heptosyltransferase); Region: Glyco_transf_9; pfam01075 859655011517 putative active site [active] 859655011518 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 859655011519 Predicted RNA polymerase sigma factor containing a TPR repeat domain [Transcription]; Region: COG4941 859655011520 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 859655011521 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3795 859655011522 ABC-type siderophore export system, fused ATPase and permease components [Secondary metabolites biosynthesis, transport, and catabolism / Inorganic ion transport and metabolism]; Region: PvdE; COG4615 859655011523 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 859655011524 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 859655011525 Walker A/P-loop; other site 859655011526 ATP binding site [chemical binding]; other site 859655011527 Q-loop/lid; other site 859655011528 ABC transporter signature motif; other site 859655011529 Walker B; other site 859655011530 D-loop; other site 859655011531 H-loop/switch region; other site 859655011532 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 859655011533 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 859655011534 Predicted membrane protein (DUF2070); Region: DUF2070; pfam09843 859655011535 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3251 859655011536 acyl-CoA synthetase; Validated; Region: PRK05850 859655011537 Fatty acyl-AMP ligase (FAAL); Region: FAAL; cd05931 859655011538 acyl-activating enzyme (AAE) consensus motif; other site 859655011539 active site 859655011540 Phosphopantetheine attachment site; Region: PKS_PP; smart00823 859655011541 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 859655011542 Beta-ketoacyl synthase; Region: PKS_KS; smart00825 859655011543 active site 859655011544 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 859655011545 Acyl transferase domain in polyketide synthase (PKS) enzymes; Region: PKS_AT; smart00827 859655011546 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 859655011547 Glutamate-1-semialdehyde aminotransferase [Coenzyme metabolism]; Region: HemL; COG0001 859655011548 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 859655011549 inhibitor-cofactor binding pocket; inhibition site 859655011550 pyridoxal 5'-phosphate binding site [chemical binding]; other site 859655011551 catalytic residue [active] 859655011552 natural product biosynthesis luciferase-like monooxygenase domain; Region: seco_metab_LLM; TIGR04020 859655011553 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 859655011554 N5,N10-methylenetetrahydromethanopterin reductase (Mer) catalyzes the reduction of N5,N10-methylenetetrahydromethanopterin with reduced coenzyme F420 to N5-methyltetrahydromethanopterin and oxidized coenzyme F420; Region: Tetrahydromethanopterin_reductase; cd01097 859655011555 Condensation domain; Region: Condensation; pfam00668 859655011556 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 859655011557 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 859655011558 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 859655011559 acyl-activating enzyme (AAE) consensus motif; other site 859655011560 AMP binding site [chemical binding]; other site 859655011561 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 859655011562 Condensation domain; Region: Condensation; pfam00668 859655011563 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 859655011564 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 859655011565 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 859655011566 acyl-activating enzyme (AAE) consensus motif; other site 859655011567 AMP binding site [chemical binding]; other site 859655011568 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 859655011569 Condensation domain; Region: Condensation; pfam00668 859655011570 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 859655011571 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 859655011572 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 859655011573 acyl-activating enzyme (AAE) consensus motif; other site 859655011574 AMP binding site [chemical binding]; other site 859655011575 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 859655011576 Condensation domain; Region: Condensation; pfam00668 859655011577 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 859655011578 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 859655011579 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 859655011580 acyl-activating enzyme (AAE) consensus motif; other site 859655011581 AMP binding site [chemical binding]; other site 859655011582 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 859655011583 Condensation domain; Region: Condensation; pfam00668 859655011584 The adenylation domain of nonribosomal peptide synthetases (NRPS), including Bacillus subtilis termination module Surfactin (SrfA-C); Region: A_NRPS_Srf_like; cd12117 859655011585 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 859655011586 acyl-activating enzyme (AAE) consensus motif; other site 859655011587 AMP binding site [chemical binding]; other site 859655011588 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 859655011589 Condensation domain; Region: Condensation; pfam00668 859655011590 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 859655011591 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 859655011592 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 859655011593 acyl-activating enzyme (AAE) consensus motif; other site 859655011594 AMP binding site [chemical binding]; other site 859655011595 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 859655011596 Condensation domain; Region: Condensation; pfam00668 859655011597 The adenylation domain of nonribosomal peptide synthetases (NRPS), including salinosporamide A polyketide synthase; Region: A_NRPS_Ta1_like; cd12116 859655011598 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 859655011599 acyl-activating enzyme (AAE) consensus motif; other site 859655011600 AMP binding site [chemical binding]; other site 859655011601 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 859655011602 Condensation domain; Region: Condensation; pfam00668 859655011603 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 859655011604 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 859655011605 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 859655011606 acyl-activating enzyme (AAE) consensus motif; other site 859655011607 AMP binding site [chemical binding]; other site 859655011608 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 859655011609 enterobactin synthase subunit F; Provisional; Region: entF; PRK10252 859655011610 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 859655011611 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 859655011612 acyl-activating enzyme (AAE) consensus motif; other site 859655011613 AMP binding site [chemical binding]; other site 859655011614 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 859655011615 Thioesterase domains of type I polyketide synthases or non-ribosomal peptide synthetases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3319 859655011616 Thioesterase domains of type I polyketide synthases or non-ribosomal peptide synthetases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3319 859655011617 dimerization interface [polypeptide binding]; other site 859655011618 putative DNA binding site [nucleotide binding]; other site 859655011619 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 859655011620 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 859655011621 putative Zn2+ binding site [ion binding]; other site 859655011622 AsnC family; Region: AsnC_trans_reg; pfam01037 859655011623 1-aminocyclopropane-1-carboxylate deaminase [Amino acid transport and metabolism]; Region: Acd; COG2515 859655011624 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 859655011625 pyridoxal 5'-phosphate binding site [chemical binding]; other site 859655011626 catalytic residue [active] 859655011627 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 859655011628 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 859655011629 substrate binding site [chemical binding]; other site 859655011630 oxyanion hole (OAH) forming residues; other site 859655011631 trimer interface [polypeptide binding]; other site 859655011632 2-enoyl-CoA Hydratase C-terminal region; Region: ECH_C; pfam13766 859655011633 enoyl-CoA hydratase; Provisional; Region: PRK09076 859655011634 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 859655011635 substrate binding site [chemical binding]; other site 859655011636 oxyanion hole (OAH) forming residues; other site 859655011637 trimer interface [polypeptide binding]; other site 859655011638 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 859655011639 3-hydroxyisobutyrate dehydrogenase; Region: HIBADH; TIGR01692 859655011640 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 859655011641 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 859655011642 tetrameric interface [polypeptide binding]; other site 859655011643 NAD binding site [chemical binding]; other site 859655011644 catalytic residues [active] 859655011645 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 859655011646 Uncharacterized subfamily of medium-chain acyl-CoA synthetase (MACS); Region: MACS_like_1; cd05974 859655011647 active site 859655011648 acyl-activating enzyme (AAE) consensus motif; other site 859655011649 putative CoA binding site [chemical binding]; other site 859655011650 AMP binding site [chemical binding]; other site 859655011651 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 859655011652 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 859655011653 active site 859655011654 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 859655011655 Helix-turn-helix domain; Region: HTH_18; pfam12833 859655011656 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 859655011657 sensor kinase CusS; Provisional; Region: PRK09835 859655011658 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 859655011659 dimerization interface [polypeptide binding]; other site 859655011660 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 859655011661 dimer interface [polypeptide binding]; other site 859655011662 phosphorylation site [posttranslational modification] 859655011663 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 859655011664 ATP binding site [chemical binding]; other site 859655011665 Mg2+ binding site [ion binding]; other site 859655011666 G-X-G motif; other site 859655011667 DNA-binding transcriptional activator CusR; Provisional; Region: PRK09836 859655011668 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 859655011669 active site 859655011670 phosphorylation site [posttranslational modification] 859655011671 intermolecular recognition site; other site 859655011672 dimerization interface [polypeptide binding]; other site 859655011673 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 859655011674 DNA binding site [nucleotide binding] 859655011675 copper-resistance protein, CopA family; Region: copper_res_A; TIGR01480 859655011676 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 859655011677 Multicopper oxidase; Region: Cu-oxidase; pfam00394 859655011678 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 859655011679 Uncharacterized protein involved in copper resistance [Inorganic ion transport and metabolism]; Region: PcoB; COG3667 859655011680 CopC domain; Region: CopC; pfam04234 859655011681 Copper resistance protein D; Region: CopD; cl00563 859655011682 Copper resistance protein D; Region: CopD; cl00563 859655011683 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 859655011684 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 859655011685 trimer interface [polypeptide binding]; other site 859655011686 eyelet of channel; other site 859655011687 Evidence 2b : Function of strongly homologous gene; Product type e : enzyme 859655011688 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 859655011689 MarR family; Region: MarR_2; pfam12802 859655011690 Protein of unknown function (DUF861); Region: Cupin_3; cl17594 859655011691 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 859655011692 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 859655011693 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 859655011694 Spore germination protein; Region: Spore_permease; cl17796 859655011695 Purine catabolism regulatory protein-like family; Region: PucR; pfam07905 859655011696 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 859655011697 LysE type translocator; Region: LysE; pfam01810 859655011698 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 859655011699 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 859655011700 putative DNA binding site [nucleotide binding]; other site 859655011701 putative Zn2+ binding site [ion binding]; other site 859655011702 AsnC family; Region: AsnC_trans_reg; pfam01037 859655011703 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 859655011704 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 859655011705 motif II; other site 859655011706 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 859655011707 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 859655011708 classical (c) SDRs; Region: SDR_c; cd05233 859655011709 NAD(P) binding site [chemical binding]; other site 859655011710 active site 859655011711 Transcriptional regulator [Transcription]; Region: LysR; COG0583 859655011712 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 859655011713 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 859655011714 putative effector binding pocket; other site 859655011715 putative dimerization interface [polypeptide binding]; other site 859655011716 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 859655011717 putative substrate translocation pore; other site 859655011718 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 859655011719 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 859655011720 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 859655011721 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 859655011722 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 859655011723 NAD(P) binding site [chemical binding]; other site 859655011724 active site 859655011725 Major Facilitator Superfamily; Region: MFS_1; pfam07690 859655011726 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 859655011727 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 859655011728 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 859655011729 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 859655011730 putative DNA binding site [nucleotide binding]; other site 859655011731 putative Zn2+ binding site [ion binding]; other site 859655011732 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 859655011733 Mycobacterium tuberculosis CorA-like subfamily; Region: MtCorA-like; cd12830 859655011734 oligomer interface [polypeptide binding]; other site 859655011735 metal binding site [ion binding]; metal-binding site 859655011736 metal binding site [ion binding]; metal-binding site 859655011737 putative Cl binding site [ion binding]; other site 859655011738 basic sphincter; other site 859655011739 hydrophobic gate; other site 859655011740 periplasmic entrance; other site 859655011741 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 859655011742 Cyanate permease [Inorganic ion transport and metabolism]; Region: CynX; COG2807 859655011743 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 859655011744 Uncharacterized conserved protein [Function unknown]; Region: COG5495 859655011745 Rossmann-like domain; Region: Rossmann-like; pfam10727 859655011746 Domain of unknown function (DUF2520); Region: DUF2520; pfam10728 859655011747 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 859655011748 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pt : putative transporter 859655011749 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pt : putative transporter 859655011750 enoyl-CoA hydratase; Provisional; Region: PRK07799 859655011751 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 859655011752 substrate binding site [chemical binding]; other site 859655011753 oxyanion hole (OAH) forming residues; other site 859655011754 trimer interface [polypeptide binding]; other site 859655011755 Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily. LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs correspond...; Region: LRR_RI; cl15309 859655011756 Leucine-rich repeats; other site 859655011757 Substrate binding site [chemical binding]; other site 859655011758 Leucine rich repeat; Region: LRR_8; pfam13855 859655011759 Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily. LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs correspond...; Region: LRR_RI; cl15309 859655011760 Leucine-rich repeats; other site 859655011761 Substrate binding site [chemical binding]; other site 859655011762 Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily. LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs correspond...; Region: LRR_RI; cl15309 859655011763 Leucine-rich repeats; other site 859655011764 Substrate binding site [chemical binding]; other site 859655011765 Uncharacterized protein involved in formation of curli polymers [Cell envelope biogenesis, outer membrane]; Region: CsgG; COG1462 859655011766 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4259 859655011767 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4380 859655011768 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional; Region: PRK05222 859655011769 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 859655011770 THF binding site; other site 859655011771 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 859655011772 substrate binding site [chemical binding]; other site 859655011773 THF binding site; other site 859655011774 zinc-binding site [ion binding]; other site 859655011775 DNA-binding transcriptional regulator MetR; Provisional; Region: PRK15421 859655011776 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 859655011777 putative DNA binding site [nucleotide binding]; other site 859655011778 putative Zn2+ binding site [ion binding]; other site 859655011779 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 859655011780 putative dimerization interface [polypeptide binding]; other site 859655011781 pyridoxamine 5'-phosphate oxidase; Provisional; Region: PRK05679 859655011782 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 859655011783 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 859655011784 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 859655011785 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 859655011786 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 859655011787 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 859655011788 active site 859655011789 ribulose/triose binding site [chemical binding]; other site 859655011790 phosphate binding site [ion binding]; other site 859655011791 substrate (anthranilate) binding pocket [chemical binding]; other site 859655011792 product (indole) binding pocket [chemical binding]; other site 859655011793 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 859655011794 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 859655011795 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 859655011796 Trimethylamine dehydrogenase (TMADH) and histamine dehydrogenase (HD) FMN-binding domain. TMADH is an iron-sulfur flavoprotein that catalyzes the oxidative demethylation of trimethylamine to form dimethylamine and formaldehyde. The protein forms a...; Region: TMADH_HD_FMN; cd02929 859655011797 mycofactocin system FadH/OYE family oxidoreductase 2; Region: mycofact_OYE_2; TIGR03997 859655011798 FMN binding site [chemical binding]; other site 859655011799 active site 859655011800 homodimer interface [polypeptide binding]; other site 859655011801 putative catalytic residue [active] 859655011802 4Fe-4S cluster binding site [ion binding]; other site 859655011803 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 859655011804 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 859655011805 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 859655011806 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 859655011807 catalytic residue [active] 859655011808 Solo B3/4 domain (OB-fold DNA/RNA-binding) of Phe-aaRS-beta [General function prediction only]; Region: COG3382 859655011809 B3/4 domain; Region: B3_4; pfam03483 859655011810 EamA-like transporter family; Region: EamA; pfam00892 859655011811 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 859655011812 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 859655011813 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 859655011814 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 859655011815 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 859655011816 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 859655011817 active site 859655011818 Predicted small integral membrane protein [Function unknown]; Region: COG5472 859655011819 Transcriptional regulator [Transcription]; Region: PaiB; COG2808 859655011820 fumarylacetoacetase; Region: PLN02856 859655011821 Domain of unknown function (DUF1969); Region: DUF1969; pfam09298 859655011822 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 859655011823 homogentisate 1,2-dioxygenase; Provisional; Region: PRK05341 859655011824 Transcriptional regulator [Transcription]; Region: LysR; COG0583 859655011825 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 859655011826 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 859655011827 substrate binding pocket [chemical binding]; other site 859655011828 dimerization interface [polypeptide binding]; other site 859655011829 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 859655011830 N-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_N_like; cd08346 859655011831 Zn binding site [ion binding]; other site 859655011832 Tryptophan 2,3-dioxygenase; Region: Trp_dioxygenase; cl03994 859655011833 Tryptophan 2,3-dioxygenase; Region: Trp_dioxygenase; cl03994 859655011834 hypothetical protein; Provisional; Region: PRK07236 859655011835 2-polyprenyl-6-methoxyphenol hydroxylase and related FAD-dependent oxidoreductases [Coenzyme metabolism / Energy production and conversion]; Region: UbiH; COG0654 859655011836 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 859655011837 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 859655011838 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 859655011839 catalytic residue [active] 859655011840 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 859655011841 HetN oxidoreductase-like, classical (c) SDR; Region: HetN_like_SDR_c; cd08932 859655011842 putative NAD(P) binding site [chemical binding]; other site 859655011843 active site 859655011844 transaminase; Validated; Region: PRK07324 859655011845 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 859655011846 pyridoxal 5'-phosphate binding site [chemical binding]; other site 859655011847 homodimer interface [polypeptide binding]; other site 859655011848 catalytic residue [active] 859655011849 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pf : putative factor 859655011850 Protein of unknown function (DUF2783); Region: DUF2783; pfam10932 859655011851 FAD-dependent oxidoreductase; Provisional; Region: PRK08132 859655011852 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 859655011853 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 859655011854 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 859655011855 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 859655011856 Transcriptional regulator [Transcription]; Region: IclR; COG1414 859655011857 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 859655011858 TM-ABC transporter signature motif; other site 859655011859 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 859655011860 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 859655011861 TM-ABC transporter signature motif; other site 859655011862 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 859655011863 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 859655011864 Walker A/P-loop; other site 859655011865 ATP binding site [chemical binding]; other site 859655011866 Q-loop/lid; other site 859655011867 ABC transporter signature motif; other site 859655011868 Walker B; other site 859655011869 D-loop; other site 859655011870 H-loop/switch region; other site 859655011871 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 859655011872 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 859655011873 Walker A/P-loop; other site 859655011874 ATP binding site [chemical binding]; other site 859655011875 Q-loop/lid; other site 859655011876 ABC transporter signature motif; other site 859655011877 Walker B; other site 859655011878 D-loop; other site 859655011879 H-loop/switch region; other site 859655011880 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 859655011881 Cytochrome P450; Region: p450; cl12078 859655011882 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 859655011883 EamA-like transporter family; Region: EamA; cl17759 859655011884 Predicted metal-binding integral membrane protein (DUF2182); Region: DUF2182; pfam09948 859655011885 Protein of unknown function (DUF1326); Region: DUF1326; cl02375 859655011886 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 859655011887 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 859655011888 homodimer interface [polypeptide binding]; other site 859655011889 substrate-cofactor binding pocket; other site 859655011890 pyridoxal 5'-phosphate binding site [chemical binding]; other site 859655011891 catalytic residue [active] 859655011892 FMN-binding domain; Region: FMN_bind; pfam04205 859655011893 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 859655011894 nucleophilic elbow; other site 859655011895 catalytic triad; other site 859655011896 L-aspartate dehydrogenase; Provisional; Region: PRK13303 859655011897 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 859655011898 Domain of unknown function DUF108; Region: DUF108; pfam01958 859655011899 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 859655011900 FAD binding domain; Region: FAD_binding_4; pfam01565 859655011901 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 859655011902 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 859655011903 non-specific DNA binding site [nucleotide binding]; other site 859655011904 salt bridge; other site 859655011905 sequence-specific DNA binding site [nucleotide binding]; other site 859655011906 Uncharacterized conserved protein [Function unknown]; Region: COG3542 859655011907 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 859655011908 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 859655011909 alpha,alpha-trehalose-phosphate synthase [UDP-forming]; Region: trehalose_OtsA; TIGR02400 859655011910 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 859655011911 active site 859655011912 homotetramer interface [polypeptide binding]; other site 859655011913 Uncharacterized protein conserved in bacteria [Function unknown]; Region: VgrG; COG3501 859655011914 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 859655011915 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 859655011916 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 859655011917 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4253 859655011918 Type VI protein secretion system component VasF [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3455 859655011919 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3522 859655011920 Bacterial protein of unknown function (DUF876); Region: DUF876; pfam05936 859655011921 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3521 859655011922 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 859655011923 TPR motif; other site 859655011924 binding surface 859655011925 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3516 859655011926 type VI secretion protein, EvpB/VC_A0108 family; Region: VI_chp_2; TIGR03355 859655011927 Protein of unknown function (DUF877); Region: DUF877; pfam05943 859655011928 Type VI protein secretion system component Hcp (secreted cytotoxin) [Intracellular trafficking, secretion, and vesicular transport]; Region: Hcp; COG3157 859655011929 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3518 859655011930 Type VI protein secretion system component VasA [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3519 859655011931 type VI secretion protein, VC_A0110 family; Region: VI_chp_6; TIGR03359 859655011932 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3520 859655011933 type VI secretion ATPase, ClpV1 family; Region: VI_ClpV1; TIGR03345 859655011934 Clp amino terminal domain; Region: Clp_N; pfam02861 859655011935 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 859655011936 Walker A motif; other site 859655011937 ATP binding site [chemical binding]; other site 859655011938 Walker B motif; other site 859655011939 arginine finger; other site 859655011940 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 859655011941 Walker A motif; other site 859655011942 ATP binding site [chemical binding]; other site 859655011943 Walker B motif; other site 859655011944 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 859655011945 type VI secretion system Vgr family protein; Region: VI_Rhs_Vgr; TIGR03361 859655011946 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 859655011947 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 859655011948 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 859655011949 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4253 859655011950 Domain of unknown function (DUF4123); Region: DUF4123; pfam13503 859655011951 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1649 859655011952 Uncharacterized BCR, COG1649; Region: DUF187; pfam02638 859655011953 type VI secretion-associated protein, ImpA family; Region: VI_chp_8; TIGR03363 859655011954 ImpA-related N-terminal; Region: ImpA-rel_N; pfam06812 859655011955 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 859655011956 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 859655011957 ligand binding site [chemical binding]; other site 859655011958 Uncharacterized protein conserved in bacteria [Function unknown]; Region: SciT; COG3913 859655011959 Type VI protein secretion system component VasK [Intracellular trafficking, secretion, and vesicular transport]; Region: IcmF; COG3523 859655011960 Intracellular multiplication and human macrophage-killing; Region: IcmF-related; pfam06761 859655011961 Intracellular multiplication and human macrophage-killing; Region: IcmF-related; pfam06761 859655011962 Protein of unknown function (DUF1215); Region: DUF1215; pfam06744 859655011963 PAAR motif; Region: PAAR_motif; pfam05488 859655011964 D-alanyl-D-alanine carboxypeptidase; Region: VanY; pfam02557 859655011965 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_M15_4; pfam13539 859655011966 Uncharacterized protein conserved in bacteria [Function unknown]; Region: VgrG; COG3501 859655011967 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 859655011968 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 859655011969 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 859655011970 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4253 859655011971 PGAP1-like protein; Region: PGAP1; pfam07819 859655011972 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; pfam13808 859655011973 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; cl17880 859655011974 Evidence 4 : Homologs of previously reported genes of unknown function 859655011975 DNA-binding transcriptional activator SdiA; Provisional; Region: PRK10188 859655011976 Autoinducer binding domain; Region: Autoind_bind; pfam03472 859655011977 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 859655011978 DNA binding residues [nucleotide binding] 859655011979 dimerization interface [polypeptide binding]; other site 859655011980 N-acyl-L-homoserine lactone synthetase [Signal transduction mechanisms / Secondary metabolites biosynthesis, transport, and catabolism]; Region: LasI; COG3916 859655011981 Poly(3-hydroxyalkanoate) synthetase [Lipid metabolism]; Region: PhaC; COG3243 859655011982 Cystathionine beta-lyases/cystathionine gamma-synthases [Amino acid transport and metabolism]; Region: MetC; COG0626 859655011983 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 859655011984 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 859655011985 catalytic residue [active] 859655011986 tRNA synthetases class I (I, L, M and V); Region: tRNA-synt_1; pfam00133 859655011987 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 859655011988 active site 859655011989 HIGH motif; other site 859655011990 nucleotide binding site [chemical binding]; other site 859655011991 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 859655011992 active site 859655011993 KMSKS motif; other site 859655011994 Acyl carrier protein [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcpP; COG0236 859655011995 Fatty acid desaturase [Lipid metabolism]; Region: DesA; COG3239 859655011996 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 859655011997 putative di-iron ligands [ion binding]; other site 859655011998 3-oxoacyl-[acyl-carrier-protein]; Region: FabH; COG0332 859655011999 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 859655012000 active site 859655012001 Fatty acyl-AMP ligase (FAAL); Region: FAAL; cd05931 859655012002 acyl-CoA synthetase; Validated; Region: PRK05850 859655012003 acyl-activating enzyme (AAE) consensus motif; other site 859655012004 active site 859655012005 Predicted carbamoyl transferase, NodU family [Posttranslational modification, protein turnover, chaperones]; Region: COG2192 859655012006 Carbamoyltransferase; Region: CmcH_NodU; pfam02543 859655012007 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 859655012008 Phosphopantetheine attachment site; Region: PKS_PP; smart00823 859655012009 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 859655012010 Fatty acid desaturase; Region: FA_desaturase; pfam00487 859655012011 Di-iron ligands [ion binding]; other site 859655012012 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 859655012013 aspartate aminotransferase; Provisional; Region: PRK06108 859655012014 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 859655012015 pyridoxal 5'-phosphate binding site [chemical binding]; other site 859655012016 homodimer interface [polypeptide binding]; other site 859655012017 catalytic residue [active] 859655012018 Predicted alpha/beta hydrolase [General function prediction only]; Region: COG4757 859655012019 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 859655012020 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 859655012021 benzoate transport; Region: 2A0115; TIGR00895 859655012022 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 859655012023 putative substrate translocation pore; other site 859655012024 DNA Polymerase Y-family; Region: PolY_like; cd03468 859655012025 Nucleotidyltransferase/DNA polymerase involved in DNA repair [DNA replication, recombination, and repair]; Region: DinP; COG0389 859655012026 DNA binding site [nucleotide binding] 859655012027 error-prone DNA polymerase; Validated; Region: dnaE2; PRK05672 859655012028 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III at DnaE2 gene; Region: PHP_PolIIIA_DnaE2; cd07434 859655012029 putative active site [active] 859655012030 putative PHP Thumb interface [polypeptide binding]; other site 859655012031 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 859655012032 generic binding surface II; other site 859655012033 generic binding surface I; other site 859655012034 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 859655012035 non-specific DNA binding site [nucleotide binding]; other site 859655012036 salt bridge; other site 859655012037 sequence-specific DNA binding site [nucleotide binding]; other site 859655012038 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 859655012039 Putative anion permease YbiR. Based on sequence similarity, YbiR proteins are predicted to function as anion translocating permeases in eubacteria, archaea and plants. They belong to ArsB/NhaD superfamily of permeases that have been shown to translocate...; Region: YbiR_permease; cd01117 859655012040 transmembrane helices; other site 859655012041 elongation factor G; Reviewed; Region: PRK00007 859655012042 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 859655012043 G1 box; other site 859655012044 putative GEF interaction site [polypeptide binding]; other site 859655012045 GTP/Mg2+ binding site [chemical binding]; other site 859655012046 Switch I region; other site 859655012047 G2 box; other site 859655012048 G3 box; other site 859655012049 Switch II region; other site 859655012050 G4 box; other site 859655012051 G5 box; other site 859655012052 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 859655012053 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 859655012054 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 859655012055 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 859655012056 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 859655012057 ligand binding site [chemical binding]; other site 859655012058 flexible hinge region; other site 859655012059 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 859655012060 putative switch regulator; other site 859655012061 non-specific DNA interactions [nucleotide binding]; other site 859655012062 DNA binding site [nucleotide binding] 859655012063 sequence specific DNA binding site [nucleotide binding]; other site 859655012064 putative cAMP binding site [chemical binding]; other site 859655012065 Predicted membrane protein [Function unknown]; Region: COG4539 859655012066 Ferredoxin [Energy production and conversion]; Region: COG1146 859655012067 4Fe-4S binding domain; Region: Fer4; pfam00037 859655012068 Domain of unknown function (DUF3470); Region: DUF3470; pfam11953 859655012069 Peptidase M30; Region: Peptidase_M30; pfam10460 859655012070 Peptidase MA superfamily; Region: Peptidase_MA_2; pfam13485 859655012071 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pr : putative regulator 859655012072 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pr : putative regulator 859655012073 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 859655012074 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 859655012075 gamma subunit interface [polypeptide binding]; other site 859655012076 epsilon subunit interface [polypeptide binding]; other site 859655012077 LBP interface [polypeptide binding]; other site 859655012078 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 859655012079 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 859655012080 N-terminal plug; other site 859655012081 ligand-binding site [chemical binding]; other site 859655012082 Domain of unknown function (DUF4154); Region: DUF4154; pfam13689 859655012083 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 859655012084 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 859655012085 metal binding site [ion binding]; metal-binding site 859655012086 active site 859655012087 I-site; other site 859655012088 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 859655012089 malate:quinone oxidoreductase; Validated; Region: PRK05257 859655012090 malate:quinone-oxidoreductase; Region: mal_quin_oxido; TIGR01320 859655012091 Evidence 2b : Function of strongly homologous gene; Product type e : enzyme 859655012092 Evidence 2b : Function of strongly homologous gene; Product type e : enzyme 859655012093 Evidence 2b : Function of strongly homologous gene; Product type e : enzyme 859655012094 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 859655012095 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 859655012096 AefR-like transcriptional repressor, C-terminal region; Region: TetR_C_7; pfam14246 859655012097 DNA-binding transcriptional regulator EnvR; Provisional; Region: PRK09975 859655012098 copper/silver efflux system outer membrane protein CusC; Provisional; Region: PRK09837 859655012099 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 859655012100 Protein export membrane protein; Region: SecD_SecF; cl14618 859655012101 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 859655012102 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 859655012103 HlyD family secretion protein; Region: HlyD_3; pfam13437 859655012104 putative DMT superfamily transporter inner membrane protein; Provisional; Region: PRK11272 859655012105 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type ph : phenotype 859655012106 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 859655012107 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 859655012108 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 859655012109 putative dimerization interface [polypeptide binding]; other site 859655012110 putative substrate binding pocket [chemical binding]; other site 859655012111 Toxin with endonuclease activity YhaV; Region: Toxin_YhaV; pfam11663 859655012112 putative regulator PrlF; Provisional; Region: PRK09974 859655012113 Evidence 2b : Function of strongly homologous gene; PubMedId : 10224240; Product type cp : cell process 859655012114 Protein of unknown function (DUF1016); Region: DUF1016; pfam06250 859655012115 Predicted nuclease of restriction endonuclease-like fold [General function prediction only]; Region: COG4804 859655012116 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 859655012117 S-adenosylmethionine binding site [chemical binding]; other site 859655012118 5-dehydro-4-deoxyglucarate dehydratase, also called 5-keto-4-deoxy-glucarate dehydratase (KDGDH); Region: KDGDH; cd00951 859655012119 N-acetylneuraminate lyase; Provisional; Region: PRK04147 859655012120 putative active site [active] 859655012121 catalytic residue [active] 859655012122 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 859655012123 Alpha-Ketoglutaric Semialdehyde Dehydrogenase; Region: ALDH_KGSADH; cd07129 859655012124 dimer interface [polypeptide binding]; other site 859655012125 NADP binding site [chemical binding]; other site 859655012126 catalytic residues [active] 859655012127 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 859655012128 D-galactonate transporter; Region: 2A0114; TIGR00893 859655012129 putative substrate translocation pore; other site 859655012130 glucarate dehydratase; Region: glucar-dehydr; TIGR03247 859655012131 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 859655012132 active site 859655012133 tetramer interface [polypeptide binding]; other site 859655012134 galactarate dehydratase; Region: galactar-dH20; TIGR03248 859655012135 Domains similar to fish antifreeze type III protein; Region: SAF_AH_GD; cd11613 859655012136 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 859655012137 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 859655012138 extended (e) SDRs; Region: SDR_e; cd08946 859655012139 NAD(P) binding site [chemical binding]; other site 859655012140 active site 859655012141 substrate binding site [chemical binding]; other site 859655012142 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 859655012143 Strictosidine synthase; Region: Str_synth; pfam03088 859655012144 Endopygalactorunase [Cell envelope biogenesis, outer membrane]; Region: PGU1; COG5434 859655012145 Probable polygalacturonase At3g15720; Region: PLN03003; cl14103 859655012146 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 859655012147 D-galactonate transporter; Region: 2A0114; TIGR00893 859655012148 putative substrate translocation pore; other site 859655012149 bifunctional nicotinamide mononucleotide adenylyltransferase/ADP-ribose pyrophosphatase; Provisional; Region: PRK05379 859655012150 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 859655012151 active site 859655012152 nucleotide binding site [chemical binding]; other site 859655012153 HIGH motif; other site 859655012154 KMSKS motif; other site 859655012155 ADP-ribose pyrophosphatase [Nucleotide transport and metabolism]; Region: COG1051 859655012156 nudix motif; other site 859655012157 putative nicotinate phosphoribosyltransferase; Provisional; Region: PRK09198 859655012158 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 859655012159 active site 859655012160 Transcriptional regulator [Transcription]; Region: LysR; COG0583 859655012161 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 859655012162 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 859655012163 dimerization interface [polypeptide binding]; other site 859655012164 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 859655012165 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 859655012166 putative substrate translocation pore; other site 859655012167 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 859655012168 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 859655012169 dimerization interface [polypeptide binding]; other site 859655012170 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 859655012171 dimer interface [polypeptide binding]; other site 859655012172 putative CheW interface [polypeptide binding]; other site 859655012173 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 859655012174 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 859655012175 N-acetyl-D-glucosamine binding site [chemical binding]; other site 859655012176 catalytic residue [active] 859655012177 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 859655012178 Predicted transcriptional regulators [Transcription]; Region: COG1733 859655012179 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 859655012180 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 859655012181 triphenylmethane reductase (TMR)-like proteins, NMRa-like, atypical (a) SDRs; Region: TMR_SDR_a; cd05269 859655012182 NADP binding site [chemical binding]; other site 859655012183 RNA polymerase sigma factor; Provisional; Region: PRK12525 859655012184 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 859655012185 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 859655012186 DNA binding residues [nucleotide binding] 859655012187 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 859655012188 FecR protein; Region: FecR; pfam04773 859655012189 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 859655012190 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 859655012191 DNA binding residues [nucleotide binding] 859655012192 dimerization interface [polypeptide binding]; other site 859655012193 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 859655012194 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 859655012195 active site 859655012196 phosphorylation site [posttranslational modification] 859655012197 intermolecular recognition site; other site 859655012198 dimerization interface [polypeptide binding]; other site 859655012199 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 859655012200 DNA binding site [nucleotide binding] 859655012201 Type III secretory pathway, component EscS [Intracellular trafficking and secretion]; Region: EscS; COG4794 859655012202 Type III secretory pathway, component EscR [Intracellular trafficking and secretion]; Region: EscR; COG4790 859655012203 type III secretion system apparatus protein YscQ/HrcQ; Region: SpaO_YscQ; TIGR02551 859655012204 Flagellar motor switch/type III secretory pathway protein [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FliN; COG1886 859655012205 type III secretion protein HpaP; Region: HpaP; TIGR02557 859655012206 Type III secretory pathway, component EscV [Intracellular trafficking and secretion]; Region: EscV; COG4789 859655012207 FHIPEP family; Region: FHIPEP; pfam00771 859655012208 type III secretion system protein HrcU; Validated; Region: PRK09108 859655012209 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 859655012210 type III secretion protein HrpB1/HrpK; Region: HrpB1_HrpK; TIGR02561 859655012211 type III secretion protein HrpB2; Region: HrpB2; TIGR02558 859655012212 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 859655012213 type III secretion protein HrpB4; Region: HrpB4; TIGR02560 859655012214 Bacterial type III secretion protein (HrpB4); Region: HrpB4; pfam09502 859655012215 type III secretion system protein HrpB; Validated; Region: PRK09098 859655012216 Flagellar assembly protein FliH; Region: FliH; pfam02108 859655012217 type III secretion system ATPase; Provisional; Region: PRK09099 859655012218 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 859655012219 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 859655012220 Walker A motif/ATP binding site; other site 859655012221 Walker B motif; other site 859655012222 type III secretion protein HrpB7; Region: HrpB7; TIGR02559 859655012223 Type III secretory pathway, component EscT [Intracellular trafficking and secretion]; Region: EscT; COG4791 859655012224 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 859655012225 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 859655012226 Type II secretory pathway, component PulD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulD; COG1450 859655012227 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 859655012228 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 859655012229 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 859655012230 Transposase domain (DUF772); Region: DUF772; pfam05598 859655012231 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 859655012232 Leucine-rich repeat (LRR) protein [Function unknown]; Region: COG4886 859655012233 Leucine rich repeat; Region: LRR_8; pfam13855 859655012234 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 859655012235 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 859655012236 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 9390420, 17468289; Product type e : enzyme 859655012237 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme 859655012238 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme 859655012239 Evidence 1b : Function experimentally demonstrated in the studied species; PubMedId : 9390420, 17468289; Product type e : enzyme 859655012240 Alginate Lyase A1-III; enzymatically depolymerizes alginate, a complex copolymer of beta-D-mannuronate and alpha-L-guluronate, by cleaving the beta-(1,4) glycosidic bond; Region: AlgLyase; cl00179 859655012241 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 859655012242 Interdomain contacts; other site 859655012243 Cytokine receptor motif; other site 859655012244 Concanavalin A-like lectin/glucanases superfamily; Region: Laminin_G_3; pfam13385 859655012245 SET domain; Region: SET; pfam00856 859655012246 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 859655012247 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 859655012248 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 859655012249 glutamine synthetase, type I; Region: GlnA; TIGR00653 859655012250 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 859655012251 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 859655012252 Transcriptional regulator [Transcription]; Region: LysR; COG0583 859655012253 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 859655012254 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 859655012255 substrate binding pocket [chemical binding]; other site 859655012256 dimerization interface [polypeptide binding]; other site 859655012257 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 859655012258 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 859655012259 C-terminal domain of type I, class II extradiol dioxygenases; catalytic domain; Region: ED_TypeI_classII_C; cd08343 859655012260 active site 859655012261 metal binding site [ion binding]; metal-binding site 859655012262 Ribulose-5-phosphate 4-epimerase and related epimerases and aldolases [Carbohydrate transport and metabolism]; Region: AraD; COG0235 859655012263 2-hydroxymuconic semialdehyde dehydrogenase; Region: OH_muco_semi_DH; TIGR03216 859655012264 Human aldehyde dehydrogenase family 8 member A1-like; Region: ALDH_F8_HMSADH; cd07093 859655012265 NAD binding site [chemical binding]; other site 859655012266 catalytic residues [active] 859655012267 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 859655012268 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 859655012269 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 859655012270 active site 1 [active] 859655012271 dimer interface [polypeptide binding]; other site 859655012272 hexamer interface [polypeptide binding]; other site 859655012273 active site 2 [active] 859655012274 acetaldehyde dehydrogenase; Validated; Region: PRK08300 859655012275 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 859655012276 Prokaryotic acetaldehyde dehydrogenase, dimerisation; Region: AcetDehyd-dimer; pfam09290 859655012277 4-hyroxy-2-oxovalerate/4-hydroxy-2-oxopentanoic acid aldolase,; Validated; Region: PRK08195 859655012278 4-hydroxy-2-oxovalerate aldolase, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_HOA; cd07943 859655012279 active site 859655012280 catalytic residues [active] 859655012281 metal binding site [ion binding]; metal-binding site 859655012282 DmpG-like communication domain; Region: DmpG_comm; pfam07836 859655012283 benzoate transport; Region: 2A0115; TIGR00895 859655012284 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 859655012285 putative substrate translocation pore; other site 859655012286 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 859655012287 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 859655012288 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 859655012289 catalytic residues [active] 859655012290 hinge region; other site 859655012291 alpha helical domain; other site 859655012292 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 859655012293 NolX protein; Region: NolX; pfam05819 859655012294 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type ph : phenotype 859655012295 Phage integrase protein; Region: DUF3701; pfam12482 859655012296 Phage integrase, N-terminal SAM-like domain; Region: Phage_integr_N2; pfam13495 859655012297 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 859655012298 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 859655012299 Int/Topo IB signature motif; other site 859655012300 HD superfamily phosphohydrolases [General function prediction only]; Region: COG1078 859655012301 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 859655012302 Cytochrome P450; Region: p450; cl12078 859655012303 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; pfam13808 859655012304 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; cl17880 859655012305 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; cl01768 859655012306 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 859655012307 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 859655012308 catalytic residues [active] 859655012309 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 859655012310 2-enoyl thioester reductase-like; Region: ETR_like; cd05282 859655012311 NADP binding site [chemical binding]; other site 859655012312 dimer interface [polypeptide binding]; other site 859655012313 Protein of unknown function (DUF3363); Region: DUF3363; pfam11843 859655012314 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 859655012315 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 859655012316 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 859655012317 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 859655012318 Hydrolases of the alpha/beta superfamily [General function prediction only]; Region: COG1073 859655012319 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 859655012320 Cyclophilin-like; Region: Cyclophil_like; cl17583 859655012321 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 859655012322 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 859655012323 Uncharacterized protein conserved in bacteria, putative lipoprotein [Function unknown]; Region: LprI; COG4461 859655012324 Type II secretory pathway, component ExeA (predicted ATPase) [Intracellular trafficking and secretion]; Region: ExeA; COG3267 859655012325 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 859655012326 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 859655012327 Walker A motif; other site 859655012328 Walker A/P-loop; other site 859655012329 ATP binding site [chemical binding]; other site 859655012330 ATP binding site [chemical binding]; other site 859655012331 Walker B motif; other site 859655012332 Integrase core domain; Region: rve; pfam00665 859655012333 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 859655012334 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 859655012335 catalytic residues [active] 859655012336 catalytic nucleophile [active] 859655012337 Presynaptic Site I dimer interface [polypeptide binding]; other site 859655012338 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 859655012339 Synaptic Flat tetramer interface [polypeptide binding]; other site 859655012340 Synaptic Site I dimer interface [polypeptide binding]; other site 859655012341 DNA binding site [nucleotide binding] 859655012342 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 859655012343 DNA-binding interface [nucleotide binding]; DNA binding site 859655012344 Helix-turn-helix domain; Region: HTH_28; pfam13518 859655012345 Winged helix-turn helix; Region: HTH_29; pfam13551 859655012346 Homeodomain-like domain; Region: HTH_32; pfam13565 859655012347 Predicted kinase [General function prediction only]; Region: COG0645 859655012348 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 859655012349 active site 859655012350 Glucose/sorbosone dehydrogenases [Carbohydrate transport and metabolism]; Region: COG2133 859655012351 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 859655012352 IgA Peptidase M64; Region: Peptidase_M64; pfam09471 859655012353 Immunoglobulin-like fold, Plexins, Transcription factors (IPT). IPTs are also known as Transcription factor ImmunoGlobin (TIG) domains. They are present in intracellular transcription factors, cell surface receptors (such as plexins and scatter factor...; Region: IPT; cd00102 859655012354 Immunoglobulin-like fold, Plexins, Transcription factors (IPT). IPTs are also known as Transcription factor ImmunoGlobin (TIG) domains. They are present in intracellular transcription factors, cell surface receptors (such as plexins and scatter factor...; Region: IPT; cd00102 859655012355 Immunoglobulin-like fold, Plexins, Transcription factors (IPT). IPTs are also known as Transcription factor ImmunoGlobin (TIG) domains. They are present in intracellular transcription factors, cell surface receptors (such as plexins and scatter factor...; Region: IPT; cd00102 859655012356 Immunoglobulin-like fold, Plexins, Transcription factors (IPT). IPTs are also known as Transcription factor ImmunoGlobin (TIG) domains. They are present in intracellular transcription factors, cell surface receptors (such as plexins and scatter factor...; Region: IPT; cd00102 859655012357 The GH18 (glycosyl hydrolase, family 18) type II chitinases hydrolyze chitin, an abundant polymer of beta-1,4-linked N-acetylglucosamine (GlcNAc) which is a major component of the cell wall of fungi and the exoskeleton of arthropods. Chitinases have...; Region: GH18_chitinase-like; cl10447 859655012358 active site 859655012359 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 859655012360 Sel1-like repeats; Region: SEL1; smart00671 859655012361 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 859655012362 Sel1-like repeats; Region: SEL1; smart00671 859655012363 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 859655012364 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 859655012365 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 859655012366 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology 859655012367 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 859655012368 haemagglutination activity domain; Region: Haemagg_act; pfam05860 859655012369 Large exoproteins involved in heme utilization or adhesion [Intracellular trafficking and secretion]; Region: FhaB; COG3210 859655012370 Possible hemagglutinin (DUF637); Region: DUF637; pfam04830 859655012371 hypothetical protein; Validated; Region: PRK09169 859655012372 RelA- and SpoT-like ppGpp Synthetases and Hydrolases, catalytic domain; Region: Rel-Spo_like; cl11966 859655012373 metal binding triad [ion binding]; metal-binding site 859655012374 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 859655012375 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 859655012376 substrate binding pocket [chemical binding]; other site 859655012377 membrane-bound complex binding site; other site 859655012378 hinge residues; other site 859655012379 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 859655012380 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 859655012381 Walker A/P-loop; other site 859655012382 ATP binding site [chemical binding]; other site 859655012383 Q-loop/lid; other site 859655012384 ABC transporter signature motif; other site 859655012385 Walker B; other site 859655012386 D-loop; other site 859655012387 H-loop/switch region; other site 859655012388 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 859655012389 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 859655012390 dimer interface [polypeptide binding]; other site 859655012391 conserved gate region; other site 859655012392 putative PBP binding loops; other site 859655012393 ABC-ATPase subunit interface; other site 859655012394 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 859655012395 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 859655012396 dimer interface [polypeptide binding]; other site 859655012397 conserved gate region; other site 859655012398 putative PBP binding loops; other site 859655012399 ABC-ATPase subunit interface; other site 859655012400 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 859655012401 classical (c) SDRs; Region: SDR_c; cd05233 859655012402 NAD(P) binding site [chemical binding]; other site 859655012403 active site 859655012404 LamB/YcsF family of lactam utilization protein; Region: LamB_YcsF_like; cd10787 859655012405 putative active site [active] 859655012406 Allophanate hydrolase subunit 2 [Amino acid transport and metabolism]; Region: DUR1; COG1984 859655012407 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; COG2049 859655012408 Allophanate hydrolase subunit 1; Region: AHS1; smart00796 859655012409 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK06111 859655012410 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 859655012411 ATP-grasp domain; Region: ATP-grasp_4; cl17255 859655012412 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 859655012413 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 859655012414 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 859655012415 carboxyltransferase (CT) interaction site; other site 859655012416 biotinylation site [posttranslational modification]; other site 859655012417 nitrogen assimilation transcriptional regulator; Provisional; Region: PRK11233 859655012418 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 859655012419 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 859655012420 putative dimerization interface [polypeptide binding]; other site 859655012421 aspartate aminotransferase; Provisional; Region: PRK06107 859655012422 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 859655012423 pyridoxal 5'-phosphate binding site [chemical binding]; other site 859655012424 homodimer interface [polypeptide binding]; other site 859655012425 catalytic residue [active] 859655012426 Demethylmenaquinone methyltransferase [Coenzyme metabolism]; Region: MenG; COG0684 859655012427 hypothetical protein; Validated; Region: PRK06201 859655012428 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 859655012429 D-glycerate dehydrogenase/hydroxypyruvate reductase (GDH); Region: GDH; cd05301 859655012430 dimerization interface [polypeptide binding]; other site 859655012431 ligand binding site [chemical binding]; other site 859655012432 NADP binding site [chemical binding]; other site 859655012433 catalytic site [active] 859655012434 AAA domain; Region: AAA_17; cl17253 859655012435 gluconate 5-dehydrogenase; Provisional; Region: PRK07523 859655012436 gluconate 5-dehydrogenase (Ga5DH)-like, classical (c) SDRs; Region: Ga5DH-like_SDR_c; cd05347 859655012437 NADP binding site [chemical binding]; other site 859655012438 homodimer interface [polypeptide binding]; other site 859655012439 active site 859655012440 L-idonate 5-dehydrogenase; Provisional; Region: PRK09880 859655012441 L-idonate 5-dehydrogenase; Region: idonate-5-DH; cd08232 859655012442 putative NAD(P) binding site [chemical binding]; other site 859655012443 catalytic Zn binding site [ion binding]; other site 859655012444 Rubrum transdehydrogenase NAD-binding and catalytic domains; Region: Rubrum_tdh; cd05304 859655012445 NAD/NADP transhydrogenase alpha subunit [Energy production and conversion]; Region: PntA; COG3288 859655012446 ligand binding site [chemical binding]; other site 859655012447 homodimer interface [polypeptide binding]; other site 859655012448 NAD(P) binding site [chemical binding]; other site 859655012449 trimer interface B [polypeptide binding]; other site 859655012450 trimer interface A [polypeptide binding]; other site 859655012451 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 859655012452 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; COG1282 859655012453 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 859655012454 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 859655012455 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 859655012456 trimer interface [polypeptide binding]; other site 859655012457 eyelet of channel; other site 859655012458 Predicted periplasmic lipoprotein [General function prediction only]; Region: COG5544 859655012459 iron-sulfur cluster repair di-iron protein; Provisional; Region: PRK10992 859655012460 Domain of Unknown function (DUF542); Region: ScdA_N; pfam04405 859655012461 Hemerythrin-like domain; Region: Hr-like; cd12108 859655012462 Fe binding site [ion binding]; other site 859655012463 anaerobic nitric oxide reductase transcription regulator; Provisional; Region: PRK05022 859655012464 GAF domain; Region: GAF; pfam01590 859655012465 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 859655012466 Walker A motif; other site 859655012467 ATP binding site [chemical binding]; other site 859655012468 Walker B motif; other site 859655012469 arginine finger; other site 859655012470 L-threonine dehydrogenase, extended (e) SDRs; Region: TDH_SDR_e; cd05272 859655012471 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 859655012472 NAD binding site [chemical binding]; other site 859655012473 homodimer interface [polypeptide binding]; other site 859655012474 active site 859655012475 putative substrate binding site [chemical binding]; other site 859655012476 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 859655012477 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 859655012478 substrate-cofactor binding pocket; other site 859655012479 pyridoxal 5'-phosphate binding site [chemical binding]; other site 859655012480 catalytic residue [active] 859655012481 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 859655012482 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 859655012483 sequence-specific DNA binding site [nucleotide binding]; other site 859655012484 salt bridge; other site 859655012485 Cupin domain; Region: Cupin_2; pfam07883 859655012486 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK08270 859655012487 ATP cone domain; Region: ATP-cone; pfam03477 859655012488 Class III ribonucleotide reductase; Region: RNR_III; cd01675 859655012489 effector binding site; other site 859655012490 active site 859655012491 Zn binding site [ion binding]; other site 859655012492 Anaerobic ribonucleoside-triphosphate reductase; Region: NRDD; pfam13597 859655012493 anaerobic ribonucleoside-triphosphate reductase activating protein; Region: NrdG2; TIGR02495 859655012494 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 859655012495 FeS/SAM binding site; other site 859655012496 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 859655012497 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 859655012498 ligand binding site [chemical binding]; other site 859655012499 flexible hinge region; other site 859655012500 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 859655012501 putative switch regulator; other site 859655012502 non-specific DNA interactions [nucleotide binding]; other site 859655012503 DNA binding site [nucleotide binding] 859655012504 sequence specific DNA binding site [nucleotide binding]; other site 859655012505 putative cAMP binding site [chemical binding]; other site 859655012506 DGC domain; Region: DGC; cl01742 859655012507 SCP-2 sterol transfer family; Region: SCP2; cl01225 859655012508 putative protease; Provisional; Region: PRK15447 859655012509 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 859655012510 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 859655012511 Peptidase family U32; Region: Peptidase_U32; pfam01136 859655012512 Nitrate/nitrite transporter [Inorganic ion transport and metabolism]; Region: NarK; COG2223 859655012513 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 859655012514 putative substrate translocation pore; other site 859655012515 nitrate/nitrite transport protein NarU; Provisional; Region: PRK15034 859655012516 Nitrate reductase alpha subunit [Energy production and conversion]; Region: NarG; COG5013 859655012517 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 859655012518 [4Fe-4S] binding site [ion binding]; other site 859655012519 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 859655012520 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 859655012521 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 859655012522 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 859655012523 molybdopterin cofactor binding site; other site 859655012524 Nitrate reductase beta subunit [Energy production and conversion]; Region: NarY; COG1140 859655012525 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 859655012526 Nitrate reductase delta subunit [Energy production and conversion]; Region: NarJ; COG2180 859655012527 Nitrate reductase gamma subunit; Region: Nitrate_red_gam; pfam02665 859655012528 Molybdenum is an essential trace element in the form of molybdenum cofactor (Moco) which is associated with the metabolism of nitrogen, carbon and sulfur by redox active enzymes. In E. coli, the synthesis of Moco involves genes from several loci: moa; Region: MobB; cd03116 859655012529 Walker A motif; other site 859655012530 Signal transduction histidine kinase, nitrate/nitrite-specific [Signal transduction mechanisms]; Region: NarQ; COG3850 859655012531 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 859655012532 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 859655012533 dimerization interface [polypeptide binding]; other site 859655012534 GAF domain; Region: GAF; pfam01590 859655012535 Histidine kinase; Region: HisKA_3; pfam07730 859655012536 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 859655012537 ATP binding site [chemical binding]; other site 859655012538 Mg2+ binding site [ion binding]; other site 859655012539 G-X-G motif; other site 859655012540 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 859655012541 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 859655012542 active site 859655012543 phosphorylation site [posttranslational modification] 859655012544 intermolecular recognition site; other site 859655012545 dimerization interface [polypeptide binding]; other site 859655012546 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 859655012547 DNA binding residues [nucleotide binding] 859655012548 dimerization interface [polypeptide binding]; other site 859655012549 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 859655012550 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 859655012551 dimer interface [polypeptide binding]; other site 859655012552 putative CheW interface [polypeptide binding]; other site 859655012553 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 859655012554 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 859655012555 DNA binding residues [nucleotide binding] 859655012556 dimerization interface [polypeptide binding]; other site 859655012557 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 859655012558 thiamine phosphate binding site [chemical binding]; other site 859655012559 active site 859655012560 pyrophosphate binding site [ion binding]; other site 859655012561 shikimate transporter; Provisional; Region: PRK09952 859655012562 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 859655012563 putative substrate translocation pore; other site 859655012564 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 859655012565 Iron-containing alcohol dehydrogenases-like, involved in the linear alkylbenzenesulfonate (LAS) degradation pathway; Region: Fe-ADH7; cd08192 859655012566 putative active site [active] 859655012567 metal binding site [ion binding]; metal-binding site 859655012568 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 859655012569 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 859655012570 Cu(I) binding site [ion binding]; other site 859655012571 Cytochrome c; Region: Cytochrom_C; pfam00034 859655012572 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 859655012573 Cytochrome C oxidase, mono-heme subunit/FixO; Region: FixO; cl01130 859655012574 Heme-copper oxidase subunit I. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which catalyze the reduction of O2 and simultaneously pump protons across the membrane. The superfamily is...; Region: Heme_Cu_Oxidase_I; cl00275 859655012575 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 859655012576 Low-spin heme binding site [chemical binding]; other site 859655012577 D-pathway; other site 859655012578 Putative water exit pathway; other site 859655012579 Binuclear center (active site) [active] 859655012580 K-pathway; other site 859655012581 Putative proton exit pathway; other site 859655012582 Excinuclease ATPase subunit [DNA replication, recombination, and repair]; Region: UvrA; COG0178 859655012583 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 859655012584 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 859655012585 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 859655012586 Walker A/P-loop; other site 859655012587 ATP binding site [chemical binding]; other site 859655012588 Q-loop/lid; other site 859655012589 ABC transporter signature motif; other site 859655012590 Walker B; other site 859655012591 D-loop; other site 859655012592 H-loop/switch region; other site 859655012593 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 859655012594 Walker A/P-loop; other site 859655012595 ATP binding site [chemical binding]; other site 859655012596 Q-loop/lid; other site 859655012597 Excinuclease ATPase subunit [DNA replication, recombination, and repair]; Region: UvrA; COG0178 859655012598 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 859655012599 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 859655012600 C4-dicarboxylate transporter DctA; Reviewed; Region: PRK01663 859655012601 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 859655012602 Isocitrate/isopropylmalate dehydrogenase [Amino acid transport and metabolism]; Region: LeuB; COG0473 859655012603 tartrate dehydrogenase; Region: TTC; TIGR02089 859655012604 Transcriptional regulator [Transcription]; Region: LysR; COG0583 859655012605 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 859655012606 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 859655012607 putative effector binding pocket; other site 859655012608 putative dimerization interface [polypeptide binding]; other site 859655012609 Membrane associated serine protease [Amino acid transport and metabolism]; Region: COG0705 859655012610 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 859655012611 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 859655012612 NAD(P) binding site [chemical binding]; other site 859655012613 homodimer interface [polypeptide binding]; other site 859655012614 substrate binding site [chemical binding]; other site 859655012615 active site 859655012616 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 859655012617 active site 859655012618 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 859655012619 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 859655012620 inhibitor-cofactor binding pocket; inhibition site 859655012621 pyridoxal 5'-phosphate binding site [chemical binding]; other site 859655012622 catalytic residue [active] 859655012623 Putative Acyltransferase (AT), Left-handed parallel beta-Helix (LbH) domain; This group is composed of mostly uncharacterized proteins containing an N-terminal helical subdomain followed by a LbH domain. The alignment contains 6 turns, each containing...; Region: LbH_AT_putative; cd03360 859655012624 sugar O-acyltransferase, sialic acid O-acetyltransferase NeuD family; Region: NeuD_NnaD; TIGR03570 859655012625 putative trimer interface [polypeptide binding]; other site 859655012626 putative CoA binding site [chemical binding]; other site 859655012627 Bacterial sugar transferase; Region: Bac_transf; pfam02397 859655012628 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 859655012629 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 859655012630 Heparinase II/III-like protein; Region: Hepar_II_III; pfam07940 859655012631 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 859655012632 2-desacetyl-2-hydroxyethyl bacteriochlorophyllide and other MDR family members; Region: 2-desacetyl-2-hydroxyethyl_bacteriochlorophyllide_; cd08255 859655012633 putative NAD(P) binding site [chemical binding]; other site 859655012634 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 859655012635 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 859655012636 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 859655012637 Acetyltransferase (isoleucine patch superfamily) [General function prediction only]; Region: WbbJ; COG0110 859655012638 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 859655012639 trimer interface [polypeptide binding]; other site 859655012640 active site 859655012641 substrate binding site [chemical binding]; other site 859655012642 CoA binding site [chemical binding]; other site 859655012643 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 859655012644 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 859655012645 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 859655012646 UDP-N-acetyl-D-mannosamine dehydrogenase; Provisional; Region: wecC; PRK11064 859655012647 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 859655012648 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 859655012649 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 859655012650 UDP-N-acetylglucosamine 2-epimerase [Cell envelope biogenesis, outer membrane]; Region: WecB; COG0381 859655012651 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 859655012652 active site 859655012653 homodimer interface [polypeptide binding]; other site 859655012654 exopolysaccharide transport protein family; Region: eps_transp_fam; TIGR01005 859655012655 Chain length determinant protein; Region: Wzz; pfam02706 859655012656 Chain length determinant protein; Region: Wzz; cl15801 859655012657 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 859655012658 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 859655012659 Nucleotide binding site [chemical binding]; other site 859655012660 P loop; other site 859655012661 DTAP/Switch II; other site 859655012662 Switch I; other site 859655012663 Low molecular weight phosphatase family; Region: LMWPc; cd00115 859655012664 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 859655012665 active site 859655012666 polysaccharide export protein Wza; Provisional; Region: PRK15078 859655012667 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 859655012668 SLBB domain; Region: SLBB; pfam10531 859655012669 Evidence 4 : Homologs of previously reported genes of unknown function 859655012670 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; cl15777 859655012671 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 859655012672 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 859655012673 DNA binding site [nucleotide binding] 859655012674 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 859655012675 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_6; cd06315 859655012676 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 859655012677 putative ligand binding site [chemical binding]; other site 859655012678 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 859655012679 HAMP domain; Region: HAMP; pfam00672 859655012680 dimerization interface [polypeptide binding]; other site 859655012681 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 859655012682 dimer interface [polypeptide binding]; other site 859655012683 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 859655012684 putative CheW interface [polypeptide binding]; other site 859655012685 Fatty acid desaturase [Lipid metabolism]; Region: DesA; COG3239 859655012686 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 859655012687 putative di-iron ligands [ion binding]; other site 859655012688 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG3687 859655012689 succinic semialdehyde dehydrogenase; Region: PLN02278 859655012690 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 859655012691 tetramerization interface [polypeptide binding]; other site 859655012692 NAD(P) binding site [chemical binding]; other site 859655012693 catalytic residues [active] 859655012694 Isocitrate/isopropylmalate dehydrogenase [Amino acid transport and metabolism]; Region: LeuB; COG0473 859655012695 tartrate dehydrogenase; Region: TTC; TIGR02089 859655012696 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 859655012697 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 859655012698 Walker A/P-loop; other site 859655012699 ATP binding site [chemical binding]; other site 859655012700 Q-loop/lid; other site 859655012701 ABC transporter signature motif; other site 859655012702 Walker B; other site 859655012703 D-loop; other site 859655012704 H-loop/switch region; other site 859655012705 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 859655012706 Walker A/P-loop; other site 859655012707 ATP binding site [chemical binding]; other site 859655012708 Q-loop/lid; other site 859655012709 ABC transporter signature motif; other site 859655012710 Walker B; other site 859655012711 D-loop; other site 859655012712 H-loop/switch region; other site 859655012713 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 859655012714 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 859655012715 dimer interface [polypeptide binding]; other site 859655012716 conserved gate region; other site 859655012717 ABC-ATPase subunit interface; other site 859655012718 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 859655012719 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 859655012720 dimer interface [polypeptide binding]; other site 859655012721 conserved gate region; other site 859655012722 putative PBP binding loops; other site 859655012723 ABC-ATPase subunit interface; other site 859655012724 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 859655012725 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 859655012726 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 859655012727 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 859655012728 2-haloalkanoic acid dehalogenase, type II; Region: HAD_type_II; TIGR01428 859655012729 Haloacid dehalogenase superfamily, subfamily IA, variant 2 with 3rd motif like haloacid dehalogenase; Region: HAD-SF-IA-v2; TIGR01493 859655012730 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 859655012731 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 859655012732 NAD(P) binding site [chemical binding]; other site 859655012733 catalytic residues [active] 859655012734 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 859655012735 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 859655012736 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 859655012737 Coenzyme A binding pocket [chemical binding]; other site 859655012738 Putative glycerate dehydrogenase and related proteins of the D-specific 2-hydroxy dehydrogenase family; Region: GDH_like_2; cd12164 859655012739 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 859655012740 putative ligand binding site [chemical binding]; other site 859655012741 NAD binding site [chemical binding]; other site 859655012742 dimerization interface [polypeptide binding]; other site 859655012743 catalytic site [active] 859655012744 hypothetical protein; Provisional; Region: PRK05965 859655012745 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 859655012746 inhibitor-cofactor binding pocket; inhibition site 859655012747 pyridoxal 5'-phosphate binding site [chemical binding]; other site 859655012748 catalytic residue [active] 859655012749 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 859655012750 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 859655012751 putative DNA binding site [nucleotide binding]; other site 859655012752 putative Zn2+ binding site [ion binding]; other site 859655012753 AsnC family; Region: AsnC_trans_reg; pfam01037 859655012754 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_4; pfam13510 859655012755 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 859655012756 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 859655012757 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 859655012758 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 859655012759 Protein of unknown function (DUF861); Region: Cupin_3; cl17594 859655012760 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 859655012761 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 859655012762 metal binding site [ion binding]; metal-binding site 859655012763 putative dimer interface [polypeptide binding]; other site 859655012764 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 859655012765 Haloacid dehalogenase superfamily, subfamily IA, variant 2 with 3rd motif like haloacid dehalogenase; Region: HAD-SF-IA-v2; TIGR01493 859655012766 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 859655012767 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4307 859655012768 Uncharacterized protein conserved in bacteria (DUF2248); Region: DUF2248; pfam10005 859655012769 DNA-binding protein H-NS [General function prediction only]; Region: Hns; COG2916 859655012770 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 859655012771 Predicted integral membrane protein (DUF2282); Region: DUF2282; cl02366 859655012772 hypothetical protein; Provisional; Region: PRK05409 859655012773 Uncharacterized protein conserved in bacteria (DUF2063); Region: DUF2063; pfam09836 859655012774 Predicted membrane protein [Function unknown]; Region: COG2259 859655012775 Protein of unknown function (DUF1444); Region: DUF1444; cl02011 859655012776 bacterial OsmY and nodulation domain; Region: BON; smart00749 859655012777 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 859655012778 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 859655012779 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 859655012780 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 859655012781 HlyD family secretion protein; Region: HlyD_3; pfam13437 859655012782 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 859655012783 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 859655012784 active site 859655012785 phosphorylation site [posttranslational modification] 859655012786 intermolecular recognition site; other site 859655012787 dimerization interface [polypeptide binding]; other site 859655012788 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 859655012789 DNA binding site [nucleotide binding] 859655012790 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 859655012791 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 859655012792 dimerization interface [polypeptide binding]; other site 859655012793 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 859655012794 ATP binding site [chemical binding]; other site 859655012795 G-X-G motif; other site 859655012796 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 859655012797 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 859655012798 putative binding surface; other site 859655012799 active site 859655012800 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 859655012801 Major Facilitator Superfamily; Region: MFS_1; pfam07690 859655012802 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 859655012803 oxidoreductase alpha (molybdopterin) subunit; Region: Fdhalpha-like; TIGR01701 859655012804 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 859655012805 putative molybdopterin cofactor binding site [chemical binding]; other site 859655012806 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 859655012807 putative molybdopterin cofactor binding site; other site 859655012808 Transcriptional regulators [Transcription]; Region: MarR; COG1846 859655012809 formate dehydrogenase accessory protein; Reviewed; Region: PRK00724 859655012810 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 859655012811 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 859655012812 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 859655012813 putative active site [active] 859655012814 heme pocket [chemical binding]; other site 859655012815 K+ transporter [Inorganic ion transport and metabolism]; Region: Kup; COG3158 859655012816 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 859655012817 DNA-binding site [nucleotide binding]; DNA binding site 859655012818 RNA-binding motif; other site 859655012819 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type h : extrachromosomal origin 859655012820 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type h : extrachromosomal origin 859655012821 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 859655012822 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 859655012823 tetrameric interface [polypeptide binding]; other site 859655012824 NAD binding site [chemical binding]; other site 859655012825 catalytic residues [active] 859655012826 beta alanine--pyruvate transaminase; Provisional; Region: PRK09221 859655012827 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 859655012828 inhibitor-cofactor binding pocket; inhibition site 859655012829 pyridoxal 5'-phosphate binding site [chemical binding]; other site 859655012830 catalytic residue [active] 859655012831 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 859655012832 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 859655012833 DNA-binding site [nucleotide binding]; DNA binding site 859655012834 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 859655012835 pyridoxal 5'-phosphate binding site [chemical binding]; other site 859655012836 homodimer interface [polypeptide binding]; other site 859655012837 catalytic residue [active] 859655012838 acetoacetate decarboxylase; Provisional; Region: PRK02265 859655012839 3-hydroxybutyrate dehydrogenase; Provisional; Region: PRK13394 859655012840 classical (c) SDRs; Region: SDR_c; cd05233 859655012841 NAD(P) binding site [chemical binding]; other site 859655012842 active site 859655012843 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 859655012844 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 859655012845 nucleophile elbow; other site 859655012846 Patatin phospholipase; Region: DUF3734; pfam12536 859655012847 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 859655012848 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 859655012849 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 859655012850 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 859655012851 N-terminal plug; other site 859655012852 ligand-binding site [chemical binding]; other site 859655012853 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; cl00257 859655012854 Protein of unknown function (DUF1436); Region: DUF1436; pfam07262 859655012855 Protein of unknown function (DUF1436); Region: DUF1436; pfam07262 859655012856 haemagglutination activity domain; Region: Haemagg_act; pfam05860 859655012857 adhesin HecA family 20-residue repeat (two copies); Region: fil_hemag_20aa; TIGR01731 859655012858 Large exoproteins involved in heme utilization or adhesion [Intracellular trafficking and secretion]; Region: FhaB; COG3210 859655012859 Large exoproteins involved in heme utilization or adhesion [Intracellular trafficking and secretion]; Region: FhaB; COG3210 859655012860 Haemagluttinin repeat; Region: Fil_haemagg_2; pfam13332 859655012861 RTX toxin acyltransferase family; Region: HlyC; cl01131 859655012862 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 859655012863 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 859655012864 Haemolysin secretion/activation protein ShlB/FhaC/HecB; Region: ShlB; pfam03865 859655012865 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 859655012866 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 859655012867 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 859655012868 Protein of unknown function (DUF2968); Region: DUF2968; pfam11180 859655012869 Transcriptional regulators containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]; Region: PspF; COG1221 859655012870 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 859655012871 Walker A motif; other site 859655012872 ATP binding site [chemical binding]; other site 859655012873 Walker B motif; other site 859655012874 arginine finger; other site 859655012875 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 859655012876 Predicted membrane protein [Function unknown]; Region: COG4655 859655012877 Putative Tad-like Flp pilus-assembly; Region: Tad_C; pfam09977 859655012878 Protein of unknown function (DUF3613); Region: DUF3613; pfam12266 859655012879 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 859655012880 binding surface 859655012881 TPR motif; other site 859655012882 TPR repeat; Region: TPR_11; pfam13414 859655012883 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 859655012884 binding surface 859655012885 TPR motif; other site 859655012886 Flp pilus assembly protein TadC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: TadC; COG2064 859655012887 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 859655012888 Flp pilus assembly protein TadB [Intracellular trafficking and secretion]; Region: TadB; COG4965 859655012889 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 859655012890 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 859655012891 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 859655012892 ATP binding site [chemical binding]; other site 859655012893 Walker A motif; other site 859655012894 hexamer interface [polypeptide binding]; other site 859655012895 Walker B motif; other site 859655012896 Flp pilus assembly protein, ATPase CpaE [Intracellular trafficking and secretion]; Region: CpaE; COG4963 859655012897 Flp pilus assembly protein, secretin CpaC [Intracellular trafficking and secretion]; Region: CpaC; COG4964 859655012898 Pilus formation protein N terminal region; Region: T2SS-T3SS_pil_N; pfam13629 859655012899 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 859655012900 Domains similar to fish antifreeze type III protein; Region: SAF; cl00555 859655012901 Flp pilus assembly protein, protease CpaA [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: CpaA; COG4960 859655012902 Flp pilus assembly protein, pilin Flp [Intracellular trafficking and secretion]; Region: Flp; COG3847 859655012903 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 859655012904 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 859655012905 transcriptional regulator EpsA; Region: EpsA; TIGR03020 859655012906 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 859655012907 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 859655012908 DNA binding residues [nucleotide binding] 859655012909 dimerization interface [polypeptide binding]; other site 859655012910 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 859655012911 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 859655012912 metal binding site [ion binding]; metal-binding site 859655012913 active site 859655012914 I-site; other site 859655012915 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 859655012916 H-NS histone family; Region: Histone_HNS; pfam00816 859655012917 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 859655012918 Cache domain; Region: Cache_2; pfam08269 859655012919 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 859655012920 dimer interface [polypeptide binding]; other site 859655012921 putative CheW interface [polypeptide binding]; other site 859655012922 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 859655012923 PAS fold; Region: PAS_3; pfam08447 859655012924 putative active site [active] 859655012925 heme pocket [chemical binding]; other site 859655012926 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 859655012927 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 859655012928 NAD binding site [chemical binding]; other site 859655012929 homodimer interface [polypeptide binding]; other site 859655012930 active site 859655012931 substrate binding site [chemical binding]; other site 859655012932 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 859655012933 active site 859655012934 Int/Topo IB signature motif; other site 859655012935 catalytic residues [active] 859655012936 DNA binding site [nucleotide binding] 859655012937 Trehalose-6-phosphatase [Carbohydrate transport and metabolism]; Region: OtsB; COG1877 859655012938 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 859655012939 active site 859655012940 motif I; other site 859655012941 motif II; other site 859655012942 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 859655012943 alpha,alpha-trehalose-phosphate synthase [UDP-forming]; Region: trehalose_OtsA; TIGR02400 859655012944 active site 859655012945 homotetramer interface [polypeptide binding]; other site 859655012946 Transcriptional regulators [Transcription]; Region: MarR; COG1846 859655012947 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 859655012948 putative DNA binding site [nucleotide binding]; other site 859655012949 putative Zn2+ binding site [ion binding]; other site 859655012950 peroxiredoxin, Ohr subfamily; Region: organ_hyd_perox; TIGR03561 859655012951 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 859655012952 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 859655012953 Ub domain fused to Mut7-C; Region: Ub-Mut7C; pfam14451 859655012954 Uncharacterized conserved protein [Function unknown]; Region: COG1656 859655012955 Protein of unknown function DUF82; Region: DUF82; pfam01927 859655012956 Transcriptional regulator [Transcription]; Region: LysR; COG0583 859655012957 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 859655012958 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 859655012959 putative effector binding pocket; other site 859655012960 putative dimerization interface [polypeptide binding]; other site 859655012961 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 859655012962 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 859655012963 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 859655012964 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 859655012965 HlyD family secretion protein; Region: HlyD_3; pfam13437 859655012966 AcrB/AcrD/AcrF family; Region: ACR_tran; pfam00873 859655012967 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 859655012968 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 859655012969 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 859655012970 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 859655012971 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 859655012972 Threonine aldolase [Amino acid transport and metabolism]; Region: GLY1; COG2008 859655012973 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 859655012974 tetramer interface [polypeptide binding]; other site 859655012975 pyridoxal 5'-phosphate binding site [chemical binding]; other site 859655012976 catalytic residue [active] 859655012977 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 859655012978 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 859655012979 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 859655012980 catalytic residue [active] 859655012981 Domain of unknown function (DUF4365); Region: DUF4365; pfam14280 859655012982 Tetratricopeptide repeat; Region: TPR_12; pfam13424 859655012983 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 859655012984 binding surface 859655012985 TPR motif; other site 859655012986 FOG: TPR repeat [General function prediction only]; Region: NrfG; COG0457 859655012987 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 859655012988 binding surface 859655012989 TPR motif; other site 859655012990 TPR repeat; Region: TPR_11; pfam13414 859655012991 2'-5' RNA ligase; Region: 2_5_ligase; TIGR02258 859655012992 Y-family of DNA polymerases; Region: PolY; cl12025 859655012993 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 859655012994 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 859655012995 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 859655012996 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 859655012997 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme 859655012998 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme 859655012999 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme 859655013000 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 859655013001 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD1; cd05283 859655013002 putative NAD(P) binding site [chemical binding]; other site 859655013003 putative substrate binding site [chemical binding]; other site 859655013004 catalytic Zn binding site [ion binding]; other site 859655013005 structural Zn binding site [ion binding]; other site 859655013006 dimer interface [polypeptide binding]; other site 859655013007 Transcriptional regulator [Transcription]; Region: LysR; COG0583 859655013008 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 859655013009 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 859655013010 putative effector binding pocket; other site 859655013011 dimerization interface [polypeptide binding]; other site 859655013012 Glycerol uptake facilitator and related permeases (Major Intrinsic Protein Family) [Carbohydrate transport and metabolism]; Region: GlpF; COG0580 859655013013 Asn-Pro-Ala signature motifs; other site 859655013014 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 859655013015 Low molecular weight phosphatase family; Region: LMWPc; cd00115 859655013016 active site 859655013017 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 859655013018 putative DNA binding site [nucleotide binding]; other site 859655013019 putative Zn2+ binding site [ion binding]; other site 859655013020 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 859655013021 nudix motif; other site 859655013022 Domain of unknown function (DUF4284); Region: DUF4284; pfam14112 859655013023 Domain of unknown function (DUF4303); Region: DUF4303; pfam14136 859655013024 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 859655013025 binding surface 859655013026 TPR motif; other site 859655013027 Tetratricopeptide repeat; Region: TPR_12; pfam13424 859655013028 PAAR motif; Region: PAAR_motif; pfam05488 859655013029 RHS Repeat; Region: RHS_repeat; cl11982 859655013030 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 859655013031 RHS Repeat; Region: RHS_repeat; pfam05593 859655013032 YD repeat (two copies); Region: YD_repeat_2x; TIGR01643 859655013033 RHS Repeat; Region: RHS_repeat; pfam05593 859655013034 YD repeat (two copies); Region: YD_repeat_2x; TIGR01643 859655013035 RHS Repeat; Region: RHS_repeat; pfam05593 859655013036 YD repeat (two copies); Region: YD_repeat_2x; TIGR01643 859655013037 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 859655013038 HNH/ENDO VII superfamily nuclease with conserved GHE residues; Region: GH-E; pfam14410 859655013039 Domain of unknown function (DUF1795); Region: DUF1795; cl02256 859655013040 PAAR motif; Region: PAAR_motif; pfam05488 859655013041 RHS Repeat; Region: RHS_repeat; cl11982 859655013042 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 859655013043 RHS Repeat; Region: RHS_repeat; pfam05593 859655013044 YD repeat (two copies); Region: YD_repeat_2x; TIGR01643 859655013045 RHS Repeat; Region: RHS_repeat; pfam05593 859655013046 YD repeat (two copies); Region: YD_repeat_2x; TIGR01643 859655013047 RHS Repeat; Region: RHS_repeat; pfam05593 859655013048 YD repeat (two copies); Region: YD_repeat_2x; TIGR01643 859655013049 RHS protein; Region: RHS; pfam03527 859655013050 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 859655013051 Uncharacterized conserved protein [Function unknown]; Region: COG5435 859655013052 Uncharacterized protein conserved in bacteria [Function unknown]; Region: VgrG; COG3501 859655013053 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 859655013054 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 859655013055 hypothetical protein; Provisional; Region: PRK09946 859655013056 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 859655013057 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 859655013058 substrate binding pocket [chemical binding]; other site 859655013059 membrane-bound complex binding site; other site 859655013060 hinge residues; other site 859655013061 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 859655013062 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 859655013063 DNA binding residues [nucleotide binding] 859655013064 dimerization interface [polypeptide binding]; other site 859655013065 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 859655013066 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 859655013067 DNA binding residues [nucleotide binding] 859655013068 Glutaminase [Amino acid transport and metabolism]; Region: GlsA; COG2066 859655013069 glutaminase; Provisional; Region: PRK00971 859655013070 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 859655013071 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 859655013072 putative PBP binding loops; other site 859655013073 dimer interface [polypeptide binding]; other site 859655013074 ABC-ATPase subunit interface; other site 859655013075 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 859655013076 Walker A/P-loop; other site 859655013077 ATP binding site [chemical binding]; other site 859655013078 ABC transporter; Region: ABC_tran; pfam00005 859655013079 Q-loop/lid; other site 859655013080 ABC transporter signature motif; other site 859655013081 Walker B; other site 859655013082 D-loop; other site 859655013083 H-loop/switch region; other site 859655013084 N-terminal domain of molybdenum-binding protein [General function prediction only]; Region: ModE; COG2005 859655013085 molybdenum-pterin binding domain; Region: Mop; TIGR00638 859655013086 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 859655013087 PAS domain S-box; Region: sensory_box; TIGR00229 859655013088 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 859655013089 putative active site [active] 859655013090 heme pocket [chemical binding]; other site 859655013091 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 859655013092 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 859655013093 metal binding site [ion binding]; metal-binding site 859655013094 active site 859655013095 I-site; other site 859655013096 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 859655013097 Flagellar biosynthesis protein, FliO; Region: FliO; cl01247 859655013098 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 859655013099 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 859655013100 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3813 859655013101 Protein of unknown function (DUF1272); Region: DUF1272; pfam06906 859655013102 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 859655013103 Ligand Binding Site [chemical binding]; other site 859655013104 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cd09916 859655013105 dimer interface [polypeptide binding]; other site 859655013106 DNA-binding transcriptional regulator BaeR; Provisional; Region: PRK10710 859655013107 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 859655013108 active site 859655013109 phosphorylation site [posttranslational modification] 859655013110 intermolecular recognition site; other site 859655013111 dimerization interface [polypeptide binding]; other site 859655013112 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 859655013113 DNA binding site [nucleotide binding] 859655013114 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 859655013115 dimerization interface [polypeptide binding]; other site 859655013116 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 859655013117 dimer interface [polypeptide binding]; other site 859655013118 phosphorylation site [posttranslational modification] 859655013119 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 859655013120 ATP binding site [chemical binding]; other site 859655013121 Mg2+ binding site [ion binding]; other site 859655013122 G-X-G motif; other site 859655013123 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 859655013124 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 859655013125 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4727 859655013126 Uncharacterized protein conserved in bacteria (DUF2145); Region: DUF2145; pfam09916 859655013127 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 859655013128 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 859655013129 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 859655013130 di-heme enzyme, MXAN_0977 family; Region: MXAN_0977_Heme2; TIGR04039 859655013131 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 859655013132 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 859655013133 active site 859655013134 metal binding site [ion binding]; metal-binding site 859655013135 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 859655013136 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 859655013137 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 859655013138 Transporter associated domain; Region: CorC_HlyC; pfam03471 859655013139 Di-haem cytochrome c peroxidase; Region: CCP_MauG; pfam03150 859655013140 Phospholipase C [Cell envelope biogenesis, outer membrane]; Region: PlcC; COG3511 859655013141 acid phosphatase, Burkholderia-type; Region: acid_phos_Burk; TIGR03397 859655013142 Dodecin; Region: Dodecin; pfam07311 859655013143 H+ Antiporter protein; Region: 2A0121; TIGR00900 859655013144 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 859655013145 putative substrate translocation pore; other site 859655013146 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 859655013147 PAS fold; Region: PAS_4; pfam08448 859655013148 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 859655013149 putative active site [active] 859655013150 heme pocket [chemical binding]; other site 859655013151 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 859655013152 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 859655013153 dimer interface [polypeptide binding]; other site 859655013154 phosphorylation site [posttranslational modification] 859655013155 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 859655013156 ATP binding site [chemical binding]; other site 859655013157 Mg2+ binding site [ion binding]; other site 859655013158 G-X-G motif; other site 859655013159 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 859655013160 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 859655013161 active site 859655013162 phosphorylation site [posttranslational modification] 859655013163 intermolecular recognition site; other site 859655013164 dimerization interface [polypeptide binding]; other site 859655013165 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 859655013166 Bacterial Ig-like domain (group 3); Region: Big_3_3; pfam13750 859655013167 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 859655013168 Bacterial Ig-like domain (group 3); Region: Big_3_3; pfam13750 859655013169 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 859655013170 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 859655013171 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 859655013172 type I secretion system ATPase, LssB family; Region: type_I_sec_LssB; TIGR03375 859655013173 Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various bacteriocins (mostly non-lantibiotic); Region: Peptidase_C39_like; cd02259 859655013174 putative active site [active] 859655013175 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 859655013176 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 859655013177 Walker A/P-loop; other site 859655013178 ATP binding site [chemical binding]; other site 859655013179 Q-loop/lid; other site 859655013180 ABC transporter signature motif; other site 859655013181 Walker B; other site 859655013182 D-loop; other site 859655013183 H-loop/switch region; other site 859655013184 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 859655013185 Peptidase family M23; Region: Peptidase_M23; pfam01551 859655013186 HlyD family secretion protein; Region: HlyD_3; pfam13437 859655013187 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 859655013188 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 859655013189 substrate binding site [chemical binding]; other site 859655013190 ATP binding site [chemical binding]; other site 859655013191 Predicted amino acid aldolase or racemase [Amino acid transport and metabolism]; Region: COG3616 859655013192 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Bacterial Cryptic D-Serine Dehydratase; Region: PLPDE_III_cryptic_DSD; cd06818 859655013193 dimer interface [polypeptide binding]; other site 859655013194 active site 859655013195 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 859655013196 substrate binding site [chemical binding]; other site 859655013197 catalytic residue [active] 859655013198 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 859655013199 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 859655013200 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 859655013201 putative active site [active] 859655013202 N-acyl-D-aspartate/D-glutamate deacylase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3653 859655013203 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 859655013204 active site 859655013205 putative substrate binding pocket [chemical binding]; other site 859655013206 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 859655013207 homotrimer interaction site [polypeptide binding]; other site 859655013208 putative active site [active] 859655013209 GntP family permease; Region: GntP_permease; pfam02447 859655013210 fructuronate transporter; Provisional; Region: PRK10034; cl15264 859655013211 keto-hydroxyglutarate-aldolase/keto-deoxy- phosphogluconate aldolase; Provisional; Region: PRK05718 859655013212 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 859655013213 active site 859655013214 intersubunit interface [polypeptide binding]; other site 859655013215 catalytic residue [active] 859655013216 3,4-dihydroxy-2-butanone 4-phosphate synthase; Provisional; Region: ribB; PRK03353 859655013217 3,4-dihydroxy-2-butanone 4-phosphate synthase [Coenzyme metabolism]; Region: RibB; COG0108 859655013218 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 859655013219 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 859655013220 DNA binding residues [nucleotide binding] 859655013221 dimerization interface [polypeptide binding]; other site 859655013222 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 859655013223 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl17364 859655013224 Putative hemolysin [General function prediction only]; Region: Hlx; COG3042 859655013225 Domain of unknown function (DUF333); Region: DUF333; pfam03891 859655013226 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 859655013227 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 859655013228 dimer interface [polypeptide binding]; other site 859655013229 phosphorylation site [posttranslational modification] 859655013230 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 859655013231 ATP binding site [chemical binding]; other site 859655013232 Mg2+ binding site [ion binding]; other site 859655013233 G-X-G motif; other site 859655013234 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 859655013235 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 859655013236 active site 859655013237 phosphorylation site [posttranslational modification] 859655013238 intermolecular recognition site; other site 859655013239 dimerization interface [polypeptide binding]; other site 859655013240 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 859655013241 DNA binding site [nucleotide binding] 859655013242 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 859655013243 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 859655013244 HlyD family secretion protein; Region: HlyD_3; pfam13437 859655013245 multidrug efflux system subunit MdtB; Provisional; Region: PRK10503 859655013246 Protein export membrane protein; Region: SecD_SecF; cl14618 859655013247 multidrug efflux system subunit MdtC; Provisional; Region: PRK10614 859655013248 Protein export membrane protein; Region: SecD_SecF; cl14618 859655013249 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 859655013250 Lipid A 3-O-deacylase (PagL); Region: PagL; pfam09411 859655013251 PAS domain S-box; Region: sensory_box; TIGR00229 859655013252 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 859655013253 putative active site [active] 859655013254 heme pocket [chemical binding]; other site 859655013255 PAS fold; Region: PAS_3; pfam08447 859655013256 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 859655013257 putative active site [active] 859655013258 heme pocket [chemical binding]; other site 859655013259 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 859655013260 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 859655013261 metal binding site [ion binding]; metal-binding site 859655013262 active site 859655013263 I-site; other site 859655013264 Flagellar protein YcgR; Region: YcgR_2; pfam12945 859655013265 PilZ domain; Region: PilZ; pfam07238 859655013266 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 859655013267 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 859655013268 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 859655013269 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 859655013270 metal binding site [ion binding]; metal-binding site 859655013271 active site 859655013272 I-site; other site 859655013273 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 859655013274 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cl00144 859655013275 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 859655013276 dimerization interface [polypeptide binding]; other site 859655013277 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 859655013278 dimer interface [polypeptide binding]; other site 859655013279 putative CheW interface [polypeptide binding]; other site 859655013280 Predicted small secreted protein [Function unknown]; Region: COG5510 859655013281 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 859655013282 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 859655013283 putative active site [active] 859655013284 catalytic site [active] 859655013285 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 859655013286 putative active site [active] 859655013287 catalytic site [active] 859655013288 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 859655013289 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Bacillus subtilis yoeA; Region: MATE_yoeA_like; cd13138 859655013290 Uncharacterized protein conserved in bacteria (DUF2239); Region: DUF2239; pfam09998 859655013291 FOG: Ankyrin repeat [General function prediction only]; Region: Arp; COG0666 859655013292 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 859655013293 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 859655013294 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 859655013295 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 859655013296 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 859655013297 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 859655013298 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 859655013299 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 859655013300 [4Fe-4S] binding site [ion binding]; other site 859655013301 molybdopterin cofactor binding site; other site 859655013302 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 859655013303 molybdopterin cofactor binding site; other site 859655013304 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 859655013305 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 859655013306 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 859655013307 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 859655013308 nitrite reductase subunit NirD; Provisional; Region: PRK14989 859655013309 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 859655013310 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 859655013311 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 859655013312 Nitrate/nitrite transporter [Inorganic ion transport and metabolism]; Region: NarK; COG2223 859655013313 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 859655013314 putative substrate translocation pore; other site 859655013315 PAS domain; Region: PAS_9; pfam13426 859655013316 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 859655013317 putative active site [active] 859655013318 heme pocket [chemical binding]; other site 859655013319 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 859655013320 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 859655013321 dimer interface [polypeptide binding]; other site 859655013322 putative CheW interface [polypeptide binding]; other site 859655013323 Isopentenyl transferase; Region: IPT; pfam01745 859655013324 Oxidoreductin, endoplasmic reticulum membrane-associated protein involved in disulfide bond formation [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ERO1; COG5061 859655013325 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 859655013326 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 859655013327 Catalytic domain of Streptomyces antibioticus phosphatidylinositol-specific phospholipase C1-like proteins; Region: PI-PLCc_SaPLC1_like; cd08589 859655013328 putative active site [active] 859655013329 catalytic site [active] 859655013330 putative metal binding site [ion binding]; other site 859655013331 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 859655013332 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 859655013333 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 859655013334 dimer interface [polypeptide binding]; other site 859655013335 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 859655013336 metal binding site [ion binding]; metal-binding site 859655013337 Demethylmenaquinone methyltransferase [Coenzyme metabolism]; Region: MenG; COG0684 859655013338 aspartate aminotransferase; Provisional; Region: PRK05764 859655013339 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 859655013340 pyridoxal 5'-phosphate binding site [chemical binding]; other site 859655013341 homodimer interface [polypeptide binding]; other site 859655013342 catalytic residue [active] 859655013343 Demethylmenaquinone methyltransferase [Coenzyme metabolism]; Region: MenG; COG0684 859655013344 Demethylmenaquinone methyltransferase [Coenzyme metabolism]; Region: MenG; COG0684 859655013345 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 859655013346 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 859655013347 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 859655013348 dimerization interface [polypeptide binding]; other site 859655013349 substrate binding pocket [chemical binding]; other site 859655013350 Transcriptional regulator [Transcription]; Region: LysR; COG0583 859655013351 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 859655013352 LysR substrate binding domain; Region: LysR_substrate; pfam03466 859655013353 dimerization interface [polypeptide binding]; other site 859655013354 Uncharacterized conserved protein [Function unknown]; Region: COG2353 859655013355 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type ph : phenotype 859655013356 Transglycosylase SLT domain; Region: SLT_2; pfam13406 859655013357 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 859655013358 N-acetyl-D-glucosamine binding site [chemical binding]; other site 859655013359 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 859655013360 Predicted transcriptional regulators [Transcription]; Region: COG1510 859655013361 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 859655013362 dimerization interface [polypeptide binding]; other site 859655013363 putative DNA binding site [nucleotide binding]; other site 859655013364 putative Zn2+ binding site [ion binding]; other site 859655013365 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 859655013366 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 859655013367 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 859655013368 2-dehydropantoate 2-reductase; Provisional; Region: PRK08229 859655013369 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 859655013370 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 859655013371 SGNH_hydrolase subfamily, similar to arylesterase (7-aminocephalosporanic acid-deacetylating enzyme) of A. tumefaciens. SGNH hydrolases are a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of...; Region: SGNH_arylesterase_like; cd01839 859655013372 active site 859655013373 catalytic triad [active] 859655013374 oxyanion hole [active] 859655013375 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 859655013376 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 859655013377 active site 859655013378 metal binding site [ion binding]; metal-binding site 859655013379 PGDYG protein; Region: PGDYG; pfam14083 859655013380 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 859655013381 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 859655013382 non-specific DNA binding site [nucleotide binding]; other site 859655013383 salt bridge; other site 859655013384 sequence-specific DNA binding site [nucleotide binding]; other site 859655013385 HipA N-terminal domain; Region: Couple_hipA; pfam13657 859655013386 Toxin module HipA, protein kinase of phosphatidylinositol 3/4-kinase superfamily [General function prediction only]; Region: HipA; COG3550 859655013387 HipA-like N-terminal domain; Region: HipA_N; pfam07805 859655013388 HipA-like C-terminal domain; Region: HipA_C; pfam07804 859655013389 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3662 859655013390 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 859655013391 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 859655013392 LysR family transcriptional regulator; Provisional; Region: PRK14997 859655013393 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 859655013394 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 859655013395 putative effector binding pocket; other site 859655013396 putative dimerization interface [polypeptide binding]; other site 859655013397 Acyl carrier protein phosphodiesterase [Lipid metabolism]; Region: AcpD; COG1182 859655013398 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 859655013399 Beta-lactamase; Region: Beta-lactamase; cl17358 859655013400 Protein of unknown function (DUF1488); Region: DUF1488; pfam07369 859655013401 Aspartate oxidase [Coenzyme metabolism]; Region: NadB; COG0029 859655013402 L-aspartate oxidase; Provisional; Region: PRK06175 859655013403 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 859655013404 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 859655013405 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 859655013406 Uncharacterized subfamily of medium-chain acyl-CoA synthetase (MACS); Region: MACS_like_1; cd05974 859655013407 active site 859655013408 acyl-activating enzyme (AAE) consensus motif; other site 859655013409 putative CoA binding site [chemical binding]; other site 859655013410 AMP binding site [chemical binding]; other site 859655013411 Transcriptional regulator [Transcription]; Region: LysR; COG0583 859655013412 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 859655013413 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 859655013414 putative dimerization interface [polypeptide binding]; other site 859655013415 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 859655013416 Evidence 4 : Homologs of previously reported genes of unknown function 859655013417 Evidence 4 : Homologs of previously reported genes of unknown function 859655013418 Evidence 4 : Homologs of previously reported genes of unknown function 859655013419 Archaeal ATPase; Region: Arch_ATPase; pfam01637 859655013420 Conserved TM helix; Region: TM_helix; pfam05552 859655013421 Conserved TM helix; Region: TM_helix; pfam05552 859655013422 Conserved TM helix; Region: TM_helix; pfam05552 859655013423 hypothetical protein; Provisional; Region: PRK02237 859655013424 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 859655013425 Family description; Region: UvrD_C_2; pfam13538 859655013426 putative transporter; Provisional; Region: PRK10504 859655013427 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 859655013428 putative substrate translocation pore; other site 859655013429 fumarate hydratase; Reviewed; Region: fumC; PRK00485 859655013430 Class II fumarases; Region: Fumarase_classII; cd01362 859655013431 active site 859655013432 tetramer interface [polypeptide binding]; other site 859655013433 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 859655013434 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 859655013435 putative substrate binding site [chemical binding]; other site 859655013436 putative ATP binding site [chemical binding]; other site 859655013437 Pathogenicity factor; Region: AvrE; pfam11725 859655013438 Phosphotransferase system IIA components [Carbohydrate transport and metabolism]; Region: NagE; COG2190 859655013439 HPr interaction site; other site 859655013440 glycerol kinase (GK) interaction site [polypeptide binding]; other site 859655013441 active site 859655013442 phosphorylation site [posttranslational modification] 859655013443 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 859655013444 dimerization domain swap beta strand [polypeptide binding]; other site 859655013445 regulatory protein interface [polypeptide binding]; other site 859655013446 active site 859655013447 regulatory phosphorylation site [posttranslational modification]; other site 859655013448 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 859655013449 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 859655013450 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 859655013451 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 859655013452 Maltoporin (phage lambda and maltose receptor) [Carbohydrate transport and metabolism]; Region: LamB; COG4580 859655013453 Beta-fructosidases (levanase/invertase) [Carbohydrate transport and metabolism]; Region: SacC; COG1621 859655013454 Glycosyl hydrolase family 32, beta-fructosidases; Region: GH32_B_Fructosidase; cd08996 859655013455 substrate binding [chemical binding]; other site 859655013456 active site 859655013457 Glycosyl hydrolases family 32 C terminal; Region: Glyco_hydro_32C; pfam08244 859655013458 PTS system, sucrose-specific IIBC component; Region: PTS-II-BC-sucr; TIGR01996 859655013459 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 859655013460 active site turn [active] 859655013461 phosphorylation site [posttranslational modification] 859655013462 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 859655013463 Transcriptional regulators [Transcription]; Region: PurR; COG1609 859655013464 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 859655013465 DNA binding site [nucleotide binding] 859655013466 domain linker motif; other site 859655013467 Ligand-binding domain of DNA transcription repressor specific for trehalose (TreR) which is a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_TreR_like; cd01542 859655013468 dimerization interface [polypeptide binding]; other site 859655013469 ligand binding site [chemical binding]; other site 859655013470 Tfp pilus assembly protein PilE [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilE; COG4968 859655013471 Tfp pilus assembly protein, tip-associated adhesin PilY1 [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilY1; COG3419 859655013472 legume lectins; Region: lectin_L-type; cl14058 859655013473 homotetramer interaction site [polypeptide binding]; other site 859655013474 carbohydrate binding site [chemical binding]; other site 859655013475 metal binding site [ion binding]; metal-binding site 859655013476 Neisseria PilC beta-propeller domain; Region: Neisseria_PilC; pfam05567 859655013477 Tfp pilus assembly protein PilX [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilX; COG4726 859655013478 PilX N-terminal; Region: PilX_N; pfam14341 859655013479 Tfp pilus assembly protein PilW [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilW; COG4966 859655013480 Tfp pilus assembly protein PilV [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilV; COG4967 859655013481 Tfp pilus assembly protein FimT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimT; COG4970 859655013482 Type II transport protein GspH; Region: GspH; pfam12019 859655013483 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 859655013484 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 859655013485 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 859655013486 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 859655013487 putative CheW interface [polypeptide binding]; other site 859655013488 Protein of unknown function (DUF1016); Region: DUF1016; pfam06250 859655013489 Predicted nuclease of restriction endonuclease-like fold [General function prediction only]; Region: COG4804 859655013490 Predicted nuclease of restriction endonuclease-like fold [General function prediction only]; Region: COG4804 859655013491 S-adenosylmethionine decarboxylase [Amino acid transport and metabolism]; Region: SpeD; COG1586 859655013492 Domain of unknown function (DUF4178); Region: DUF4178; pfam13785 859655013493 Double zinc ribbon; Region: DZR; pfam12773 859655013494 Domain of unknown function (DUF4178); Region: DUF4178; pfam13785 859655013495 Membrane protease subunit, stomatin/prohibitin family [Amino acid transport and metabolism]; Region: COG4260 859655013496 A subgroup of the band 7 domain of flotillin (reggie) like proteins. This subgroup contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. Many of these band 7 domain-containing proteins are lipid raft-associated. Individual...; Region: Band_7_5; cd03408 859655013497 Short C-terminal domain; Region: SHOCT; pfam09851 859655013498 Predicted membrane protein [Function unknown]; Region: COG3766 859655013499 Domain of Unknown Function (DUF350); Region: DUF350; pfam03994 859655013500 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 859655013501 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 859655013502 putative ligand binding site [chemical binding]; other site 859655013503 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 859655013504 TM-ABC transporter signature motif; other site 859655013505 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 859655013506 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 859655013507 TM-ABC transporter signature motif; other site 859655013508 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 859655013509 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 859655013510 Walker A/P-loop; other site 859655013511 ATP binding site [chemical binding]; other site 859655013512 Q-loop/lid; other site 859655013513 ABC transporter signature motif; other site 859655013514 Walker B; other site 859655013515 D-loop; other site 859655013516 H-loop/switch region; other site 859655013517 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 859655013518 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 859655013519 Walker A/P-loop; other site 859655013520 ATP binding site [chemical binding]; other site 859655013521 Q-loop/lid; other site 859655013522 ABC transporter signature motif; other site 859655013523 Walker B; other site 859655013524 D-loop; other site 859655013525 H-loop/switch region; other site 859655013526 Predicted spermidine synthase with an N-terminal membrane domain [General function prediction only]; Region: COG4262 859655013527 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 859655013528 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 859655013529 Flavin containing amine oxidoreductase; Region: Amino_oxidase; pfam01593 859655013530 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 859655013531 Predicted membrane protein [Function unknown]; Region: COG3759 859655013532 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 859655013533 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 859655013534 C-terminal, alpha helical domain of an unknown subfamily 5 of Glutathione S-transferases; Region: GST_C_5; cd03196 859655013535 putative N-terminal domain interface [polypeptide binding]; other site 859655013536 putative dimer interface [polypeptide binding]; other site 859655013537 putative substrate binding pocket (H-site) [chemical binding]; other site 859655013538 AAA domain; Region: AAA_23; pfam13476 859655013539 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 859655013540 Walker A/P-loop; other site 859655013541 ATP binding site [chemical binding]; other site 859655013542 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4487 859655013543 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; cl03075 859655013544 Uncharacterized protein conserved in bacteria (DUF2130); Region: DUF2130; pfam09903 859655013545 Protein of unknown function (DUF1311); Region: DUF1311; pfam07007 859655013546 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 859655013547 Coenzyme A binding pocket [chemical binding]; other site 859655013548 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 859655013549 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 859655013550 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 859655013551 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 859655013552 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 859655013553 dimerization interface [polypeptide binding]; other site 859655013554 substrate binding pocket [chemical binding]; other site 859655013555 Isochorismatase family; Region: Isochorismatase; pfam00857 859655013556 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 859655013557 catalytic triad [active] 859655013558 conserved cis-peptide bond; other site 859655013559 drug efflux system protein MdtG; Provisional; Region: PRK09874 859655013560 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 859655013561 putative substrate translocation pore; other site 859655013562 Transcriptional regulators [Transcription]; Region: GntR; COG1802 859655013563 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 859655013564 DNA-binding site [nucleotide binding]; DNA binding site 859655013565 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 859655013566 SnoaL-like domain; Region: SnoaL_2; pfam12680 859655013567 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 859655013568 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 859655013569 active site 859655013570 catalytic tetrad [active] 859655013571 Predicted naringenin-chalcone synthase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: BcsA; COG3424 859655013572 Chalcone and stilbene synthases; plant-specific polyketide synthases (PKS) and related enzymes, also called type III PKSs. PKS generate an array of different products, dependent on the nature of the starter molecule. They share a common chemical strategy; Region: CHS_like; cd00831 859655013573 malonyl-CoA binding site [chemical binding]; other site 859655013574 dimer interface [polypeptide binding]; other site 859655013575 active site 859655013576 product binding site; other site 859655013577 Evidence 2b : Function of strongly homologous gene; Product type h : extrachromosomal origin 859655013578 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme 859655013579 Evidence 4 : Homologs of previously reported genes of unknown function 859655013580 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 859655013581 putative chaperone; Provisional; Region: PRK11678 859655013582 Escherichia coli YegD, a putative chaperone protein, and related proteins; Region: YegD_like; cd10231 859655013583 nucleotide binding site [chemical binding]; other site 859655013584 putative NEF/HSP70 interaction site [polypeptide binding]; other site 859655013585 SBD interface [polypeptide binding]; other site 859655013586 Outer membrane efflux protein; Region: OEP; pfam02321 859655013587 copper/silver efflux system membrane fusion protein CusB; Provisional; Region: PRK09783 859655013588 HlyD family secretion protein; Region: HlyD_3; pfam13437 859655013589 Copper binding periplasmic protein CusF; Region: CusF_Ec; pfam11604 859655013590 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 859655013591 Uncharacterized conserved protein [Function unknown]; Region: COG5569 859655013592 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 859655013593 FAD binding domain; Region: FAD_binding_4; pfam01565 859655013594 Berberine and berberine like; Region: BBE; pfam08031 859655013595 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 859655013596 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LCLAT1-like; Region: LPLAT_LCLAT1-like; cd07990 859655013597 putative acyl-acceptor binding pocket; other site 859655013598 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 859655013599 ApbE family; Region: ApbE; pfam02424 859655013600 Cytochrome c5 [Energy production and conversion]; Region: CycB; COG3245 859655013601 nitrous-oxide reductase; Validated; Region: PRK02888 859655013602 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 859655013603 Regulator of nitric oxide reductase transcription [Transcription]; Region: NosR; COG3901 859655013604 Polyferredoxin [Energy production and conversion]; Region: NapH; COG0348 859655013605 4Fe-4S binding domain; Region: Fer4_5; pfam12801 859655013606 Nitrous oxidase accessory protein [Inorganic ion transport and metabolism]; Region: NosD; COG3420 859655013607 parallel beta-helix repeat (two copies); Region: para_beta_helix; TIGR03804 859655013608 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 859655013609 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 859655013610 Walker A/P-loop; other site 859655013611 ATP binding site [chemical binding]; other site 859655013612 Q-loop/lid; other site 859655013613 ABC transporter signature motif; other site 859655013614 Walker B; other site 859655013615 D-loop; other site 859655013616 H-loop/switch region; other site 859655013617 ABC-type transport system involved in multi-copper enzyme maturation, permease component [General function prediction only]; Region: NosY; COG1277 859655013618 NosL; Region: NosL; cl01769 859655013619 hypothetical protein; Validated; Region: PRK09169 859655013620 RelA- and SpoT-like ppGpp Synthetases and Hydrolases, catalytic domain; Region: Rel-Spo_like; cl11966 859655013621 metal binding triad [ion binding]; metal-binding site 859655013622 Predicted membrane protein [Function unknown]; Region: COG4541 859655013623 Predicted branched-chain amino acid permease (azaleucine resistance) [Amino acid transport and metabolism]; Region: AzlC; COG1296 859655013624 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 859655013625 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 859655013626 putative DNA binding site [nucleotide binding]; other site 859655013627 putative Zn2+ binding site [ion binding]; other site 859655013628 AsnC family; Region: AsnC_trans_reg; pfam01037 859655013629 Predicted protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: COG3531 859655013630 DsbA family, FrnE-like subfamily; composed of uncharacterized proteins containing a CXXC motif with similarity to DsbA and FrnE. FrnE is presumed to be a thiol oxidoreductase involved in polyketide biosynthesis, specifically in the production of the...; Region: DsbA_FrnE_like; cd03025 859655013631 catalytic residues [active] 859655013632 hypothetical protein; Provisional; Region: PRK07236 859655013633 2-polyprenyl-6-methoxyphenol hydroxylase and related FAD-dependent oxidoreductases [Coenzyme metabolism / Energy production and conversion]; Region: UbiH; COG0654 859655013634 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 859655013635 transcriptional activator TtdR; Provisional; Region: PRK09801 859655013636 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 859655013637 putative effector binding pocket; other site 859655013638 dimerization interface [polypeptide binding]; other site 859655013639 Predicted dithiol-disulfide isomerase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FrnE; COG2761 859655013640 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 859655013641 catalytic residues [active] 859655013642 ChrR Cupin-like domain; Region: Cupin_7; pfam12973 859655013643 SnoaL-like domain; Region: SnoaL_4; pfam13577 859655013644 luciferase-type oxidoreductase, BA3436 family; Region: lucif_BA3436; TIGR03571 859655013645 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 859655013646 Transcriptional regulator [Transcription]; Region: LysR; COG0583 859655013647 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 859655013648 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 859655013649 putative effector binding pocket; other site 859655013650 dimerization interface [polypeptide binding]; other site 859655013651 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 859655013652 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 859655013653 FMN binding site [chemical binding]; other site 859655013654 active site 859655013655 substrate binding site [chemical binding]; other site 859655013656 catalytic residue [active] 859655013657 luciferase family oxidoreductase, group 1; Region: oxido_grp_1; TIGR03558 859655013658 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 859655013659 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cd00347 859655013660 mercuric reductase; Validated; Region: PRK06370 859655013661 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 859655013662 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 859655013663 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 859655013664 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 859655013665 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 859655013666 PhnA protein; Region: PhnA; pfam03831 859655013667 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 859655013668 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 859655013669 substrate binding pocket [chemical binding]; other site 859655013670 membrane-bound complex binding site; other site 859655013671 hinge residues; other site 859655013672 YGGT family; Region: YGGT; pfam02325 859655013673 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 859655013674 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 859655013675 flagellar biosynthesis sigma factor; Validated; Region: fliA; PRK06986 859655013676 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 859655013677 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 859655013678 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 859655013679 DNA binding residues [nucleotide binding] 859655013680 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 859655013681 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 859655013682 flagellar biosynthesis regulator FlhF; Validated; Region: flhF; PRK06995 859655013683 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 859655013684 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 859655013685 FHIPEP family; Region: FHIPEP; pfam00771 859655013686 Flagellar biosynthesis pathway, component FlhB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlhB; COG1377 859655013687 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 859655013688 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 859655013689 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 859655013690 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 859655013691 D-galactonate transporter; Region: 2A0114; TIGR00893 859655013692 putative substrate translocation pore; other site 859655013693 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 859655013694 Dehydroquinase class II; Region: DHquinase_II; pfam01220 859655013695 trimer interface [polypeptide binding]; other site 859655013696 active site 859655013697 shikimate 5-dehydrogenase; Reviewed; Region: PRK12549 859655013698 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 859655013699 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 859655013700 shikimate binding site; other site 859655013701 NAD(P) binding site [chemical binding]; other site 859655013702 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 859655013703 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 859655013704 trimer interface [polypeptide binding]; other site 859655013705 eyelet of channel; other site 859655013706 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 859655013707 4-hydroxyphenylpyruvate dioxygenase; Region: 4HPPD; TIGR01263 859655013708 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 859655013709 dimer interface [polypeptide binding]; other site 859655013710 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 859655013711 active site 859655013712 Fe binding site [ion binding]; other site 859655013713 chemotaxis regulator CheZ; Provisional; Region: PRK11166 859655013714 chemotaxis regulatory protein CheY; Provisional; Region: PRK10610 859655013715 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 859655013716 active site 859655013717 phosphorylation site [posttranslational modification] 859655013718 intermolecular recognition site; other site 859655013719 dimerization interface [polypeptide binding]; other site 859655013720 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 859655013721 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 859655013722 active site 859655013723 phosphorylation site [posttranslational modification] 859655013724 intermolecular recognition site; other site 859655013725 dimerization interface [polypeptide binding]; other site 859655013726 CheB methylesterase; Region: CheB_methylest; pfam01339 859655013727 CheD chemotactic sensory transduction; Region: CheD; cl00810 859655013728 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 859655013729 chemotaxis methyltransferase CheR; Provisional; Region: PRK10611 859655013730 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 859655013731 Evidence 7 : Gene remnant; Product type e : enzyme 859655013732 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 859655013733 ligand binding domain of Tar- and Tsr-related chemoreceptors; Region: Tar_Tsr_LBD; cd00181 859655013734 dimer interface [polypeptide binding]; other site 859655013735 ligand binding site [chemical binding]; other site 859655013736 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 859655013737 dimerization interface [polypeptide binding]; other site 859655013738 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 859655013739 dimer interface [polypeptide binding]; other site 859655013740 putative CheW interface [polypeptide binding]; other site 859655013741 CheW, a small regulator protein, unique to the chemotaxis signalling in prokaryotes and archea. CheW interacts with the histidine kinase CheA, most likely with the related regulatory domain of CheA. CheW is proposed to form signalling arrays together...; Region: CheW; cd00732 859655013742 putative CheA interaction surface; other site 859655013743 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 859655013744 putative binding surface; other site 859655013745 active site 859655013746 CheY binding; Region: CheY-binding; pfam09078 859655013747 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 859655013748 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 859655013749 ATP binding site [chemical binding]; other site 859655013750 Mg2+ binding site [ion binding]; other site 859655013751 G-X-G motif; other site 859655013752 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 859655013753 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 859655013754 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 859655013755 active site 859655013756 phosphorylation site [posttranslational modification] 859655013757 intermolecular recognition site; other site 859655013758 dimerization interface [polypeptide binding]; other site 859655013759 flagellar motor protein MotB; Validated; Region: motB; PRK09041 859655013760 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 859655013761 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 859655013762 ligand binding site [chemical binding]; other site 859655013763 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 859655013764 flagellar motor protein MotA; Validated; Region: PRK09110 859655013765 transcriptional activator FlhC; Provisional; Region: PRK12722 859655013766 transcriptional activator FlhD; Provisional; Region: PRK02909 859655013767 Predicted periplasmic protein [Function unknown]; Region: COG3904 859655013768 Uncharacterized conserved protein [Function unknown]; Region: COG4104 859655013769 Protein of unknown function (DUF3274); Region: DUF3274; pfam11678 859655013770 Uncharacterized protein conserved in bacteria [Function unknown]; Region: VgrG; COG3501 859655013771 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 859655013772 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 859655013773 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 859655013774 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4253 859655013775 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 859655013776 CoA-transferase family III; Region: CoA_transf_3; pfam02515 859655013777 Tannase and feruloyl esterase; Region: Tannase; pfam07519 859655013778 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 859655013779 HSP70 interaction site [polypeptide binding]; other site 859655013780 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 859655013781 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 859655013782 dimer interface [polypeptide binding]; other site 859655013783 phosphorylation site [posttranslational modification] 859655013784 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 859655013785 ATP binding site [chemical binding]; other site 859655013786 Mg2+ binding site [ion binding]; other site 859655013787 G-X-G motif; other site 859655013788 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 859655013789 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 859655013790 active site 859655013791 phosphorylation site [posttranslational modification] 859655013792 intermolecular recognition site; other site 859655013793 dimerization interface [polypeptide binding]; other site 859655013794 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 859655013795 DNA binding site [nucleotide binding] 859655013796 Uncharacterized protein conserved in bacteria with a cystatin-like fold [Function unknown]; Region: COG4875 859655013797 SnoaL-like domain; Region: SnoaL_3; pfam13474 859655013798 cyclopropane fatty acyl phospholipid synthase; Provisional; Region: PRK11705 859655013799 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 859655013800 S-adenosylmethionine binding site [chemical binding]; other site 859655013801 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 859655013802 Type I periplasmic binding domain of uncharacterized extracellular ligand-binding proteins; Region: PBP1_STKc_like; cd06326 859655013803 putative ligand binding site [chemical binding]; other site 859655013804 pyruvate kinase; Provisional; Region: PRK06247 859655013805 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 859655013806 domain interfaces; other site 859655013807 active site 859655013808 Putative glycerate kinase [Carbohydrate transport and metabolism]; Region: GckA; COG2379 859655013809 Domain of unknown function (DUF4147); Region: DUF4147; pfam13660 859655013810 MOFRL family; Region: MOFRL; pfam05161 859655013811 Transcriptional regulator [Transcription]; Region: LysR; COG0583 859655013812 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 859655013813 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 859655013814 dimerization interface [polypeptide binding]; other site 859655013815 DNA-binding transcriptional activator FeaR; Provisional; Region: PRK09685 859655013816 Arginase-like amidino hydrolase family; Region: Arginase-like_1; cd09999 859655013817 active site 859655013818 Mn binding site [ion binding]; other site 859655013819 Evidence 2b : Function of strongly homologous gene; Product type h : extrachromosomal origin 859655013820 Protein of unknown function (DUF2750); Region: DUF2750; pfam11042 859655013821 Part of AAA domain; Region: AAA_19; pfam13245 859655013822 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 859655013823 Superfamily I DNA and RNA helicases and helicase subunits [DNA replication, recombination, and repair]; Region: COG1112 859655013824 AAA domain; Region: AAA_12; pfam13087 859655013825 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 859655013826 putative active site [active] 859655013827 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 859655013828 Zn2+ binding site [ion binding]; other site 859655013829 Mg2+ binding site [ion binding]; other site 859655013830 AAA domain; Region: AAA_33; pfam13671 859655013831 AAA domain; Region: AAA_17; pfam13207 859655013832 RNA ligase; Region: RNA_ligase; pfam09414 859655013833 Cytochrome c [Energy production and conversion]; Region: COG3258 859655013834 Cytochrome c; Region: Cytochrom_C; pfam00034 859655013835 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 859655013836 HAMP domain; Region: HAMP; pfam00672 859655013837 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 859655013838 dimer interface [polypeptide binding]; other site 859655013839 phosphorylation site [posttranslational modification] 859655013840 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 859655013841 ATP binding site [chemical binding]; other site 859655013842 Mg2+ binding site [ion binding]; other site 859655013843 G-X-G motif; other site 859655013844 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 859655013845 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 859655013846 active site 859655013847 phosphorylation site [posttranslational modification] 859655013848 intermolecular recognition site; other site 859655013849 dimerization interface [polypeptide binding]; other site 859655013850 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 859655013851 DNA binding site [nucleotide binding] 859655013852 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 859655013853 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 859655013854 HlyD family secretion protein; Region: HlyD_3; pfam13437 859655013855 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 859655013856 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 859655013857 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 859655013858 active site 859655013859 Outer membrane efflux protein; Region: OEP; pfam02321 859655013860 Outer membrane efflux protein; Region: OEP; pfam02321 859655013861 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 859655013862 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 859655013863 HlyD family secretion protein; Region: HlyD_3; pfam13437 859655013864 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 859655013865 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 859655013866 Walker A/P-loop; other site 859655013867 ATP binding site [chemical binding]; other site 859655013868 Q-loop/lid; other site 859655013869 ABC transporter signature motif; other site 859655013870 Walker B; other site 859655013871 D-loop; other site 859655013872 H-loop/switch region; other site 859655013873 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 859655013874 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 859655013875 FtsX-like permease family; Region: FtsX; pfam02687 859655013876 Protein involved in meta-pathway of phenol degradation [Energy production and conversion]; Region: COG4313 859655013877 3D domain; Region: 3D; pfam06725 859655013878 DNA-binding HTH domain-containing proteins [Transcription]; Region: CsgD; COG2771 859655013879 Transcriptional regulator [Transcription]; Region: LysR; COG0583 859655013880 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 859655013881 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 859655013882 putative effector binding pocket; other site 859655013883 putative dimerization interface [polypeptide binding]; other site 859655013884 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 859655013885 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 859655013886 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 859655013887 active site 859655013888 catalytic tetrad [active] 859655013889 Protein of unknown function (DUF3348); Region: DUF3348; pfam11828 859655013890 Domain of unknown function (DUF802); Region: DUF802; pfam05650 859655013891 Domain of unknown function (DUF802); Region: DUF802; pfam05650 859655013892 hypothetical protein; Provisional; Region: PRK09040 859655013893 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 859655013894 ligand binding site [chemical binding]; other site 859655013895 Protein of unknown function (DUF2894); Region: DUF2894; pfam11445 859655013896 Predicted flavoprotein [General function prediction only]; Region: COG0431 859655013897 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 859655013898 Kef-type K+ transport system, predicted NAD-binding component [Inorganic ion transport and metabolism]; Region: RosB; COG4651 859655013899 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology 859655013900 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 859655013901 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 859655013902 Cu(I) binding site [ion binding]; other site 859655013903 Uncharacterized conserved protein [Function unknown]; Region: COG1262 859655013904 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 859655013905 nitrite reductase, copper-containing; Region: Cu_nitrite_red; TIGR02376 859655013906 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 859655013907 Multicopper oxidase; Region: Cu-oxidase; pfam00394 859655013908 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 859655013909 Cytochrome c; Region: Cytochrom_C; pfam00034 859655013910 Uncharacterized conserved protein [Function unknown]; Region: COG4309 859655013911 Nitric oxide reductase large subunit [Inorganic ion transport and metabolism]; Region: NorB; COG3256 859655013912 Heme-copper oxidase subunit I. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which catalyze the reduction of O2 and simultaneously pump protons across the membrane. The superfamily is...; Region: Heme_Cu_Oxidase_I; cl00275 859655013913 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 859655013914 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 859655013915 DNA-binding site [nucleotide binding]; DNA binding site 859655013916 UTRA domain; Region: UTRA; pfam07702 859655013917 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 859655013918 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 859655013919 Walker A/P-loop; other site 859655013920 ATP binding site [chemical binding]; other site 859655013921 Q-loop/lid; other site 859655013922 ABC transporter signature motif; other site 859655013923 Walker B; other site 859655013924 D-loop; other site 859655013925 H-loop/switch region; other site 859655013926 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 859655013927 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 859655013928 putative PBP binding loops; other site 859655013929 ABC-ATPase subunit interface; other site 859655013930 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 859655013931 NMT1-like family; Region: NMT1_2; pfam13379 859655013932 Protein of unknown function, DUF488; Region: DUF488; cl01246 859655013933 F0F1 ATP synthase subunit B; Validated; Region: PRK08475 859655013934 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 859655013935 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 859655013936 metal binding site [ion binding]; metal-binding site 859655013937 active site 859655013938 I-site; other site 859655013939 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 859655013940 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 859655013941 DNA binding residues [nucleotide binding] 859655013942 dimerization interface [polypeptide binding]; other site 859655013943 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 859655013944 Transcriptional regulator [Transcription]; Region: LysR; COG0583 859655013945 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 859655013946 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 859655013947 dimerization interface [polypeptide binding]; other site 859655013948 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 859655013949 homotrimer interaction site [polypeptide binding]; other site 859655013950 putative active site [active] 859655013951 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 859655013952 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 859655013953 tetramer interface [polypeptide binding]; other site 859655013954 pyridoxal 5'-phosphate binding site [chemical binding]; other site 859655013955 catalytic residue [active] 859655013956 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2964 859655013957 YheO-like PAS domain; Region: PAS_6; pfam08348 859655013958 HTH domain; Region: HTH_22; pfam13309 859655013959 Protein of unknown function (DUF3761); Region: DUF3761; pfam12587 859655013960 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 859655013961 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 859655013962 Sulfate transporter family; Region: Sulfate_transp; pfam00916 859655013963 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 859655013964 Uncharacterized conserved protein [Function unknown]; Region: COG4278 859655013965 Type IV secretory pathway, VirJ component [Intracellular trafficking and secretion]; Region: VirJ; COG3946 859655013966 Bacterial virulence protein (VirJ); Region: VirJ; pfam06057 859655013967 Predicted integral membrane protein [Function unknown]; Region: COG0392 859655013968 Uncharacterized conserved protein [Function unknown]; Region: COG2898 859655013969 Uncharacterized conserved protein (DUF2156); Region: DUF2156; pfam09924 859655013970 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 859655013971 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 859655013972 metal binding site [ion binding]; metal-binding site 859655013973 active site 859655013974 I-site; other site 859655013975 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4453 859655013976 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pe : putative enzyme 859655013977 Immunoglobulin domain; Region: Ig_3; pfam13927 859655013978 Protein of unknown function (DUF3500); Region: DUF3500; pfam12006 859655013979 HupE / UreJ protein; Region: HupE_UreJ_2; pfam13795 859655013980 Putative catalytic domain, repeat 2, of uncharacterized hypothetical proteins similar to Nuc, an endonuclease from Salmonella typhimurium; Region: PLDc_Nuc_like_unchar1_2; cd09173 859655013981 PLD-like domain; Region: PLDc_2; pfam13091 859655013982 putative active site [active] 859655013983 catalytic site [active] 859655013984 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 859655013985 Isopenicillin N synthase and related dioxygenases [General function prediction only]; Region: PcbC; COG3491 859655013986 non-haem dioxygenase in morphine synthesis N-terminal; Region: DIOX_N; pfam14226 859655013987 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; pfam03171 859655013988 Putative multicopper oxidases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: SufI; COG2132 859655013989 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 859655013990 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 859655013991 Protein of unknown function (DUF2846); Region: DUF2846; pfam11008 859655013992 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 859655013993 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 859655013994 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 859655013995 Haemolysin secretion/activation protein ShlB/FhaC/HecB; Region: ShlB; pfam03865 859655013996 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pm : putative membrane component 859655013997 haemagglutination activity domain; Region: Haemagg_act; pfam05860 859655013998 Possible hemagglutinin (DUF637); Region: DUF637; pfam04830 859655013999 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3812 859655014000 Uncharacterized protein conserved in bacteria (DUF2059); Region: DUF2059; pfam09832 859655014001 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 859655014002 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 859655014003 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 859655014004 protein binding site [polypeptide binding]; other site 859655014005 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 859655014006 protein binding site [polypeptide binding]; other site 859655014007 sensor protein QseC; Provisional; Region: PRK10337 859655014008 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 859655014009 dimer interface [polypeptide binding]; other site 859655014010 phosphorylation site [posttranslational modification] 859655014011 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 859655014012 ATP binding site [chemical binding]; other site 859655014013 Mg2+ binding site [ion binding]; other site 859655014014 G-X-G motif; other site 859655014015 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 859655014016 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 859655014017 active site 859655014018 phosphorylation site [posttranslational modification] 859655014019 intermolecular recognition site; other site 859655014020 dimerization interface [polypeptide binding]; other site 859655014021 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 859655014022 DNA binding site [nucleotide binding] 859655014023 NolX protein; Region: NolX; pfam05819 859655014024 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 859655014025 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 859655014026 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 859655014027 putative active site [active] 859655014028 glucokinase; Provisional; Region: glk; PRK00292 859655014029 glucokinase, proteobacterial type; Region: glk; TIGR00749 859655014030 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 859655014031 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 859655014032 putative active site [active] 859655014033 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 859655014034 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 859655014035 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 859655014036 phosphogluconate dehydratase; Validated; Region: PRK09054 859655014037 6-phosphogluconate dehydratase; Region: edd; TIGR01196 859655014038 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 859655014039 Ligand Binding Site [chemical binding]; other site 859655014040 Protein of unknown function (DUF3293); Region: DUF3293; pfam11697 859655014041 Heme/copper-type cytochrome/quinol oxidases, subunit 2 [Energy production and conversion]; Region: CyoA; COG1622 859655014042 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 859655014043 Cytochrome c1 [Energy production and conversion]; Region: CYT1; COG2857 859655014044 Cytochrome c; Region: Cytochrom_C; cl11414 859655014045 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 859655014046 cytochrome c oxidase, subunit I; Region: CtaD_CoxA; TIGR02891 859655014047 Heme-copper oxidase subunit III subfamily. 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; Region: Heme_Cu_Oxidase_III_2; cd02865 859655014048 Subunit I/III interface [polypeptide binding]; other site 859655014049 Heme-copper oxidase subunit III subfamily. 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; Region: Heme_Cu_Oxidase_III_1; cd02864 859655014050 Subunit I/III interface [polypeptide binding]; other site 859655014051 Predicted small integral membrane protein [Function unknown]; Region: COG5605 859655014052 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cl02931 859655014053 ligand binding site [chemical binding]; other site 859655014054 Transcriptional regulator [Transcription]; Region: LysR; COG0583 859655014055 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 859655014056 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 859655014057 dimerization interface [polypeptide binding]; other site 859655014058 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 859655014059 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 859655014060 putative substrate translocation pore; other site 859655014061 Uncharacterized conserved protein [Function unknown]; Region: COG5476 859655014062 Protein of unknown function (DUF1485); Region: DUF1485; pfam07364 859655014063 MlrC C-terminus; Region: MlrC_C; pfam07171 859655014064 Transcriptional regulator [Transcription]; Region: LysR; COG0583 859655014065 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 859655014066 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 859655014067 dimerization interface [polypeptide binding]; other site 859655014068 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 859655014069 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 859655014070 substrate binding pocket [chemical binding]; other site 859655014071 membrane-bound complex binding site; other site 859655014072 hinge residues; other site 859655014073 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 859655014074 dimer interface [polypeptide binding]; other site 859655014075 conserved gate region; other site 859655014076 putative PBP binding loops; other site 859655014077 ABC-ATPase subunit interface; other site 859655014078 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 859655014079 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 859655014080 dimer interface [polypeptide binding]; other site 859655014081 conserved gate region; other site 859655014082 putative PBP binding loops; other site 859655014083 ABC-ATPase subunit interface; other site 859655014084 agmatinase; Region: agmatinase; TIGR01230 859655014085 Agmatinase and related proteins; Region: Agmatinase_like_1; cd11589 859655014086 oligomer interface [polypeptide binding]; other site 859655014087 active site 859655014088 Mn binding site [ion binding]; other site 859655014089 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 859655014090 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 859655014091 DNA binding residues [nucleotide binding] 859655014092 dimerization interface [polypeptide binding]; other site 859655014093 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 859655014094 Clade 1 of the heme-binding enzyme catalase; Region: catalase_clade_1; cd08154 859655014095 tetramer interface [polypeptide binding]; other site 859655014096 heme binding pocket [chemical binding]; other site 859655014097 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type ph : phenotype 859655014098 hypothetical protein; Provisional; Region: PRK05939 859655014099 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 859655014100 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 859655014101 catalytic residue [active] 859655014102 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 859655014103 NAD+-dependent alpha-aminoadipic semialdehyde dehydrogenase, ALDH family members 7A1 and 7B; Region: ALDH_F7_AASADH; cd07130 859655014104 aldehyde dehydrogenase family 7 member; Region: PLN02315 859655014105 tetrameric interface [polypeptide binding]; other site 859655014106 NAD binding site [chemical binding]; other site 859655014107 catalytic residues [active] 859655014108 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 859655014109 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 859655014110 dimerization interface [polypeptide binding]; other site 859655014111 ligand binding site [chemical binding]; other site 859655014112 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 859655014113 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 859655014114 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 859655014115 dimerization interface [polypeptide binding]; other site 859655014116 Protein of unknown function (DUF3274); Region: DUF3274; pfam11678 859655014117 Rhs element Vgr protein; Region: vgr_GE; TIGR01646 859655014118 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 859655014119 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 859655014120 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 859655014121 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4253 859655014122 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 859655014123 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 859655014124 trimer interface [polypeptide binding]; other site 859655014125 eyelet of channel; other site 859655014126 putative 3-hydroxyphenylpropionic transporter MhpT; Provisional; Region: PRK11551 859655014127 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 859655014128 putative substrate translocation pore; other site 859655014129 Tannase and feruloyl esterase; Region: Tannase; pfam07519 859655014130 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 859655014131 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 859655014132 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 859655014133 E3 interaction surface; other site 859655014134 lipoyl attachment site [posttranslational modification]; other site 859655014135 HlyD family secretion protein; Region: HlyD_3; pfam13437 859655014136 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 859655014137 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 859655014138 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cd00085 859655014139 active site 859655014140 VIP2; A family of actin-ADP-ribosylating toxin. A member of the Bacillus-prodiced vegetative insecticidal proteins (VIPs) possesses high specificity against the major insect pest, corn rootworms, and belongs to a classs of binary toxins and regulators of...; Region: VIP2; cl00173 859655014141 active site 859655014142 conformational flexibility of ligand binding pocket; other site 859655014143 ADP-ribosylating toxin turn-turn motif; other site 859655014144 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 859655014145 active site 859655014146 metal binding site [ion binding]; metal-binding site 859655014147 succinic semialdehyde dehydrogenase; Region: PLN02278 859655014148 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 859655014149 tetramerization interface [polypeptide binding]; other site 859655014150 NAD(P) binding site [chemical binding]; other site 859655014151 catalytic residues [active] 859655014152 Isocitrate/isopropylmalate dehydrogenase [Amino acid transport and metabolism]; Region: LeuB; COG0473 859655014153 tartrate dehydrogenase; Region: TTC; TIGR02089 859655014154 2,4-dihydroxyhept-2-ene-1,7-dioic acid aldolase [Carbohydrate transport and metabolism]; Region: HpcH; COG3836 859655014155 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 859655014156 D-galactonate transporter; Region: 2A0114; TIGR00893 859655014157 putative substrate translocation pore; other site 859655014158 Domains similar to fish antifreeze type III protein; Region: SAF_AH_GD; cd11613 859655014159 galactarate dehydratase; Region: galactar-dH20; TIGR03248 859655014160 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 859655014161 Transcriptional regulators [Transcription]; Region: PurR; COG1609 859655014162 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 859655014163 DNA binding site [nucleotide binding] 859655014164 domain linker motif; other site 859655014165 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 859655014166 putative dimerization interface [polypeptide binding]; other site 859655014167 putative ligand binding site [chemical binding]; other site 859655014168 Evidence 3 : Function proposed based on presence of conserved amino acid motif, structural feature or limited homology; Product type pr : putative regulator 859655014169 Gene 25-like lysozyme; Region: GPW_gp25; cl01403 859655014170 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 859655014171 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3575 859655014172 Transposase; Region: HTH_Tnp_1; cl17663 859655014173 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 859655014174 insertion element IS2 transposase InsD; Provisional; Region: PRK14702 859655014175 HTH-like domain; Region: HTH_21; pfam13276 859655014176 Integrase core domain; Region: rve; pfam00665 859655014177 Integrase core domain; Region: rve_3; pfam13683 859655014178 Bacterial protein of unknown function (DUF925); Region: DUF925; cl01435 859655014179 Carbohydrate-selective porin [Cell envelope biogenesis, outer membrane]; Region: OprB; COG3659 859655014180 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 859655014181 D-xylose ABC transporter, substrate-binding protein; Region: xylF; TIGR02634 859655014182 putative ligand binding site [chemical binding]; other site 859655014183 xylose transporter ATP-binding subunit; Provisional; Region: PRK13549 859655014184 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 859655014185 Walker A/P-loop; other site 859655014186 ATP binding site [chemical binding]; other site 859655014187 Q-loop/lid; other site 859655014188 ABC transporter signature motif; other site 859655014189 Walker B; other site 859655014190 D-loop; other site 859655014191 H-loop/switch region; other site 859655014192 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 859655014193 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 859655014194 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 859655014195 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 859655014196 TM-ABC transporter signature motif; other site 859655014197 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 859655014198 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 859655014199 NAD(P) binding site [chemical binding]; other site 859655014200 active site 859655014201 Transcriptional regulators [Transcription]; Region: PurR; COG1609 859655014202 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 859655014203 DNA binding site [nucleotide binding] 859655014204 domain linker motif; other site 859655014205 Ligand-binding domain of DNA transcription repressor SalR, a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_SalR; cd01545 859655014206 putative dimerization interface [polypeptide binding]; other site 859655014207 putative ligand binding site [chemical binding]; other site 859655014208 EamA-like transporter family; Region: EamA; pfam00892 859655014209 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 859655014210 EamA-like transporter family; Region: EamA; pfam00892 859655014211 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 859655014212 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 859655014213 transcriptional regulator; Provisional; Region: PRK10632 859655014214 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 859655014215 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 859655014216 putative effector binding pocket; other site 859655014217 dimerization interface [polypeptide binding]; other site 859655014218 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 859655014219 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 859655014220 NAD(P) binding site [chemical binding]; other site 859655014221 active site 859655014222 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 859655014223 PepSY-associated TM helix; Region: PepSY_TM_3; pfam13706 859655014224 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 859655014225 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 859655014226 MarR family; Region: MarR; pfam01047 859655014227 Uncharacterized protein, 4-oxalocrotonate tautomerase homolog [General function prediction only]; Region: COG1942 859655014228 active site 1 [active] 859655014229 dimer interface [polypeptide binding]; other site 859655014230 hexamer interface [polypeptide binding]; other site 859655014231 active site 2 [active] 859655014232 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 859655014233 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 859655014234 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 859655014235 conserved cys residue [active] 859655014236 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 859655014237 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 859655014238 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 859655014239 conserved cys residue [active] 859655014240 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 859655014241 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 859655014242 S-adenosylmethionine binding site [chemical binding]; other site 859655014243 Tetratricopeptide repeat; Region: TPR_16; pfam13432 859655014244 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 859655014245 TPR motif; other site 859655014246 binding surface 859655014247 Predicted transmembrane transcriptional regulator (anti-sigma factor) [Transcription]; Region: COG5662 859655014248 RNA polymerase sigma factor; Provisional; Region: PRK12533 859655014249 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 859655014250 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 859655014251 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 859655014252 active site 859655014253 metal binding site [ion binding]; metal-binding site 859655014254 Heme/copper-type cytochrome/quinol oxidases, subunit 2 [Energy production and conversion]; Region: CyoA; COG1622 859655014255 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 859655014256 transcriptional regulator MalT; Provisional; Region: PRK04841 859655014257 Acyl carrier protein [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcpP; COG0236 859655014258 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 859655014259 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 859655014260 G1 box; other site 859655014261 putative GEF interaction site [polypeptide binding]; other site 859655014262 GTP/Mg2+ binding site [chemical binding]; other site 859655014263 Switch I region; other site 859655014264 G2 box; other site 859655014265 G3 box; other site 859655014266 Switch II region; other site 859655014267 G4 box; other site 859655014268 G5 box; other site 859655014269 RF3_II: this subfamily represents the domain II of bacterial Release Factor 3 (RF3). Termination of protein synthesis by the ribosome requires two release factor (RF) classes. The class II RF3 is a GTPase that removes class I RFs (RF1 or RF2) from the...; Region: RF3_II; cd03689 859655014270 Ribonuclease BN family enzyme [Replication, recombination, and repair]; Region: Rbn; COG1295 859655014271 Bacterial protein of unknown function (DUF883); Region: DUF883; cl01888 859655014272 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 859655014273 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 859655014274 active site 859655014275 phosphorylation site [posttranslational modification] 859655014276 intermolecular recognition site; other site 859655014277 dimerization interface [polypeptide binding]; other site 859655014278 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 859655014279 Walker A motif; other site 859655014280 ATP binding site [chemical binding]; other site 859655014281 Walker B motif; other site 859655014282 arginine finger; other site 859655014283 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 859655014284 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 859655014285 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 859655014286 Walker A motif; other site 859655014287 ATP binding site [chemical binding]; other site 859655014288 Walker B motif; other site 859655014289 arginine finger; other site 859655014290 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 859655014291 RNA polymerase factor sigma-54; Provisional; Region: PRK12469 859655014292 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 859655014293 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 859655014294 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 859655014295 Predicted deacetylase [General function prediction only]; Region: COG3233 859655014296 Putative catalytic domain of uncharacterized bacterial proteins from the carbohydrate esterase 4 superfamily; Region: CE4_u10; cd11374 859655014297 putative active site [active] 859655014298 putative Zn binding site [ion binding]; other site 859655014299 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 859655014300 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 859655014301 putative active site [active] 859655014302 heme pocket [chemical binding]; other site 859655014303 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 859655014304 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 859655014305 putative active site [active] 859655014306 heme pocket [chemical binding]; other site 859655014307 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 859655014308 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 859655014309 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 859655014310 dimer interface [polypeptide binding]; other site 859655014311 phosphorylation site [posttranslational modification] 859655014312 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 859655014313 ATP binding site [chemical binding]; other site 859655014314 Mg2+ binding site [ion binding]; other site 859655014315 G-X-G motif; other site 859655014316 Response regulator receiver domain; Region: Response_reg; pfam00072 859655014317 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 859655014318 active site 859655014319 phosphorylation site [posttranslational modification] 859655014320 intermolecular recognition site; other site 859655014321 dimerization interface [polypeptide binding]; other site 859655014322 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 859655014323 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252