-- dump date 20140619_140350 -- class Genbank::misc_feature -- table misc_feature_note -- id note 504728000001 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 504728000002 Walker A motif; other site 504728000003 ATP binding site [chemical binding]; other site 504728000004 Walker B motif; other site 504728000005 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 504728000006 putative active site [active] 504728000007 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 504728000008 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 504728000009 active site 504728000010 metal binding site [ion binding]; metal-binding site 504728000011 Predicted membrane protein [Function unknown]; Region: COG5373 504728000012 ATP-dependent helicase HrpB; Region: DEAH_box_HrpB; TIGR01970 504728000013 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 504728000014 ATP binding site [chemical binding]; other site 504728000015 putative Mg++ binding site [ion binding]; other site 504728000016 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; cl17351 504728000017 ATP-dependent helicase C-terminal; Region: HrpB_C; pfam08482 504728000018 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 504728000019 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 504728000020 transmembrane helices; other site 504728000021 Predicted SAM-dependent methyltransferase [General function prediction only]; Region: COG2384 504728000022 Family of unknown function (DUF633); Region: DUF633; pfam04816 504728000023 Domain of unknown function (DUF4341); Region: DUF4341; pfam14241 504728000024 Domain of unknown function (DUF4384); Region: DUF4384; pfam14326 504728000025 PEGA domain; Region: PEGA; pfam08308 504728000026 PEGA domain; Region: PEGA; pfam08308 504728000027 Predicted periplasmic protein [General function prediction only]; Region: COG3895 504728000028 Predicted periplasmic protein [General function prediction only]; Region: COG3895 504728000029 e3 binding domain; Region: E3_binding; pfam02817 504728000030 Thermophilic metalloprotease (M29); Region: Peptidase_M29; pfam02073 504728000031 Leucyl aminopeptidase (aminopeptidase T) [Amino acid transport and metabolism]; Region: AmpS; COG2309 504728000032 30S ribosomal protein S1; Provisional; Region: rpsA; PRK13806 504728000033 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 504728000034 RNA binding site [nucleotide binding]; other site 504728000035 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 504728000036 RNA binding site [nucleotide binding]; other site 504728000037 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 504728000038 RNA binding site [nucleotide binding]; other site 504728000039 S1_like: Ribosomal protein S1-like RNA-binding domain. Found in a wide variety of RNA-associated proteins. Originally identified in S1 ribosomal protein. This superfamily also contains the Cold Shock Domain (CSD), which is a homolog of the S1 domain; Region: S1_like; cl09927 504728000040 RNA binding site [nucleotide binding]; other site 504728000041 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 504728000042 RNA binding site [nucleotide binding]; other site 504728000043 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 504728000044 MoaE interaction surface [polypeptide binding]; other site 504728000045 MoeB interaction surface [polypeptide binding]; other site 504728000046 thiocarboxylated glycine; other site 504728000047 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 504728000048 MoaE homodimer interface [polypeptide binding]; other site 504728000049 MoaD interaction [polypeptide binding]; other site 504728000050 active site residues [active] 504728000051 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 504728000052 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; cl17531 504728000053 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 504728000054 Nitrogen regulatory protein P-II; Region: P-II; pfam00543 504728000055 Nitrogen regulatory protein P-II; Region: P-II; smart00938 504728000056 rRNA methylase, putative, group 3; Region: rRNA_methyl_3; TIGR00186 504728000057 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 504728000058 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 504728000059 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 504728000060 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 504728000061 Walker A motif; other site 504728000062 ATP binding site [chemical binding]; other site 504728000063 Walker B motif; other site 504728000064 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 504728000065 Ligand Binding Site [chemical binding]; other site 504728000066 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4587 504728000067 ABC-2 family transporter protein; Region: ABC2_membrane_6; cl01496 504728000068 potential frameshift: common BLAST hit: gi|219847619|ref|YP_002462052.1| XRE family transcriptional regulator 504728000069 SnoaL-like domain; Region: SnoaL_2; pfam12680 504728000070 SnoaL-like domain; Region: SnoaL_2; pfam12680 504728000071 Domain of unknown function (DUF4352); Region: DUF4352; pfam11611 504728000072 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 504728000073 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 504728000074 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 504728000075 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 504728000076 active site 504728000077 substrate binding site [chemical binding]; other site 504728000078 cosubstrate binding site; other site 504728000079 catalytic site [active] 504728000080 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 504728000081 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 504728000082 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 504728000083 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 504728000084 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 504728000085 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 504728000086 active site 504728000087 dimerization interface [polypeptide binding]; other site 504728000088 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 504728000089 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 504728000090 S-adenosylmethionine binding site [chemical binding]; other site 504728000091 Predicted RNA-binding protein [General function prediction only]; Region: Jag; COG1847 504728000092 jag_K homology RNA-binding domain. The KH domain is found in proteins homologous to the Bacillus subtilis protein Jag, which is associated with SpoIIIJ and is necessary for the third stage of sporulation. The KH motif is a beta-alpha-alpha-beta-beta...; Region: jag_KH; cd02414 504728000093 G-X-X-G motif; other site 504728000094 R3H domain found in proteins homologous to Bacillus subtilus Jag, which is associated with SpoIIIJ. SpoIIIJ is necessary for the third stage of sporulation. The name of the R3H domain comes from the characteristic spacing of the most conserved arginine...; Region: R3H_jag; cd02644 504728000095 RxxxH motif; other site 504728000096 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 504728000097 Haemolytic domain; Region: Haemolytic; pfam01809 504728000098 Ribonuclease P; Region: Ribonuclease_P; pfam00825 504728000099 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399 504728000100 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 504728000101 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 504728000102 Walker A/P-loop; other site 504728000103 ATP binding site [chemical binding]; other site 504728000104 Q-loop/lid; other site 504728000105 ABC transporter signature motif; other site 504728000106 Walker B; other site 504728000107 D-loop; other site 504728000108 H-loop/switch region; other site 504728000109 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 504728000110 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 504728000111 Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907 504728000112 acyl-activating enzyme (AAE) consensus motif; other site 504728000113 putative AMP binding site [chemical binding]; other site 504728000114 putative active site [active] 504728000115 putative CoA binding site [chemical binding]; other site 504728000116 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 504728000117 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 504728000118 TM-ABC transporter signature motif; other site 504728000119 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 504728000120 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 504728000121 TM-ABC transporter signature motif; other site 504728000122 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 504728000123 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 504728000124 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 504728000125 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 504728000126 Walker A/P-loop; other site 504728000127 ATP binding site [chemical binding]; other site 504728000128 Q-loop/lid; other site 504728000129 ABC transporter signature motif; other site 504728000130 Walker B; other site 504728000131 D-loop; other site 504728000132 H-loop/switch region; other site 504728000133 Predicted metal-sulfur cluster biosynthetic enzyme [General function prediction only]; Region: PaaD; COG2151 504728000134 Protein of unknown function (DUF3197); Region: DUF3197; pfam11432 504728000135 MarR family; Region: MarR_2; pfam12802 504728000136 MarR family; Region: MarR_2; cl17246 504728000137 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 504728000138 putative substrate translocation pore; other site 504728000139 succinic semialdehyde dehydrogenase; Region: PLN02278 504728000140 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 504728000141 tetramerization interface [polypeptide binding]; other site 504728000142 NAD(P) binding site [chemical binding]; other site 504728000143 catalytic residues [active] 504728000144 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 504728000145 Peptidase family M23; Region: Peptidase_M23; pfam01551 504728000146 Transcriptional regulator [Transcription]; Region: LysR; COG0583 504728000147 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 504728000148 The C-terminal substrate-binding domain of putative LysR-type transcriptional regulator PAO1-like, a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_PAO1_like; cd08412 504728000149 putative substrate binding pocket [chemical binding]; other site 504728000150 dimerization interface [polypeptide binding]; other site 504728000151 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 504728000152 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 504728000153 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 504728000154 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 504728000155 Walker A/P-loop; other site 504728000156 ATP binding site [chemical binding]; other site 504728000157 Q-loop/lid; other site 504728000158 ABC transporter signature motif; other site 504728000159 Walker B; other site 504728000160 D-loop; other site 504728000161 H-loop/switch region; other site 504728000162 TOBE domain; Region: TOBE_2; pfam08402 504728000163 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 504728000164 dimer interface [polypeptide binding]; other site 504728000165 conserved gate region; other site 504728000166 putative PBP binding loops; other site 504728000167 ABC-ATPase subunit interface; other site 504728000168 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 504728000169 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 504728000170 dimer interface [polypeptide binding]; other site 504728000171 conserved gate region; other site 504728000172 putative PBP binding loops; other site 504728000173 ABC-ATPase subunit interface; other site 504728000174 gamma-aminobutyraldehyde dehydrogenase; Provisional; Region: PRK13473 504728000175 Escherichia coli NAD+-dependent gamma-aminobutyraldehyde dehydrogenase YdcW-like; Region: ALDH_ABALDH-YdcW; cd07092 504728000176 tetrameric interface [polypeptide binding]; other site 504728000177 NAD binding site [chemical binding]; other site 504728000178 catalytic residues [active] 504728000179 substrate binding site [chemical binding]; other site 504728000180 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 504728000181 HD domain; Region: HD_4; pfam13328 504728000182 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 504728000183 aminotransferase; Validated; Region: PRK07046 504728000184 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 504728000185 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 504728000186 catalytic residue [active] 504728000187 putative acetyltransferase; Provisional; Region: PRK03624 504728000188 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 504728000189 Coenzyme A binding pocket [chemical binding]; other site 504728000190 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 504728000191 binding surface 504728000192 TPR motif; other site 504728000193 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 504728000194 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 504728000195 active site 504728000196 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 504728000197 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_11; cd08516 504728000198 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 504728000199 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 504728000200 putative PBP binding loops; other site 504728000201 dimer interface [polypeptide binding]; other site 504728000202 ABC-ATPase subunit interface; other site 504728000203 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 504728000204 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 504728000205 dimer interface [polypeptide binding]; other site 504728000206 conserved gate region; other site 504728000207 putative PBP binding loops; other site 504728000208 ABC-ATPase subunit interface; other site 504728000209 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 504728000210 subunit interaction site [polypeptide binding]; other site 504728000211 PHB binding site; other site 504728000212 CoenzymeA binding site [chemical binding]; other site 504728000213 ADP-ribosylglycohydrolase; Region: ADP_ribosyl_GH; pfam03747 504728000214 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 504728000215 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 504728000216 dimer interface [polypeptide binding]; other site 504728000217 conserved gate region; other site 504728000218 putative PBP binding loops; other site 504728000219 ABC-ATPase subunit interface; other site 504728000220 ABC-type sugar transport systems, permease components [Carbohydrate transport and metabolism]; Region: UgpA; COG1175 504728000221 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 504728000222 putative PBP binding loops; other site 504728000223 ABC-ATPase subunit interface; other site 504728000224 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 504728000225 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 504728000226 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 504728000227 putative DNA binding site [nucleotide binding]; other site 504728000228 dimerization interface [polypeptide binding]; other site 504728000229 putative Zn2+ binding site [ion binding]; other site 504728000230 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 504728000231 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 504728000232 nucleotide binding site [chemical binding]; other site 504728000233 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 504728000234 putative active site [active] 504728000235 dimerization interface [polypeptide binding]; other site 504728000236 putative tRNAtyr binding site [nucleotide binding]; other site 504728000237 EDD domain protein, DegV family; Region: DegV; TIGR00762 504728000238 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 504728000239 EDD domain protein, DegV family; Region: DegV; TIGR00762 504728000240 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 504728000241 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK13581 504728000242 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_4; cd12173 504728000243 ligand binding site [chemical binding]; other site 504728000244 NAD binding site [chemical binding]; other site 504728000245 dimerization interface [polypeptide binding]; other site 504728000246 catalytic site [active] 504728000247 C-terminal ACT (regulatory) domain of D-3-phosphoglycerate dehydrogenase (3PGDH); Region: ACT_3PGDH-xct; cd04902 504728000248 putative L-serine binding site [chemical binding]; other site 504728000249 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 504728000250 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 504728000251 catalytic residue [active] 504728000252 short chain dehydrogenase; Provisional; Region: PRK08267 504728000253 classical (c) SDRs; Region: SDR_c; cd05233 504728000254 NAD(P) binding site [chemical binding]; other site 504728000255 active site 504728000256 4-hydroxybenzoate polyprenyltransferase and related prenyltransferases [Coenzyme metabolism]; Region: UbiA; cl00337 504728000257 UbiA prenyltransferase family; Region: UbiA; pfam01040 504728000258 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 504728000259 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 504728000260 active site residue [active] 504728000261 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 504728000262 active site residue [active] 504728000263 Yhdh putative quinone oxidoreductases; Region: MDR_yhdh; cd08288 504728000264 putative quinone oxidoreductase, YhdH/YhfP family; Region: oxido_YhdH; TIGR02823 504728000265 NADP binding site [chemical binding]; other site 504728000266 dimer interface [polypeptide binding]; other site 504728000267 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 504728000268 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 504728000269 putative acyl-acceptor binding pocket; other site 504728000270 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 504728000271 IHF dimer interface [polypeptide binding]; other site 504728000272 IHF - DNA interface [nucleotide binding]; other site 504728000273 NADPH_oxidase. Nitroreductase family containing NADH oxidase and other, uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes, nitrofurans and nitroimidazoles; Region: NADH_oxidase; cd03370 504728000274 dimer interface [polypeptide binding]; other site 504728000275 FMN binding site [chemical binding]; other site 504728000276 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 504728000277 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 504728000278 RNA binding surface [nucleotide binding]; other site 504728000279 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 504728000280 active site 504728000281 uracil binding [chemical binding]; other site 504728000282 Protein of unknown function (DUF497); Region: DUF497; cl01108 504728000283 Helix-turn-helix domain; Region: HTH_20; pfam12840 504728000284 H+ Antiporter protein; Region: 2A0121; TIGR00900 504728000285 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 504728000286 ATP phosphoribosyltransferase catalytic subunit; Reviewed; Region: hisG; PRK01686 504728000287 ATP phosphoribosyltransferase [Amino acid transport and metabolism]; Region: HisG; COG0040 504728000288 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 504728000289 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 504728000290 active site 504728000291 catalytic tetrad [active] 504728000292 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 504728000293 Quinone oxidoreductase (QOR); Region: QOR1; cd08241 504728000294 NAD(P) binding site [chemical binding]; other site 504728000295 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 504728000296 SpoU, rRNA methylase, C-terminal; Region: SpoU_methylas_C; pfam12105 504728000297 Uncharacterized vancomycin resistance protein [Defense mechanisms]; Region: COG2720 504728000298 VanW like protein; Region: VanW; pfam04294 504728000299 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 504728000300 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 504728000301 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 504728000302 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 504728000303 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 504728000304 substrate binding site [chemical binding]; other site 504728000305 dimer interface [polypeptide binding]; other site 504728000306 ATP binding site [chemical binding]; other site 504728000307 nuc_hydro_IU_UC_XIUA: inosine-uridine preferring, xanthosine-inosine-uridine-adenosine-preferring and, uridine-cytidine preferring nucleoside hydrolases. Nucleoside hydrolases cleave the N-glycosidic bond in nucleosides generating ribose and the...; Region: nuc_hydro_IU_UC_XIUA; cd02651 504728000308 active site 504728000309 tetramer interface [polypeptide binding]; other site 504728000310 Alanine racemase [Cell envelope biogenesis, outer membrane]; Region: Alr; COG0787 504728000311 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 504728000312 active site 504728000313 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 504728000314 dimer interface [polypeptide binding]; other site 504728000315 substrate binding site [chemical binding]; other site 504728000316 catalytic residues [active] 504728000317 Protein of unknown function (DUF3208); Region: DUF3208; pfam11482 504728000318 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 504728000319 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 504728000320 MPT binding site; other site 504728000321 trimer interface [polypeptide binding]; other site 504728000322 MMPL family; Region: MMPL; pfam03176 504728000323 MMPL family; Region: MMPL; pfam03176 504728000324 Predicted metal-dependent hydrolases related to alanyl-tRNA synthetase HxxxH domain [General function prediction only]; Region: COG2872 504728000325 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 504728000326 FtsH Extracellular; Region: FtsH_ext; pfam06480 504728000327 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 504728000328 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 504728000329 Walker A motif; other site 504728000330 ATP binding site [chemical binding]; other site 504728000331 Walker B motif; other site 504728000332 arginine finger; other site 504728000333 Peptidase family M41; Region: Peptidase_M41; pfam01434 504728000334 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 504728000335 Nucleotide-binding domain of human HSPA9 and similar proteins; Region: HSPA9-Ssq1-like_NBD; cd10234 504728000336 nucleotide binding site [chemical binding]; other site 504728000337 NEF interaction site [polypeptide binding]; other site 504728000338 SBD interface [polypeptide binding]; other site 504728000339 GrpE; Region: GrpE; pfam01025 504728000340 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 504728000341 dimer interface [polypeptide binding]; other site 504728000342 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 504728000343 chaperone protein DnaJ; Provisional; Region: PRK14299 504728000344 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 504728000345 HSP70 interaction site [polypeptide binding]; other site 504728000346 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 504728000347 substrate binding site [polypeptide binding]; other site 504728000348 dimer interface [polypeptide binding]; other site 504728000349 Protein of unknown function (DUF4256); Region: DUF4256; pfam14066 504728000350 CRISPR/Cas system-associated protein Cas10; Region: Cas10_III; cd09680 504728000351 CRISPR-associated protein Cas10/Csm1, subtype III-A/MTUBE; Region: cas_TM1811_Csm1; TIGR02578 504728000352 CRISPR/Cas system-associated protein Csm2; Region: Csm2_III-A; cl00622 504728000353 CRISPR/Cas system-associated RAMP superfamily protein Csm3; Region: Csm3_III-A; cd09684 504728000354 CRISPR/Cas system-associated RAMP superfamily protein Csm4; Region: Csm4_III-A; cl17438 504728000355 CRISPR/Cas system-associated RAMP superfamily protein Csm5; Region: Csm5_III-A; cl17437 504728000356 Rv0623-like transcription factor; Region: PSK_trans_fac; pfam07704 504728000357 PIN domain of the VapC-like UPF0110 protein Mb0640 and homologs; Region: PIN_UPF0110; cd09871 504728000358 putative active site [active] 504728000359 CRISPR/Cas system-associated RAMP superfamily protein Cas6; Region: Cas6-I-III; cd09652 504728000360 CRISPR-associated protein (Cas_Cas02710); Region: Cas_Cas02710; pfam09670 504728000361 CRISPR/Cas system-associated protein Csx1; Region: Csx1_III-U; cl11817 504728000362 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-II-III; cd09634 504728000363 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I_II_III; cd09725 504728000364 potential frameshift: common BLAST hit: gi|291295807|ref|YP_003507205.1| PilT domain-containing protein 504728000365 CRISPR-associated protein (Cas_Cas02710); Region: Cas_Cas02710; pfam09670 504728000366 CRISPR/Cas system-associated protein Csx1; Region: Csx1_III-U; cd09747 504728000367 Periplasmic binding protein YvrC. These proteins are predicted to function as initial receptors in ABC transport of metal ions in eubacteria and archaea. They belong to the TroA superfamily of periplasmic metal binding proteins that share a distinct...; Region: YvrC; cd01143 504728000368 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 504728000369 putative binding site residues; other site 504728000370 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 504728000371 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 504728000372 ABC-ATPase subunit interface; other site 504728000373 dimer interface [polypeptide binding]; other site 504728000374 putative PBP binding regions; other site 504728000375 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 504728000376 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 504728000377 Walker A/P-loop; other site 504728000378 ATP binding site [chemical binding]; other site 504728000379 Q-loop/lid; other site 504728000380 ABC transporter signature motif; other site 504728000381 Walker B; other site 504728000382 D-loop; other site 504728000383 H-loop/switch region; other site 504728000384 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 504728000385 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 504728000386 intersubunit interface [polypeptide binding]; other site 504728000387 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 504728000388 catalytic core [active] 504728000389 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 504728000390 homotrimer interface [polypeptide binding]; other site 504728000391 Walker A motif; other site 504728000392 GTP binding site [chemical binding]; other site 504728000393 Walker B motif; other site 504728000394 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 504728000395 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 504728000396 putative dimer interface [polypeptide binding]; other site 504728000397 active site pocket [active] 504728000398 putative cataytic base [active] 504728000399 Cobalamin-5-phosphate synthase; Region: CobS; cl00415 504728000400 Flavin containing amine oxidoreductase; Region: Amino_oxidase; pfam01593 504728000401 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 504728000402 Cytochrome b subunit of the bc complex [Energy production and conversion]; Region: QcrB; COG1290 504728000403 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 504728000404 Qi binding site; other site 504728000405 intrachain domain interface; other site 504728000406 interchain domain interface [polypeptide binding]; other site 504728000407 heme bH binding site [chemical binding]; other site 504728000408 heme bL binding site [chemical binding]; other site 504728000409 Qo binding site; other site 504728000410 Cytochrome b(C-terminus)/b6/petD: 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_C; cl00193 504728000411 intrachain domain interface; other site 504728000412 Qo binding site; other site 504728000413 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 504728000414 iron-sulfur cluster [ion binding]; other site 504728000415 [2Fe-2S] cluster binding site [ion binding]; other site 504728000416 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 504728000417 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 504728000418 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 504728000419 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 504728000420 Metal-binding active site; metal-binding site 504728000421 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 504728000422 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 504728000423 active site 504728000424 motif I; other site 504728000425 motif II; other site 504728000426 Putative protein-S-isoprenylcysteine methyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: STE14; COG2020 504728000427 Outer membrane lipoprotein-sorting protein [Cell envelope biogenesis, outer membrane]; Region: LolA; COG2834 504728000428 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 504728000429 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 504728000430 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 504728000431 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 504728000432 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 504728000433 Walker A/P-loop; other site 504728000434 ATP binding site [chemical binding]; other site 504728000435 Q-loop/lid; other site 504728000436 ABC transporter signature motif; other site 504728000437 Walker B; other site 504728000438 D-loop; other site 504728000439 H-loop/switch region; other site 504728000440 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 504728000441 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 504728000442 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 504728000443 dimer interface [polypeptide binding]; other site 504728000444 substrate binding site [chemical binding]; other site 504728000445 metal binding sites [ion binding]; metal-binding site 504728000446 molybdenum cofactor biosynthesis protein A, bacterial; Region: moaA; TIGR02666 504728000447 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 504728000448 FeS/SAM binding site; other site 504728000449 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 504728000450 Predicted thiol-disulfide oxidoreductase [General function prediction only]; Region: COG3011 504728000451 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 504728000452 Patatin-like phospholipase domain containing protein 6, protein 7, and fungal NTE1; Region: Pat_PNPLA6_PNPLA7_NTE1_like; cd07205 504728000453 nucleophile elbow; other site 504728000454 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 504728000455 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 504728000456 quinone interaction residues [chemical binding]; other site 504728000457 active site 504728000458 catalytic residues [active] 504728000459 FMN binding site [chemical binding]; other site 504728000460 substrate binding site [chemical binding]; other site 504728000461 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 504728000462 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 504728000463 active site 504728000464 S1_RPS1_repeat_hs4: 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_hs4; cd05692 504728000465 Predicted RNA binding protein (contains ribosomal protein S1 domain) [Translation, ribosomal structure and biogenesis]; Region: VacB; COG1098 504728000466 RNA binding site [nucleotide binding]; other site 504728000467 Enoyl-[acyl-carrier-protein]; Region: FabI; COG0623 504728000468 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 504728000469 NAD binding site [chemical binding]; other site 504728000470 homotetramer interface [polypeptide binding]; other site 504728000471 homodimer interface [polypeptide binding]; other site 504728000472 substrate binding site [chemical binding]; other site 504728000473 active site 504728000474 DinB superfamily; Region: DinB_2; pfam12867 504728000475 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 504728000476 YhcR_OBF_like: A subfamily of OB-fold domains similar to the OB folds of Bacillus subtilis YhcR. YhcR is a sugar-nonspecific nuclease, which is active in the presence of Ca2+ and Mn2+. It cleaves RNA endonucleolytically, producing 3'-monophosphate...; Region: YhcR_OBF_like; cd04486 504728000477 generic binding surface I; other site 504728000478 generic binding surface II; other site 504728000479 Mycoplasma pulmonis MnuA nuclease-like; Region: MnuA_DNase1-like; cd10283 504728000480 putative active site [active] 504728000481 putative catalytic site [active] 504728000482 putative Mg binding site IVb [ion binding]; other site 504728000483 putative phosphate binding site [ion binding]; other site 504728000484 putative DNA binding site [nucleotide binding]; other site 504728000485 putative Mg binding site IVa [ion binding]; other site 504728000486 Protein of unknown function (DUF2847); Region: DUF2847; cl17683 504728000487 Uncharacterized proteins, LmbE homologs [Function unknown]; Region: COG2120 504728000488 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 504728000489 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 504728000490 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 504728000491 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 504728000492 substrate binding site [chemical binding]; other site 504728000493 ATP binding site [chemical binding]; other site 504728000494 2-keto-3-deoxy-6-phosphogluconate aldolase [Carbohydrate transport and metabolism]; Region: Eda; COG0800 504728000495 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 504728000496 active site 504728000497 intersubunit interface [polypeptide binding]; other site 504728000498 catalytic residue [active] 504728000499 2-deoxy-D-gluconate 3-dehydrogenase; Region: kduD; TIGR01832 504728000500 gluconate 5-dehydrogenase (Ga5DH)-like, classical (c) SDRs; Region: Ga5DH-like_SDR_c; cd05347 504728000501 NADP binding site [chemical binding]; other site 504728000502 homodimer interface [polypeptide binding]; other site 504728000503 active site 504728000504 KduI/IolB family; Region: KduI; pfam04962 504728000505 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 504728000506 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 504728000507 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 504728000508 dimer interface [polypeptide binding]; other site 504728000509 conserved gate region; other site 504728000510 putative PBP binding loops; other site 504728000511 ABC-ATPase subunit interface; other site 504728000512 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 504728000513 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 504728000514 dimer interface [polypeptide binding]; other site 504728000515 conserved gate region; other site 504728000516 ABC-ATPase subunit interface; other site 504728000517 Transcriptional regulators [Transcription]; Region: PurR; COG1609 504728000518 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 504728000519 DNA binding site [nucleotide binding] 504728000520 domain linker motif; other site 504728000521 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 504728000522 Transcriptional regulators [Transcription]; Region: PurR; COG1609 504728000523 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 504728000524 DNA binding site [nucleotide binding] 504728000525 domain linker motif; other site 504728000526 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_9; cd06290 504728000527 putative dimerization interface [polypeptide binding]; other site 504728000528 putative ligand binding site [chemical binding]; other site 504728000529 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 504728000530 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 504728000531 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 504728000532 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 504728000533 dimer interface [polypeptide binding]; other site 504728000534 conserved gate region; other site 504728000535 putative PBP binding loops; other site 504728000536 ABC-ATPase subunit interface; other site 504728000537 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 504728000538 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 504728000539 dimer interface [polypeptide binding]; other site 504728000540 conserved gate region; other site 504728000541 ABC-ATPase subunit interface; other site 504728000542 Glycosyl hydrolase family 10; Region: Glyco_hydro_10; pfam00331 504728000543 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 504728000544 beta-galactosidase; Region: BGL; TIGR03356 504728000545 Beta-xylosidase [Carbohydrate transport and metabolism]; Region: XynB; COG3507 504728000546 Glycosyl hydrolase family 43, beta-D-xylosidase; Region: GH43_XYL_1; cd09000 504728000547 inhibitor binding site; inhibition site 504728000548 active site 504728000549 Cytochrome P450; Region: p450; cl12078 504728000550 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 504728000551 Protein of unknown function (DUF3105); Region: DUF3105; pfam11303 504728000552 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 504728000553 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 504728000554 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 504728000555 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 504728000556 metal-binding site [ion binding] 504728000557 Thermus thermophilus CsoR, a Cu(I)-sensing transcriptional regulator, and related domains; this domain family was previously known as part of DUF156; Region: TthCsoR-like_DUF156; cd10151 504728000558 putative homodimer interface [polypeptide binding]; other site 504728000559 putative homotetramer interface [polypeptide binding]; other site 504728000560 allosteric switch controlling residues; other site 504728000561 putative metal binding site [ion binding]; other site 504728000562 putative homodimer-homodimer interface [polypeptide binding]; other site 504728000563 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 504728000564 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 504728000565 metal-binding site [ion binding] 504728000566 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 504728000567 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 504728000568 metal-binding site [ion binding] 504728000569 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 504728000570 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 504728000571 motif II; other site 504728000572 Short C-terminal domain; Region: SHOCT; pfam09851 504728000573 copper-(or silver)-translocating P-type ATPase; Region: ATPase-IB1_Cu; TIGR01511 504728000574 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 504728000575 Soluble P-type ATPase [General function prediction only]; Region: COG4087 504728000576 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 504728000577 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 504728000578 active site 504728000579 phosphorylation site [posttranslational modification] 504728000580 intermolecular recognition site; other site 504728000581 dimerization interface [polypeptide binding]; other site 504728000582 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 504728000583 DNA binding site [nucleotide binding] 504728000584 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 504728000585 dimerization interface [polypeptide binding]; other site 504728000586 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 504728000587 dimer interface [polypeptide binding]; other site 504728000588 phosphorylation site [posttranslational modification] 504728000589 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 504728000590 ATP binding site [chemical binding]; other site 504728000591 Mg2+ binding site [ion binding]; other site 504728000592 G-X-G motif; other site 504728000593 Putative multicopper oxidases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: SufI; COG2132 504728000594 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 504728000595 Multicopper oxidase; Region: Cu-oxidase; pfam00394 504728000596 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 504728000597 Domain of unknown function (DUF305); Region: DUF305; pfam03713 504728000598 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 504728000599 Low molecular weight phosphatase family; Region: LMWPc; cd00115 504728000600 active site 504728000601 Alpha amylase catalytic domain found in oligo-1,6-glucosidase (also called isomaltase; sucrase-isomaltase; alpha-limit dextrinase) and related proteins; Region: AmyAc_OligoGlu_like; cd11331 504728000602 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 504728000603 active site 504728000604 catalytic site [active] 504728000605 Domain of unknown function (DUF3459); Region: DUF3459; pfam11941 504728000606 Alpha amylase catalytic domain found in Amylosucrase; Region: AmyAc_Amylosucrase; cd11324 504728000607 trehalose synthase; Region: treS_nterm; TIGR02456 504728000608 active site 504728000609 catalytic site [active] 504728000610 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 504728000611 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 504728000612 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 504728000613 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 504728000614 active site 504728000615 phosphorylation site [posttranslational modification] 504728000616 intermolecular recognition site; other site 504728000617 dimerization interface [polypeptide binding]; other site 504728000618 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 504728000619 DNA binding site [nucleotide binding] 504728000620 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 504728000621 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 504728000622 dimer interface [polypeptide binding]; other site 504728000623 phosphorylation site [posttranslational modification] 504728000624 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 504728000625 ATP binding site [chemical binding]; other site 504728000626 Mg2+ binding site [ion binding]; other site 504728000627 G-X-G motif; other site 504728000628 PIN domain of ribonucleases (toxins), VapC, FitB, and PAE0151 of bacterial and archaeal toxin/antitoxin-like operons, and other similar homologs; Region: PIN_VapC-like; cd09861 504728000629 putative active site [active] 504728000630 Regulators of stationary/sporulation gene expression [Transcription]; Region: AbrB; COG2002 504728000631 SpoVT / AbrB like domain; Region: SpoVT_AbrB; smart00966 504728000632 choline dehydrogenase; Validated; Region: PRK02106 504728000633 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 504728000634 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 504728000635 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 504728000636 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 504728000637 GTP/Mg2+ binding site [chemical binding]; other site 504728000638 putative GEF interaction site [polypeptide binding]; other site 504728000639 G1 box; other site 504728000640 Switch I region; other site 504728000641 G2 box; other site 504728000642 G3 box; other site 504728000643 Switch II region; other site 504728000644 G4 box; other site 504728000645 G5 box; other site 504728000646 BipA_TypA_II: domain II of BipA (also called TypA) having homology to domain II of the elongation factors (EFs) EF-G and EF-Tu. BipA is a highly conserved protein with global regulatory properties in Escherichia coli. BipA is phosphorylated on a...; Region: BipA_TypA_II; cd03691 504728000647 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 504728000648 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 504728000649 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 504728000650 Metal-binding active site; metal-binding site 504728000651 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 504728000652 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 504728000653 ABC-ATPase subunit interface; other site 504728000654 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 504728000655 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 504728000656 dimer interface [polypeptide binding]; other site 504728000657 conserved gate region; other site 504728000658 putative PBP binding loops; other site 504728000659 ABC-ATPase subunit interface; other site 504728000660 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 504728000661 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 504728000662 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 504728000663 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 504728000664 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 504728000665 putative active site [active] 504728000666 putative substrate binding site [chemical binding]; other site 504728000667 putative cosubstrate binding site; other site 504728000668 catalytic site [active] 504728000669 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 504728000670 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 504728000671 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 504728000672 protein binding site [polypeptide binding]; other site 504728000673 Peptidase MA superfamily; Region: Peptidase_MA_2; pfam13485 504728000674 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 504728000675 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 504728000676 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 504728000677 GDP-binding site [chemical binding]; other site 504728000678 ACT binding site; other site 504728000679 IMP binding site; other site 504728000680 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 504728000681 putative deacylase active site [active] 504728000682 glutamate carboxypeptidase; Reviewed; Region: PRK06133 504728000683 M20 Peptidase Glutamate carboxypeptidase, a periplasmic enzyme; Region: M20_CPDG2; cd03885 504728000684 metal binding site [ion binding]; metal-binding site 504728000685 dimer interface [polypeptide binding]; other site 504728000686 Arginyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: ArgS; COG0018 504728000687 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; pfam03485 504728000688 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 504728000689 active site 504728000690 HIGH motif; other site 504728000691 KMSK motif region; other site 504728000692 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 504728000693 tRNA binding surface [nucleotide binding]; other site 504728000694 anticodon binding site; other site 504728000695 DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]; Region: DnrI; COG3629 504728000696 Transcriptional regulatory protein, C terminal; Region: Trans_reg_C; smart00862 504728000697 Uncharacterized P-loop hydrolase UPF0079; Region: UPF0079; cl00520 504728000698 NrdH-redoxin (NrdH) family; NrdH is a small monomeric protein with a conserved redox active CXXC motif within a TRX fold, characterized by a glutaredoxin (GRX)-like sequence and TRX-like activity profile. In vitro, it displays protein disulfide reductase...; Region: NrdH; cd02976 504728000699 catalytic residues [active] 504728000700 formamidopyrimidine-DNA glycosylase; Provisional; Region: PRK14811 504728000701 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 504728000702 DNA binding site [nucleotide binding] 504728000703 catalytic residue [active] 504728000704 H2TH interface [polypeptide binding]; other site 504728000705 putative catalytic residues [active] 504728000706 turnover-facilitating residue; other site 504728000707 intercalation triad [nucleotide binding]; other site 504728000708 8OG recognition residue [nucleotide binding]; other site 504728000709 putative reading head residues; other site 504728000710 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 504728000711 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 504728000712 Predicted transcriptional regulator [Transcription]; Region: COG2378 504728000713 HTH domain; Region: HTH_11; pfam08279 504728000714 WYL domain; Region: WYL; pfam13280 504728000715 short chain dehydrogenase; Provisional; Region: PRK08303 504728000716 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 504728000717 NAD(P) binding site [chemical binding]; other site 504728000718 active site 504728000719 D-alanyl-alanine synthetase A; Reviewed; Region: ddl; PRK01966 504728000720 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 504728000721 D-ala D-ala ligase C-terminus; Region: Dala_Dala_lig_C; pfam07478 504728000722 ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]; Region: SunT; COG2274 504728000723 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_C39B; cd02418 504728000724 putative active site [active] 504728000725 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 504728000726 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 504728000727 Walker A/P-loop; other site 504728000728 ATP binding site [chemical binding]; other site 504728000729 Q-loop/lid; other site 504728000730 ABC transporter signature motif; other site 504728000731 Walker B; other site 504728000732 D-loop; other site 504728000733 H-loop/switch region; other site 504728000734 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 504728000735 HlyD family secretion protein; Region: HlyD_3; pfam13437 504728000736 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 504728000737 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 504728000738 DNA binding residues [nucleotide binding] 504728000739 dimerization interface [polypeptide binding]; other site 504728000740 potential frameshift: common BLAST hit: gi|320450657|ref|YP_004202753.1| transposase 504728000741 Flp pilus assembly protein TadD, contains TPR repeats [Intracellular trafficking and secretion]; Region: TadD; COG5010 504728000742 DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]; Region: DnrI; COG3629 504728000743 glycogen synthase; Provisional; Region: glgA; PRK00654 504728000744 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 504728000745 ADP-binding pocket [chemical binding]; other site 504728000746 homodimer interface [polypeptide binding]; other site 504728000747 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 504728000748 putative active site pocket [active] 504728000749 dimerization interface [polypeptide binding]; other site 504728000750 putative catalytic residue [active] 504728000751 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 504728000752 NADPH bind site [chemical binding]; other site 504728000753 putative FMN binding site [chemical binding]; other site 504728000754 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK00844 504728000755 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 504728000756 ligand binding site; other site 504728000757 oligomer interface; other site 504728000758 Glucose-1-phosphate adenylyltransferase, C-terminal Left-handed parallel beta helix (LbH) domain: Glucose-1-phosphate adenylyltransferase is also known as ADP-glucose synthase or ADP-glucose pyrophosphorylase. It catalyzes the first committed and...; Region: LbH_G1P_AT_C; cd04651 504728000759 dimer interface [polypeptide binding]; other site 504728000760 N-terminal domain interface [polypeptide binding]; other site 504728000761 sulfate 1 binding site; other site 504728000762 Predicted ATP-dependent protease [Posttranslational modification, protein turnover, chaperones]; Region: LonB; COG1067 504728000763 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 504728000764 Tricorn protease; serine protease family S41; Region: Peptidase_S41_TRI; cd07562 504728000765 Domain interface; other site 504728000766 Active site tetrad [active] 504728000767 Peptide binding site; other site 504728000768 glucans biosynthesis protein; Provisional; Region: opgC; PRK03854 504728000769 exosortase A system-associated amidotransferase 1; Region: eps_aminotran_1; TIGR03108 504728000770 Glutamine amidotransferases class-II (GATase) asparagine synthase_B type. Asparagine synthetase B catalyses the ATP-dependent conversion of aspartate to asparagine. This enzyme is a homodimer, with each monomer composed of a glutaminase domain and a...; Region: AsnB; cd00712 504728000771 dimer interface [polypeptide binding]; other site 504728000772 active site 504728000773 The C-terminal domain of Asparagine Synthase B. This domain is always found associated n-terminal amidotransferase domain. Family members that contain this domain catalyse the conversion of aspartate to asparagine. Asparagine synthetase B catalyzes the...; Region: Asn_Synthase_B_C; cd01991 504728000774 Ligand Binding Site [chemical binding]; other site 504728000775 Molecular Tunnel; other site 504728000776 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 504728000777 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 504728000778 Asparagine synthase (glutamine-hydrolyzing) [Amino acid transport and metabolism]; Region: AsnB; COG0367 504728000779 Glutamine amidotransferases class-II (GATase) asparagine synthase_B type. Asparagine synthetase B catalyses the ATP-dependent conversion of aspartate to asparagine. This enzyme is a homodimer, with each monomer composed of a glutaminase domain and a...; Region: AsnB; cd00712 504728000780 active site 504728000781 dimer interface [polypeptide binding]; other site 504728000782 The C-terminal domain of Asparagine Synthase B. This domain is always found associated n-terminal amidotransferase domain. Family members that contain this domain catalyse the conversion of aspartate to asparagine. Asparagine synthetase B catalyzes the...; Region: Asn_Synthase_B_C; cd01991 504728000783 Ligand Binding Site [chemical binding]; other site 504728000784 Molecular Tunnel; other site 504728000785 DegT/DnrJ/EryC1/StrS aminotransferase family; Region: DegT_DnrJ_EryC1; pfam01041 504728000786 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 504728000787 inhibitor-cofactor binding pocket; inhibition site 504728000788 pyridoxal 5'-phosphate binding site [chemical binding]; other site 504728000789 catalytic residue [active] 504728000790 putative trimer interface [polypeptide binding]; other site 504728000791 Bacterial transferase hexapeptide (six repeats); Region: Hexapep; pfam00132 504728000792 WcxM-like, Left-handed parallel beta-Helix (LbH) N-terminal domain: This group is composed of Xanthomonas campestris WcxM and proteins with similarity to the WcxM N-terminal domain. WcxM is thought to be bifunctional, catalyzing both the isomerization...; Region: LbH_WxcM_N_like; cd03358 504728000793 putative CoA binding site [chemical binding]; other site 504728000794 putative trimer interface [polypeptide binding]; other site 504728000795 putative active site [active] 504728000796 putative substrate binding site [chemical binding]; other site 504728000797 putative CoA binding site [chemical binding]; other site 504728000798 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 504728000799 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 504728000800 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 504728000801 UDP-N-acetyl-D-mannosaminuronate dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: WecC; COG0677 504728000802 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 504728000803 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 504728000804 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 504728000805 putative glycosyl transferase; Provisional; Region: PRK10307 504728000806 nitrous oxide reductase family maturation protein NosD; Region: NosD_copper_fam; TIGR04247 504728000807 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 504728000808 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 504728000809 This family is most closely related to the GT1 family of glycosyltransferases. wlbH in Bordetella parapertussis has been shown to be required for the biosynthesis of a trisaccharide that, when attached to the B. pertussis lipopolysaccharide (LPS) core; Region: GT1_wlbH_like; cd03798 504728000810 glycosyltransferase, MSMEG_0565 family; Region: MSMEG_0565_glyc; TIGR04047 504728000811 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 504728000812 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 504728000813 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 504728000814 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 504728000815 inhibitor-cofactor binding pocket; inhibition site 504728000816 pyridoxal 5'-phosphate binding site [chemical binding]; other site 504728000817 catalytic residue [active] 504728000818 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 504728000819 extended (e) SDRs; Region: SDR_e; cd08946 504728000820 NAD(P) binding site [chemical binding]; other site 504728000821 active site 504728000822 substrate binding site [chemical binding]; other site 504728000823 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 504728000824 Interdomain contacts; other site 504728000825 Cytokine receptor motif; other site 504728000826 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 504728000827 Interdomain contacts; other site 504728000828 Cytokine receptor motif; other site 504728000829 domain in bacterial beta-glucosidases other glycosidases, glycosyltransferases, proteases, amidases, yeast adhesins, and bacterial toxins; Region: PA14; smart00758 504728000830 Glyoxal oxidase N-terminus; Region: Glyoxal_oxid_N; pfam07250 504728000831 Galactose oxidase, central domain; Region: Kelch_3; cl02701 504728000832 C-terminal Early set domain associated with the catalytic domain of galactose oxidase; Region: E_set_GO_C; cd02851 504728000833 nitrous oxide reductase family maturation protein NosD; Region: NosD_copper_fam; TIGR04247 504728000834 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 504728000835 This subfamily contains Escherichia coli WecA, Bacillus subtilis TagO and related proteins. WecA is an UDP-N-acetylglucosamine (GlcNAc):undecaprenyl-phosphate (Und-P) GlcNAc-1-phosphate transferase that catalyzes the formation of a phosphodiester bond...; Region: GT_WecA_like; cd06853 504728000836 Mg++ binding site [ion binding]; other site 504728000837 putative catalytic motif [active] 504728000838 substrate binding site [chemical binding]; other site 504728000839 NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, subunit 9, 39 kDa, (NDUFA9) -like, atypical (a) SDRs; Region: NDUFA9_like_SDR_a; cd05271 504728000840 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 504728000841 putative NAD(P) binding site [chemical binding]; other site 504728000842 active site 504728000843 CRP/FNR family transcriptional regulator; Provisional; Region: PRK13918 504728000844 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 504728000845 ligand binding site [chemical binding]; other site 504728000846 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 504728000847 putative switch regulator; other site 504728000848 non-specific DNA interactions [nucleotide binding]; other site 504728000849 DNA binding site [nucleotide binding] 504728000850 sequence specific DNA binding site [nucleotide binding]; other site 504728000851 putative cAMP binding site [chemical binding]; other site 504728000852 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 504728000853 Helix-Turn-Helix DNA binding domain of the transcription regulators MlrA and CarA; Region: HTH_MlrA-CarA; cd01104 504728000854 DNA binding residues [nucleotide binding] 504728000855 B12 binding domain; Region: B12-binding_2; pfam02607 504728000856 B12 binding domain; Region: B12-binding; pfam02310 504728000857 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 504728000858 S-adenosylmethionine binding site [chemical binding]; other site 504728000859 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 504728000860 active site lid residues [active] 504728000861 substrate binding pocket [chemical binding]; other site 504728000862 catalytic residues [active] 504728000863 substrate-Mg2+ binding site; other site 504728000864 aspartate-rich region 1; other site 504728000865 aspartate-rich region 2; other site 504728000866 Predicted DNA-binding protein with an HTH domain [General function prediction only]; Region: COG4710 504728000867 Cytotoxic translational repressor of toxin-antitoxin stability system [Translation, ribosomal structure and biogenesis / Cell division and chromosome partitioning]; Region: RelE; COG2026 504728000868 Phytoene dehydrogenase and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG1233 504728000869 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 504728000870 potential frameshift: common BLAST hit: gi|291294781|ref|YP_003506179.1| Lycopene beta and epsilon cyclase 504728000871 Protein of unknown function (DUF422); Region: DUF422; cl00991 504728000872 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cl17185 504728000873 putative acyl-acceptor binding pocket; other site 504728000874 hopene-associated glycosyltransferase HpnB; Region: HpnB; TIGR03469 504728000875 Glycosyl transferase family 2; Region: Glycos_transf_2; pfam00535 504728000876 active site 504728000877 Phytoene dehydrogenase and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG1233 504728000878 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 504728000879 Cytochrome P450; Region: p450; cl12078 504728000880 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 504728000881 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 504728000882 Coenzyme A binding pocket [chemical binding]; other site 504728000883 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 504728000884 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 504728000885 NAD(P) binding domain of glutamate dehydrogenase, subgroup 1; Region: NAD_bind_1_Glu_DH; cd01076 504728000886 NAD(P) binding site [chemical binding]; other site 504728000887 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 504728000888 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 504728000889 NAD(P) binding domain of glutamate dehydrogenase, subgroup 1; Region: NAD_bind_1_Glu_DH; cd01076 504728000890 NAD(P) binding site [chemical binding]; other site 504728000891 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 504728000892 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 504728000893 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 504728000894 substrate binding pocket [chemical binding]; other site 504728000895 chain length determination region; other site 504728000896 substrate-Mg2+ binding site; other site 504728000897 catalytic residues [active] 504728000898 aspartate-rich region 1; other site 504728000899 active site lid residues [active] 504728000900 aspartate-rich region 2; other site 504728000901 redox-sensing transcriptional repressor Rex; Provisional; Region: PRK05472 504728000902 Putative DNA-binding protein N-terminus; Region: Put_DNA-bind_N; pfam06971 504728000903 CoA binding domain; Region: CoA_binding; smart00881 504728000904 Sporulation related domain; Region: SPOR; pfam05036 504728000905 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 504728000906 TPR motif; other site 504728000907 binding surface 504728000908 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 504728000909 TPR motif; other site 504728000910 binding surface 504728000911 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 504728000912 TPR motif; other site 504728000913 binding surface 504728000914 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 504728000915 binding surface 504728000916 TPR motif; other site 504728000917 isopentenyl pyrophosphate isomerase; Provisional; Region: PRK05437 504728000918 Isopentenyl-diphosphate:dimethylallyl diphosphate isomerase type 2 (IDI-2) FMN-binding domain. Two types of IDIs have been characterized at present. The long known IDI-1 is only dependent on divalent metals for activity, whereas IDI-2 requires a metal; Region: IDI-2_FMN; cd02811 504728000919 homotetramer interface [polypeptide binding]; other site 504728000920 FMN binding site [chemical binding]; other site 504728000921 homodimer contacts [polypeptide binding]; other site 504728000922 putative active site [active] 504728000923 putative substrate binding site [chemical binding]; other site 504728000924 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 504728000925 Putative D-isomer specific 2-hydroxyacid dehydrogenases; Region: 2-Hacid_dh_7; cd12166 504728000926 putative ligand binding site [chemical binding]; other site 504728000927 putative NAD binding site [chemical binding]; other site 504728000928 catalytic site [active] 504728000929 Disulfide bond formation protein DsbB; Region: DsbB; cl00649 504728000930 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 504728000931 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 504728000932 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 504728000933 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 504728000934 P loop; other site 504728000935 GTP binding site [chemical binding]; other site 504728000936 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 504728000937 Putative GTP-binding controlling metal-binding; Region: SUA5; pfam03481 504728000938 hypothetical protein; Validated; Region: PRK00068 504728000939 PUA domain; Region: PUA; cl00607 504728000940 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 504728000941 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 504728000942 putative RNA binding site [nucleotide binding]; other site 504728000943 Protein of unknown function (DUF525); Region: DUF525; cl01119 504728000944 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 504728000945 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 504728000946 Walker A/P-loop; other site 504728000947 ATP binding site [chemical binding]; other site 504728000948 Q-loop/lid; other site 504728000949 ABC transporter signature motif; other site 504728000950 Walker B; other site 504728000951 D-loop; other site 504728000952 H-loop/switch region; other site 504728000953 C-terminal peptidase (prc); Region: prc; TIGR00225 504728000954 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 504728000955 protein binding site [polypeptide binding]; other site 504728000956 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 504728000957 Catalytic dyad [active] 504728000958 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 504728000959 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 504728000960 Walker A/P-loop; other site 504728000961 ATP binding site [chemical binding]; other site 504728000962 Q-loop/lid; other site 504728000963 ABC transporter signature motif; other site 504728000964 Walker B; other site 504728000965 D-loop; other site 504728000966 H-loop/switch region; other site 504728000967 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 504728000968 30S subunit binding site; other site 504728000969 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 504728000970 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 504728000971 P-loop; other site 504728000972 Magnesium ion binding site [ion binding]; other site 504728000973 putative C-S lyase; Region: C_S_lyase_PatB; TIGR04350 504728000974 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 504728000975 pyridoxal 5'-phosphate binding site [chemical binding]; other site 504728000976 homodimer interface [polypeptide binding]; other site 504728000977 catalytic residue [active] 504728000978 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 504728000979 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 504728000980 metal binding site [ion binding]; metal-binding site 504728000981 active site 504728000982 I-site; other site 504728000983 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 504728000984 RNA/DNA hybrid binding site [nucleotide binding]; other site 504728000985 active site 504728000986 Domain of unknown function (DUF4384); Region: DUF4384; pfam14326 504728000987 TRAP-type mannitol/chloroaromatic compound transport system, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT1; COG4663 504728000988 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 504728000989 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 504728000990 TRAP-type mannitol/chloroaromatic compound transport system, large permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT3; COG4664 504728000991 DctM-like transporters; Region: DctM; pfam06808 504728000992 quinone oxidoreductase, NADPH-dependent; Provisional; Region: PRK10754 504728000993 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 504728000994 NADP binding site [chemical binding]; other site 504728000995 dimer interface [polypeptide binding]; other site 504728000996 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 504728000997 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 504728000998 N-acetylglucosamine-6-phosphate deacetylase, NagA, catalyzes the hydrolysis of the N-acetyl group of N-acetyl-glucosamine-6-phosphate (GlcNAc-6-P) to glucosamine 6-phosphate and acetate. This is the first committed step in the biosynthetic pathway to...; Region: NagA; cd00854 504728000999 Amidohydrolase; Region: Amidohydro_4; pfam13147 504728001000 active site 504728001001 dimer interface [polypeptide binding]; other site 504728001002 Predicted phosphosugar isomerases [Cell envelope biogenesis, outer membrane]; Region: AgaS; COG2222 504728001003 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 504728001004 dimer interface [polypeptide binding]; other site 504728001005 active site 504728001006 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 504728001007 dimer interface [polypeptide binding]; other site 504728001008 active site 504728001009 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK05808 504728001010 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 504728001011 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 504728001012 Glyoxalase-like domain; Region: Glyoxalase_3; pfam13468 504728001013 Domain of unknown function (DUF4032); Region: DUF4032; pfam13224 504728001014 CRP/FNR family transcriptional regulator; Provisional; Region: PRK13918 504728001015 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 504728001016 ligand binding site [chemical binding]; other site 504728001017 flexible hinge region; other site 504728001018 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 504728001019 putative switch regulator; other site 504728001020 non-specific DNA interactions [nucleotide binding]; other site 504728001021 DNA binding site [nucleotide binding] 504728001022 sequence specific DNA binding site [nucleotide binding]; other site 504728001023 putative cAMP binding site [chemical binding]; other site 504728001024 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 504728001025 Thermotoga maritima CorA-like family; Region: TmCorA-like; cd12822 504728001026 oligomer interface [polypeptide binding]; other site 504728001027 metal binding site [ion binding]; metal-binding site 504728001028 metal binding site [ion binding]; metal-binding site 504728001029 putative Cl binding site [ion binding]; other site 504728001030 aspartate ring; other site 504728001031 basic sphincter; other site 504728001032 hydrophobic gate; other site 504728001033 periplasmic entrance; other site 504728001034 CutA1 divalent ion tolerance protein; Region: CutA1; pfam03091 504728001035 ornithine cyclodeaminase; Validated; Region: PRK07340 504728001036 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 504728001037 MOSC domain; Region: MOSC; pfam03473 504728001038 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 504728001039 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 504728001040 Cytochrome c; Region: Cytochrom_C; pfam00034 504728001041 TAT (twin-arginine translocation) pathway signal sequence; Region: TAT_signal; pfam10518 504728001042 sulfite oxidase; Provisional; Region: PLN00177 504728001043 Subgroup of sulfite oxidase (SO) family molybdopterin binding domains that contains conserved dimerization domain. This molybdopterin cofactor (Moco) binding domain is found in a variety of oxidoreductases, main members of this family are nitrate...; Region: SO_family_Moco_dimer; cd02110 504728001044 Moco binding site; other site 504728001045 metal coordination site [ion binding]; other site 504728001046 dimerization interface [polypeptide binding]; other site 504728001047 DNA mismatch repair protein MutL; Region: mutl; TIGR00585 504728001048 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 504728001049 ATP binding site [chemical binding]; other site 504728001050 Mg2+ binding site [ion binding]; other site 504728001051 G-X-G motif; other site 504728001052 MutL_Trans: transducer domain, having a ribosomal S5 domain 2-like fold, conserved in the C-terminal domain of DNA mismatch repair (MutL/MLH1/PMS2) family. This transducer domain is homologous to the second domain of the DNA gyrase B subunit, which is...; Region: MutL_Trans; cd00782 504728001053 ATP binding site [chemical binding]; other site 504728001054 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 504728001055 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 504728001056 MutS domain I; Region: MutS_I; pfam01624 504728001057 MutS domain II; Region: MutS_II; pfam05188 504728001058 MutS domain III; Region: MutS_III; pfam05192 504728001059 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 504728001060 Walker A/P-loop; other site 504728001061 ATP binding site [chemical binding]; other site 504728001062 Q-loop/lid; other site 504728001063 ABC transporter signature motif; other site 504728001064 Walker B; other site 504728001065 D-loop; other site 504728001066 H-loop/switch region; other site 504728001067 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 504728001068 MPT binding site; other site 504728001069 trimer interface [polypeptide binding]; other site 504728001070 DNA gyrase subunit A; Validated; Region: PRK05560 504728001071 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 504728001072 CAP-like domain; other site 504728001073 active site 504728001074 primary dimer interface [polypeptide binding]; other site 504728001075 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 504728001076 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 504728001077 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 504728001078 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 504728001079 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 504728001080 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 504728001081 glycerol kinase; Provisional; Region: glpK; PRK00047 504728001082 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 504728001083 N- and C-terminal domain interface [polypeptide binding]; other site 504728001084 active site 504728001085 MgATP binding site [chemical binding]; other site 504728001086 catalytic site [active] 504728001087 metal binding site [ion binding]; metal-binding site 504728001088 glycerol binding site [chemical binding]; other site 504728001089 homotetramer interface [polypeptide binding]; other site 504728001090 homodimer interface [polypeptide binding]; other site 504728001091 FBP binding site [chemical binding]; other site 504728001092 protein IIAGlc interface [polypeptide binding]; other site 504728001093 Domain of unknown function (DUF4388); Region: DUF4388; pfam14332 504728001094 Eco57I restriction-modification methylase; Region: Eco57I; pfam07669 504728001095 TaqI-like C-terminal specificity domain; Region: TaqI_C; pfam12950 504728001096 Mrr N-terminal domain; Region: Mrr_N; pfam14338 504728001097 Fic family protein [Function unknown]; Region: COG3177 504728001098 Fic/DOC family; Region: Fic; pfam02661 504728001099 Helix-turn-helix domain; Region: HTH_17; pfam12728 504728001100 N-terminal putative catalytic domain of uncharacterized HKD family nucleases fused to putative helicases from the Snf2-like family; Region: PLDc_N_Snf2_like; cd09178 504728001101 PLD-like domain; Region: PLDc_2; pfam13091 504728001102 putative homodimer interface [polypeptide binding]; other site 504728001103 putative active site [active] 504728001104 catalytic site [active] 504728001105 DEAD-like helicases superfamily; Region: DEXDc; smart00487 504728001106 Type III restriction enzyme, res subunit; Region: ResIII; pfam04851 504728001107 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 504728001108 nucleotide binding region [chemical binding]; other site 504728001109 ATP-binding site [chemical binding]; other site 504728001110 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 504728001111 Peptidase family M23; Region: Peptidase_M23; pfam01551 504728001112 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 504728001113 Domain of unknown function (DUF4388); Region: DUF4388; pfam14332 504728001114 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; cl00327 504728001115 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 504728001116 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 504728001117 3-polyprenyl-4-hydroxybenzoate decarboxylase [Coenzyme metabolism]; Region: UbiX; COG0163 504728001118 Flavoprotein; Region: Flavoprotein; pfam02441 504728001119 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 504728001120 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 504728001121 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 504728001122 substrate binding site; other site 504728001123 dimer interface; other site 504728001124 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: PRK14612 504728001125 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 504728001126 ABC-type thiamine transport system, periplasmic component [Coenzyme metabolism]; Region: TbpA; COG4143 504728001127 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 504728001128 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 504728001129 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 504728001130 dimer interface [polypeptide binding]; other site 504728001131 conserved gate region; other site 504728001132 putative PBP binding loops; other site 504728001133 ABC-ATPase subunit interface; other site 504728001134 ABC-type sugar transport systems, permease components [Carbohydrate transport and metabolism]; Region: UgpA; COG1175 504728001135 ABC-type transport system involved in multi-copper enzyme maturation, permease component [General function prediction only]; Region: NosY; COG1277 504728001136 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 504728001137 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 504728001138 Walker A/P-loop; other site 504728001139 ATP binding site [chemical binding]; other site 504728001140 Q-loop/lid; other site 504728001141 ABC transporter signature motif; other site 504728001142 Walker B; other site 504728001143 D-loop; other site 504728001144 H-loop/switch region; other site 504728001145 Predicted membrane protein [Function unknown]; Region: COG1470 504728001146 NPCBM-associated, NEW3 domain of alpha-galactosidase; Region: NPCBM_assoc; pfam10633 504728001147 NPCBM-associated, NEW3 domain of alpha-galactosidase; Region: NPCBM_assoc; pfam10633 504728001148 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 504728001149 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are generally...; Region: ACD_sHsps-like; cd06464 504728001150 putative dimer interface [polypeptide binding]; other site 504728001151 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 504728001152 putative substrate translocation pore; other site 504728001153 Cupin superfamily (DUF985); Region: Cupin_5; pfam06172 504728001154 Uncharacterized metal-binding protein (DUF2227); Region: DUF2227; pfam09988 504728001155 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 504728001156 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 504728001157 CarD-like/TRCF domain; Region: CarD_CdnL_TRCF; cl00588 504728001158 cofactor-independent phosphoglycerate mutase; Provisional; Region: PRK04135 504728001159 Metalloenzyme superfamily; Region: Metalloenzyme; pfam01676 504728001160 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 504728001161 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 504728001162 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 504728001163 Peptidase S8 family domain, uncharacterized subfamily 5; Region: Peptidases_S8_5; cd07489 504728001164 active site 504728001165 catalytic triad [active] 504728001166 PA: Protease-associated (PA) domain. The PA domain is an insert domain in a diverse fraction of proteases. The significance of the PA domain to many of the proteins in which it is inserted is undetermined. It may be a protein-protein interaction domain; Region: PA; cl08238 504728001167 PA/protease or protease-like domain interface [polypeptide binding]; other site 504728001168 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 504728001169 catalytic residues [active] 504728001170 Fn3-like domain (DUF1034); Region: DUF1034; pfam06280 504728001171 prolyl-tRNA synthetase; Provisional; Region: PRK08661 504728001172 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_arch_euk; cd00778 504728001173 dimer interface [polypeptide binding]; other site 504728001174 motif 1; other site 504728001175 active site 504728001176 motif 2; other site 504728001177 motif 3; other site 504728001178 ProRS Prolyl-anticodon binding domain, long version found predominantly in eukaryotes and archaea. ProRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in...; Region: ProRS_anticodon_zinc; cd00862 504728001179 anticodon binding site; other site 504728001180 zinc-binding site [ion binding]; other site 504728001181 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 504728001182 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 504728001183 minor groove reading motif; other site 504728001184 helix-hairpin-helix signature motif; other site 504728001185 substrate binding pocket [chemical binding]; other site 504728001186 active site 504728001187 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; pfam10576 504728001188 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 504728001189 active site 504728001190 Hemerythrin; Region: Hemerythrin; cd12107 504728001191 Fe binding site [ion binding]; other site 504728001192 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 504728001193 S-adenosylmethionine binding site [chemical binding]; other site 504728001194 pyruvate dehydrogenase subunit E1; Reviewed; Region: aceE; PRK09405 504728001195 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 504728001196 dimer interface [polypeptide binding]; other site 504728001197 TPP-binding site [chemical binding]; other site 504728001198 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 504728001199 2-oxoglutarate dehydrogenase complex dihydrolipoamide succinyltransferase (E2 component); Region: sucB; TIGR01347 504728001200 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 504728001201 E3 interaction surface; other site 504728001202 lipoyl attachment site [posttranslational modification]; other site 504728001203 e3 binding domain; Region: E3_binding; pfam02817 504728001204 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 504728001205 cytidylate kinase; Provisional; Region: cmk; PRK00023 504728001206 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 504728001207 CMP-binding site; other site 504728001208 The sites determining sugar specificity; other site 504728001209 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 504728001210 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 504728001211 hinge; other site 504728001212 active site 504728001213 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 504728001214 DHH family; Region: DHH; pfam01368 504728001215 DHHA1 domain; Region: DHHA1; pfam02272 504728001216 O-acetylhomoserine sulfhydrylase [Amino acid transport and metabolism]; Region: MET17; COG2873 504728001217 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 504728001218 homodimer interface [polypeptide binding]; other site 504728001219 substrate-cofactor binding pocket; other site 504728001220 pyridoxal 5'-phosphate binding site [chemical binding]; other site 504728001221 catalytic residue [active] 504728001222 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 504728001223 FAD binding site [chemical binding]; other site 504728001224 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 504728001225 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 504728001226 NAD(P) binding site [chemical binding]; other site 504728001227 putative acetyltransferase; Provisional; Region: PRK03624 504728001228 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 504728001229 Coenzyme A binding pocket [chemical binding]; other site 504728001230 calcium/proton exchanger (cax); Region: cax; TIGR00378 504728001231 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 504728001232 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 504728001233 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 504728001234 Zn2+ binding site [ion binding]; other site 504728001235 Mg2+ binding site [ion binding]; other site 504728001236 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 504728001237 DNA binding residues [nucleotide binding] 504728001238 2-phosphoglycerate kinase; Provisional; Region: PRK12337 504728001239 ATP cone domain; Region: ATP-cone; pfam03477 504728001240 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 504728001241 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 504728001242 active site 504728001243 catalytic tetrad [active] 504728001244 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 504728001245 ROK family; Region: ROK; pfam00480 504728001246 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 504728001247 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 504728001248 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 504728001249 Walker A motif; other site 504728001250 ATP binding site [chemical binding]; other site 504728001251 Walker B motif; other site 504728001252 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 504728001253 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 504728001254 Presynaptic Site I dimer interface [polypeptide binding]; other site 504728001255 catalytic residues [active] 504728001256 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 504728001257 Synaptic Flat tetramer interface [polypeptide binding]; other site 504728001258 Synaptic Site I dimer interface [polypeptide binding]; other site 504728001259 DNA binding site [nucleotide binding] 504728001260 Recombinase; Region: Recombinase; pfam07508 504728001261 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 504728001262 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 504728001263 non-specific DNA binding site [nucleotide binding]; other site 504728001264 salt bridge; other site 504728001265 sequence-specific DNA binding site [nucleotide binding]; other site 504728001266 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 504728001267 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 504728001268 non-specific DNA binding site [nucleotide binding]; other site 504728001269 salt bridge; other site 504728001270 sequence-specific DNA binding site [nucleotide binding]; other site 504728001271 Toprim domain; Region: Toprim_3; pfam13362 504728001272 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cl11423 504728001273 AAA-like domain; Region: AAA_10; pfam12846 504728001274 Domain of unknown function DUF87; Region: DUF87; pfam01935 504728001275 Type IV secretory pathway, VirD4 components [Intracellular trafficking and secretion]; Region: VirD4; COG3505 504728001276 TraM recognition site of TraD and TraG; Region: TraG-D_C; pfam12696 504728001277 PLD-like domain; Region: PLDc_2; pfam13091 504728001278 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 504728001279 Zn2+ binding site [ion binding]; other site 504728001280 Mg2+ binding site [ion binding]; other site 504728001281 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 504728001282 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 504728001283 N-acetyl-D-glucosamine binding site [chemical binding]; other site 504728001284 catalytic residue [active] 504728001285 ncharacterized protein conserved in bacteria [Function unknown]; Region: SpoIIIAA; COG3854 504728001286 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 504728001287 Walker A motif; other site 504728001288 ATP binding site [chemical binding]; other site 504728001289 Walker B motif; other site 504728001290 S-layer homology domain; Region: SLH; pfam00395 504728001291 Protein of unknown function (DUF964); Region: DUF964; cl01483 504728001292 von Willebrand factor type A domain; Region: VWA_2; pfam13519 504728001293 metal ion-dependent adhesion site (MIDAS); other site 504728001294 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 504728001295 RES domain; Region: RES; cl02411 504728001296 putative toxin-antitoxin system antitoxin component, TIGR02293 family; Region: TAS_TIGR02293 504728001297 Protein of unknown function (DUF2384); Region: DUF2384; pfam09722 504728001298 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 504728001299 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4586 504728001300 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 504728001301 Walker A/P-loop; other site 504728001302 ATP binding site [chemical binding]; other site 504728001303 Q-loop/lid; other site 504728001304 ABC transporter signature motif; other site 504728001305 Walker B; other site 504728001306 D-loop; other site 504728001307 H-loop/switch region; other site 504728001308 Domain of unknown function (DUF4162); Region: DUF4162; pfam13732 504728001309 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4587 504728001310 ABC-2 family transporter protein; Region: ABC2_membrane_6; cl01496 504728001311 ABC-2 family transporter protein; Region: ABC2_membrane_6; cl01496 504728001312 voltage-dependent potassium channel beta subunit, animal; Region: Kv_beta; TIGR01293 504728001313 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 504728001314 active site 504728001315 catalytic tetrad [active] 504728001316 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 504728001317 active site 504728001318 NTP binding site [chemical binding]; other site 504728001319 metal binding triad [ion binding]; metal-binding site 504728001320 KNTase C-terminal domain; Region: KNTase_C; pfam07827 504728001321 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 504728001322 Cytochrome P450; Region: p450; cl12078 504728001323 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 504728001324 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 504728001325 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 504728001326 potential frameshift: common BLAST hit: gi|121604044|ref|YP_981373.1| transposase, IS4 family protein 504728001327 Archaeal putative transposase ISC1217; Region: DDE_Tnp_2; pfam04693 504728001328 PIN domain of ribonucleases (toxins), VapC, FitB, and PAE0151 of bacterial and archaeal toxin/antitoxin-like operons, and other similar homologs; Region: PIN_VapC-like; cd09861 504728001329 putative active site [active] 504728001330 transposase, putative, N-terminal domain; Region: tspaseT_teng_N; TIGR01765 504728001331 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 504728001332 Antirestriction protein [DNA replication, recombination, and repair]; Region: COG4227 504728001333 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 504728001334 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 504728001335 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 504728001336 Walker A motif; other site 504728001337 ATP binding site [chemical binding]; other site 504728001338 Uncharacterized conserved protein [Function unknown]; Region: COG4715 504728001339 Rad52/22 family double-strand break repair protein; Region: Rad52_Rad22; cl01936 504728001340 Restriction endonuclease [Defense mechanisms]; Region: COG3587 504728001341 Type III restriction enzyme, res subunit; Region: ResIII; pfam04851 504728001342 ATP binding site [chemical binding]; other site 504728001343 putative Mg++ binding site [ion binding]; other site 504728001344 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 504728001345 DNA methylase; Region: N6_N4_Mtase; cl17433 504728001346 DNA methylase; Region: N6_N4_Mtase; pfam01555 504728001347 DNA methylase; Region: N6_N4_Mtase; pfam01555 504728001348 Protein of unknown function (DUF3037); Region: DUF3037; pfam11236 504728001349 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 504728001350 FeS/SAM binding site; other site 504728001351 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 504728001352 active site 504728001353 catalytic residues [active] 504728001354 DNA binding site [nucleotide binding] 504728001355 Int/Topo IB signature motif; other site 504728001356 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 504728001357 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 504728001358 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 504728001359 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 504728001360 putative DNA binding site [nucleotide binding]; other site 504728001361 putative Zn2+ binding site [ion binding]; other site 504728001362 Plasmid stabilisation system protein; Region: Plasmid_stabil; pfam05016 504728001363 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 504728001364 Part of AAA domain; Region: AAA_19; pfam13245 504728001365 Family description; Region: UvrD_C_2; pfam13538 504728001366 DEAD-like helicases superfamily; Region: DEXDc; smart00487 504728001367 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 504728001368 ATP binding site [chemical binding]; other site 504728001369 putative Mg++ binding site [ion binding]; other site 504728001370 RNA polymerase I-specific transcription initiation factor Rrn7; Region: RRN7; pfam11781 504728001371 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 504728001372 ATP-binding site [chemical binding]; other site 504728001373 Distinct helicase family with a unique C-terminal domain including a metal-binding cysteine cluster [General function prediction only]; Region: COG1205 504728001374 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 504728001375 ATP binding site [chemical binding]; other site 504728001376 putative Mg++ binding site [ion binding]; other site 504728001377 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 504728001378 nucleotide binding region [chemical binding]; other site 504728001379 ATP-binding site [chemical binding]; other site 504728001380 Domain of unknown function (DUF1998); Region: DUF1998; pfam09369 504728001381 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 504728001382 HAD-hyrolase-like; Region: Hydrolase_like; pfam13242 504728001383 Staphylococcal nuclease homologues; Region: SNc; smart00318 504728001384 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cl00140 504728001385 Catalytic site; other site 504728001386 Excalibur calcium-binding domain; Region: Excalibur; smart00894 504728001387 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 504728001388 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 504728001389 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 504728001390 Uncharacterized protein conserved in bacteria (DUF2191); Region: DUF2191; pfam09957 504728001391 PIN domain of the Rv0301 toxin of Mycobacterium tuberculosis and other uncharacterized, annotated PilT protein domain proteins; Region: PIN_MtRv0301; cd09882 504728001392 putative active site [active] 504728001393 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 504728001394 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 504728001395 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 504728001396 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4634 504728001397 Protein of unknown function (DUF433); Region: DUF433; pfam04255 504728001398 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 504728001399 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 504728001400 Walker A/P-loop; other site 504728001401 ATP binding site [chemical binding]; other site 504728001402 Q-loop/lid; other site 504728001403 ABC transporter signature motif; other site 504728001404 Walker B; other site 504728001405 D-loop; other site 504728001406 H-loop/switch region; other site 504728001407 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 504728001408 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 504728001409 Walker A/P-loop; other site 504728001410 ATP binding site [chemical binding]; other site 504728001411 Q-loop/lid; other site 504728001412 ABC transporter signature motif; other site 504728001413 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 504728001414 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 504728001415 Walker B; other site 504728001416 D-loop; other site 504728001417 H-loop/switch region; other site 504728001418 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 504728001419 4-hydroxyphenylpyruvate dioxygenase and related hemolysins [Amino acid transport and metabolism / General function prediction only]; Region: COG3185 504728001420 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 504728001421 dimer interface [polypeptide binding]; other site 504728001422 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 504728001423 active site 504728001424 Fe binding site [ion binding]; other site 504728001425 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 504728001426 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 504728001427 NAD(P) binding site [chemical binding]; other site 504728001428 Tripartite tricarboxylate transporter TctA family; Region: TctA; pfam01970 504728001429 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 504728001430 Transcriptional regulators [Transcription]; Region: FadR; COG2186 504728001431 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 504728001432 DNA-binding site [nucleotide binding]; DNA binding site 504728001433 FCD domain; Region: FCD; pfam07729 504728001434 Diadenosine hexaphosphate (Ap6A) hydrolase is a member of the Nudix hydrolase superfamily. Ap6A hydrolase specifically hydrolyzes diadenosine polyphosphates, but not ATP or diadenosine triphosphate, and it generates ATP as the product. Ap6A, the most...; Region: Ap6A_hydrolase; cd03673 504728001435 active site 504728001436 Ap6A binding site [chemical binding]; other site 504728001437 nudix motif; other site 504728001438 metal binding site [ion binding]; metal-binding site 504728001439 SpoIVFB Site-2 protease (S2P), a zinc metalloprotease (MEROPS family M50B), regulates intramembrane proteolysis (RIP), and is involved in the pro-sigmaK pathway of bacterial spore formation. In this subgroup, SpoIVFB (sporulation protein, stage IV cell...; Region: S2P-M50_SpoIVFB_CBS; cd06164 504728001440 active site 504728001441 putative substrate binding region [chemical binding]; other site 504728001442 FOG: CBS domain [General function prediction only]; Region: COG0517 504728001443 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 504728001444 Predicted methyltransferases [General function prediction only]; Region: COG0313 504728001445 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 504728001446 putative SAM binding site [chemical binding]; other site 504728001447 putative homodimer interface [polypeptide binding]; other site 504728001448 6-phosphofructokinase; Provisional; Region: PRK03202 504728001449 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 504728001450 active site 504728001451 ADP/pyrophosphate binding site [chemical binding]; other site 504728001452 dimerization interface [polypeptide binding]; other site 504728001453 allosteric effector site; other site 504728001454 fructose-1,6-bisphosphate binding site; other site 504728001455 methionine sulfoxide reductase A; Provisional; Region: PRK14054 504728001456 Caulimovirus viroplasmin; Region: Cauli_VI; pfam01693 504728001457 Predicted double-stranded RNA/RNA-DNA hybrid binding protein [General function prediction only]; Region: COG3341 504728001458 RNase H is an endonuclease that cleaves the RNA strand of an RNA/DNA hybrid in a sequence non-specific manner; Region: RNase_H; cl14782 504728001459 RNA/DNA hybrid binding site [nucleotide binding]; other site 504728001460 active site 504728001461 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 504728001462 heterotetramer interface [polypeptide binding]; other site 504728001463 active site pocket [active] 504728001464 cleavage site 504728001465 Adenine deaminase [Nucleotide transport and metabolism]; Region: AdeC; COG1001 504728001466 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 504728001467 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 504728001468 ABC-ATPase subunit interface; other site 504728001469 dimer interface [polypeptide binding]; other site 504728001470 putative PBP binding regions; other site 504728001471 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 504728001472 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 504728001473 ABC-ATPase subunit interface; other site 504728001474 dimer interface [polypeptide binding]; other site 504728001475 putative PBP binding regions; other site 504728001476 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 504728001477 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 504728001478 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 504728001479 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 504728001480 intersubunit interface [polypeptide binding]; other site 504728001481 Iron dependent repressor, N-terminal DNA binding domain; Region: Fe_dep_repress; pfam01325 504728001482 Helix-turn-helix diphteria tox regulatory element; Region: HTH_DTXR; smart00529 504728001483 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 504728001484 FeoA domain; Region: FeoA; pfam04023 504728001485 Minimal MMP-like domain found in Thermus thermophilus TTHA0227, Acidothermus cellulolyticus ACEL2062 and similar proteins; Region: MMP_TTHA0227_like; cl01577 504728001486 G1P_TT_long represents the long form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_long; cd04189 504728001487 glucose-1-phosphate thymidylylransferase, long form; Region: rmlA_long; TIGR01208 504728001488 substrate binding site; other site 504728001489 metal-binding site 504728001490 Oligomer interface; other site 504728001491 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cl00160 504728001492 Transcriptional regulators [Transcription]; Region: PurR; COG1609 504728001493 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 504728001494 DNA binding site [nucleotide binding] 504728001495 domain linker motif; other site 504728001496 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 504728001497 dimerization interface [polypeptide binding]; other site 504728001498 ligand binding site [chemical binding]; other site 504728001499 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 504728001500 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 504728001501 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 504728001502 putative PBP binding loops; other site 504728001503 ABC-ATPase subunit interface; other site 504728001504 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 504728001505 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 504728001506 dimer interface [polypeptide binding]; other site 504728001507 conserved gate region; other site 504728001508 putative PBP binding loops; other site 504728001509 ABC-ATPase subunit interface; other site 504728001510 Glycogen debranching enzyme [Carbohydrate transport and metabolism]; Region: GDB1; COG3408 504728001511 Amylo-alpha-1,6-glucosidase; Region: GDE_C; pfam06202 504728001512 Uncharacterized proteins, LmbE homologs [Function unknown]; Region: COG2120 504728001513 tRNA nucleotidyltransferase/poly(A) polymerase [Translation, ribosomal structure and biogenesis]; Region: PcnB; COG0617 504728001514 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 504728001515 active site 504728001516 NTP binding site [chemical binding]; other site 504728001517 metal binding triad [ion binding]; metal-binding site 504728001518 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 504728001519 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl17215 504728001520 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 504728001521 TAP-like protein; Region: Abhydrolase_4; pfam08386 504728001522 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2976 504728001523 Tetratricopeptide repeat; Region: TPR_12; pfam13424 504728001524 PEGA domain; Region: PEGA; pfam08308 504728001525 Domain of unknown function (DUF2437); Region: DUF2437; pfam10370 504728001526 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 504728001527 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 504728001528 potassium/proton antiporter; Reviewed; Region: PRK05326 504728001529 Predicted RNA-binding protein homologous to eukaryotic snRNP [Transcription]; Region: COG1293 504728001530 Domain of unknown function (DUF814); Region: DUF814; pfam05670 504728001531 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 504728001532 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 504728001533 dimerization interface [polypeptide binding]; other site 504728001534 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 504728001535 dimer interface [polypeptide binding]; other site 504728001536 phosphorylation site [posttranslational modification] 504728001537 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 504728001538 ATP binding site [chemical binding]; other site 504728001539 Mg2+ binding site [ion binding]; other site 504728001540 G-X-G motif; other site 504728001541 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 504728001542 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 504728001543 active site 504728001544 phosphorylation site [posttranslational modification] 504728001545 intermolecular recognition site; other site 504728001546 dimerization interface [polypeptide binding]; other site 504728001547 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 504728001548 DNA binding site [nucleotide binding] 504728001549 tRNA(1-methyladenosine) methyltransferase and related methyltransferases [Translation, ribosomal structure and biogenesis]; Region: GCD14; COG2519 504728001550 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 504728001551 S-adenosylmethionine binding site [chemical binding]; other site 504728001552 Type II transport protein GspH; Region: GspH; pfam12019 504728001553 Type II secretory pathway, component PulJ [Intracellular trafficking and secretion]; Region: PulJ; COG4795 504728001554 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 504728001555 PilX N-terminal; Region: PilX_N; pfam14341 504728001556 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 504728001557 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 504728001558 ATP binding site [chemical binding]; other site 504728001559 G-X-G motif; other site 504728001560 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 504728001561 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 504728001562 active site 504728001563 phosphorylation site [posttranslational modification] 504728001564 intermolecular recognition site; other site 504728001565 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 504728001566 DNA binding residues [nucleotide binding] 504728001567 dimerization interface [polypeptide binding]; other site 504728001568 PilX N-terminal; Region: PilX_N; pfam14341 504728001569 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 504728001570 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 504728001571 GTP-binding protein LepA; Provisional; Region: PRK05433 504728001572 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 504728001573 G1 box; other site 504728001574 putative GEF interaction site [polypeptide binding]; other site 504728001575 GTP/Mg2+ binding site [chemical binding]; other site 504728001576 Switch I region; other site 504728001577 G2 box; other site 504728001578 G3 box; other site 504728001579 Switch II region; other site 504728001580 G4 box; other site 504728001581 G5 box; other site 504728001582 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 504728001583 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 504728001584 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 504728001585 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 504728001586 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 504728001587 substrate binding pocket [chemical binding]; other site 504728001588 membrane-bound complex binding site; other site 504728001589 hinge residues; other site 504728001590 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 504728001591 DNA-binding site [nucleotide binding]; DNA binding site 504728001592 RNA-binding motif; other site 504728001593 acyl carrier protein; Provisional; Region: acpP; PRK00982 504728001594 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 504728001595 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 504728001596 NAD(P) binding site [chemical binding]; other site 504728001597 homotetramer interface [polypeptide binding]; other site 504728001598 homodimer interface [polypeptide binding]; other site 504728001599 active site 504728001600 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 504728001601 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 504728001602 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 504728001603 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 504728001604 dimer interface [polypeptide binding]; other site 504728001605 active site 504728001606 CoA binding pocket [chemical binding]; other site 504728001607 50S ribosomal protein L32; Reviewed; Region: rpmF; PRK12286 504728001608 S-adenosyl-l-methionine hydroxide adenosyltransferase; Region: SAM_adeno_trans; pfam01887 504728001609 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 504728001610 TPR motif; other site 504728001611 Tetratricopeptide repeat; Region: TPR_16; pfam13432 504728001612 binding surface 504728001613 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 504728001614 binding surface 504728001615 TPR motif; other site 504728001616 Anaphase-promoting complex, cyclosome, subunit 3; Region: Apc3; pfam12895 504728001617 Uncharacterized conserved protein [Function unknown]; Region: COG1432 504728001618 LabA_like proteins; Region: LabA; cd10911 504728001619 putative metal binding site [ion binding]; other site 504728001620 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 504728001621 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 504728001622 Serine acetyltransferase [Amino acid transport and metabolism]; Region: CysE; COG1045 504728001623 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 504728001624 trimer interface [polypeptide binding]; other site 504728001625 active site 504728001626 substrate binding site [chemical binding]; other site 504728001627 CoA binding site [chemical binding]; other site 504728001628 hypothetical protein; Validated; Region: PRK00110 504728001629 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 504728001630 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 504728001631 dimer interface [polypeptide binding]; other site 504728001632 active site 504728001633 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 504728001634 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 504728001635 protein binding site [polypeptide binding]; other site 504728001636 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 504728001637 Active site serine [active] 504728001638 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 504728001639 C-terminal peptidase (prc); Region: prc; TIGR00225 504728001640 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 504728001641 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 504728001642 Active site serine [active] 504728001643 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 504728001644 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 504728001645 Coenzyme A binding pocket [chemical binding]; other site 504728001646 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 504728001647 NAD(P) binding site [chemical binding]; other site 504728001648 active site 504728001649 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 504728001650 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 504728001651 Walker A/P-loop; other site 504728001652 ATP binding site [chemical binding]; other site 504728001653 Q-loop/lid; other site 504728001654 ABC transporter signature motif; other site 504728001655 Walker B; other site 504728001656 D-loop; other site 504728001657 H-loop/switch region; other site 504728001658 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 504728001659 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 504728001660 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 504728001661 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 504728001662 Walker A/P-loop; other site 504728001663 ATP binding site [chemical binding]; other site 504728001664 Q-loop/lid; other site 504728001665 ABC transporter signature motif; other site 504728001666 Walker B; other site 504728001667 D-loop; other site 504728001668 H-loop/switch region; other site 504728001669 Thiamine pyrophosphokinase [Coenzyme metabolism]; Region: THI80; COG1564 504728001670 Thiamine pyrophosphokinase; Region: TPK; cd07995 504728001671 active site 504728001672 dimerization interface [polypeptide binding]; other site 504728001673 thiamine binding site [chemical binding]; other site 504728001674 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 504728001675 PA: Protease-associated (PA) domain. The PA domain is an insert domain in a diverse fraction of proteases. The significance of the PA domain to many of the proteins in which it is inserted is undetermined. It may be a protein-protein interaction domain; Region: PA; cl08238 504728001676 PA/protease or protease-like domain interface [polypeptide binding]; other site 504728001677 M28 Zn-peptidases include aminopeptidases and carboxypeptidases; Region: M28; cd02690 504728001678 Peptidase family M28; Region: Peptidase_M28; pfam04389 504728001679 metal binding site [ion binding]; metal-binding site 504728001680 serine racemase; Region: PLN02970 504728001681 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 504728001682 tetramer interface [polypeptide binding]; other site 504728001683 pyridoxal 5'-phosphate binding site [chemical binding]; other site 504728001684 catalytic residue [active] 504728001685 2-methylthioadenine synthetase [Translation, ribosomal structure and biogenesis]; Region: MiaB; COG0621 504728001686 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 504728001687 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 504728001688 FeS/SAM binding site; other site 504728001689 Protein Kinase C Interacting protein related (PKCI): PKCI and related proteins belong to the ubiquitous HIT family of hydrolases that act on alpha-phosphates of ribonucleotides. The members of this subgroup have a conserved HxHxHxx motif (x is a...; Region: PKCI_related; cd01276 504728001690 nucleotide binding site/active site [active] 504728001691 HIT family signature motif; other site 504728001692 catalytic residue [active] 504728001693 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 504728001694 active site 504728001695 metal binding site [ion binding]; metal-binding site 504728001696 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 504728001697 Bifunctional nuclease; Region: DNase-RNase; pfam02577 504728001698 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 504728001699 active site 504728001700 adenine phosphoribosyltransferase; Provisional; Region: PRK07322 504728001701 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 504728001702 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 504728001703 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 504728001704 CoenzymeA binding site [chemical binding]; other site 504728001705 subunit interaction site [polypeptide binding]; other site 504728001706 PHB binding site; other site 504728001707 Coenzyme B12-dependent-methylmalonyl coenzyme A (CoA) mutase (MCM) family, isobutyryl-CoA mutase (ICM)-like subfamily; contains archaeal and bacterial proteins similar to the large subunit of Streptomyces cinnamonensis coenzyme B12-dependent ICM. ICM...; Region: MM_CoA_mutase_ICM_like; cd03680 504728001708 Stage II sporulation protein; Region: SpoIID; pfam08486 504728001709 SpoIID/LytB domain; Region: SpoIID_LytB; TIGR02669 504728001710 Recombination protein O N terminal; Region: RecO_N; pfam11967 504728001711 Escherichia coli xylulokinase-like D-xylulose kinases; a subgroup of the FGGY family of carbohydrate kinases; Region: FGGY_D-XK_EcXK-like; cd07808 504728001712 N- and C-terminal domain interface [polypeptide binding]; other site 504728001713 active site 504728001714 MgATP binding site [chemical binding]; other site 504728001715 catalytic site [active] 504728001716 metal binding site [ion binding]; metal-binding site 504728001717 xylulose binding site [chemical binding]; other site 504728001718 homodimer interface [polypeptide binding]; other site 504728001719 xylose isomerase, Arthrobacter type; Region: xylA_Arthro; TIGR02631 504728001720 xylose isomerase; Provisional; Region: PRK12677 504728001721 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 504728001722 putative DNA binding site [nucleotide binding]; other site 504728001723 putative Zn2+ binding site [ion binding]; other site 504728001724 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 504728001725 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 504728001726 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 504728001727 Domain of unknown function (DUF305); Region: DUF305; pfam03713 504728001728 Cytochrome oxidase assembly protein; Region: COX15-CtaA; pfam02628 504728001729 protoheme IX farnesyltransferase; Provisional; Region: PRK04375 504728001730 UbiA prenyltransferase family; Region: UbiA; pfam01040 504728001731 cytochrome c oxidase, subunit II; Region: CoxB; TIGR02866 504728001732 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 504728001733 Cytochrome c; Region: Cytochrom_C; pfam00034 504728001734 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 504728001735 cytochrome c oxidase, subunit I; Region: CtaD_CoxA; TIGR02891 504728001736 Heme-copper oxidase subunit III. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which couple the reduction of molecular oxygen to water to, proton pumping across the membrane. The...; Region: Heme_Cu_Oxidase_III_like; cd00386 504728001737 Subunit I/III interface [polypeptide binding]; other site 504728001738 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 504728001739 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 504728001740 Domain of unknown function (DUF4384); Region: DUF4384; pfam14326 504728001741 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 504728001742 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 504728001743 [2Fe-2S] cluster binding site [ion binding]; other site 504728001744 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 504728001745 hydrophobic ligand binding site; other site 504728001746 Carboxylesterase family; Region: COesterase; pfam00135 504728001747 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 504728001748 substrate binding pocket [chemical binding]; other site 504728001749 catalytic triad [active] 504728001750 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 504728001751 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 504728001752 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 504728001753 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 504728001754 metal binding site 2 [ion binding]; metal-binding site 504728001755 putative DNA binding helix; other site 504728001756 metal binding site 1 [ion binding]; metal-binding site 504728001757 dimer interface [polypeptide binding]; other site 504728001758 structural Zn2+ binding site [ion binding]; other site 504728001759 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 504728001760 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; cl17708 504728001761 domain interfaces; other site 504728001762 active site 504728001763 menaquinone biosynthesis decarboxylase, SCO4490 family; Region: mena_SCO4490; TIGR03701 504728001764 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 504728001765 hypothetical protein; Reviewed; Region: PRK12497 504728001766 PASTA domain of bacterial serine/threonine kinase pknB-like proteins. PknB is a member of a group of related transmembrane sensor kinases present in many gram positive bacteria, which has been shown to regulate cell shape in Mycobacterium tubercolosis; Region: PASTA_pknB; cd06577 504728001767 PASTA domain of bacterial serine/threonine kinase pknB-like proteins. PknB is a member of a group of related transmembrane sensor kinases present in many gram positive bacteria, which has been shown to regulate cell shape in Mycobacterium tubercolosis; Region: PASTA_pknB; cd06577 504728001768 PASTA domain of bacterial serine/threonine kinase pknB-like proteins. PknB is a member of a group of related transmembrane sensor kinases present in many gram positive bacteria, which has been shown to regulate cell shape in Mycobacterium tubercolosis; Region: PASTA_pknB; cd06577 504728001769 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 504728001770 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 504728001771 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 504728001772 substrate binding site [chemical binding]; other site 504728001773 ATP binding site [chemical binding]; other site 504728001774 recombination factor protein RarA; Reviewed; Region: PRK13342 504728001775 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 504728001776 Walker A motif; other site 504728001777 ATP binding site [chemical binding]; other site 504728001778 Walker B motif; other site 504728001779 arginine finger; other site 504728001780 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 504728001781 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 504728001782 I-site; other site 504728001783 active site 504728001784 metal binding site [ion binding]; metal-binding site 504728001785 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 504728001786 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 504728001787 catalytic residue [active] 504728001788 DnaJ-class molecular chaperone with C-terminal Zn finger domain [Posttranslational modification, protein turnover, chaperones]; Region: DnaJ; COG0484 504728001789 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 504728001790 HSP70 interaction site [polypeptide binding]; other site 504728001791 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 504728001792 Zn binding sites [ion binding]; other site 504728001793 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 504728001794 dimer interface [polypeptide binding]; other site 504728001795 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 504728001796 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 504728001797 tetrameric interface [polypeptide binding]; other site 504728001798 NAD binding site [chemical binding]; other site 504728001799 catalytic residues [active] 504728001800 YcfA-like protein; Region: YcfA; pfam07927 504728001801 Domain of unknown function (DUF1902); Region: DUF1902; pfam08972 504728001802 hypothetical protein; Provisional; Region: PRK12705 504728001803 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl17215 504728001804 recombinase A; Provisional; Region: recA; PRK09354 504728001805 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 504728001806 hexamer interface [polypeptide binding]; other site 504728001807 Walker A motif; other site 504728001808 ATP binding site [chemical binding]; other site 504728001809 Walker B motif; other site 504728001810 2'-5' RNA ligase [Translation, ribosomal structure and biogenesis]; Region: LigT; COG1514 504728001811 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 504728001812 competence damage-inducible protein A; Provisional; Region: PRK00549 504728001813 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 504728001814 putative MPT binding site; other site 504728001815 Competence-damaged protein; Region: CinA; pfam02464 504728001816 Aminomethyltransferase folate-binding domain; Region: GCV_T; pfam01571 504728001817 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 504728001818 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 504728001819 conserved repeat domain; Region: B_ant_repeat; TIGR01451 504728001820 Eukaryotic porin family that forms channels in the mitochondrial outer membrane; Region: Porin3; cl03224 504728001821 Domain of unknown function DUF11; Region: DUF11; pfam01345 504728001822 Domain of unknown function DUF11; Region: DUF11; pfam01345 504728001823 Domain of unknown function (DUF4139); Region: DUF4139; pfam13598 504728001824 conserved repeat domain; Region: B_ant_repeat; TIGR01451 504728001825 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4719 504728001826 dihydroorotase; Validated; Region: pyrC; PRK09357 504728001827 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 504728001828 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 504728001829 active site 504728001830 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 504728001831 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 504728001832 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 504728001833 Pyrimidine operon attenuation protein/uracil phosphoribosyltransferase [Nucleotide transport and metabolism]; Region: PyrR; COG2065 504728001834 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 504728001835 active site 504728001836 tagatose 1,6-diphosphate aldolase; Reviewed; Region: PRK12858 504728001837 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 504728001838 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 504728001839 putative substrate binding site [chemical binding]; other site 504728001840 putative ATP binding site [chemical binding]; other site 504728001841 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 504728001842 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 504728001843 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 504728001844 active site 504728001845 FMN binding site [chemical binding]; other site 504728001846 substrate binding site [chemical binding]; other site 504728001847 homotetramer interface [polypeptide binding]; other site 504728001848 catalytic residue [active] 504728001849 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 504728001850 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 504728001851 active site 504728001852 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 504728001853 Ligand binding site [chemical binding]; other site 504728001854 Electron transfer flavoprotein domain; Region: ETF; pfam01012 504728001855 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 504728001856 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases, ATP sulphurylases Universal Stress Response protein and electron transfer flavoprotein (ETF). The domain forms a apha/beta/apha fold which binds to Adenosine nucleotide; Region: AANH_like; cl00292 504728001857 Ligand Binding Site [chemical binding]; other site 504728001858 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 504728001859 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 504728001860 histidinol dehydrogenase; Region: hisD; TIGR00069 504728001861 NAD binding site [chemical binding]; other site 504728001862 dimerization interface [polypeptide binding]; other site 504728001863 product binding site; other site 504728001864 substrate binding site [chemical binding]; other site 504728001865 zinc binding site [ion binding]; other site 504728001866 catalytic residues [active] 504728001867 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 504728001868 isocitrate lyase; Provisional; Region: PRK15063 504728001869 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 504728001870 tetramer interface [polypeptide binding]; other site 504728001871 active site 504728001872 Mg2+/Mn2+ binding site [ion binding]; other site 504728001873 Predicted signal-transduction protein containing cAMP-binding and CBS domains [Signal transduction mechanisms]; Region: COG2905 504728001874 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 504728001875 ligand binding site [chemical binding]; other site 504728001876 flexible hinge region; other site 504728001877 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with either the CAP_ED (cAMP receptor protein effector domain) family of transcription factors and the DUF294 domain or the PB1 (Phox and Bem1p) domain; Region: CBS_pair_CAP-ED_DUF294_PBI_assoc2; cd04800 504728001878 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 504728001879 metal binding triad; other site 504728001880 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 504728001881 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 504728001882 catalytic triad [active] 504728001883 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 504728001884 Uncharacterized aldehyde dehydrogenase of Synechococcus sp. PCC 7335 (EDX86601); Region: ALDH_EDX86601; cd07102 504728001885 NAD(P) binding site [chemical binding]; other site 504728001886 catalytic residues [active] 504728001887 short chain dehydrogenase; Provisional; Region: PRK06057 504728001888 classical (c) SDRs; Region: SDR_c; cd05233 504728001889 NAD(P) binding site [chemical binding]; other site 504728001890 active site 504728001891 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 504728001892 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 504728001893 ethanolamine permease; Region: 2A0305; TIGR00908 504728001894 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 504728001895 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 504728001896 DNA-binding site [nucleotide binding]; DNA binding site 504728001897 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 504728001898 pyridoxal 5'-phosphate binding site [chemical binding]; other site 504728001899 homodimer interface [polypeptide binding]; other site 504728001900 catalytic residue [active] 504728001901 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 504728001902 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 504728001903 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 504728001904 ABC transporter; Region: ABC_tran_2; pfam12848 504728001905 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 504728001906 membrane protein; Provisional; Region: PRK14401 504728001907 Transcriptional regulators [Transcription]; Region: PurR; COG1609 504728001908 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 504728001909 DNA binding site [nucleotide binding] 504728001910 domain linker motif; other site 504728001911 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 504728001912 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 504728001913 [2Fe-2S] cluster binding site [ion binding]; other site 504728001914 Cysteine desulfurase activator SufB [Posttranslational modification, protein turnover, chaperones]; Region: SufB; COG0719 504728001915 FeS assembly protein SufD; Region: sufD; TIGR01981 504728001916 Cytotoxic translational repressor of toxin-antitoxin stability system [Translation, ribosomal structure and biogenesis / Cell division and chromosome partitioning]; Region: RelE; COG2026 504728001917 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814; cl03223 504728001918 FeS assembly protein SufB; Region: sufB; TIGR01980 504728001919 Cysteine desulfurase activator ATPase [Posttranslational modification, protein turnover, chaperones]; Region: sufC; COG0396 504728001920 ABC-type transport system involved in Fe-S cluster assembly, ATPase component; Region: ABC_FeS_Assembly; cd03217 504728001921 Walker A/P-loop; other site 504728001922 ATP binding site [chemical binding]; other site 504728001923 Q-loop/lid; other site 504728001924 ABC transporter signature motif; other site 504728001925 Walker B; other site 504728001926 D-loop; other site 504728001927 H-loop/switch region; other site 504728001928 Menaquinone biosynthesis; Region: VitK2_biosynth; pfam02621 504728001929 putative menaquinone biosynthesis protein, SCO4494 family; Region: mena_SCO4494; TIGR03700 504728001930 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 504728001931 FeS/SAM binding site; other site 504728001932 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 504728001933 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 504728001934 metal binding site [ion binding]; metal-binding site 504728001935 active site 504728001936 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 504728001937 I-site; other site 504728001938 Tetratricopeptide repeat; Region: TPR_12; pfam13424 504728001939 Tetratricopeptide repeat; Region: TPR_12; pfam13424 504728001940 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 504728001941 binding surface 504728001942 TPR motif; other site 504728001943 Tetratricopeptide repeat; Region: TPR_12; pfam13424 504728001944 CHAT domain; Region: CHAT; pfam12770 504728001945 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 504728001946 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 504728001947 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 504728001948 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 504728001949 Concanavalin A-like lectin/glucanases superfamily; Region: Laminin_G_3; pfam13385 504728001950 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 504728001951 active site 504728001952 catalytic residues [active] 504728001953 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 504728001954 binding surface 504728001955 Tetratricopeptide repeat; Region: TPR_12; pfam13424 504728001956 TPR motif; other site 504728001957 Tetratricopeptide repeat; Region: TPR_12; pfam13424 504728001958 Tetratricopeptide repeat; Region: TPR_12; pfam13424 504728001959 diaminopimelate decarboxylase; Region: lysA; TIGR01048 504728001960 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 504728001961 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 504728001962 catalytic residue [active] 504728001963 Predicted glutamine amidotransferases [General function prediction only]; Region: COG2071 504728001964 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 504728001965 catalytic triad [active] 504728001966 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 504728001967 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 504728001968 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 504728001969 Walker A/P-loop; other site 504728001970 ATP binding site [chemical binding]; other site 504728001971 Q-loop/lid; other site 504728001972 ABC transporter signature motif; other site 504728001973 Walker B; other site 504728001974 D-loop; other site 504728001975 H-loop/switch region; other site 504728001976 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 504728001977 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 504728001978 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 504728001979 Walker A/P-loop; other site 504728001980 ATP binding site [chemical binding]; other site 504728001981 Q-loop/lid; other site 504728001982 ABC transporter signature motif; other site 504728001983 Walker B; other site 504728001984 D-loop; other site 504728001985 H-loop/switch region; other site 504728001986 CoA enzyme activase uncharacterized domain (DUF2229); Region: DUF2229; cl17855 504728001987 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 504728001988 Acetylornithine deacetylase/Succinyl-diaminopimelate desuccinylase and related deacylases [Amino acid transport and metabolism]; Region: ArgE; COG0624 504728001989 metal binding site [ion binding]; metal-binding site 504728001990 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 504728001991 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 504728001992 active site 504728001993 phosphorylation site [posttranslational modification] 504728001994 intermolecular recognition site; other site 504728001995 dimerization interface [polypeptide binding]; other site 504728001996 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 504728001997 DNA binding residues [nucleotide binding] 504728001998 dimerization interface [polypeptide binding]; other site 504728001999 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 504728002000 Predicted membrane protein [Function unknown]; Region: COG3174 504728002001 Domain of unknown function (DUF4010); Region: DUF4010; pfam13194 504728002002 undecaprenyl pyrophosphate synthase; Provisional; Region: PRK14835 504728002003 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 504728002004 catalytic residue [active] 504728002005 putative FPP diphosphate binding site; other site 504728002006 putative FPP binding hydrophobic cleft; other site 504728002007 dimer interface [polypeptide binding]; other site 504728002008 putative IPP diphosphate binding site; other site 504728002009 Predicted enolase-phosphatase [Energy production and conversion]; Region: COG4229 504728002010 Src Homology 3 domain superfamily; Region: SH3; cl17036 504728002011 peptide ligand binding site [polypeptide binding]; other site 504728002012 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 504728002013 active site 504728002014 Subtilisin-like serine proteases [Posttranslational modification, protein turnover, chaperones]; Region: AprE; COG1404 504728002015 Peptidase S8 family domain, uncharacterized subfamily 13; Region: Peptidases_S8_13; cd07496 504728002016 active site 504728002017 catalytic triad [active] 504728002018 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]; Region: COG1139 504728002019 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 504728002020 Domain of unknown function (DUF3390); Region: DUF3390; pfam11870 504728002021 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 504728002022 Cysteine-rich domain; Region: CCG; pfam02754 504728002023 Cysteine-rich domain; Region: CCG; pfam02754 504728002024 Putative heavy-metal-binding; Region: YbjQ_1; cl00426 504728002025 Predicted membrane protein [Function unknown]; Region: COG2311 504728002026 Protein of unknown function (DUF418); Region: DUF418; cl12135 504728002027 DinB superfamily; Region: DinB_2; pfam12867 504728002028 Protein of unknown function (DUF664); Region: DUF664; pfam04978 504728002029 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 504728002030 dimerization interface [polypeptide binding]; other site 504728002031 putative DNA binding site [nucleotide binding]; other site 504728002032 Transcriptional regulators [Transcription]; Region: MarR; COG1846 504728002033 putative Zn2+ binding site [ion binding]; other site 504728002034 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 504728002035 Coenzyme A binding pocket [chemical binding]; other site 504728002036 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 504728002037 Major Facilitator Superfamily; Region: MFS_1; pfam07690 504728002038 putative substrate translocation pore; other site 504728002039 Low molecular weight phosphatase family; Region: LMWPc; cd00115 504728002040 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 504728002041 active site 504728002042 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 504728002043 Low molecular weight phosphatase family; Region: LMWPc; cd00115 504728002044 active site 504728002045 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; cl00296 504728002046 putative active site [active] 504728002047 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 504728002048 binding surface 504728002049 TPR motif; other site 504728002050 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 504728002051 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 504728002052 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 504728002053 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 504728002054 active site 504728002055 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 504728002056 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 504728002057 active site 504728002058 Adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG3392 504728002059 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; cl17344 504728002060 FOG: CBS domain [General function prediction only]; Region: COG0517 504728002061 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in the acetoin utilization proteins in bacteria. Acetoin is a product of fermentative metabolism in many prokaryotic and eukaryotic microorganisms. They produce...; Region: CBS_pair_ACT_assoc; cd04584 504728002062 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 504728002063 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 504728002064 Class I histone deacetylase AcuC (Acetoin utilization protein)-like enzymes; Region: HDAC_AcuC_like; cd09994 504728002065 active site 504728002066 Zn binding site [ion binding]; other site 504728002067 Protein of unknown function (DUF1653); Region: DUF1653; pfam07866 504728002068 CcmB protein; Region: CcmB; cl17444 504728002069 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 504728002070 cytochrome c-type biogenesis protein CcmE; Reviewed; Region: PRK13254 504728002071 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: CcmF; COG1138 504728002072 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 504728002073 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 504728002074 catalytic residues [active] 504728002075 Cytochrome C biogenesis protein; Region: CcmH; pfam03918 504728002076 TPR repeat; Region: TPR_11; pfam13414 504728002077 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 504728002078 binding surface 504728002079 TPR motif; other site 504728002080 Tetratricopeptide repeat; Region: TPR_16; pfam13432 504728002081 Cytochrome c; Region: Cytochrom_C; cl11414 504728002082 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 504728002083 iron-sulfur cluster [ion binding]; other site 504728002084 [2Fe-2S] cluster binding site [ion binding]; other site 504728002085 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 504728002086 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 504728002087 active site 504728002088 HIGH motif; other site 504728002089 dimer interface [polypeptide binding]; other site 504728002090 KMSKS motif; other site 504728002091 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 504728002092 RNA binding surface [nucleotide binding]; other site 504728002093 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 504728002094 CHAD domain; Region: CHAD; pfam05235 504728002095 Uncharacterized ACR, COG1399; Region: DUF177; pfam02620 504728002096 Arginase family; Region: Arginase; cd09989 504728002097 agmatinase; Region: agmatinase; TIGR01230 504728002098 active site 504728002099 Mn binding site [ion binding]; other site 504728002100 oligomer interface [polypeptide binding]; other site 504728002101 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 504728002102 phosphoribosylformimino-5-aminoimidazole carboxamide ribotide isomerase; Region: TIGR00007 504728002103 catalytic residues [active] 504728002104 sulfite reductase subunit beta; Provisional; Region: PRK13504 504728002105 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 504728002106 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 504728002107 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 504728002108 active site 504728002109 SAM binding site [chemical binding]; other site 504728002110 homodimer interface [polypeptide binding]; other site 504728002111 Siroheme synthase (precorrin-2 oxidase/ferrochelatase domain) [Coenzyme metabolism]; Region: CysG; COG1648 504728002112 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 504728002113 Sirohaem synthase dimerisation region; Region: CysG_dimeriser; pfam10414 504728002114 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 504728002115 sulfate adenylyltransferase; Reviewed; Region: sat; PRK04149 504728002116 ATP-sulfurylase; Region: ATPS; cd00517 504728002117 active site 504728002118 HXXH motif; other site 504728002119 flexible loop; other site 504728002120 3'-phosphoadenosine 5'-phosphosulfate sulfotransferase (PAPS reductase)/FAD synthetase and related enzymes [Amino acid transport and metabolism / Coenzyme metabolism]; Region: CysH; COG0175 504728002121 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 504728002122 Active Sites [active] 504728002123 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 504728002124 ligand-binding site [chemical binding]; other site 504728002125 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 504728002126 DHH family; Region: DHH; pfam01368 504728002127 DHHA1 domain; Region: DHHA1; pfam02272 504728002128 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4339 504728002129 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 504728002130 putative monovalent cation/H+ antiporter subunit G; Reviewed; Region: PRK12674 504728002131 Multiple resistance and pH regulation protein F (MrpF / PhaF); Region: MrpF_PhaF; cl09154 504728002132 putative monovalent cation/H+ antiporter subunit E; Reviewed; Region: PRK12651 504728002133 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK12665 504728002134 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 504728002135 putative monovalent cation/H+ antiporter subunit C; Reviewed; Region: PRK12658 504728002136 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 504728002137 putative monovalent cation/H+ antiporter subunit A; Reviewed; Region: PRK12647 504728002138 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 504728002139 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 504728002140 Multisubunit Na+/H+ antiporter, MnhB subunit [Inorganic ion transport and metabolism]; Region: MnhB; COG2111 504728002141 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 504728002142 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 504728002143 pyridoxal 5'-phosphate binding site [chemical binding]; other site 504728002144 homodimer interface [polypeptide binding]; other site 504728002145 catalytic residue [active] 504728002146 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01286 504728002147 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 504728002148 Zn2+ binding site [ion binding]; other site 504728002149 Mg2+ binding site [ion binding]; other site 504728002150 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 504728002151 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 504728002152 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 504728002153 Q-loop/lid; other site 504728002154 Walker B; other site 504728002155 D-loop; other site 504728002156 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 504728002157 H-loop/switch region; other site 504728002158 active site 504728002159 catalytic residues [active] 504728002160 Bacterial pre-peptidase C-terminal domain; Region: PPC; pfam04151 504728002161 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4947 504728002162 Putative esterase; Region: Esterase; pfam00756 504728002163 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 504728002164 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 504728002165 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cl09940 504728002166 RNA binding surface [nucleotide binding]; other site 504728002167 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 504728002168 active site 504728002169 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 504728002170 dimerization interface [polypeptide binding]; other site 504728002171 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 504728002172 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 504728002173 Zn2+ binding site [ion binding]; other site 504728002174 Mg2+ binding site [ion binding]; other site 504728002175 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 504728002176 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 504728002177 Walker A motif; other site 504728002178 ATP binding site [chemical binding]; other site 504728002179 Walker B motif; other site 504728002180 arginine finger; other site 504728002181 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 504728002182 Domain of unknown function (DUF4388); Region: DUF4388; pfam14332 504728002183 Response regulator receiver domain; Region: Response_reg; pfam00072 504728002184 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 504728002185 active site 504728002186 dimerization interface [polypeptide binding]; other site 504728002187 bacillithiol biosynthesis cysteine-adding enzyme BshC; Region: thiol_BshC; TIGR03998 504728002188 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4365 504728002189 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 504728002190 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 504728002191 ligand binding site [chemical binding]; other site 504728002192 flexible hinge region; other site 504728002193 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 504728002194 putative switch regulator; other site 504728002195 non-specific DNA interactions [nucleotide binding]; other site 504728002196 DNA binding site [nucleotide binding] 504728002197 sequence specific DNA binding site [nucleotide binding]; other site 504728002198 putative cAMP binding site [chemical binding]; other site 504728002199 Predicted periplasmic solute-binding protein [General function prediction only]; Region: COG2107 504728002200 ABC-2 family transporter protein; Region: ABC2_membrane_6; cl01496 504728002201 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 504728002202 Clp amino terminal domain; Region: Clp_N; pfam02861 504728002203 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 504728002204 Walker A motif; other site 504728002205 ATP binding site [chemical binding]; other site 504728002206 Walker B motif; other site 504728002207 arginine finger; other site 504728002208 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 504728002209 Walker A motif; other site 504728002210 ATP binding site [chemical binding]; other site 504728002211 Walker B motif; other site 504728002212 arginine finger; other site 504728002213 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 504728002214 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 504728002215 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 504728002216 catalytic residues [active] 504728002217 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 504728002218 putative active site [active] 504728002219 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 504728002220 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are generally...; Region: ACD_sHsps-like; cd06464 504728002221 putative dimer interface [polypeptide binding]; other site 504728002222 Membrane associated serine protease [Amino acid transport and metabolism]; Region: COG0705 504728002223 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 504728002224 active site 504728002225 NTP binding site [chemical binding]; other site 504728002226 metal binding triad [ion binding]; metal-binding site 504728002227 antibiotic binding site [chemical binding]; other site 504728002228 Protein of unknown function DUF86; Region: DUF86; pfam01934 504728002229 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 504728002230 O-Antigen ligase; Region: Wzy_C; pfam04932 504728002231 TPR repeat; Region: TPR_11; pfam13414 504728002232 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 504728002233 binding surface 504728002234 TPR motif; other site 504728002235 TPR repeat; Region: TPR_11; pfam13414 504728002236 Cupin domain; Region: Cupin_2; pfam07883 504728002237 Ribulose bisphosphate carboxylase like proteins (RLPs) similar to R.rubrum RLP; Region: RLP_RrRLP; cd08210 504728002238 dimer interface [polypeptide binding]; other site 504728002239 active site 504728002240 catalytic residue [active] 504728002241 metal binding site [ion binding]; metal-binding site 504728002242 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 504728002243 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 504728002244 Response regulator receiver domain; Region: Response_reg; pfam00072 504728002245 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 504728002246 active site 504728002247 phosphorylation site [posttranslational modification] 504728002248 intermolecular recognition site; other site 504728002249 dimerization interface [polypeptide binding]; other site 504728002250 Roadblock/LC7 domain; Region: Robl_LC7; smart00960 504728002251 Domain of unknown function (DUF4388); Region: DUF4388; pfam14332 504728002252 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 504728002253 putative binding surface; other site 504728002254 active site 504728002255 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 504728002256 putative binding surface; other site 504728002257 active site 504728002258 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 504728002259 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 504728002260 ATP binding site [chemical binding]; other site 504728002261 Mg2+ binding site [ion binding]; other site 504728002262 G-X-G motif; other site 504728002263 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 504728002264 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 504728002265 Response regulator receiver domain; Region: Response_reg; pfam00072 504728002266 active site 504728002267 phosphorylation site [posttranslational modification] 504728002268 intermolecular recognition site; other site 504728002269 dimerization interface [polypeptide binding]; other site 504728002270 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 504728002271 dimerization interface [polypeptide binding]; other site 504728002272 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 504728002273 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 504728002274 dimer interface [polypeptide binding]; other site 504728002275 putative CheW interface [polypeptide binding]; other site 504728002276 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 504728002277 dimerization interface [polypeptide binding]; other site 504728002278 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 504728002279 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 504728002280 dimer interface [polypeptide binding]; other site 504728002281 putative CheW interface [polypeptide binding]; other site 504728002282 MHYT domain (predicted integral membrane sensor domain) [Signal transduction mechanisms]; Region: COG3300 504728002283 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 504728002284 CheW-like domain; Region: CheW; pfam01584 504728002285 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 504728002286 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 504728002287 active site 504728002288 phosphorylation site [posttranslational modification] 504728002289 intermolecular recognition site; other site 504728002290 dimerization interface [polypeptide binding]; other site 504728002291 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 504728002292 Ligand Binding Site [chemical binding]; other site 504728002293 Dynamin-like protein including dynamins, mitofusins, and guanylate-binding proteins; Region: DLP_2; cd09912 504728002294 Dynamin family; Region: Dynamin_N; pfam00350 504728002295 G1 box; other site 504728002296 GTP/Mg2+ binding site [chemical binding]; other site 504728002297 G2 box; other site 504728002298 Switch I region; other site 504728002299 G3 box; other site 504728002300 Switch II region; other site 504728002301 G4 box; other site 504728002302 G5 box; other site 504728002303 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 504728002304 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 504728002305 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 504728002306 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 504728002307 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 504728002308 ATP-grasp domain; Region: ATP-grasp_4; cl17255 504728002309 nonheme-containing ferritins; Region: Nonheme_Ferritin; cd01055 504728002310 Ferritin-like domain; Region: Ferritin; pfam00210 504728002311 ferroxidase diiron center [ion binding]; other site 504728002312 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 504728002313 active site residue [active] 504728002314 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 504728002315 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 504728002316 active site residue [active] 504728002317 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 504728002318 active site residue [active] 504728002319 Predicted transcriptional regulator [Transcription]; Region: COG1959 504728002320 Transcriptional regulator; Region: Rrf2; pfam02082 504728002321 Predicted amidohydrolase [General function prediction only]; Region: COG0388 504728002322 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cl11424 504728002323 active site 504728002324 catalytic triad [active] 504728002325 dimer interface [polypeptide binding]; other site 504728002326 Chromate transport protein ChrA [Inorganic ion transport and metabolism]; Region: ChrA; COG2059 504728002327 Chromate transporter; Region: Chromate_transp; pfam02417 504728002328 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 504728002329 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_7; cd08512 504728002330 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 504728002331 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 504728002332 dimer interface [polypeptide binding]; other site 504728002333 conserved gate region; other site 504728002334 putative PBP binding loops; other site 504728002335 ABC-ATPase subunit interface; other site 504728002336 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 504728002337 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 504728002338 dimer interface [polypeptide binding]; other site 504728002339 conserved gate region; other site 504728002340 putative PBP binding loops; other site 504728002341 ABC-ATPase subunit interface; other site 504728002342 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 504728002343 Septum formation inhibitor-activating ATPase [Cell division and chromosome partitioning]; Region: MinD; COG2894 504728002344 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 504728002345 Switch I; other site 504728002346 Switch II; other site 504728002347 Septum formation topological specificity factor MinE; Region: MinE; pfam03776 504728002348 ScpA/B protein; Region: ScpA_ScpB; cl00598 504728002349 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 504728002350 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 504728002351 active site 504728002352 HIGH motif; other site 504728002353 dimer interface [polypeptide binding]; other site 504728002354 KMSKS motif; other site 504728002355 putative RNA polymerase sigma E protein; Provisional; Region: PRK13919 504728002356 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 504728002357 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 504728002358 putative anti-sigmaE protein; Provisional; Region: PRK13920 504728002359 Anti-sigma-K factor rskA; Region: RskA; pfam10099 504728002360 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 504728002361 dinuclear metal binding motif [ion binding]; other site 504728002362 CHRD domain; Region: CHRD; pfam07452 504728002363 Ferritin-like domain; Region: Ferritin_2; pfam13668 504728002364 1-aminocyclopropane-1-carboxylate deaminase [Amino acid transport and metabolism]; Region: Acd; COG2515 504728002365 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 504728002366 pyridoxal 5'-phosphate binding site [chemical binding]; other site 504728002367 catalytic residue [active] 504728002368 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 504728002369 phosphonate utilization associated transcriptional regulator; Region: phnR_burk; TIGR03338 504728002370 DNA-binding site [nucleotide binding]; DNA binding site 504728002371 FCD domain; Region: FCD; pfam07729 504728002372 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 504728002373 Coenzyme A binding pocket [chemical binding]; other site 504728002374 Phosphoglycerate kinase; Region: PGK; pfam00162 504728002375 Phosphoglycerate kinase (PGK) is a monomeric enzyme which catalyzes the transfer of the high-energy phosphate group of 1,3-bisphosphoglycerate to ADP, forming ATP and 3-phosphoglycerate. This reaction represents the first of the two substrate-level...; Region: Phosphoglycerate_kinase; cd00318 504728002376 substrate binding site [chemical binding]; other site 504728002377 hinge regions; other site 504728002378 ADP binding site [chemical binding]; other site 504728002379 catalytic site [active] 504728002380 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 504728002381 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; pfam00044 504728002382 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 504728002383 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 504728002384 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 504728002385 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 504728002386 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 504728002387 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; pfam02578 504728002388 HAD-superfamily hydrolase, subfamily IIIA; Region: HAD-SF-IIIA; TIGR01662 504728002389 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 504728002390 active site 504728002391 motif I; other site 504728002392 motif II; other site 504728002393 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 504728002394 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 504728002395 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 504728002396 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 504728002397 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 504728002398 Walker A motif; other site 504728002399 ATP binding site [chemical binding]; other site 504728002400 Walker B motif; other site 504728002401 hypothetical protein; Provisional; Region: PRK08201 504728002402 Uncharacterized M20 Dipeptidases; Region: M20_dipept_like_3; cd05680 504728002403 metal binding site [ion binding]; metal-binding site 504728002404 putative dimer interface [polypeptide binding]; other site 504728002405 Domain of unknown function (DUF4384); Region: DUF4384; pfam14326 504728002406 PEGA domain; Region: PEGA; pfam08308 504728002407 PEGA domain; Region: PEGA; pfam08308 504728002408 PEGA domain; Region: PEGA; pfam08308 504728002409 Manganese catalase, ferritin-like diiron-binding domain; Region: Mn_catalase; cd01051 504728002410 dimanganese center [ion binding]; other site 504728002411 Transcriptional regulator [Transcription]; Region: LysR; COG0583 504728002412 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 504728002413 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 504728002414 dimerization interface [polypeptide binding]; other site 504728002415 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 504728002416 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 504728002417 putative RNA binding site [nucleotide binding]; other site 504728002418 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 504728002419 S-adenosylmethionine binding site [chemical binding]; other site 504728002420 V-type ATP synthase subunit I; Validated; Region: PRK05771 504728002421 V-type ATP synthase subunit C; Provisional; Region: PRK01198; cl00660 504728002422 ATP synthase (C/AC39) subunit; Region: vATP-synt_AC39; pfam01992 504728002423 ATP synthase (F/14-kDa) subunit; Region: ATP-synt_F; cl00632 504728002424 V-type ATP synthase subunit A; Provisional; Region: PRK04192 504728002425 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 504728002426 V/A-type ATP synthase catalytic subunit A. These ATPases couple ATP hydrolysis to the build up of a H+ gradient, but V-type ATPases do not catalyze the reverse reaction. The Vacuolar (V-type) ATPase is found in the membranes of vacuoles, the golgi...; Region: V_A-ATPase_A; cd01134 504728002427 Walker A motif/ATP binding site; other site 504728002428 Walker B motif; other site 504728002429 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 504728002430 V-type ATP synthase subunit B; Provisional; Region: PRK04196 504728002431 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 504728002432 V/A-type ATP synthase (non-catalytic) subunit B. These ATPases couple ATP hydrolysis to the build up of a H+ gradient, but V-type ATPases do not catalyze the reverse reaction. The Vacuolar (V-type) ATPase is found in the membranes of vacuoles, the golgi...; Region: V_A-ATPase_B; cd01135 504728002433 Walker A motif homologous position; other site 504728002434 Walker B motif; other site 504728002435 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 504728002436 Archaeal/vacuolar-type H+-ATPase subunit D [Energy production and conversion]; Region: NtpD; COG1394 504728002437 Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]; Region: HisC; COG0079 504728002438 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 504728002439 pyridoxal 5'-phosphate binding site [chemical binding]; other site 504728002440 homodimer interface [polypeptide binding]; other site 504728002441 catalytic residue [active] 504728002442 CobD/Cbib protein; Region: CobD_Cbib; pfam03186 504728002443 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 504728002444 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional; Region: PRK05222 504728002445 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 504728002446 THF binding site; other site 504728002447 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 504728002448 substrate binding site [chemical binding]; other site 504728002449 THF binding site; other site 504728002450 zinc-binding site [ion binding]; other site 504728002451 ribonucleotide-diphosphate reductase subunit beta; Provisional; Region: nrdF2; PRK13966 504728002452 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 504728002453 dimer interface [polypeptide binding]; other site 504728002454 putative radical transfer pathway; other site 504728002455 diiron center [ion binding]; other site 504728002456 tyrosyl radical; other site 504728002457 ATP cone domain; Region: ATP-cone; pfam03477 504728002458 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07632 504728002459 Ribonucleotide reductase N-terminal; Region: RNR_N; pfam08343 504728002460 Class I ribonucleotide reductase; Region: RNR_I; cd01679 504728002461 active site 504728002462 dimer interface [polypeptide binding]; other site 504728002463 catalytic residues [active] 504728002464 effector binding site; other site 504728002465 R2 peptide binding site; other site 504728002466 NrdI Flavodoxin like; Region: Flavodoxin_NdrI; pfam07972 504728002467 DsrE/DsrF-like family; Region: DrsE; pfam02635 504728002468 Predicted amidohydrolase [General function prediction only]; Region: COG0388 504728002469 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cl11424 504728002470 active site 504728002471 catalytic triad [active] 504728002472 dimer interface [polypeptide binding]; other site 504728002473 aspartate kinase; Reviewed; Region: PRK06635 504728002474 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 504728002475 putative nucleotide binding site [chemical binding]; other site 504728002476 putative catalytic residues [active] 504728002477 putative Mg ion binding site [ion binding]; other site 504728002478 putative aspartate binding site [chemical binding]; other site 504728002479 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 504728002480 putative allosteric regulatory site; other site 504728002481 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 504728002482 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 504728002483 active site 504728002484 malate dehydrogenase; Provisional; Region: PRK05442 504728002485 Chloroplast-like malate dehydrogenases; Region: MDH_choloroplast_like; cd01338 504728002486 NAD(P) binding site [chemical binding]; other site 504728002487 dimer interface [polypeptide binding]; other site 504728002488 malate binding site [chemical binding]; other site 504728002489 malate dehydrogenase; Provisional; Region: PRK13529 504728002490 Malic enzyme, N-terminal domain; Region: malic; pfam00390 504728002491 NAD(P) binding domain of malic enzyme (ME), subgroup 1; Region: NAD_bind_1_malic_enz; cd05312 504728002492 NAD(P) binding site [chemical binding]; other site 504728002493 Helix-Turn-Helix DNA binding domain of the HspR transcription regulator; Region: HTH_HspR; cd04766 504728002494 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 504728002495 DNA binding residues [nucleotide binding] 504728002496 putative dimer interface [polypeptide binding]; other site 504728002497 Helix-Turn-Helix DNA binding domain of the HspR transcription regulator; Region: HTH_HspR; cd04766 504728002498 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 504728002499 DNA binding residues [nucleotide binding] 504728002500 putative dimer interface [polypeptide binding]; other site 504728002501 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 504728002502 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: SbcC; COG0419 504728002503 ATP-binding cassette domain of sbcCD; Region: ABC_sbcCD; cd03279 504728002504 Walker A/P-loop; other site 504728002505 ATP binding site [chemical binding]; other site 504728002506 Q-loop/lid; other site 504728002507 ATP-binding cassette domain of sbcCD; Region: ABC_sbcCD; cd03279 504728002508 ABC transporter signature motif; other site 504728002509 Walker B; other site 504728002510 D-loop; other site 504728002511 H-loop/switch region; other site 504728002512 DNA repair exonuclease [DNA replication, recombination, and repair]; Region: SbcD; COG0420 504728002513 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 504728002514 active site 504728002515 metal binding site [ion binding]; metal-binding site 504728002516 DNA binding site [nucleotide binding] 504728002517 Protein of unknown function (DUF1385); Region: DUF1385; pfam07136 504728002518 Putative cyclase; Region: Cyclase; cl00814 504728002519 futalosine nucleosidase; Region: fut_nucase; TIGR03664 504728002520 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 504728002521 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 504728002522 Walker A/P-loop; other site 504728002523 ATP binding site [chemical binding]; other site 504728002524 Q-loop/lid; other site 504728002525 ABC transporter signature motif; other site 504728002526 Walker B; other site 504728002527 D-loop; other site 504728002528 H-loop/switch region; other site 504728002529 Glycerol-3-phosphate acyltransferase; Region: G3P_acyltransf; cl00410 504728002530 Predicted dehydrogenase [General function prediction only]; Region: COG5322 504728002531 NAD(P) binding domain of amino acid dehydrogenase-like proteins; Region: NAD_bind_amino_acid_DH; cl17226 504728002532 NAD(P) binding pocket [chemical binding]; other site 504728002533 Integral membrane protein TerC family; Region: TerC; cl10468 504728002534 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 504728002535 S-adenosylmethionine binding site [chemical binding]; other site 504728002536 integral membrane protein, YkoY family; Region: R_switched_YkoY; TIGR03716 504728002537 Early set domain associated with the catalytic domain of sugar utilizing enzymes at either the N or C terminus; Region: E_set; cl09101 504728002538 Enterochelin esterase and related enzymes [Inorganic ion transport and metabolism]; Region: Fes; COG2382 504728002539 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 504728002540 Phosphoenolpyruvate carboxylase; Region: PEPcase; cl17418 504728002541 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 504728002542 dimer interface [polypeptide binding]; other site 504728002543 ADP-ribose binding site [chemical binding]; other site 504728002544 active site 504728002545 nudix motif; other site 504728002546 metal binding site [ion binding]; metal-binding site 504728002547 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 504728002548 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 504728002549 active site 504728002550 Riboflavin kinase; Region: Flavokinase; pfam01687 504728002551 Domain of unknown function (DUF4258); Region: DUF4258; pfam14076 504728002552 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 504728002553 Predicted translation initiation factor 2B subunit, eIF-2B alpha/beta/delta family [Translation, ribosomal structure and biogenesis]; Region: COG0182 504728002554 methylthioribose-1-phosphate isomerase; Reviewed; Region: mtnA; PRK05720 504728002555 Beta-lactamase enzyme family; Region: Beta-lactamase2; pfam13354 504728002556 This family is most closely related to the oligosaccharide phosphorylase domain family and other unidentified sequences. Oligosaccharide phosphorylase catalyzes the breakdown of oligosaccharides into glucose-1-phosphate units. They are important...; Region: GT1_Glycogen_Phosphorylase_like; cd04299 504728002557 putative homodimer interface [polypeptide binding]; other site 504728002558 putative active site pocket [active] 504728002559 alpha-glucan phosphorylases; Region: more_P_ylases; TIGR02094 504728002560 Flagellin N-methylase; Region: FliB; pfam03692 504728002561 Putative bacterial sensory transduction regulator; Region: YbjN; pfam10722 504728002562 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 504728002563 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 504728002564 Ligand Binding Site [chemical binding]; other site 504728002565 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 504728002566 nucleoside/Zn binding site; other site 504728002567 dimer interface [polypeptide binding]; other site 504728002568 catalytic motif [active] 504728002569 tRNA pseudouridine synthase D (TruD); Region: TruD; pfam01142 504728002570 Pseudouridine synthase, similar to Escherichia coli TruD; Region: PseudoU_synth_EcTruD; cd02575 504728002571 Permutation of conserved domain; other site 504728002572 active site 504728002573 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cd01291 504728002574 signal recognition particle protein; Provisional; Region: PRK10867 504728002575 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 504728002576 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 504728002577 P loop; other site 504728002578 GTP binding site [chemical binding]; other site 504728002579 Signal peptide binding domain; Region: SRP_SPB; pfam02978 504728002580 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 504728002581 Predicted RNA-binding protein (contains KH domain) [General function prediction only]; Region: COG1837 504728002582 KH domain; Region: KH_4; pfam13083 504728002583 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK13829 504728002584 RimM N-terminal domain; Region: RimM; pfam01782 504728002585 PRC-barrel domain; Region: PRC; pfam05239 504728002586 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 504728002587 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 504728002588 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 504728002589 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cd00306 504728002590 active site 504728002591 catalytic residues [active] 504728002592 polycystic kidney disease I (PKD) domain; similar to other cell-surface modules, with an IG-like fold; domain probably functions as a ligand binding site in protein-protein or protein-carbohydrate interactions; a single instance of the repeat is...; Region: PKD; cl17457 504728002593 Gluconolactonase [Carbohydrate transport and metabolism]; Region: COG3386 504728002594 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 504728002595 Homeodomain-like domain; Region: HTH_23; pfam13384 504728002596 Winged helix-turn helix; Region: HTH_29; pfam13551 504728002597 DDE superfamily endonuclease; Region: DDE_3; pfam13358 504728002598 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 504728002599 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 504728002600 Walker A/P-loop; other site 504728002601 ATP binding site [chemical binding]; other site 504728002602 Q-loop/lid; other site 504728002603 ABC transporter signature motif; other site 504728002604 Walker B; other site 504728002605 D-loop; other site 504728002606 H-loop/switch region; other site 504728002607 ABC nitrate/sulfonate/bicarbonate family transporter, ATPase subunit; Region: ABC_transp; pfam09821 504728002608 ABC-type anion transport system, duplicated permease component [Inorganic ion transport and metabolism]; Region: COG4986 504728002609 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 504728002610 dimer interface [polypeptide binding]; other site 504728002611 conserved gate region; other site 504728002612 putative PBP binding loops; other site 504728002613 ABC-ATPase subunit interface; other site 504728002614 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 504728002615 dimer interface [polypeptide binding]; other site 504728002616 conserved gate region; other site 504728002617 putative PBP binding loops; other site 504728002618 ABC-ATPase subunit interface; other site 504728002619 2-phosphoglycerate kinase [Carbohydrate transport and metabolism]; Region: COG2074 504728002620 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 504728002621 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 504728002622 metal binding site [ion binding]; metal-binding site 504728002623 active site 504728002624 I-site; other site 504728002625 Predicted ATPase [General function prediction only]; Region: COG3903 504728002626 Tetratricopeptide repeat; Region: TPR_12; pfam13424 504728002627 twin arginine translocase protein A; Provisional; Region: tatA; PRK14861 504728002628 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 504728002629 Helix-hairpin-helix motif; Region: HHH; pfam00633 504728002630 Protein of unknown function (DUF421); Region: DUF421; pfam04239 504728002631 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 504728002632 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 504728002633 Uncharacterized proteins, LmbE homologs [Function unknown]; Region: COG2120 504728002634 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 504728002635 TPR motif; other site 504728002636 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 504728002637 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 504728002638 dimerization interface [polypeptide binding]; other site 504728002639 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 504728002640 dimer interface [polypeptide binding]; other site 504728002641 phosphorylation site [posttranslational modification] 504728002642 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 504728002643 ATP binding site [chemical binding]; other site 504728002644 Mg2+ binding site [ion binding]; other site 504728002645 G-X-G motif; other site 504728002646 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 504728002647 Catalytic NodB homology domain of rhizobial NodB-like proteins; Region: CE4_NodB_like_6s_7s; cd10917 504728002648 NodB motif; other site 504728002649 active site 504728002650 catalytic site [active] 504728002651 metal binding site [ion binding]; metal-binding site 504728002652 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4299 504728002653 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 504728002654 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 504728002655 active site 504728002656 phosphorylation site [posttranslational modification] 504728002657 intermolecular recognition site; other site 504728002658 dimerization interface [polypeptide binding]; other site 504728002659 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 504728002660 DNA binding site [nucleotide binding] 504728002661 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 504728002662 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 504728002663 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 504728002664 Walker A motif; other site 504728002665 ATP binding site [chemical binding]; other site 504728002666 Walker B motif; other site 504728002667 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 504728002668 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 504728002669 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 504728002670 Type II secretion system (T2SS), protein M; Region: T2SM; cl01222 504728002671 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 504728002672 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 504728002673 substrate binding pocket [chemical binding]; other site 504728002674 membrane-bound complex binding site; other site 504728002675 hinge residues; other site 504728002676 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 504728002677 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 504728002678 dimer interface [polypeptide binding]; other site 504728002679 conserved gate region; other site 504728002680 putative PBP binding loops; other site 504728002681 ABC-ATPase subunit interface; other site 504728002682 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 504728002683 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 504728002684 non-specific DNA binding site [nucleotide binding]; other site 504728002685 salt bridge; other site 504728002686 sequence-specific DNA binding site [nucleotide binding]; other site 504728002687 Cupin domain; Region: Cupin_2; pfam07883 504728002688 Agmatinase-like family includes proclavaminic acid amidinohydrolase; Region: Agmatinase_PAH; cd11592 504728002689 agmatinase; Region: agmatinase; TIGR01230 504728002690 oligomer interface [polypeptide binding]; other site 504728002691 putative active site [active] 504728002692 Mn binding site [ion binding]; other site 504728002693 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 504728002694 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 504728002695 Walker A/P-loop; other site 504728002696 ATP binding site [chemical binding]; other site 504728002697 Q-loop/lid; other site 504728002698 ABC transporter signature motif; other site 504728002699 Walker B; other site 504728002700 D-loop; other site 504728002701 H-loop/switch region; other site 504728002702 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 504728002703 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 504728002704 pyridoxal 5'-phosphate binding site [chemical binding]; other site 504728002705 homodimer interface [polypeptide binding]; other site 504728002706 catalytic residue [active] 504728002707 GAF domain; Region: GAF_3; pfam13492 504728002708 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 504728002709 GAF domain; Region: GAF_2; pfam13185 504728002710 GAF domain; Region: GAF; cl17456 504728002711 GAF domain; Region: GAF; pfam01590 504728002712 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 504728002713 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 504728002714 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 504728002715 GAF domain; Region: GAF; pfam01590 504728002716 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 504728002717 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 504728002718 Zn2+ binding site [ion binding]; other site 504728002719 Mg2+ binding site [ion binding]; other site 504728002720 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 504728002721 TPR motif; other site 504728002722 binding surface 504728002723 Tetratricopeptide repeat; Region: TPR_12; pfam13424 504728002724 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 504728002725 binding surface 504728002726 TPR motif; other site 504728002727 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 504728002728 active site 504728002729 catalytic residues [active] 504728002730 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 504728002731 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 504728002732 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 504728002733 active site 504728002734 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 504728002735 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 504728002736 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 504728002737 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 504728002738 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 504728002739 S-ribosylhomocysteinase; Provisional; Region: PRK02260 504728002740 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 504728002741 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 504728002742 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 504728002743 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 504728002744 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 504728002745 TrkA-N domain; Region: TrkA_N; pfam02254 504728002746 TrkA-C domain; Region: TrkA_C; pfam02080 504728002747 TrkA-N domain; Region: TrkA_N; pfam02254 504728002748 ribosomal protein S12 methylthiotransferase; Provisional; Region: rimO; PRK14862 504728002749 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 504728002750 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 504728002751 FeS/SAM binding site; other site 504728002752 Helix-turn-helix domain; Region: HTH_25; pfam13413 504728002753 PEGA domain; Region: PEGA; pfam08308 504728002754 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 504728002755 Indigoidine synthase A like protein; Region: Indigoidine_A; pfam04227 504728002756 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 504728002757 binding surface 504728002758 TPR motif; other site 504728002759 Tetratricopeptide repeat; Region: TPR_12; pfam13424 504728002760 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 504728002761 binding surface 504728002762 TPR motif; other site 504728002763 Tetratricopeptide repeat; Region: TPR_12; pfam13424 504728002764 Tetratricopeptide repeat; Region: TPR_12; pfam13424 504728002765 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 504728002766 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 504728002767 metal binding site [ion binding]; metal-binding site 504728002768 active site 504728002769 I-site; other site 504728002770 putative inner membrane protein; Provisional; Region: PRK11099 504728002771 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 504728002772 Histidine kinase; Region: HisKA_3; pfam07730 504728002773 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 504728002774 ATP binding site [chemical binding]; other site 504728002775 G-X-G motif; other site 504728002776 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 504728002777 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 504728002778 active site 504728002779 phosphorylation site [posttranslational modification] 504728002780 intermolecular recognition site; other site 504728002781 dimerization interface [polypeptide binding]; other site 504728002782 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 504728002783 DNA binding residues [nucleotide binding] 504728002784 dimerization interface [polypeptide binding]; other site 504728002785 leucyl-tRNA synthetase, eubacterial and mitochondrial family; Region: leuS_bact; TIGR00396 504728002786 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 504728002787 HIGH motif; other site 504728002788 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 504728002789 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 504728002790 active site 504728002791 KMSKS motif; other site 504728002792 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 504728002793 tRNA binding surface [nucleotide binding]; other site 504728002794 NMT1/THI5 like; Region: NMT1; pfam09084 504728002795 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 504728002796 substrate binding pocket [chemical binding]; other site 504728002797 membrane-bound complex binding site; other site 504728002798 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 504728002799 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 504728002800 Walker A/P-loop; other site 504728002801 ATP binding site [chemical binding]; other site 504728002802 Q-loop/lid; other site 504728002803 ABC transporter signature motif; other site 504728002804 Walker B; other site 504728002805 D-loop; other site 504728002806 H-loop/switch region; other site 504728002807 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 504728002808 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 504728002809 dimer interface [polypeptide binding]; other site 504728002810 conserved gate region; other site 504728002811 putative PBP binding loops; other site 504728002812 ABC-ATPase subunit interface; other site 504728002813 Uncharacterized conserved protein [Function unknown]; Region: COG4715 504728002814 Virulence factor BrkB; Region: Virul_fac_BrkB; cl07918 504728002815 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 504728002816 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 504728002817 putative catalytic cysteine [active] 504728002818 glutamate 5-kinase; Region: proB; TIGR01027 504728002819 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 504728002820 nucleotide binding site [chemical binding]; other site 504728002821 homotetrameric interface [polypeptide binding]; other site 504728002822 putative phosphate binding site [ion binding]; other site 504728002823 putative allosteric binding site; other site 504728002824 PUA domain; Region: PUA; pfam01472 504728002825 oligoendopeptidase F; Region: pepF; TIGR00181 504728002826 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_3; cd09608 504728002827 active site 504728002828 Zn binding site [ion binding]; other site 504728002829 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 504728002830 beta-galactosidase; Region: BGL; TIGR03356 504728002831 Predicted ring-cleavage extradiol dioxygenase [General function prediction only]; Region: COG2514 504728002832 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_12; cd07255 504728002833 putative metal binding site [ion binding]; other site 504728002834 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 504728002835 active site 504728002836 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 504728002837 NAD(P) binding site [chemical binding]; other site 504728002838 active site 504728002839 Fumble; Region: Fumble; cl17357 504728002840 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 504728002841 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 504728002842 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 504728002843 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 504728002844 oligomerisation interface [polypeptide binding]; other site 504728002845 mobile loop; other site 504728002846 roof hairpin; other site 504728002847 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 504728002848 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 504728002849 ring oligomerisation interface [polypeptide binding]; other site 504728002850 ATP/Mg binding site [chemical binding]; other site 504728002851 stacking interactions; other site 504728002852 hinge regions; other site 504728002853 Predicted transcriptional regulators [Transcription]; Region: COG1733 504728002854 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 504728002855 Predicted transcriptional regulators [Transcription]; Region: COG1733 504728002856 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 504728002857 dimerization interface [polypeptide binding]; other site 504728002858 putative DNA binding site [nucleotide binding]; other site 504728002859 putative Zn2+ binding site [ion binding]; other site 504728002860 YceI-like domain; Region: YceI; smart00867 504728002861 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 504728002862 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 504728002863 active site 504728002864 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 504728002865 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 504728002866 active site 504728002867 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 504728002868 Phosphotransferase enzyme family; Region: APH; pfam01636 504728002869 putative active site [active] 504728002870 putative substrate binding site [chemical binding]; other site 504728002871 ATP binding site [chemical binding]; other site 504728002872 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cl17270 504728002873 agmatinase; Region: agmatinase; TIGR01230 504728002874 Arginase-like and histone-like hydrolases; Region: Arginase_HDAC; cl17011 504728002875 active site 504728002876 metal binding site [ion binding]; metal-binding site 504728002877 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 504728002878 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 504728002879 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 504728002880 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 504728002881 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 504728002882 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 504728002883 dimer interface [polypeptide binding]; other site 504728002884 phosphorylation site [posttranslational modification] 504728002885 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 504728002886 ATP binding site [chemical binding]; other site 504728002887 Mg2+ binding site [ion binding]; other site 504728002888 G-X-G motif; other site 504728002889 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 504728002890 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 504728002891 active site 504728002892 phosphorylation site [posttranslational modification] 504728002893 intermolecular recognition site; other site 504728002894 dimerization interface [polypeptide binding]; other site 504728002895 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 504728002896 DNA binding site [nucleotide binding] 504728002897 MutS domain III; Region: MutS_III; pfam05192 504728002898 recombination and DNA strand exchange inhibitor protein; Reviewed; Region: PRK00409 504728002899 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 504728002900 Walker A/P-loop; other site 504728002901 ATP binding site [chemical binding]; other site 504728002902 Q-loop/lid; other site 504728002903 ABC transporter signature motif; other site 504728002904 Walker B; other site 504728002905 D-loop; other site 504728002906 H-loop/switch region; other site 504728002907 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl17192 504728002908 Smr domain; Region: Smr; pfam01713 504728002909 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 504728002910 active site 504728002911 dimerization interface [polypeptide binding]; other site 504728002912 ribonuclease PH; Reviewed; Region: rph; PRK00173 504728002913 RNase PH-like 3'-5' exoribonucleases; Region: RNase_PH; cl03114 504728002914 oligomer interface [polypeptide binding]; other site 504728002915 RNA binding site [nucleotide binding]; other site 504728002916 BPG-independent PGAM N-terminus (iPGM_N); Region: iPGM_N; cl17463 504728002917 peroxiredoxin, OsmC subfamily; Region: osmo_induc_OsmC; TIGR03562 504728002918 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 504728002919 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 504728002920 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 504728002921 DNA binding residues [nucleotide binding] 504728002922 Putative zinc-finger; Region: zf-HC2; pfam13490 504728002923 putative anti-sigmaE protein; Provisional; Region: PRK13920 504728002924 Anti-sigma-K factor rskA; Region: RskA; pfam10099 504728002925 succinic semialdehyde dehydrogenase; Reviewed; Region: gabD2; PRK09407 504728002926 Mycobacterium tuberculosis succinate-semialdehyde dehydrogenase 2-like; Region: ALDH_SSADH2_GabD2; cd07101 504728002927 NAD(P) binding site [chemical binding]; other site 504728002928 catalytic residues [active] 504728002929 ABC-type sugar transport systems, permease components [Carbohydrate transport and metabolism]; Region: UgpA; COG1175 504728002930 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 504728002931 dimer interface [polypeptide binding]; other site 504728002932 conserved gate region; other site 504728002933 putative PBP binding loops; other site 504728002934 ABC-ATPase subunit interface; other site 504728002935 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 504728002936 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 504728002937 dimer interface [polypeptide binding]; other site 504728002938 conserved gate region; other site 504728002939 putative PBP binding loops; other site 504728002940 ABC-ATPase subunit interface; other site 504728002941 N-terminal Early set domain associated with the catalytic domain of cyclomaltodextrinase and pullulan-degrading enzymes; Region: E_set_CDase_PDE_N; cd02857 504728002942 homodimer interface [polypeptide binding]; other site 504728002943 Alpha amylase catalytic domain found in cyclomaltodextrinases and related proteins; Region: AmyAc_CMD; cd11338 504728002944 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 504728002945 active site 504728002946 homodimer interface [polypeptide binding]; other site 504728002947 catalytic site [active] 504728002948 Plastocyanin [Energy production and conversion]; Region: PetE; COG3794 504728002949 short chain dehydrogenase; Provisional; Region: PRK07326 504728002950 classical (c) SDR, subgroup 4; Region: SDR_c4; cd08929 504728002951 putative NAD(P) binding site [chemical binding]; other site 504728002952 homodimer interface [polypeptide binding]; other site 504728002953 active site 504728002954 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 504728002955 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 504728002956 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 504728002957 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 504728002958 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 504728002959 protein binding site [polypeptide binding]; other site 504728002960 hypothetical protein; Provisional; Region: PRK06062 504728002961 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 504728002962 inhibitor-cofactor binding pocket; inhibition site 504728002963 pyridoxal 5'-phosphate binding site [chemical binding]; other site 504728002964 catalytic residue [active] 504728002965 4-alpha-glucanotransferase; Provisional; Region: PRK14508 504728002966 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 504728002967 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_13; cd08354 504728002968 putative metal binding site [ion binding]; other site 504728002969 5-formyltetrahydrofolate cyclo-ligase [Coenzyme metabolism]; Region: COG0212; cl00360 504728002970 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 504728002971 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 504728002972 Beta-lactamase; Region: Beta-lactamase; pfam00144 504728002973 Putative NADPH-quinone reductase (modulator of drug activity B) [General function prediction only]; Region: MdaB; COG2249 504728002974 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 504728002975 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 504728002976 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 504728002977 active site 504728002978 Uncharacterized conserved protein [Function unknown]; Region: COG1434 504728002979 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 504728002980 putative active site [active] 504728002981 2-oxoglutarate ferredoxin oxidoreductase subunit beta; Validated; Region: PRK05778 504728002982 Thiamine pyrophosphate (TPP family), 2-oxoglutarate ferredoxin oxidoreductase (OGFOR) subfamily, TPP-binding module; OGFOR catalyzes the oxidative decarboxylation of 2-oxo-acids, with ferredoxin acting as an electron acceptor. In the TCA cycle, OGFOR...; Region: TPP_OGFOR; cd03375 504728002983 TPP-binding site [chemical binding]; other site 504728002984 Pyruvate ferredoxin oxidoreductase beta subunit C terminal; Region: PFO_beta_C; pfam12367 504728002985 2-oxoacid:acceptor oxidoreductase, alpha subunit; Region: OAFO_sf; TIGR03710 504728002986 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; pfam01558 504728002987 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 504728002988 dimer interface [polypeptide binding]; other site 504728002989 PYR/PP interface [polypeptide binding]; other site 504728002990 TPP binding site [chemical binding]; other site 504728002991 substrate binding site [chemical binding]; other site 504728002992 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 504728002993 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 504728002994 Metallo-dependent hydrolases, subgroup A is part of the superfamily of metallo-dependent hydrolases, a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the...; Region: Met_dep_hydrolase_A; cd01299 504728002995 active site 504728002996 Domain of unknown function (DUF897); Region: DUF897; pfam05982 504728002997 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 504728002998 active site 504728002999 isocitrate dehydrogenase; Validated; Region: PRK09222 504728003000 Isocitrate/isopropylmalate dehydrogenase [Amino acid transport and metabolism]; Region: LeuB; COG0473 504728003001 Phosphoribosylcarboxyaminoimidazole (NCAIR) mutase [Nucleotide transport and metabolism]; Region: PurE; COG0041 504728003002 PAS domain S-box; Region: sensory_box; TIGR00229 504728003003 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 504728003004 putative active site [active] 504728003005 heme pocket [chemical binding]; other site 504728003006 PAS domain S-box; Region: sensory_box; TIGR00229 504728003007 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 504728003008 putative active site [active] 504728003009 heme pocket [chemical binding]; other site 504728003010 PAS domain S-box; Region: sensory_box; TIGR00229 504728003011 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 504728003012 putative active site [active] 504728003013 heme pocket [chemical binding]; other site 504728003014 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 504728003015 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 504728003016 putative active site [active] 504728003017 heme pocket [chemical binding]; other site 504728003018 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 504728003019 putative active site [active] 504728003020 heme pocket [chemical binding]; other site 504728003021 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 504728003022 PAS domain; Region: PAS_9; pfam13426 504728003023 putative active site [active] 504728003024 heme pocket [chemical binding]; other site 504728003025 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 504728003026 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 504728003027 metal binding site [ion binding]; metal-binding site 504728003028 active site 504728003029 I-site; other site 504728003030 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 504728003031 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 504728003032 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 504728003033 ATP-grasp domain; Region: ATP-grasp; pfam02222 504728003034 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; COG0646 504728003035 5-methyltetrahydrofolate--homocysteine methyltransferase; Region: metH; TIGR02082 504728003036 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 504728003037 substrate binding pocket [chemical binding]; other site 504728003038 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 504728003039 B12 binding site [chemical binding]; other site 504728003040 cobalt ligand [ion binding]; other site 504728003041 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 504728003042 epoxyqueuosine reductase; Region: TIGR00276 504728003043 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 504728003044 4Fe-4S binding domain; Region: Fer4; cl02805 504728003045 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 504728003046 apolipoprotein N-acyltransferase; Region: lnt; TIGR00546 504728003047 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 504728003048 putative active site [active] 504728003049 catalytic triad [active] 504728003050 putative dimer interface [polypeptide binding]; other site 504728003051 preprotein translocase subunit SecG; Reviewed; Region: secG; PRK06870 504728003052 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_4; cd08500 504728003053 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 504728003054 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 504728003055 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 504728003056 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 504728003057 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 504728003058 ABC-ATPase subunit interface; other site 504728003059 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 504728003060 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 504728003061 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 504728003062 dimer interface [polypeptide binding]; other site 504728003063 conserved gate region; other site 504728003064 ABC-ATPase subunit interface; other site 504728003065 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 504728003066 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 504728003067 Walker A/P-loop; other site 504728003068 ATP binding site [chemical binding]; other site 504728003069 Q-loop/lid; other site 504728003070 ABC transporter signature motif; other site 504728003071 Walker B; other site 504728003072 D-loop; other site 504728003073 H-loop/switch region; other site 504728003074 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 504728003075 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 504728003076 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 504728003077 Walker A/P-loop; other site 504728003078 ATP binding site [chemical binding]; other site 504728003079 Q-loop/lid; other site 504728003080 ABC transporter signature motif; other site 504728003081 Walker B; other site 504728003082 D-loop; other site 504728003083 H-loop/switch region; other site 504728003084 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 504728003085 Uncharacterized conserved protein [Function unknown]; Region: COG5316 504728003086 Domain of unknown function (DUF4139); Region: DUF4139; pfam13598 504728003087 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 504728003088 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 504728003089 Protein of unknown function (DUF3467); Region: DUF3467; pfam11950 504728003090 Roadblock/LC7 domain; Region: Robl_LC7; smart00960 504728003091 Roadblock/LC7 domain; Region: Robl_LC7; smart00960 504728003092 recombination protein RecR; Reviewed; Region: recR; PRK00076 504728003093 RecR protein; Region: RecR; pfam02132 504728003094 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 504728003095 putative active site [active] 504728003096 putative metal-binding site [ion binding]; other site 504728003097 tetramer interface [polypeptide binding]; other site 504728003098 hypothetical protein; Validated; Region: PRK00153 504728003099 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 504728003100 H+ Antiporter protein; Region: 2A0121; TIGR00900 504728003101 putative substrate translocation pore; other site 504728003102 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 504728003103 Protein phosphatase 2C; Region: PP2C; pfam00481 504728003104 active site 504728003105 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 504728003106 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 504728003107 active site 504728003108 ATP binding site [chemical binding]; other site 504728003109 substrate binding site [chemical binding]; other site 504728003110 activation loop (A-loop); other site 504728003111 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 504728003112 catalytic triad [active] 504728003113 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 504728003114 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 504728003115 catalytic triad [active] 504728003116 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 504728003117 C-3',4' desaturase CrtD; Region: desat_CrtD; TIGR02733 504728003118 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 504728003119 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 504728003120 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 504728003121 rod shape-determining protein MreD; Region: shape_MreD; TIGR03426 504728003122 rod shape-determining protein MreC; Provisional; Region: PRK13922 504728003123 rod shape-determining protein MreC; Region: MreC; pfam04085 504728003124 Large-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscL; COG1970 504728003125 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 504728003126 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_5; cd04962 504728003127 N-acetyl-alpha-D-glucosaminyl L-malate synthase BshA; Region: thiol_BshA; TIGR03999 504728003128 Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]; Region: HisC; COG0079 504728003129 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 504728003130 pyridoxal 5'-phosphate binding site [chemical binding]; other site 504728003131 homodimer interface [polypeptide binding]; other site 504728003132 catalytic residue [active] 504728003133 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 504728003134 putative active site pocket [active] 504728003135 4-fold oligomerization interface [polypeptide binding]; other site 504728003136 metal binding residues [ion binding]; metal-binding site 504728003137 3-fold/trimer interface [polypeptide binding]; other site 504728003138 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13181 504728003139 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 504728003140 putative active site [active] 504728003141 oxyanion strand; other site 504728003142 catalytic triad [active] 504728003143 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 504728003144 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 504728003145 substrate binding site [chemical binding]; other site 504728003146 ATP binding site [chemical binding]; other site 504728003147 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 504728003148 Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]; Region: KsgA; COG0030 504728003149 Rad52/22 family double-strand break repair protein; Region: Rad52_Rad22; cl01936 504728003150 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 504728003151 23S rRNA interface [nucleotide binding]; other site 504728003152 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 504728003153 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 504728003154 core dimer interface [polypeptide binding]; other site 504728003155 peripheral dimer interface [polypeptide binding]; other site 504728003156 L10 interface [polypeptide binding]; other site 504728003157 L11 interface [polypeptide binding]; other site 504728003158 putative EF-Tu interaction site [polypeptide binding]; other site 504728003159 putative EF-G interaction site [polypeptide binding]; other site 504728003160 Hydroxyneurosporene synthase (CrtC); Region: CrtC; cl12101 504728003161 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 504728003162 active site 504728003163 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 504728003164 Cation efflux family; Region: Cation_efflux; pfam01545 504728003165 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 504728003166 mRNA/rRNA interface [nucleotide binding]; other site 504728003167 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 504728003168 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 504728003169 23S rRNA interface [nucleotide binding]; other site 504728003170 L7/L12 interface [polypeptide binding]; other site 504728003171 putative thiostrepton binding site; other site 504728003172 L25 interface [polypeptide binding]; other site 504728003173 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 504728003174 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 504728003175 putative homodimer interface [polypeptide binding]; other site 504728003176 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 504728003177 heterodimer interface [polypeptide binding]; other site 504728003178 homodimer interface [polypeptide binding]; other site 504728003179 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK07597 504728003180 50S ribosomal protein L33; Validated; Region: rpmG; PRK00504 504728003181 elongation factor Tu; Reviewed; Region: PRK00049 504728003182 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 504728003183 G1 box; other site 504728003184 GEF interaction site [polypeptide binding]; other site 504728003185 GTP/Mg2+ binding site [chemical binding]; other site 504728003186 Switch I region; other site 504728003187 G2 box; other site 504728003188 G3 box; other site 504728003189 Switch II region; other site 504728003190 G4 box; other site 504728003191 G5 box; other site 504728003192 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 504728003193 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 504728003194 Antibiotic Binding Site [chemical binding]; other site 504728003195 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 504728003196 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 504728003197 Beta-Casp domain; Region: Beta-Casp; smart01027 504728003198 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 504728003199 multifunctional aminopeptidase A; Provisional; Region: PRK00913 504728003200 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 504728003201 interface (dimer of trimers) [polypeptide binding]; other site 504728003202 Substrate-binding/catalytic site; other site 504728003203 Zn-binding sites [ion binding]; other site 504728003204 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 504728003205 metal binding site 2 [ion binding]; metal-binding site 504728003206 putative DNA binding helix; other site 504728003207 metal binding site 1 [ion binding]; metal-binding site 504728003208 dimer interface [polypeptide binding]; other site 504728003209 structural Zn2+ binding site [ion binding]; other site 504728003210 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; cl00217 504728003211 metal binding sites [ion binding]; metal-binding site 504728003212 dimer interface [polypeptide binding]; other site 504728003213 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 504728003214 The TGS domain, named after the ThrRS, GTPase, and SpoT/RelA proteins where it occurs, is structurally similar to ubiquitin. TGS is a small domain of about 50 amino acid residues with a predominantly beta-sheet structure. There is no direct information...; Region: TGS; cl15768 504728003215 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 504728003216 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 504728003217 active site 504728003218 dimer interface [polypeptide binding]; other site 504728003219 motif 1; other site 504728003220 motif 2; other site 504728003221 motif 3; other site 504728003222 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 504728003223 anticodon binding site; other site 504728003224 H+ Antiporter protein; Region: 2A0121; TIGR00900 504728003225 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 504728003226 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 504728003227 Major Facilitator Superfamily; Region: MFS_1; pfam07690 504728003228 putative substrate translocation pore; other site 504728003229 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 504728003230 catalytic core [active] 504728003231 exopolyphosphatase; Region: exo_poly_only; TIGR03706 504728003232 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 504728003233 polyphosphate kinase; Provisional; Region: PRK05443 504728003234 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 504728003235 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 504728003236 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 504728003237 putative active site [active] 504728003238 catalytic site [active] 504728003239 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 504728003240 putative active site [active] 504728003241 catalytic site [active] 504728003242 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 504728003243 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 504728003244 Walker A/P-loop; other site 504728003245 ATP binding site [chemical binding]; other site 504728003246 Q-loop/lid; other site 504728003247 ABC transporter signature motif; other site 504728003248 Walker B; other site 504728003249 D-loop; other site 504728003250 H-loop/switch region; other site 504728003251 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 504728003252 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 504728003253 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 504728003254 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 504728003255 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 504728003256 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 504728003257 active site 504728003258 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 504728003259 GTP-binding protein YchF; Reviewed; Region: PRK09601 504728003260 YchF GTPase; Region: YchF; cd01900 504728003261 G1 box; other site 504728003262 GTP/Mg2+ binding site [chemical binding]; other site 504728003263 Switch I region; other site 504728003264 G2 box; other site 504728003265 Switch II region; other site 504728003266 G3 box; other site 504728003267 G4 box; other site 504728003268 G5 box; other site 504728003269 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 504728003270 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 504728003271 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 504728003272 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 504728003273 conserved cys residue [active] 504728003274 Carboxypeptidase C (cathepsin A) [Amino acid transport and metabolism]; Region: COG2939 504728003275 Serine carboxypeptidase; Region: Peptidase_S10; cl08270 504728003276 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 504728003277 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 504728003278 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 504728003279 Tricorn protease; serine protease family S41; Region: Peptidase_S41_TRI; cd07562 504728003280 Domain interface; other site 504728003281 Peptide binding site; other site 504728003282 Active site tetrad [active] 504728003283 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 504728003284 active site 504728003285 oligoendopeptidase, pepF/M3 family; Region: M3_fam_3; TIGR02290 504728003286 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_2; cd09607 504728003287 active site 504728003288 Zn binding site [ion binding]; other site 504728003289 Protein of unknown function (DUF2089); Region: DUF2089; pfam09862 504728003290 Protein of unknown function (DUF2089); Region: DUF2089; pfam09862 504728003291 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 504728003292 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 504728003293 substrate binding site [chemical binding]; other site 504728003294 oxyanion hole (OAH) forming residues; other site 504728003295 trimer interface [polypeptide binding]; other site 504728003296 2-enoyl-CoA Hydratase C-terminal region; Region: ECH_C; pfam13766 504728003297 translation initiation factor IF-3; Region: infC; TIGR00168 504728003298 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 504728003299 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 504728003300 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 504728003301 Part of AAA domain; Region: AAA_19; pfam13245 504728003302 Family description; Region: UvrD_C_2; pfam13538 504728003303 Protein of unknown function (DUF3553); Region: DUF3553; pfam12073 504728003304 Protein of unknown function DUF58; Region: DUF58; pfam01882 504728003305 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 504728003306 This family is most closely related to the GT1 family of glycosyltransferases. UDP-glucose-diacylglycerol glucosyltransferase (UGDG; also known as 1,2-diacylglycerol 3-glucosyltransferase) catalyzes the transfer of glucose from UDP-glucose to 1; Region: GT1_UGDG_like; cd03817 504728003307 putative ADP-binding pocket [chemical binding]; other site 504728003308 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 504728003309 Catalytic NodB homology domain of uncharacterized bacterial polysaccharide deacetylases; Region: CE4_NodB_like_3; cd10959 504728003310 NodB motif; other site 504728003311 putative active site [active] 504728003312 putative catalytic site [active] 504728003313 putative Zn binding site [ion binding]; other site 504728003314 transferase 2, rSAM/selenodomain-associated; Region: glyco_like_mftF; TIGR04283 504728003315 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 504728003316 active site 504728003317 aconitate hydratase; Validated; Region: PRK09277 504728003318 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 504728003319 substrate binding site [chemical binding]; other site 504728003320 ligand binding site [chemical binding]; other site 504728003321 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 504728003322 substrate binding site [chemical binding]; other site 504728003323 Copper chaperone [Inorganic ion transport and metabolism]; Region: CopZ; COG2608 504728003324 WYL domain; Region: WYL; pfam13280 504728003325 Putative bacterial sensory transduction regulator; Region: YbjN; pfam10722 504728003326 TROVE domain; Region: TROVE; pfam05731 504728003327 Uncharacterized protein containing a von Willebrand factor type A (vWA) domain [General function prediction only]; Region: COG2304 504728003328 VWA subgroup: 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...; Region: vWA_subgroup; cd01465 504728003329 metal ion-dependent adhesion site (MIDAS); other site 504728003330 potential frameshift: common BLAST hit: gi|283781190|ref|YP_003371945.1| DEAD/DEAH box helicase 504728003331 DEAD-like helicases superfamily; Region: DEXDc; smart00487 504728003332 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 504728003333 ATP binding site [chemical binding]; other site 504728003334 putative Mg++ binding site [ion binding]; other site 504728003335 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 504728003336 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 504728003337 nucleotide binding region [chemical binding]; other site 504728003338 ATP-binding site [chemical binding]; other site 504728003339 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4634 504728003340 Protein of unknown function (DUF433); Region: DUF433; pfam04255 504728003341 Eco57I restriction-modification methylase; Region: Eco57I; pfam07669 504728003342 Protein of unknown function DUF86; Region: DUF86; cl01031 504728003343 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 504728003344 active site 504728003345 NTP binding site [chemical binding]; other site 504728003346 metal binding triad [ion binding]; metal-binding site 504728003347 antibiotic binding site [chemical binding]; other site 504728003348 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 504728003349 metal ion-dependent adhesion site (MIDAS); other site 504728003350 Tubulin like; Region: Tubulin_2; pfam13809 504728003351 Putative ATP-dependent Lon protease; Region: Lon_2; pfam13337 504728003352 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 504728003353 Family description; Region: UvrD_C_2; pfam13538 504728003354 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 504728003355 ATP-dependent exoDNAse (exonuclease V) beta subunit (contains helicase and exonuclease domains) [DNA replication, recombination, and repair]; Region: RecB; COG1074 504728003356 AAA domain; Region: AAA_30; pfam13604 504728003357 Family description; Region: UvrD_C_2; pfam13538 504728003358 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; cl11399 504728003359 Putative metallopeptidase domain; Region: DUF2201_N; pfam13203 504728003360 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cl00057 504728003361 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 504728003362 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 504728003363 Walker A motif; other site 504728003364 ATP binding site [chemical binding]; other site 504728003365 Walker B motif; other site 504728003366 arginine finger; other site 504728003367 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09311 504728003368 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 504728003369 GTP cyclohydrolase II (RibA). GTP cyclohydrolase II catalyzes the conversion of GTP to 2,5-diamino-6-ribosylamino-4(3H)-pyrimidinone 5' phosphate, formate, pyrophosphate (APy), and GMP in the biosynthetic pathway of riboflavin. Riboflavin is the...; Region: GTP_cyclohydro2; cd00641 504728003370 dimerization interface [polypeptide binding]; other site 504728003371 active site 504728003372 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 504728003373 Lumazine binding domain; Region: Lum_binding; pfam00677 504728003374 Lumazine binding domain; Region: Lum_binding; pfam00677 504728003375 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 504728003376 catalytic motif [active] 504728003377 Zn binding site [ion binding]; other site 504728003378 RibD C-terminal domain; Region: RibD_C; cl17279 504728003379 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 504728003380 homopentamer interface [polypeptide binding]; other site 504728003381 active site 504728003382 uncharacterized peroxidase-related enzyme; Region: peroxid_rel; TIGR01926 504728003383 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 504728003384 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 504728003385 active site 504728003386 metal binding site [ion binding]; metal-binding site 504728003387 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 504728003388 PAS domain; Region: PAS_9; pfam13426 504728003389 putative active site [active] 504728003390 heme pocket [chemical binding]; other site 504728003391 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 504728003392 PAS domain; Region: PAS_9; pfam13426 504728003393 putative active site [active] 504728003394 heme pocket [chemical binding]; other site 504728003395 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 504728003396 PAS domain; Region: PAS_9; pfam13426 504728003397 putative active site [active] 504728003398 heme pocket [chemical binding]; other site 504728003399 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 504728003400 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 504728003401 dimer interface [polypeptide binding]; other site 504728003402 phosphorylation site [posttranslational modification] 504728003403 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 504728003404 ATP binding site [chemical binding]; other site 504728003405 G-X-G motif; other site 504728003406 Response regulator receiver domain; Region: Response_reg; pfam00072 504728003407 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 504728003408 active site 504728003409 phosphorylation site [posttranslational modification] 504728003410 intermolecular recognition site; other site 504728003411 dimerization interface [polypeptide binding]; other site 504728003412 Protein of unknown function (DUF1385); Region: DUF1385; cl01595 504728003413 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 504728003414 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 504728003415 active site 504728003416 phosphorylation site [posttranslational modification] 504728003417 intermolecular recognition site; other site 504728003418 dimerization interface [polypeptide binding]; other site 504728003419 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 504728003420 DNA binding residues [nucleotide binding] 504728003421 dimerization interface [polypeptide binding]; other site 504728003422 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 504728003423 Histidine kinase; Region: HisKA_3; pfam07730 504728003424 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 504728003425 ATP binding site [chemical binding]; other site 504728003426 Mg2+ binding site [ion binding]; other site 504728003427 G-X-G motif; other site 504728003428 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 504728003429 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 504728003430 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 504728003431 Walker A/P-loop; other site 504728003432 ATP binding site [chemical binding]; other site 504728003433 Q-loop/lid; other site 504728003434 ABC transporter signature motif; other site 504728003435 Walker B; other site 504728003436 D-loop; other site 504728003437 H-loop/switch region; other site 504728003438 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 504728003439 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 504728003440 putative substrate binding site [chemical binding]; other site 504728003441 putative ATP binding site [chemical binding]; other site 504728003442 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 504728003443 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 504728003444 nucleotide binding site [chemical binding]; other site 504728003445 D-allose kinase; Provisional; Region: PRK09698 504728003446 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 504728003447 nucleotide binding site [chemical binding]; other site 504728003448 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 504728003449 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 504728003450 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 504728003451 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 504728003452 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_2; cd06310 504728003453 putative ligand binding site [chemical binding]; other site 504728003454 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 504728003455 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 504728003456 TM-ABC transporter signature motif; other site 504728003457 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 504728003458 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 504728003459 Walker A/P-loop; other site 504728003460 ATP binding site [chemical binding]; other site 504728003461 Q-loop/lid; other site 504728003462 ABC transporter signature motif; other site 504728003463 Walker B; other site 504728003464 D-loop; other site 504728003465 H-loop/switch region; other site 504728003466 Phosphofructokinase, a key regulatory enzyme in glycolysis, catalyzes the phosphorylation of fructose-6-phosphate to fructose-1,6-biphosphate. The members belong to PFK family that includes ATP- and pyrophosphate (PPi)- dependent phosphofructokinases; Region: PFK; cl00204 504728003467 active site 504728003468 ADP/pyrophosphate binding site [chemical binding]; other site 504728003469 dimerization interface [polypeptide binding]; other site 504728003470 allosteric effector site; other site 504728003471 fructose-1,6-bisphosphate binding site; other site 504728003472 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 504728003473 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 504728003474 intersubunit interface [polypeptide binding]; other site 504728003475 active site 504728003476 zinc binding site [ion binding]; other site 504728003477 Na+ binding site [ion binding]; other site 504728003478 Class I aldolases; Region: Aldolase_Class_I; cl17187 504728003479 catalytic residue [active] 504728003480 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 504728003481 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 504728003482 substrate binding site [chemical binding]; other site 504728003483 ATP binding site [chemical binding]; other site 504728003484 Protein of unknown function (DUF1498); Region: DUF1498; cl17840 504728003485 putative hydrolase; Provisional; Region: PRK11460 504728003486 N-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_N_like; cd08346 504728003487 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 504728003488 Zn binding site [ion binding]; other site 504728003489 C-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_C_like; cd08347 504728003490 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 504728003491 Zn binding site [ion binding]; other site 504728003492 ABC-type proline/glycine betaine transport system, ATPase component [Amino acid transport and metabolism]; Region: ProV; COG4175 504728003493 ATP-binding cassette domain of the osmoprotectant proline/glycine betaine uptake system; Region: ABC_Pro_Gly_Betaine; cd03294 504728003494 Walker A/P-loop; other site 504728003495 ATP binding site [chemical binding]; other site 504728003496 Q-loop/lid; other site 504728003497 ABC transporter signature motif; other site 504728003498 Walker B; other site 504728003499 D-loop; other site 504728003500 H-loop/switch region; other site 504728003501 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 504728003502 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 504728003503 dimer interface [polypeptide binding]; other site 504728003504 conserved gate region; other site 504728003505 putative PBP binding loops; other site 504728003506 ABC-ATPase subunit interface; other site 504728003507 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 504728003508 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 504728003509 Curli production assembly/transport component CsgG; Region: CsgG; cl17434 504728003510 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 504728003511 metal ion-dependent adhesion site (MIDAS); other site 504728003512 Protein of unknown function (DUF1355); Region: DUF1355; cl17712 504728003513 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 504728003514 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 504728003515 active site 504728003516 catalytic residues [active] 504728003517 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 504728003518 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 504728003519 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 504728003520 Outer membrane protein (OmpH-like); Region: OmpH; smart00935 504728003521 Outer membrane protein (OmpH-like); Region: OmpH; smart00935 504728003522 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 504728003523 Prephenate dehydratase; Region: PDT; pfam00800 504728003524 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 504728003525 putative L-Phe binding site [chemical binding]; other site 504728003526 Peptidoglycan interpeptide bridge formation enzyme [Cell wall/membrane/envelope biogenesis]; Region: COG2348 504728003527 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; cl17497 504728003528 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 504728003529 active site 504728003530 catalytic site [active] 504728003531 substrate binding site [chemical binding]; other site 504728003532 Predicted signal-transduction protein containing cAMP-binding and CBS domains [Signal transduction mechanisms]; Region: COG2905 504728003533 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 504728003534 ligand binding site [chemical binding]; other site 504728003535 flexible hinge region; other site 504728003536 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with either the CAP_ED (cAMP receptor protein effector domain) family of transcription factors and the DUF294 domain or the PB1 (Phox and Bem1p) domain; Region: CBS_pair_CAP-ED_DUF294_PBI_assoc2; cd04800 504728003537 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 504728003538 metal binding triad; other site 504728003539 Undecaprenyl-phosphate galactose phosphotransferase, WbaP; Region: WbaP_sugtrans; TIGR03022 504728003540 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 504728003541 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 504728003542 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 504728003543 Na binding site [ion binding]; other site 504728003544 Domain of unknown function (DUF4212); Region: DUF4212; pfam13937 504728003545 acetyl-CoA synthetase; Provisional; Region: PRK00174 504728003546 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 504728003547 acyl-activating enzyme (AAE) consensus motif; other site 504728003548 AMP binding site [chemical binding]; other site 504728003549 active site 504728003550 CoA binding site [chemical binding]; other site 504728003551 Transcriptional regulator [Transcription]; Region: IclR; COG1414 504728003552 Bacterial transcriptional regulator; Region: IclR; pfam01614 504728003553 acetyl-CoA synthetase; Provisional; Region: PRK00174 504728003554 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 504728003555 acyl-activating enzyme (AAE) consensus motif; other site 504728003556 AMP binding site [chemical binding]; other site 504728003557 active site 504728003558 CoA binding site [chemical binding]; other site 504728003559 acetyl-CoA synthetase; Provisional; Region: PRK00174 504728003560 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 504728003561 active site 504728003562 CoA binding site [chemical binding]; other site 504728003563 acyl-activating enzyme (AAE) consensus motif; other site 504728003564 AMP binding site [chemical binding]; other site 504728003565 acetate binding site [chemical binding]; other site 504728003566 PCRF domain; Region: PCRF; pfam03462 504728003567 Protein chain release factor B [Translation, ribosomal structure and biogenesis]; Region: PrfB; COG1186 504728003568 RF-1 domain; Region: RF-1; pfam00472 504728003569 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 504728003570 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 504728003571 active site 504728003572 hinge; other site 504728003573 NOL1/NOP2/sun family; Region: Nol1_Nop2_Fmu; pfam01189 504728003574 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 504728003575 S-adenosylmethionine binding site [chemical binding]; other site 504728003576 pre-rRNA processing and ribosome biogenesis; Region: Nol1_Nop2_Fmu_2; pfam13636 504728003577 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK14662 504728003578 bacteriophage N4 adsorption protein B; Provisional; Region: PRK14716 504728003579 active site 504728003580 Glycosyl transferase family group 2; Region: Glyco_trans_2_3; pfam13632 504728003581 Putative NodB-like catalytic domain of uncharacterized proteins found in bacteria; Region: CE4_COG5298; cd10923 504728003582 Uncharacterized protein conserved in bacteria (DUF2334); Region: DUF2334; pfam10096 504728003583 NodB motif; other site 504728003584 putative active site [active] 504728003585 putative catalytic site [active] 504728003586 putative Zn binding site [ion binding]; other site 504728003587 Beta-mannanase [Carbohydrate transport and metabolism]; Region: ManB; COG4124 504728003588 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 504728003589 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 504728003590 MoxR-like ATPases [General function prediction only]; Region: COG0714 504728003591 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 504728003592 Walker A motif; other site 504728003593 ATP binding site [chemical binding]; other site 504728003594 Walker B motif; other site 504728003595 arginine finger; other site 504728003596 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 504728003597 Protein of unknown function DUF58; Region: DUF58; pfam01882 504728003598 von Willebrand factor type A domain; Region: VWA_2; pfam13519 504728003599 metal ion-dependent adhesion site (MIDAS); other site 504728003600 Aerotolerance regulator N-terminal; Region: BatA; cl06567 504728003601 von Willebrand factor type A domain; Region: VWA_2; pfam13519 504728003602 metal ion-dependent adhesion site (MIDAS); other site 504728003603 metal ion-dependent adhesion site (MIDAS); other site 504728003604 von Willebrand factor type A domain; Region: VWA_2; pfam13519 504728003605 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cl00057 504728003606 metal ion-dependent adhesion site (MIDAS); other site 504728003607 ATP-dependent protease La (LON) domain; Region: LON; pfam02190 504728003608 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; cd03440 504728003609 active site 2 [active] 504728003610 active site 1 [active] 504728003611 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 504728003612 phenylacetate-CoA ligase; Region: PA_CoA_ligase; TIGR02155 504728003613 acyl-activating enzyme (AAE) consensus motif; other site 504728003614 AMP binding site [chemical binding]; other site 504728003615 active site 504728003616 CoA binding site [chemical binding]; other site 504728003617 gluconate 5-dehydrogenase; Provisional; Region: PRK08213 504728003618 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 504728003619 NAD(P) binding site [chemical binding]; other site 504728003620 active site 504728003621 beta-ketoadipyl CoA thiolase; Validated; Region: PRK09050 504728003622 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 504728003623 dimer interface [polypeptide binding]; other site 504728003624 active site 504728003625 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 504728003626 CoenzymeA binding site [chemical binding]; other site 504728003627 subunit interaction site [polypeptide binding]; other site 504728003628 PHB binding site; other site 504728003629 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 504728003630 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 504728003631 Walker A/P-loop; other site 504728003632 ATP binding site [chemical binding]; other site 504728003633 Q-loop/lid; other site 504728003634 ABC transporter signature motif; other site 504728003635 Walker B; other site 504728003636 D-loop; other site 504728003637 H-loop/switch region; other site 504728003638 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 504728003639 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 504728003640 TM-ABC transporter signature motif; other site 504728003641 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 504728003642 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 504728003643 Walker A/P-loop; other site 504728003644 ATP binding site [chemical binding]; other site 504728003645 Q-loop/lid; other site 504728003646 ABC transporter signature motif; other site 504728003647 Walker B; other site 504728003648 D-loop; other site 504728003649 H-loop/switch region; other site 504728003650 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 504728003651 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 504728003652 TM-ABC transporter signature motif; other site 504728003653 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 504728003654 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 504728003655 putative ligand binding site [chemical binding]; other site 504728003656 3-hydroxy-acyl-CoA dehydrogenase; Validated; Region: PRK08268 504728003657 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 504728003658 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 504728003659 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 504728003660 3,4-dihydroxyphenylacetate 2,3-dioxygenase; Region: HpaD; TIGR02295 504728003661 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 504728003662 active site 504728003663 metal binding site [ion binding]; metal-binding site 504728003664 C-terminal domain of 3,4-dihydroxyphenylacetate 2,3-dioxygenase (HPCD), which catalyses the second step in the degradation of 4-hydroxyphenylacetate to succinate and pyruvate; belongs to the type I class II family of extradiol dioxygenases; Region: HPCD_C_class_II; cd07256 504728003665 tetramer interface [polypeptide binding]; other site 504728003666 active site 504728003667 metal binding site [ion binding]; metal-binding site 504728003668 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 504728003669 4-hydroxyphenylacetate 3-monooxygenase, oxygenase component; Region: HpaB-1; TIGR02309 504728003670 4-hydroxyphenylacetate 3-hydroxylase C terminal; Region: HpaB; pfam03241 504728003671 5-carboxymethyl-2-hydroxymuconate semialdehyde dehydrogenase; Region: HpaE; TIGR02299 504728003672 Human aldehyde dehydrogenase family 8 member A1-like; Region: ALDH_F8_HMSADH; cd07093 504728003673 NAD binding site [chemical binding]; other site 504728003674 catalytic residues [active] 504728003675 4-hydroxyphenylacetate degradation bifunctional isomerase/decarboxylase, C-terminal subunit; Region: HpaG-C-term; TIGR02303 504728003676 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 504728003677 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 504728003678 dihydrodipicolinate synthase; Region: dapA; TIGR00674 504728003679 dimer interface [polypeptide binding]; other site 504728003680 active site 504728003681 catalytic residue [active] 504728003682 MarR family; Region: MarR_2; cl17246 504728003683 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 504728003684 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 504728003685 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 504728003686 Coenzyme A binding pocket [chemical binding]; other site 504728003687 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 504728003688 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 504728003689 Walker A/P-loop; other site 504728003690 ATP binding site [chemical binding]; other site 504728003691 Q-loop/lid; other site 504728003692 ABC transporter signature motif; other site 504728003693 Walker B; other site 504728003694 H-loop/switch region; other site 504728003695 ABC transporter; Region: ABC_tran_2; pfam12848 504728003696 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 504728003697 Fe-S metabolism associated domain; Region: SufE; cl00951 504728003698 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 504728003699 RNA polymerase sigma factor RpoD, C-terminal domain; Region: RpoD_Cterm; TIGR02393 504728003700 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 504728003701 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 504728003702 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 504728003703 DNA binding residues [nucleotide binding] 504728003704 16S RNA G1207 methylase RsmC [Translation, ribosomal structure and biogenesis]; Region: RsmC; COG2813 504728003705 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 504728003706 S-adenosylmethionine binding site [chemical binding]; other site 504728003707 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 504728003708 Glycoprotease family; Region: Peptidase_M22; pfam00814 504728003709 Pyrroline-5-carboxylate reductase [Amino acid transport and metabolism]; Region: ProC; COG0345 504728003710 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 504728003711 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 504728003712 Adenosine specific kinase; Region: Adenosine_kin; pfam04008 504728003713 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 504728003714 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 504728003715 catalytic triad [active] 504728003716 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 504728003717 tetramer (dimer of dimers) interface [polypeptide binding]; other site 504728003718 active site 504728003719 dimer interface [polypeptide binding]; other site 504728003720 methionyl-tRNA synthetase; Reviewed; Region: PRK12267 504728003721 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 504728003722 active site 504728003723 HIGH motif; other site 504728003724 KMSKS motif; other site 504728003725 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 504728003726 tRNA binding surface [nucleotide binding]; other site 504728003727 anticodon binding site; other site 504728003728 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 504728003729 dimer interface [polypeptide binding]; other site 504728003730 putative tRNA-binding site [nucleotide binding]; other site 504728003731 Chorismate mutase (AroH) is one of at least five chorismate-utilizing enzymes present in microorganisms that catalyze the rearrangement of chorismate to prephenic acid, the first committed step in the biosynthesis of aromatic amino acids. In prokaryotes; Region: AroH; cd02185 504728003732 homotrimer interaction site [polypeptide binding]; other site 504728003733 active site 504728003734 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00528 504728003735 thymidine kinase; Provisional; Region: PRK04296 504728003736 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 504728003737 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are generally...; Region: ACD_sHsps-like; cd06464 504728003738 putative dimer interface [polypeptide binding]; other site 504728003739 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 504728003740 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 504728003741 endonuclease IV; Provisional; Region: PRK01060 504728003742 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; cd00019 504728003743 AP (apurinic/apyrimidinic) site pocket; other site 504728003744 DNA interaction; other site 504728003745 Metal-binding active site; metal-binding site 504728003746 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 504728003747 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 504728003748 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 504728003749 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 504728003750 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 504728003751 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 504728003752 Similar to Prolidase and Aminopeptidase P. The members of this subfamily presumably catalyse hydrolysis of Xaa-Pro dipeptides and/or release of any N-terminal amino acid, including proline, that is linked with proline; Region: APP-like; cd01092 504728003753 active site 504728003754 isoleucyl-tRNA synthetase; Region: ileS; TIGR00392 504728003755 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 504728003756 active site 504728003757 HIGH motif; other site 504728003758 nucleotide binding site [chemical binding]; other site 504728003759 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 504728003760 active site 504728003761 KMSKS motif; other site 504728003762 Anticodon-binding domain of archaeal, bacterial, and eukaryotic cytoplasmic isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_ABEc; cd07961 504728003763 tRNA binding surface [nucleotide binding]; other site 504728003764 anticodon binding site; other site 504728003765 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 504728003766 active site 504728003767 intersubunit interactions; other site 504728003768 catalytic residue [active] 504728003769 transcription termination factor Rho; Provisional; Region: rho; PRK09376 504728003770 Rho termination factor, N-terminal domain; Region: Rho_N; cl06505 504728003771 S1_like: Ribosomal protein S1-like RNA-binding domain. Found in a wide variety of RNA-associated proteins. Originally identified in S1 ribosomal protein. This superfamily also contains the Cold Shock Domain (CSD), which is a homolog of the S1 domain; Region: S1_like; cl09927 504728003772 RNA binding site [nucleotide binding]; other site 504728003773 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 504728003774 Walker A motif; other site 504728003775 ATP binding site [chemical binding]; other site 504728003776 Walker B motif; other site 504728003777 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 504728003778 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 504728003779 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 504728003780 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 504728003781 Peptidase family M23; Region: Peptidase_M23; pfam01551 504728003782 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 504728003783 active site 504728003784 putative substrate binding region [chemical binding]; other site 504728003785 Peptidase family M50; Region: Peptidase_M50; pfam02163 504728003786 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 504728003787 active site 504728003788 putative substrate binding region [chemical binding]; other site 504728003789 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 504728003790 CoA binding domain; Region: CoA_binding; pfam02629 504728003791 CoA-ligase; Region: Ligase_CoA; pfam00549 504728003792 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 504728003793 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 504728003794 CoA-ligase; Region: Ligase_CoA; pfam00549 504728003795 G8 domain; Region: G8; pfam10162 504728003796 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 504728003797 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 504728003798 S-adenosylmethionine binding site [chemical binding]; other site 504728003799 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 504728003800 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 504728003801 active site 504728003802 (T/H)XGH motif; other site 504728003803 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 504728003804 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 504728003805 NAD(P) binding site [chemical binding]; other site 504728003806 catalytic residues [active] 504728003807 Protein containing von Willebrand factor type A (vWA) domain [General function prediction only]; Region: CoxE; COG3552 504728003808 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 504728003809 metal ion-dependent adhesion site (MIDAS); other site 504728003810 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 504728003811 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 504728003812 Walker A motif; other site 504728003813 ATP binding site [chemical binding]; other site 504728003814 Walker B motif; other site 504728003815 arginine finger; other site 504728003816 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 504728003817 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 504728003818 XdhC Rossmann domain; Region: XdhC_C; pfam13478 504728003819 YHS domain; Region: YHS; pfam04945 504728003820 Carbon monoxide dehydrogenase subunit G (CoxG); Region: CoxG; cd05018 504728003821 putative hydrophobic ligand binding site [chemical binding]; other site 504728003822 carbon-monoxide dehydrogenase, large subunit; Region: CO_dehy_Mo_lg; TIGR02416 504728003823 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 504728003824 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 504728003825 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 504728003826 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 504728003827 catalytic loop [active] 504728003828 iron binding site [ion binding]; other site 504728003829 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 504728003830 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 504728003831 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; pfam03450 504728003832 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 504728003833 Ligand binding site; other site 504728003834 metal-binding site 504728003835 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 504728003836 binding surface 504728003837 TPR motif; other site 504728003838 Tetratricopeptide repeat; Region: TPR_12; pfam13424 504728003839 Tetratricopeptide repeat; Region: TPR_12; pfam13424 504728003840 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 504728003841 binding surface 504728003842 TPR motif; other site 504728003843 Tetratricopeptide repeat; Region: TPR_12; pfam13424 504728003844 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 504728003845 TPR motif; other site 504728003846 binding surface 504728003847 Tetratricopeptide repeat; Region: TPR_12; pfam13424 504728003848 Tetratricopeptide repeat; Region: TPR_12; pfam13424 504728003849 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 504728003850 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 504728003851 Zn2+ binding site [ion binding]; other site 504728003852 Mg2+ binding site [ion binding]; other site 504728003853 CYTH-like (also known as triphosphate tunnel metalloenzyme (TTM)-like) Phosphatases; Region: CYTH-like_Pase; cl11964 504728003854 putative metal binding residues [ion binding]; other site 504728003855 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 504728003856 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 504728003857 metal binding site [ion binding]; metal-binding site 504728003858 active site 504728003859 I-site; other site 504728003860 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 504728003861 hydroxyglutarate oxidase; Provisional; Region: PRK11728 504728003862 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 504728003863 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 504728003864 23S rRNA binding site [nucleotide binding]; other site 504728003865 L21 binding site [polypeptide binding]; other site 504728003866 L13 binding site [polypeptide binding]; other site 504728003867 allantoate amidohydrolase; Reviewed; Region: PRK09290 504728003868 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 504728003869 active site 504728003870 metal binding site [ion binding]; metal-binding site 504728003871 dimer interface [polypeptide binding]; other site 504728003872 hypothetical protein; Provisional; Region: PRK11171 504728003873 Cupin domain; Region: Cupin_2; pfam07883 504728003874 Cupin domain; Region: Cupin_2; cl17218 504728003875 allantoinase; Provisional; Region: PRK06189 504728003876 L-Hydantoinases (L-HYDs) and Allantoinase (ALN); L-Hydantoinases are a member of the dihydropyrimidinase family, which catalyzes the reversible hydrolytic ring opening of dihydropyrimidines and hydantoins (five-membered cyclic diamides used in...; Region: L-HYD_ALN; cd01315 504728003877 active site 504728003878 allantoate amidohydrolase; Reviewed; Region: PRK09290 504728003879 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 504728003880 active site 504728003881 metal binding site [ion binding]; metal-binding site 504728003882 dimer interface [polypeptide binding]; other site 504728003883 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 504728003884 active site 504728003885 homotetramer interface [polypeptide binding]; other site 504728003886 Predicted membrane protein [Function unknown]; Region: COG3748 504728003887 Protein of unknown function (DUF989); Region: DUF989; pfam06181 504728003888 Cytochrome c; Region: Cytochrom_C; pfam00034 504728003889 OHCU decarboxylase; Region: OHCU_decarbox; cl01251 504728003890 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 504728003891 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 504728003892 ABC-ATPase subunit interface; other site 504728003893 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 504728003894 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 504728003895 Walker A/P-loop; other site 504728003896 ATP binding site [chemical binding]; other site 504728003897 Q-loop/lid; other site 504728003898 ABC transporter signature motif; other site 504728003899 Walker B; other site 504728003900 D-loop; other site 504728003901 H-loop/switch region; other site 504728003902 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 504728003903 NMT1/THI5 like; Region: NMT1; pfam09084 504728003904 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 504728003905 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 504728003906 inhibitor-cofactor binding pocket; inhibition site 504728003907 pyridoxal 5'-phosphate binding site [chemical binding]; other site 504728003908 catalytic residue [active] 504728003909 NAD(P) binding domain of amino acid dehydrogenase-like proteins; Region: NAD_bind_amino_acid_DH; cl17226 504728003910 Glutamyl-tRNA reductase [Coenzyme metabolism]; Region: HemA; COG0373 504728003911 NAD(P) binding pocket [chemical binding]; other site 504728003912 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 504728003913 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; cl17708 504728003914 porphobilinogen deaminase; Provisional; Region: PRK01066 504728003915 domain interfaces; other site 504728003916 active site 504728003917 Uroporphyrinogen-III synthase [Coenzyme metabolism]; Region: HemD; COG1587 504728003918 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 504728003919 active site 504728003920 delta-aminolevulinic acid dehydratase; Validated; Region: PRK09283 504728003921 dimer interface [polypeptide binding]; other site 504728003922 active site 504728003923 Schiff base residues; other site 504728003924 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 504728003925 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 504728003926 dimer interface [polypeptide binding]; other site 504728003927 phosphorylation site [posttranslational modification] 504728003928 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 504728003929 ATP binding site [chemical binding]; other site 504728003930 Mg2+ binding site [ion binding]; other site 504728003931 G-X-G motif; other site 504728003932 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 504728003933 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 504728003934 active site 504728003935 phosphorylation site [posttranslational modification] 504728003936 intermolecular recognition site; other site 504728003937 dimerization interface [polypeptide binding]; other site 504728003938 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 504728003939 DNA binding site [nucleotide binding] 504728003940 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 504728003941 substrate binding site [chemical binding]; other site 504728003942 active site 504728003943 Predicted heme peroxidase involved in anaerobic stress response [General function prediction only]; Region: ywfI; COG3253 504728003944 ferrochelatase; Reviewed; Region: hemH; PRK00035 504728003945 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 504728003946 C-terminal domain interface [polypeptide binding]; other site 504728003947 active site 504728003948 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 504728003949 active site 504728003950 N-terminal domain interface [polypeptide binding]; other site 504728003951 protoporphyrinogen oxidase; Reviewed; Region: PRK11883 504728003952 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 504728003953 hydroxyglutarate oxidase; Provisional; Region: PRK11728 504728003954 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 504728003955 phiLC3 phage and phage-related integrases, site-specific recombinases, DNA breaking-rejoining enzymes, C-terminal catalytic domain. This CD includes various bacterial (mainly gram positive) and phage integrases, including those similar to Lactococcus...; Region: INT_phiLC3_C; cd01189 504728003956 Int/Topo IB signature motif; other site 504728003957 Restriction endonuclease; Region: Mrr_cat; pfam04471 504728003958 The S24, S26 LexA/signal peptidase superfamily contains LexA-related and type I signal peptidase families. The S24 LexA protein domains include: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC 3.4.21.88), the...; Region: Peptidase_S24_S26; cd06462 504728003959 Predicted transcriptional regulator [Transcription]; Region: COG2932 504728003960 Catalytic site [active] 504728003961 Helix-turn-helix domain; Region: HTH_17; pfam12728 504728003962 Helix-turn-helix domain; Region: HTH_17; pfam12728 504728003963 Predicted membrane protein [Function unknown]; Region: COG5373 504728003964 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 504728003965 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 504728003966 active site 504728003967 metal binding site [ion binding]; metal-binding site 504728003968 PIN domain; Region: PIN_3; cl17397 504728003969 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 504728003970 Walker A motif; other site 504728003971 ATP binding site [chemical binding]; other site 504728003972 Walker B motif; other site 504728003973 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 504728003974 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 504728003975 N-acetyl-D-glucosamine binding site [chemical binding]; other site 504728003976 catalytic residue [active] 504728003977 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 504728003978 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 504728003979 GatB domain; Region: GatB_Yqey; smart00845 504728003980 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 504728003981 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 504728003982 dimerization interface [polypeptide binding]; other site 504728003983 putative ATP binding site [chemical binding]; other site 504728003984 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 504728003985 catalytic core [active] 504728003986 Cystathionine beta-lyases/cystathionine gamma-synthases [Amino acid transport and metabolism]; Region: MetC; COG0626 504728003987 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 504728003988 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 504728003989 catalytic residue [active] 504728003990 Peptidylarginine deiminase and related enzymes [Amino acid transport and metabolism]; Region: COG2957; cl01113 504728003991 Porphyromonas-type peptidyl-arginine deiminase; Region: PAD_porph; pfam04371 504728003992 N-carbamoylputrescine amidase; Region: agmatine_aguB; TIGR03381 504728003993 N-carbamoylputrescine amidohydrolase (CPA) (class 11 nitrilases); Region: CPA; cd07573 504728003994 putative active site; other site 504728003995 catalytic triad [active] 504728003996 putative dimer interface [polypeptide binding]; other site 504728003997 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 504728003998 putative active site [active] 504728003999 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 504728004000 Regulators of stationary/sporulation gene expression [Transcription]; Region: AbrB; COG2002 504728004001 SpoVT / AbrB like domain; Region: SpoVT_AbrB; smart00966 504728004002 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 504728004003 classical (c) SDRs; Region: SDR_c; cd05233 504728004004 NAD(P) binding site [chemical binding]; other site 504728004005 active site 504728004006 Domain of unknown function (DUF4160); Region: DUF4160; pfam13711 504728004007 MutT homolog-1 (MTH1) is a member of the Nudix hydrolase superfamily. MTH1, the mammalian counterpart of MutT, hydrolyzes oxidized purine nucleoside triphosphates, such as 8-oxo-dGTP and 2-hydroxy-ATP, to monophosphates, thereby preventing the...; Region: MTH1; cd03427 504728004008 putative active site [active] 504728004009 nucleotide binding site [chemical binding]; other site 504728004010 nudix motif; other site 504728004011 putative metal binding site [ion binding]; other site 504728004012 Zn-ribbon protein, possibly nucleic acid-binding [General function prediction only]; Region: COG1579 504728004013 Putative zinc ribbon domain; Region: DUF164; pfam02591 504728004014 transcriptional regulator NrdR; Region: TIGR00244 504728004015 ATP cone domain; Region: ATP-cone; pfam03477 504728004016 gluconate 5-dehydrogenase; Provisional; Region: PRK08085 504728004017 classical (c) SDRs; Region: SDR_c; cd05233 504728004018 NAD(P) binding site [chemical binding]; other site 504728004019 active site 504728004020 GAF domain; Region: GAF_2; pfam13185 504728004021 GAF domain; Region: GAF_3; pfam13492 504728004022 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 504728004023 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 504728004024 Zn2+ binding site [ion binding]; other site 504728004025 Mg2+ binding site [ion binding]; other site 504728004026 GAF domain; Region: GAF; cl17456 504728004027 GAF domain; Region: GAF_2; pfam13185 504728004028 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 504728004029 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 504728004030 Coenzyme A binding pocket [chemical binding]; other site 504728004031 putative acetyltransferase; Provisional; Region: PRK03624 504728004032 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 504728004033 Coenzyme A binding pocket [chemical binding]; other site 504728004034 GNAT acetyltransferase 2; Region: GNAT_acetyltr_2; pfam13718 504728004035 mycothiol synthase; Region: mycothiol_MshD; TIGR03448 504728004036 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 504728004037 Coenzyme A binding pocket [chemical binding]; other site 504728004038 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 504728004039 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 504728004040 Coenzyme A binding pocket [chemical binding]; other site 504728004041 Chromate transporter; Region: Chromate_transp; pfam02417 504728004042 Chromate transporter; Region: Chromate_transp; pfam02417 504728004043 phosphoprotein phosphatases of the metallophosphatase superfamily, metallophosphatase domain; Region: MPP_PPP_family; cd00144 504728004044 active site 504728004045 metal binding site [ion binding]; metal-binding site 504728004046 Acyl-coenzyme A:6-aminopenicillanic acid acyl-transferase; Region: AAT; pfam03417 504728004047 PIN domains of VapC and Smg6 ribonucleases, ribosome assembly factor NOB1, Archaeoglobus fulgidus AF0591 protein and homologs; Region: PIN_VapC-Smg6-like; cd09855 504728004048 putative active site [active] 504728004049 Macro domain, Unknown family 2. 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 ADP-ribose polymerases)...; Region: Macro_2; cd03330 504728004050 putative ADP-ribose binding site [chemical binding]; other site 504728004051 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 504728004052 Major Facilitator Superfamily; Region: MFS_1; pfam07690 504728004053 putative substrate translocation pore; other site 504728004054 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 504728004055 AAA domain; Region: AAA_23; pfam13476 504728004056 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 504728004057 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 504728004058 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 504728004059 dimer interface [polypeptide binding]; other site 504728004060 conserved gate region; other site 504728004061 putative PBP binding loops; other site 504728004062 ABC-ATPase subunit interface; other site 504728004063 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 504728004064 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 504728004065 dimer interface [polypeptide binding]; other site 504728004066 conserved gate region; other site 504728004067 putative PBP binding loops; other site 504728004068 ABC-ATPase subunit interface; other site 504728004069 Protein of unknown function (DUF1237); Region: DUF1237; pfam06824 504728004070 PepSY-associated TM helix; Region: PepSY_TM_1; pfam13172 504728004071 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3295 504728004072 Predicted periplasmic protein (DUF2271); Region: DUF2271; cl17856 504728004073 ApbE family; Region: ApbE; pfam02424 504728004074 Intradiol dioxygenase supgroup. Intradiol dioxygenases catalyze the critical ring-cleavage step in the conversion of catecholate derivatives to citric acid cycle intermediates. They break the catechol C1-C2 bond and utilize Fe3+, as opposed to the...; Region: intradiol_dioxygenase_like; cd03457 504728004075 putative active site [active] 504728004076 Short C-terminal domain; Region: SHOCT; pfam09851 504728004077 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 504728004078 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 504728004079 active site 504728004080 phosphorylation site [posttranslational modification] 504728004081 intermolecular recognition site; other site 504728004082 dimerization interface [polypeptide binding]; other site 504728004083 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 504728004084 DNA binding site [nucleotide binding] 504728004085 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 504728004086 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 504728004087 dimerization interface [polypeptide binding]; other site 504728004088 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 504728004089 dimer interface [polypeptide binding]; other site 504728004090 phosphorylation site [posttranslational modification] 504728004091 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 504728004092 ATP binding site [chemical binding]; other site 504728004093 Mg2+ binding site [ion binding]; other site 504728004094 G-X-G motif; other site 504728004095 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 504728004096 dimerization interface [polypeptide binding]; other site 504728004097 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 504728004098 dimer interface [polypeptide binding]; other site 504728004099 phosphorylation site [posttranslational modification] 504728004100 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 504728004101 ATP binding site [chemical binding]; other site 504728004102 Mg2+ binding site [ion binding]; other site 504728004103 G-X-G motif; other site 504728004104 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 504728004105 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 504728004106 active site 504728004107 phosphorylation site [posttranslational modification] 504728004108 intermolecular recognition site; other site 504728004109 dimerization interface [polypeptide binding]; other site 504728004110 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 504728004111 DNA binding site [nucleotide binding] 504728004112 Ferredoxin [Energy production and conversion]; Region: COG1146 504728004113 4Fe-4S binding domain; Region: Fer4; cl02805 504728004114 acetyl-lysine deacetylase; Provisional; Region: PRK04443 504728004115 M20 Peptidase acetylornithine deacetylase/acetyl-lysine deacetylase; Region: M20_ArgE_LysK; cd05653 504728004116 metal binding site [ion binding]; metal-binding site 504728004117 putative dimer interface [polypeptide binding]; other site 504728004118 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 504728004119 potential frameshift: common BLAST hit: gi|297564823|ref|YP_003683795.1| diguanylate cyclase 504728004120 Transcriptional regulators CsoR (copper-sensitive operon repressor), RcnR, and FrmR, and related domains; this domain superfamily was previously known as DUF156; Region: CsoR-like_DUF156; cd10148 504728004121 putative homotetramer interface [polypeptide binding]; other site 504728004122 putative homodimer interface [polypeptide binding]; other site 504728004123 putative allosteric switch controlling residues; other site 504728004124 putative metal binding site [ion binding]; other site 504728004125 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 504728004126 active site residue [active] 504728004127 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 504728004128 Glutaredoxin-like domain protein; Region: GlrX_arch; TIGR02187 504728004129 Thioredoxin (TRX)-Glutaredoxin (GRX)-like family; composed of archaeal and bacterial proteins that show similarity to both TRX and GRX, including the C-terminal TRX-fold subdomain of Pyrococcus furiosus protein disulfide oxidoreductase (PfPDO). All...; Region: TRX_GRX_like; cd02973 504728004130 catalytic residues [active] 504728004131 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 504728004132 active site residue [active] 504728004133 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 504728004134 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 504728004135 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 504728004136 TPP-binding site; other site 504728004137 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 504728004138 PYR/PP interface [polypeptide binding]; other site 504728004139 dimer interface [polypeptide binding]; other site 504728004140 TPP binding site [chemical binding]; other site 504728004141 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 504728004142 Phage shock protein A (IM30), suppresses sigma54-dependent transcription [Transcription / Signal transduction mechanisms]; Region: PspA; COG1842 504728004143 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 504728004144 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 504728004145 substrate binding pocket [chemical binding]; other site 504728004146 chain length determination region; other site 504728004147 substrate-Mg2+ binding site; other site 504728004148 catalytic residues [active] 504728004149 aspartate-rich region 1; other site 504728004150 active site lid residues [active] 504728004151 aspartate-rich region 2; other site 504728004152 putative luciferase-like monooxygenase, FMN-dependent, CE1758 family; Region: LLM_CE1758_fam; TIGR04036 504728004153 probable oxidoreductase, LLM family; Region: LLM_2I7G; TIGR03858 504728004154 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 504728004155 EamA-like transporter family; Region: EamA; pfam00892 504728004156 Branched-chain amino acid transport protein (AzlD); Region: AzlD; pfam05437 504728004157 Predicted branched-chain amino acid permease (azaleucine resistance) [Amino acid transport and metabolism]; Region: AzlC; COG1296 504728004158 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 504728004159 Predicted dienelactone hydrolase [General function prediction only]; Region: COG4188 504728004160 Pyruvate kinase [Carbohydrate transport and metabolism]; Region: PykF; COG0469 504728004161 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 504728004162 domain interfaces; other site 504728004163 active site 504728004164 enolase; Provisional; Region: eno; PRK00077 504728004165 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 504728004166 dimer interface [polypeptide binding]; other site 504728004167 metal binding site [ion binding]; metal-binding site 504728004168 substrate binding pocket [chemical binding]; other site 504728004169 DNA polymerase III subunit beta; Provisional; Region: PRK14945 504728004170 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 504728004171 putative DNA binding surface [nucleotide binding]; other site 504728004172 dimer interface [polypeptide binding]; other site 504728004173 beta-clamp/clamp loader binding surface; other site 504728004174 beta-clamp/translesion DNA polymerase binding surface; other site 504728004175 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 504728004176 DnaA N-terminal domain; Region: DnaA_N; pfam11638 504728004177 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 504728004178 Walker A motif; other site 504728004179 ATP binding site [chemical binding]; other site 504728004180 Walker B motif; other site 504728004181 arginine finger; other site 504728004182 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 504728004183 DnaA box-binding interface [nucleotide binding]; other site 504728004184 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 504728004185 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 504728004186 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 504728004187 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 504728004188 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 504728004189 16S rRNA methyltransferase GidB; Reviewed; Region: gidB; PRK00107 504728004190 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 504728004191 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 504728004192 P-loop; other site 504728004193 Magnesium ion binding site [ion binding]; other site 504728004194 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 504728004195 Magnesium ion binding site [ion binding]; other site 504728004196 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 504728004197 ParB-like nuclease domain; Region: ParB; smart00470 504728004198 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 504728004199 non-specific DNA interactions [nucleotide binding]; other site 504728004200 DNA binding site [nucleotide binding] 504728004201 sequence specific DNA binding site [nucleotide binding]; other site 504728004202 putative cAMP binding site [chemical binding]; other site 504728004203 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 504728004204 Predicted membrane metal-binding protein [General function prediction only]; Region: ComEC; COG0658 504728004205 Competence protein; Region: Competence; pfam03772 504728004206 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 504728004207 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 504728004208 Helix-hairpin-helix motif; Region: HHH; pfam00633 504728004209 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 504728004210 Glycerophosphodiester phosphodiesterase domain as found in prokaryota and eukaryota, and similar proteins; Region: GDPD; cd08556 504728004211 active site 504728004212 catalytic site [active] 504728004213 metal binding site [ion binding]; metal-binding site 504728004214 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 504728004215 Beta-eliminating lyase; Region: Beta_elim_lyase; pfam01212 504728004216 tetramer interface [polypeptide binding]; other site 504728004217 pyridoxal 5'-phosphate binding site [chemical binding]; other site 504728004218 catalytic residue [active] 504728004219 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 504728004220 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 504728004221 active site 504728004222 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 504728004223 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 504728004224 putative [4Fe-4S] binding site [ion binding]; other site 504728004225 putative molybdopterin cofactor binding site [chemical binding]; other site 504728004226 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 504728004227 putative molybdopterin cofactor binding site; other site 504728004228 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; cl00296 504728004229 putative active site [active] 504728004230 ferredoxin-NADP+ reductase; Region: PLN02852 504728004231 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 504728004232 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 504728004233 HAMP domain; Region: HAMP; pfam00672 504728004234 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cl00080 504728004235 dimer interface [polypeptide binding]; other site 504728004236 phosphorylation site [posttranslational modification] 504728004237 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 504728004238 Mg2+ binding site [ion binding]; other site 504728004239 G-X-G motif; other site 504728004240 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 504728004241 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 504728004242 active site 504728004243 phosphorylation site [posttranslational modification] 504728004244 intermolecular recognition site; other site 504728004245 dimerization interface [polypeptide binding]; other site 504728004246 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 504728004247 DNA binding site [nucleotide binding] 504728004248 Alpha amylase catalytic domain found in sucrose phosphorylase-like proteins (also called sucrose glucosyltransferase, disaccharide glucosyltransferase, and sucrose-phosphate alpha-D glucosyltransferase); Region: AmyAc_Sucrose_phosphorylase-like_1; cd11356 504728004249 trehalose synthase; Region: treS_nterm; TIGR02456 504728004250 active site 504728004251 homodimer interface [polypeptide binding]; other site 504728004252 catalytic site [active] 504728004253 Transcriptional regulators CsoR (copper-sensitive operon repressor), RcnR, and FrmR, and related domains; this domain superfamily was previously known as DUF156; Region: CsoR-like_DUF156; cd10148 504728004254 putative homodimer interface [polypeptide binding]; other site 504728004255 putative homotetramer interface [polypeptide binding]; other site 504728004256 putative allosteric switch controlling residues; other site 504728004257 putative metal binding site [ion binding]; other site 504728004258 putative homodimer-homodimer interface [polypeptide binding]; other site 504728004259 DNA polymerase III subunits gamma and tau; Provisional; Region: PRK14963 504728004260 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 504728004261 Walker A motif; other site 504728004262 ATP binding site [chemical binding]; other site 504728004263 Walker B motif; other site 504728004264 arginine finger; other site 504728004265 DNA polymerase IV; Reviewed; Region: PRK03103 504728004266 Y-family of DNA polymerases; Region: PolY; cd00424 504728004267 active site 504728004268 DNA binding site [nucleotide binding] 504728004269 S-layer homology domain; Region: SLH; pfam00395 504728004270 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 504728004271 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 504728004272 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 504728004273 NlpC/P60 family; Region: NLPC_P60; pfam00877 504728004274 Predicted transcriptional regulator [Transcription]; Region: COG2378 504728004275 WYL domain; Region: WYL; pfam13280 504728004276 CRISPR/Cas system-associated protein Cas3'' Region: Cas3''_I; cd09641 504728004277 DEAD-like helicases superfamily; Region: DEXDc; smart00487 504728004278 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 504728004279 CRISPR/Cas system-associated protein Cse1; Region: Cse1_I-E; cd09729 504728004280 CRISPR/Cas system-associated protein Cse2; Region: Cse2_I-E; cd09731 504728004281 Protein of unknown function (DUF2939); Region: DUF2939; pfam11159 504728004282 CT1975-like protein; Region: Cas_CT1975; pfam09344 504728004283 CRISPR-associated protein (Cas_Cas5); Region: Cas_Cas5d; pfam09704 504728004284 CRISPR/Cas system-associated RAMP superfamily protein Cas5; Region: Cas5_I-E; cd09645 504728004285 CRISPR/Cas system-associated RAMP superfamily protein Cas6e; Region: Cas6_I-E; cl08497 504728004286 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-E; cd09719 504728004287 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I-E; cd09755 504728004288 succinyldiaminopimelate transaminase; Validated; Region: PRK07366 504728004289 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 504728004290 pyridoxal 5'-phosphate binding site [chemical binding]; other site 504728004291 homodimer interface [polypeptide binding]; other site 504728004292 catalytic residue [active] 504728004293 Putative periplasmic protein kinase ArgK and related GTPases of G3E family [Amino acid transport and metabolism]; Region: ArgK; COG1703 504728004294 Protein of unknown function, DUF258; Region: DUF258; pfam03193 504728004295 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 504728004296 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 504728004297 homotrimer interaction site [polypeptide binding]; other site 504728004298 putative active site [active] 504728004299 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 504728004300 Coenzyme A binding pocket [chemical binding]; other site 504728004301 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 504728004302 active site residue [active] 504728004303 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 504728004304 active site residue [active] 504728004305 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 504728004306 primosomal protein N' Region: priA; TIGR00595 504728004307 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 504728004308 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 504728004309 Coenzyme A binding pocket [chemical binding]; other site 504728004310 EamA-like transporter family; Region: EamA; pfam00892 504728004311 recombination protein F; Provisional; Region: recF; PRK14079 504728004312 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 504728004313 Walker A/P-loop; other site 504728004314 ATP binding site [chemical binding]; other site 504728004315 Q-loop/lid; other site 504728004316 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 504728004317 ABC transporter signature motif; other site 504728004318 Walker B; other site 504728004319 D-loop; other site 504728004320 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 504728004321 Protein of unknown function (DUF721); Region: DUF721; pfam05258 504728004322 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 504728004323 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 504728004324 homodimer interface [polypeptide binding]; other site 504728004325 substrate-cofactor binding pocket; other site 504728004326 catalytic residue [active] 504728004327 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 504728004328 Major Facilitator Superfamily; Region: MFS_1; pfam07690 504728004329 putative substrate translocation pore; other site 504728004330 Uncharacterized conserved protein [Function unknown]; Region: COG1801 504728004331 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 504728004332 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 504728004333 glutaminase active site [active] 504728004334 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 504728004335 dimer interface [polypeptide binding]; other site 504728004336 active site 504728004337 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 504728004338 dimer interface [polypeptide binding]; other site 504728004339 active site 504728004340 S-layer homology domain; Region: SLH; pfam00395 504728004341 Bacterial Micro-Compartment (BMC) domain; Region: BMC; cl01982 504728004342 Hexamer interface [polypeptide binding]; other site 504728004343 Hexagonal pore residue; other site 504728004344 Predicted nucleic acid-binding protein, contains PIN domain [General function prediction only]; Region: COG2402 504728004345 putative active site [active] 504728004346 Ribbon-helix-helix protein, copG family; Region: RHH_1; pfam01402 504728004347 excinuclease ABC subunit B; Provisional; Region: PRK05298 504728004348 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 504728004349 ATP binding site [chemical binding]; other site 504728004350 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 504728004351 nucleotide binding region [chemical binding]; other site 504728004352 ATP-binding site [chemical binding]; other site 504728004353 Ultra-violet resistance protein B; Region: UvrB; pfam12344 504728004354 UvrB/uvrC motif; Region: UVR; pfam02151 504728004355 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 504728004356 active site 504728004357 multimer interface [polypeptide binding]; other site 504728004358 peptidylprolyl isomerase; Provisional; Region: prsA; PRK00059 504728004359 SurA N-terminal domain; Region: SurA_N_3; cl07813 504728004360 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 504728004361 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 504728004362 Endonuclease_V, a DNA repair enzyme that initiates repair of nitrosative deaminated purine bases; Region: Endonuclease_V; cd06559 504728004363 Active_site [active] 504728004364 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 504728004365 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 504728004366 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 504728004367 Fatty acyl-CoA synthetases similar to LC-FACS from Thermus thermophiles; Region: ttLC_FACS_AlkK_like; cd12119 504728004368 dimer interface [polypeptide binding]; other site 504728004369 acyl-activating enzyme (AAE) consensus motif; other site 504728004370 putative active site [active] 504728004371 AMP binding site [chemical binding]; other site 504728004372 putative CoA binding site [chemical binding]; other site 504728004373 putative toxin-antitoxin system antitoxin component, TIGR02293 family; Region: TAS_TIGR02293 504728004374 Protein of unknown function (DUF2384); Region: DUF2384; pfam09722 504728004375 RES domain; Region: RES; cl02411 504728004376 Uncharacterized M20 Dipeptidases; Region: M20_dipept_like_4; cd05681 504728004377 hypothetical protein; Provisional; Region: PRK06446 504728004378 metal binding site [ion binding]; metal-binding site 504728004379 dimer interface [polypeptide binding]; other site 504728004380 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 504728004381 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 504728004382 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 504728004383 CAAX protease self-immunity; Region: Abi; pfam02517 504728004384 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 504728004385 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 504728004386 HlyD family secretion protein; Region: HlyD_3; pfam13437 504728004387 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 504728004388 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 504728004389 Walker A/P-loop; other site 504728004390 ATP binding site [chemical binding]; other site 504728004391 Q-loop/lid; other site 504728004392 ABC transporter signature motif; other site 504728004393 Walker B; other site 504728004394 D-loop; other site 504728004395 H-loop/switch region; other site 504728004396 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 504728004397 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 504728004398 FtsX-like permease family; Region: FtsX; pfam02687 504728004399 YceI-like domain; Region: YceI; pfam04264 504728004400 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 504728004401 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 504728004402 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 504728004403 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 504728004404 Walker A/P-loop; other site 504728004405 ATP binding site [chemical binding]; other site 504728004406 Q-loop/lid; other site 504728004407 ABC transporter signature motif; other site 504728004408 Walker B; other site 504728004409 D-loop; other site 504728004410 H-loop/switch region; other site 504728004411 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 504728004412 Major Facilitator Superfamily; Region: MFS_1; pfam07690 504728004413 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 504728004414 The members of this protein family contain the SIS (Sugar ISomerase) domain and have both the phosphoglucose isomerase (PGI) and the phosphomannose isomerase (PMI) functions. These functions catalyze the reversible reactions of glucose 6-phosphate to...; Region: SIS_PGI_PMI_2; cd05637 504728004415 dimer interface [polypeptide binding]; other site 504728004416 active site 504728004417 Major Facilitator Superfamily; Region: MFS_1; pfam07690 504728004418 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 504728004419 putative substrate translocation pore; other site 504728004420 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair_10; cd04623 504728004421 FOG: CBS domain [General function prediction only]; Region: COG0517 504728004422 DOMON-like domain of various glycoside hydrolases; Region: DOMON_glucodextranase_like; cd09626 504728004423 putative ligand binding site [chemical binding]; other site 504728004424 conserved hypothetical protein, cofD-related; Region: CofD_related; TIGR01826 504728004425 family of mostly uncharacterized proteins similar to B.subtilis YvcK; Region: YvcK_like; cd07187 504728004426 phosphate binding site [ion binding]; other site 504728004427 putative substrate binding pocket [chemical binding]; other site 504728004428 dimer interface [polypeptide binding]; other site 504728004429 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 504728004430 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 504728004431 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 504728004432 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK14468 504728004433 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 504728004434 FeS/SAM binding site; other site 504728004435 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 504728004436 Major Facilitator Superfamily; Region: MFS_1; pfam07690 504728004437 potential protein location (hypothetical protein K649_07740 [Meiothermus ruber DSM 1279]) that overlaps RNA (tRNA-S) 504728004438 DinB superfamily; Region: DinB_2; pfam12867 504728004439 metal-dependent hydrolase; Provisional; Region: PRK13291 504728004440 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 504728004441 phosphate binding site [ion binding]; other site 504728004442 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 504728004443 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 504728004444 motif 1; other site 504728004445 active site 504728004446 motif 2; other site 504728004447 motif 3; other site 504728004448 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; pfam07973 504728004449 Uncharacterized protein family (UPF0081); Region: UPF0081; pfam03652 504728004450 YceG-like family; Region: YceG; pfam02618 504728004451 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 504728004452 dimerization interface [polypeptide binding]; other site 504728004453 potential frameshift: common BLAST hit: gi|295696350|ref|YP_003589588.1| restriction endonuclease 504728004454 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 504728004455 purine nucleoside phosphorylase; Reviewed; Region: deoD; PRK05819 504728004456 Uridine phosphorylase [Nucleotide transport and metabolism]; Region: Udp; COG2820 504728004457 ornithine carbamoyltransferase; Provisional; Region: PRK00779 504728004458 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 504728004459 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 504728004460 N-acetyl-gamma-glutamyl-phosphate reductase; Provisional; Region: PRK11863 504728004461 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 504728004462 Thioredoxin; Region: Thioredoxin_5; pfam13743 504728004463 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 504728004464 Major Facilitator Superfamily; Region: MFS_1; pfam07690 504728004465 putative substrate translocation pore; other site 504728004466 Nitronate monooxygenase; Region: NMO; pfam03060 504728004467 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 504728004468 FMN binding site [chemical binding]; other site 504728004469 substrate binding site [chemical binding]; other site 504728004470 putative catalytic residue [active] 504728004471 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 504728004472 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 504728004473 motif II; other site 504728004474 Anthranilate/para-aminobenzoate synthases component I [Amino acid transport and metabolism / Coenzyme metabolism]; Region: TrpE; COG0147 504728004475 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 504728004476 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 504728004477 Chorismate mutase type II; Region: CM_2; smart00830 504728004478 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 504728004479 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 504728004480 glutamine binding [chemical binding]; other site 504728004481 catalytic triad [active] 504728004482 Ribbon-helix-helix protein, copG family; Region: RHH_1; pfam01402 504728004483 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 504728004484 oligomeric interface; other site 504728004485 putative active site [active] 504728004486 homodimer interface [polypeptide binding]; other site 504728004487 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 504728004488 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 504728004489 active site 504728004490 Glycosyl transferase family group 2; Region: Glyco_trans_2_3; pfam13632 504728004491 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 504728004492 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 504728004493 active site 504728004494 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 504728004495 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 504728004496 Probable Catalytic site; other site 504728004497 metal-binding site 504728004498 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 504728004499 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 504728004500 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 504728004501 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4370 504728004502 conserved hypothetical protein; Region: TIGR03492 504728004503 amidase; Provisional; Region: PRK06828 504728004504 Amidase; Region: Amidase; cl11426 504728004505 DNA gyrase subunit B; Validated; Region: gyrB; PRK05644 504728004506 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 504728004507 ATP binding site [chemical binding]; other site 504728004508 Mg2+ binding site [ion binding]; other site 504728004509 G-X-G motif; other site 504728004510 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 504728004511 anchoring element; other site 504728004512 dimer interface [polypeptide binding]; other site 504728004513 ATP binding site [chemical binding]; other site 504728004514 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 504728004515 active site 504728004516 putative metal-binding site [ion binding]; other site 504728004517 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 504728004518 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 504728004519 Coenzyme A binding pocket [chemical binding]; other site 504728004520 hypothetical protein; Provisional; Region: PRK06815 504728004521 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 504728004522 tetramer interface [polypeptide binding]; other site 504728004523 pyridoxal 5'-phosphate binding site [chemical binding]; other site 504728004524 catalytic residue [active] 504728004525 4-aminobutyrate aminotransferase; Provisional; Region: PRK06058 504728004526 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 504728004527 inhibitor-cofactor binding pocket; inhibition site 504728004528 pyridoxal 5'-phosphate binding site [chemical binding]; other site 504728004529 catalytic residue [active] 504728004530 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 504728004531 Beta-lactamase; Region: Beta-lactamase; pfam00144 504728004532 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 504728004533 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 504728004534 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 504728004535 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 504728004536 dimer interface [polypeptide binding]; other site 504728004537 conserved gate region; other site 504728004538 putative PBP binding loops; other site 504728004539 ABC-ATPase subunit interface; other site 504728004540 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 504728004541 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 504728004542 dimer interface [polypeptide binding]; other site 504728004543 conserved gate region; other site 504728004544 putative PBP binding loops; other site 504728004545 ABC-ATPase subunit interface; other site 504728004546 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 504728004547 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 504728004548 Walker A/P-loop; other site 504728004549 ATP binding site [chemical binding]; other site 504728004550 Q-loop/lid; other site 504728004551 ABC transporter signature motif; other site 504728004552 Walker B; other site 504728004553 D-loop; other site 504728004554 H-loop/switch region; other site 504728004555 TOBE domain; Region: TOBE_2; pfam08402 504728004556 4-aminobutyrate aminotransferase and related aminotransferases [Amino acid transport and metabolism]; Region: GabT; COG0160 504728004557 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 504728004558 inhibitor-cofactor binding pocket; inhibition site 504728004559 pyridoxal 5'-phosphate binding site [chemical binding]; other site 504728004560 catalytic residue [active] 504728004561 Putative 2OG-Fe(II) oxygenase; Region: 2OG-FeII_Oxy_5; pfam13759 504728004562 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 504728004563 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 504728004564 dimer interface [polypeptide binding]; other site 504728004565 active site 504728004566 glycine-pyridoxal phosphate binding site [chemical binding]; other site 504728004567 folate binding site [chemical binding]; other site 504728004568 EamA-like transporter family; Region: EamA; cl17759 504728004569 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 504728004570 EamA-like transporter family; Region: EamA; pfam00892 504728004571 N-terminal Early set domain, a glycogen binding domain, associated with the catalytic domain of AMP-activated protein kinase beta subunit; Region: E_set_AMPKbeta_like_N; cd02859 504728004572 glycogen binding site [chemical binding]; other site 504728004573 FIG, FBPase/IMPase/glpX-like domain. A superfamily of metal-dependent phosphatases with various substrates. Fructose-1,6-bisphospatase (both the major and the glpX-encoded variant) hydrolyze fructose-1,6,-bisphosphate to fructose-6-phosphate in...; Region: FIG; cl00289 504728004574 maltodextrin glucosidase; Provisional; Region: PRK10785 504728004575 Alpha amylase catalytic domain found in cyclomaltodextrinases and related proteins; Region: AmyAc_CMD; cd11338 504728004576 active site 504728004577 homodimer interface [polypeptide binding]; other site 504728004578 catalytic site [active] 504728004579 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 504728004580 catalytic core [active] 504728004581 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 504728004582 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 504728004583 Walker A/P-loop; other site 504728004584 ATP binding site [chemical binding]; other site 504728004585 Q-loop/lid; other site 504728004586 ABC transporter signature motif; other site 504728004587 Walker B; other site 504728004588 D-loop; other site 504728004589 H-loop/switch region; other site 504728004590 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 504728004591 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 504728004592 Protein of unknown function (DUF1329); Region: DUF1329; pfam07044 504728004593 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 504728004594 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 504728004595 FtsX-like permease family; Region: FtsX; pfam02687 504728004596 Predicted transcriptional regulators [Transcription]; Region: COG1510 504728004597 MarR family; Region: MarR_2; pfam12802 504728004598 Domain of unknown function (DUF4383); Region: DUF4383; pfam14325 504728004599 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 504728004600 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are generally...; Region: ACD_sHsps-like; cd06464 504728004601 putative dimer interface [polypeptide binding]; other site 504728004602 Protein required for attachment to host cells; Region: Host_attach; cl02398 504728004603 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cl17355 504728004604 Bacterial transcriptional activator domain; Region: BTAD; smart01043 504728004605 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 504728004606 Ligand Binding Site [chemical binding]; other site 504728004607 EamA-like transporter family; Region: EamA; pfam00892 504728004608 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 504728004609 EamA-like transporter family; Region: EamA; pfam00892 504728004610 Serine proteases of the peptidase family S9A [Amino acid transport and metabolism]; Region: COG1505 504728004611 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 504728004612 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 504728004613 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4586 504728004614 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 504728004615 Walker A/P-loop; other site 504728004616 ATP binding site [chemical binding]; other site 504728004617 Q-loop/lid; other site 504728004618 ABC transporter signature motif; other site 504728004619 Walker B; other site 504728004620 D-loop; other site 504728004621 H-loop/switch region; other site 504728004622 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GlpA; COG0578 504728004623 Protein of unknown function DUF45; Region: DUF45; pfam01863 504728004624 pyridoxamine-phosphate oxidase; Region: pdxH; TIGR00558 504728004625 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 504728004626 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 504728004627 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 504728004628 Ligand Binding Site [chemical binding]; other site 504728004629 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 504728004630 Ligand Binding Site [chemical binding]; other site 504728004631 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 504728004632 Ligand Binding Site [chemical binding]; other site 504728004633 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; pfam00690 504728004634 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 504728004635 ATPase, P-type (transporting), HAD superfamily, subfamily IC; Region: ATPase_P-type; TIGR01494 504728004636 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 504728004637 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 504728004638 motif II; other site 504728004639 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 504728004640 Transcriptional regulators CsoR (copper-sensitive operon repressor), RcnR, and FrmR, and related domains; this domain superfamily was previously known as DUF156; Region: CsoR-like_DUF156; cd10148 504728004641 putative homodimer interface [polypeptide binding]; other site 504728004642 putative homotetramer interface [polypeptide binding]; other site 504728004643 putative allosteric switch controlling residues; other site 504728004644 putative metal binding site [ion binding]; other site 504728004645 putative homodimer-homodimer interface [polypeptide binding]; other site 504728004646 Prolipoprotein diacylglyceryl transferase; Region: LGT; cl00478 504728004647 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 504728004648 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 504728004649 catalytic residues [active] 504728004650 Protein of unknown function (DUF461); Region: DUF461; pfam04314 504728004651 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 504728004652 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 504728004653 The Tellurite-resistance/Dicarboxylate Transporter (TDT) family; Region: TDT_like_3; cd09321 504728004654 gating phenylalanine in ion channel; other site 504728004655 Protein of unknown function (DUF3422); Region: DUF3422; pfam11902 504728004656 Transcriptional regulator [Transcription]; Region: LysR; COG0583 504728004657 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 504728004658 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 504728004659 dimerization interface [polypeptide binding]; other site 504728004660 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 504728004661 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 504728004662 substrate binding site [chemical binding]; other site 504728004663 hexamer interface [polypeptide binding]; other site 504728004664 metal binding site [ion binding]; metal-binding site 504728004665 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 504728004666 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 504728004667 intersubunit interface [polypeptide binding]; other site 504728004668 active site 504728004669 zinc binding site [ion binding]; other site 504728004670 Na+ binding site [ion binding]; other site 504728004671 Cytochrome c; Region: Cytochrom_C; pfam00034 504728004672 Transcriptional regulators CsoR (copper-sensitive operon repressor), RcnR, and FrmR, and related domains; this domain superfamily was previously known as DUF156; Region: CsoR-like_DUF156; cd10148 504728004673 putative homotetramer interface [polypeptide binding]; other site 504728004674 putative homodimer interface [polypeptide binding]; other site 504728004675 putative allosteric switch controlling residues; other site 504728004676 putative metal binding site [ion binding]; other site 504728004677 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 504728004678 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 504728004679 iron-sulfur cluster [ion binding]; other site 504728004680 [2Fe-2S] cluster binding site [ion binding]; other site 504728004681 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 504728004682 Cytochrome c; Region: Cytochrom_C; pfam00034 504728004683 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 504728004684 Moco binding site; other site 504728004685 metal coordination site [ion binding]; other site 504728004686 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 504728004687 Flavocytochrome c sulphide dehydrogenase, flavin-binding; Region: FCSD-flav_bind; pfam09242 504728004688 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 504728004689 active site residue [active] 504728004690 Cytochrome c [Energy production and conversion]; Region: COG3258 504728004691 Cytochrome c [Energy production and conversion]; Region: COG3258 504728004692 Cytochrome c; Region: Cytochrom_C; pfam00034 504728004693 Thermus thermophilus SoxB and related proteins, N-terminal metallophosphatase domain; Region: MPP_SoxB_N; cd07411 504728004694 active site 504728004695 metal binding site [ion binding]; metal-binding site 504728004696 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 504728004697 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 504728004698 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 504728004699 Cytochrome c [Energy production and conversion]; Region: COG3258 504728004700 Sulphur oxidation protein SoxZ; Region: SoxZ; pfam08770 504728004701 Predicted secreted protein [Function unknown]; Region: COG5501 504728004702 Sulfur oxidation protein SoxY; Region: SoxY; pfam13501 504728004703 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 504728004704 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 504728004705 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 504728004706 catalytic residues [active] 504728004707 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 504728004708 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 504728004709 active site residue [active] 504728004710 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 504728004711 active site residue [active] 504728004712 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 504728004713 active site residue [active] 504728004714 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 504728004715 active site residue [active] 504728004716 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 504728004717 active site residue [active] 504728004718 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 504728004719 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 504728004720 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 504728004721 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 504728004722 active site residue [active] 504728004723 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 504728004724 Transcriptional regulator [Transcription]; Region: LysR; COG0583 504728004725 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 504728004726 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 504728004727 dimerization interface [polypeptide binding]; other site 504728004728 phosphopentomutase; Provisional; Region: PRK05362 504728004729 Metalloenzyme superfamily; Region: Metalloenzyme; pfam01676 504728004730 putative nicotinate phosphoribosyltransferase; Provisional; Region: PRK09198 504728004731 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 504728004732 active site 504728004733 bifunctional nicotinamide mononucleotide adenylyltransferase/ADP-ribose pyrophosphatase; Provisional; Region: PRK05379 504728004734 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 504728004735 active site 504728004736 nucleotide binding site [chemical binding]; other site 504728004737 HIGH motif; other site 504728004738 KMSKS motif; other site 504728004739 ADP-ribose pyrophosphatase [Nucleotide transport and metabolism]; Region: COG1051 504728004740 nudix motif; other site 504728004741 ADP-ribose pyrophosphatase [Nucleotide transport and metabolism]; Region: COG1051 504728004742 nudix motif; other site 504728004743 Uncharacterized protein related to glutamine synthetase [General function prediction only]; Region: COG3968 504728004744 Glutamine synthetase type III N terminal; Region: GSIII_N; pfam12437 504728004745 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 504728004746 DinB family; Region: DinB; cl17821 504728004747 DinB superfamily; Region: DinB_2; pfam12867 504728004748 Domain of unknown function (DUF1905); Region: DUF1905; pfam08922 504728004749 arginine decarboxylase; Provisional; Region: PRK05354 504728004750 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Arginine Decarboxylase; Region: PLPDE_III_ADC; cd06830 504728004751 dimer interface [polypeptide binding]; other site 504728004752 active site 504728004753 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 504728004754 catalytic residues [active] 504728004755 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 504728004756 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 504728004757 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 504728004758 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; smart00833 504728004759 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 504728004760 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 504728004761 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 504728004762 intersubunit interface [polypeptide binding]; other site 504728004763 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 504728004764 ATP phosphoribosyltransferase regulatory subunit; Provisional; Region: hisZ; PRK12292 504728004765 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 504728004766 dimer interface [polypeptide binding]; other site 504728004767 motif 1; other site 504728004768 active site 504728004769 motif 2; other site 504728004770 motif 3; other site 504728004771 cyclophilin: cyclophilin-type peptidylprolyl cis- trans isomerases. This family contains eukaryotic, bacterial and archeal proteins which exhibit a peptidylprolyl cis- trans isomerases activity (PPIase, Rotamase) and in addition bind the...; Region: cyclophilin; cd00317 504728004772 active site 504728004773 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 504728004774 trimer interface [polypeptide binding]; other site 504728004775 active site 504728004776 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 504728004777 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 504728004778 active site 504728004779 metal binding site [ion binding]; metal-binding site 504728004780 Calcineurin-like phosphoesterase superfamily domain; Region: Metallophos_2; pfam12850 504728004781 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 504728004782 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 504728004783 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 504728004784 Predicted CoA-binding protein [General function prediction only]; Region: COG1832 504728004785 A/G-specific DNA glycosylase [DNA replication, recombination, and repair]; Region: MutY; COG1194 504728004786 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 504728004787 minor groove reading motif; other site 504728004788 helix-hairpin-helix signature motif; other site 504728004789 substrate binding pocket [chemical binding]; other site 504728004790 active site 504728004791 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; pfam10576 504728004792 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 504728004793 DNA binding and oxoG recognition site [nucleotide binding] 504728004794 Transcriptional regulators [Transcription]; Region: GntR; COG1802 504728004795 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 504728004796 DNA-binding site [nucleotide binding]; DNA binding site 504728004797 FCD domain; Region: FCD; pfam07729 504728004798 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 504728004799 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 504728004800 Tripartite tricarboxylate transporter TctA family; Region: TctA; cl00772 504728004801 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 504728004802 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 504728004803 ATP binding site [chemical binding]; other site 504728004804 Mg++ binding site [ion binding]; other site 504728004805 motif III; other site 504728004806 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 504728004807 nucleotide binding region [chemical binding]; other site 504728004808 ATP-binding site [chemical binding]; other site 504728004809 RNA-binding GUCT-like domain found in Thermus thermophilus heat resistant RNA-dependent ATPase (Hera) and similar proteins; Region: GUCT_Hera; cd12938 504728004810 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 504728004811 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 504728004812 dimer interface [polypeptide binding]; other site 504728004813 putative functional site; other site 504728004814 putative MPT binding site; other site 504728004815 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 504728004816 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 504728004817 active site 504728004818 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 504728004819 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 504728004820 dimerization interface [polypeptide binding]; other site 504728004821 domain crossover interface; other site 504728004822 redox-dependent activation switch; other site 504728004823 GlcNAc-PI de-N-acetylase; Region: PIG-L; cl00929 504728004824 Galactokinase galactose-binding signature; Region: GalKase_gal_bdg; pfam10509 504728004825 galactokinase; Provisional; Region: PRK03817 504728004826 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 504728004827 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 504728004828 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 504728004829 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 504728004830 A family including aminopeptidase P, aminopeptidase M, and prolidase. Also known as metallopeptidase family M24. This family of enzymes is able to cleave amido-, imido- and amidino-containing bonds. Members exibit relatively narrow substrate specificity...; Region: APP_MetAP; cd01066 504728004831 active site 504728004832 Galactose-1-phosphate uridylyltransferase [Energy production and conversion]; Region: GalT; COG1085 504728004833 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 504728004834 nucleotide binding site/active site [active] 504728004835 HIT family signature motif; other site 504728004836 catalytic residue [active] 504728004837 Melibiase; Region: Melibiase; pfam02065 504728004838 Beta-galactosidase [Carbohydrate transport and metabolism]; Region: LacA; COG1874 504728004839 Beta-galactosidase; Region: Glyco_hydro_42; pfam02449 504728004840 A4 beta-galactosidase middle domain: a type 1 glutamine amidotransferase (GATase1)-like domain; Region: A4_beta-galactosidase_middle_domain; cd03143 504728004841 Beta-galactosidase C-terminal domain; Region: Glyco_hydro_42C; pfam08533 504728004842 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 504728004843 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 504728004844 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 504728004845 dimer interface [polypeptide binding]; other site 504728004846 conserved gate region; other site 504728004847 putative PBP binding loops; other site 504728004848 ABC-ATPase subunit interface; other site 504728004849 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 504728004850 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 504728004851 putative PBP binding loops; other site 504728004852 dimer interface [polypeptide binding]; other site 504728004853 ABC-ATPase subunit interface; other site 504728004854 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 504728004855 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 504728004856 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 504728004857 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 504728004858 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 504728004859 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 504728004860 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 504728004861 dimer interface [polypeptide binding]; other site 504728004862 phosphorylation site [posttranslational modification] 504728004863 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 504728004864 ATP binding site [chemical binding]; other site 504728004865 Mg2+ binding site [ion binding]; other site 504728004866 G-X-G motif; other site 504728004867 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 504728004868 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 504728004869 active site 504728004870 phosphorylation site [posttranslational modification] 504728004871 intermolecular recognition site; other site 504728004872 dimerization interface [polypeptide binding]; other site 504728004873 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 504728004874 DNA binding site [nucleotide binding] 504728004875 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 504728004876 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 504728004877 Zn2+ binding site [ion binding]; other site 504728004878 Mg2+ binding site [ion binding]; other site 504728004879 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 504728004880 synthetase active site [active] 504728004881 NTP binding site [chemical binding]; other site 504728004882 metal binding site [ion binding]; metal-binding site 504728004883 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 504728004884 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 504728004885 glucose-6-phosphate isomerase; Provisional; Region: PRK00973 504728004886 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 504728004887 active site 504728004888 dimer interface [polypeptide binding]; other site 504728004889 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 504728004890 dimer interface [polypeptide binding]; other site 504728004891 active site 504728004892 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 504728004893 active site 504728004894 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 504728004895 active site 504728004896 substrate-binding site [chemical binding]; other site 504728004897 metal-binding site [ion binding] 504728004898 GTP binding site [chemical binding]; other site 504728004899 Iron-binding zinc finger CDGSH type; Region: zf-CDGSH; pfam09360 504728004900 nylC-like family; composed of proteins with similarity to Flavobacterium endo-type 6-aminohexanoate-oligomer hydrolase (EIII), the product of the nylon oligomer degradation gene, nylC. EIII is an amide hydrolase that catalyzes the degradation of...; Region: nylC_like; cd02252 504728004901 putative active site pocket [active] 504728004902 cleavage site 504728004903 Acetylornithine deacetylase/Succinyl-diaminopimelate desuccinylase and related deacylases [Amino acid transport and metabolism]; Region: ArgE; COG0624 504728004904 Peptidase M20 acetylornithine deacetylase/succinyl-diaminopimelate desuccinylase (ArgE/DapE)-like; Region: M20_ArgE_DapE_like; cd08659 504728004905 metal binding site [ion binding]; metal-binding site 504728004906 dimer interface [polypeptide binding]; other site 504728004907 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_6; cd08494 504728004908 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 504728004909 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 504728004910 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 504728004911 dimer interface [polypeptide binding]; other site 504728004912 conserved gate region; other site 504728004913 putative PBP binding loops; other site 504728004914 ABC-ATPase subunit interface; other site 504728004915 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 504728004916 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 504728004917 putative PBP binding loops; other site 504728004918 dimer interface [polypeptide binding]; other site 504728004919 ABC-ATPase subunit interface; other site 504728004920 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 504728004921 classical (c) SDRs; Region: SDR_c; cd05233 504728004922 NAD(P) binding site [chemical binding]; other site 504728004923 active site 504728004924 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 504728004925 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 504728004926 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 504728004927 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 504728004928 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 504728004929 cyclophilin: cyclophilin-type peptidylprolyl cis- trans isomerases. This family contains eukaryotic, bacterial and archeal proteins which exhibit a peptidylprolyl cis- trans isomerases activity (PPIase, Rotamase) and in addition bind the...; Region: cyclophilin; cd00317 504728004930 active site 504728004931 UDP-N-acetylglucosamine 2-epimerase [Cell envelope biogenesis, outer membrane]; Region: WecB; COG0381 504728004932 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 504728004933 active site 504728004934 homodimer interface [polypeptide binding]; other site 504728004935 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 504728004936 Asp23 family; Region: Asp23; pfam03780 504728004937 DAK2 domain fusion protein YloV; Region: YloV; TIGR03599 504728004938 DAK2 domain; Region: Dak2; pfam02734 504728004939 3D domain; Region: 3D; cl01439 504728004940 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 504728004941 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 504728004942 LabA_like proteins; Region: LabA_like/DUF88; cl10034 504728004943 Uncharacterized conserved protein [Function unknown]; Region: COG1432 504728004944 putative metal binding site [ion binding]; other site 504728004945 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 504728004946 Alcohol dehydrogenases of the MDR family; Region: Zn_ADH_like1; cd08266 504728004947 putative NAD(P) binding site [chemical binding]; other site 504728004948 structural Zn binding site [ion binding]; other site 504728004949 AAK_NAGK-like: N-Acetyl-L-glutamate kinase (NAGK)-like . Included in this CD are the Escherichia coli and Pseudomonas aeruginosa type NAGKs which catalyze the phosphorylation of N-acetyl-L-glutamate (NAG) by ATP in the second step of arginine...; Region: AAK_NAGK-like; cd04238 504728004950 nucleotide binding site [chemical binding]; other site 504728004951 N-acetyl-L-glutamate binding site [chemical binding]; other site 504728004952 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 504728004953 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 504728004954 active site 504728004955 DNA binding site [nucleotide binding] 504728004956 Int/Topo IB signature motif; other site 504728004957 Citrate lyase, alpha subunit (CitF); Region: CitF; pfam04223 504728004958 Prim_Pol: Primase-polymerase (primpol) domain of the type found in bifunctional replicases from archaeal plasmids, including ORF904 protein of the crenarchaeal plasmid pRN1 from Sulfolobus islandicus (pRN1 primpol). These primpol domains belong to the...; Region: Prim_Pol; cd04859 504728004959 polymerase nucleotide-binding site; other site 504728004960 DNA-binding residues [nucleotide binding]; DNA binding site 504728004961 nucleotide binding site [chemical binding]; other site 504728004962 primase nucleotide-binding site [nucleotide binding]; other site 504728004963 Primase C terminal 1 (PriCT-1); Region: PriCT_1; cl07362 504728004964 Domain of unknown function (DUF927); Region: DUF927; cl12098 504728004965 rod shape-determining protein MreB; Provisional; Region: PRK13930 504728004966 MreB and similar proteins; Region: MreB_like; cd10225 504728004967 nucleotide binding site [chemical binding]; other site 504728004968 Mg binding site [ion binding]; other site 504728004969 putative protofilament interaction site [polypeptide binding]; other site 504728004970 RodZ interaction site [polypeptide binding]; other site 504728004971 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 504728004972 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 504728004973 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 504728004974 trimer interface [polypeptide binding]; other site 504728004975 active site 504728004976 UDP-GlcNAc binding site [chemical binding]; other site 504728004977 lipid binding site [chemical binding]; lipid-binding site 504728004978 UDP-3-O-acyl-N-acetylglucosamine deacetylase [Cell envelope biogenesis, outer membrane]; Region: LpxC; cl00512 504728004979 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 504728004980 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 504728004981 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 504728004982 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 504728004983 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 504728004984 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 504728004985 active site 504728004986 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 504728004987 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 504728004988 Walker A/P-loop; other site 504728004989 ATP binding site [chemical binding]; other site 504728004990 Q-loop/lid; other site 504728004991 ABC transporter signature motif; other site 504728004992 Walker B; other site 504728004993 D-loop; other site 504728004994 H-loop/switch region; other site 504728004995 Uncharacterized conserved protein, contains S4-like domain [Function unknown]; Region: COG2302 504728004996 Esterase/lipase [General function prediction only]; Region: COG1647 504728004997 Domain of unknown function (DUF4147); Region: DUF4147; pfam13660 504728004998 Putative glycerate kinase [Carbohydrate transport and metabolism]; Region: GckA; COG2379 504728004999 MOFRL family; Region: MOFRL; pfam05161 504728005000 Winged helix-turn helix; Region: HTH_29; pfam13551 504728005001 Homeodomain-like domain; Region: HTH_23; cl17451 504728005002 Homeodomain-like domain; Region: HTH_32; pfam13565 504728005003 Winged helix-turn helix; Region: HTH_33; pfam13592 504728005004 DDE superfamily endonuclease; Region: DDE_3; pfam13358 504728005005 Domain of unknown function (DUF4147); Region: DUF4147; pfam13660 504728005006 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 504728005007 glycolate oxidase iron-sulfur subunit; Provisional; Region: glcF; PRK11274 504728005008 Cysteine-rich domain; Region: CCG; pfam02754 504728005009 Cysteine-rich domain; Region: CCG; pfam02754 504728005010 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 504728005011 FAD binding domain; Region: FAD_binding_4; pfam01565 504728005012 glycolate oxidase subunit GlcD; Provisional; Region: PRK11230 504728005013 FAD binding domain; Region: FAD_binding_4; pfam01565 504728005014 Uncharacterized ACR, YhhQ family COG1738; Region: DUF165; pfam02592 504728005015 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 504728005016 active site 504728005017 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 504728005018 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 504728005019 RNA binding surface [nucleotide binding]; other site 504728005020 Pseudouridine synthases, RsuA subfamily; Region: PseudoU_synth_RsuA_like; cd02870 504728005021 active site 504728005022 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 504728005023 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 504728005024 substrate binding site [chemical binding]; other site 504728005025 oxyanion hole (OAH) forming residues; other site 504728005026 trimer interface [polypeptide binding]; other site 504728005027 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 504728005028 tRNA pseudouridine synthase B; Provisional; Region: PRK14122 504728005029 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 504728005030 RNA binding site [nucleotide binding]; other site 504728005031 active site 504728005032 tRNA Pseudouridine synthase II, C terminal; Region: TruB_C; pfam09142 504728005033 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 504728005034 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 504728005035 dimerization interface [polypeptide binding]; other site 504728005036 putative DNA binding site [nucleotide binding]; other site 504728005037 putative Zn2+ binding site [ion binding]; other site 504728005038 AsnC family; Region: AsnC_trans_reg; pfam01037 504728005039 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 504728005040 Alanine dehydrogenase NAD-binding and catalytic domains; Region: L-AlaDH; cd05305 504728005041 hexamer interface [polypeptide binding]; other site 504728005042 ligand binding site [chemical binding]; other site 504728005043 putative active site [active] 504728005044 NAD(P) binding site [chemical binding]; other site 504728005045 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 504728005046 active site 504728005047 dimer interface [polypeptide binding]; other site 504728005048 metal binding site [ion binding]; metal-binding site 504728005049 shikimate kinase; Provisional; Region: PRK13948 504728005050 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 504728005051 ADP binding site [chemical binding]; other site 504728005052 magnesium binding site [ion binding]; other site 504728005053 putative shikimate binding site; other site 504728005054 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 504728005055 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 504728005056 Tetramer interface [polypeptide binding]; other site 504728005057 active site 504728005058 FMN-binding site [chemical binding]; other site 504728005059 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 504728005060 pilus (MSHA type) biogenesis protein MshL; Region: pilus_MshL; TIGR02519 504728005061 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 504728005062 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 504728005063 DNA polymerase III subunits gamma and tau; Provisional; Region: PRK14950 504728005064 type IV pilus assembly protein PilM; Region: pilM; TIGR01175 504728005065 Cell division protein FtsA; Region: FtsA; pfam14450 504728005066 Isocitrate/isopropylmalate dehydrogenase [Amino acid transport and metabolism]; Region: LeuB; COG0473 504728005067 tartrate dehydrogenase; Region: TTC; TIGR02089 504728005068 Lyase class I_like superfamily: contains the lyase class I family, histidine ammonia-lyase and phenylalanine ammonia-lyase, which catalyze similar beta-elimination reactions; Region: Lyase_I_like; cl00013 504728005069 argininosuccinate lyase; Provisional; Region: PRK00855 504728005070 tetramer interface [polypeptide binding]; other site 504728005071 GAF domain; Region: GAF_3; pfam13492 504728005072 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 504728005073 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 504728005074 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 504728005075 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 504728005076 metal binding site [ion binding]; metal-binding site 504728005077 active site 504728005078 I-site; other site 504728005079 CRISPR/Cas system-associated RAMP superfamily protein Cas7; Region: Cas7_I-C; cl01465 504728005080 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cd00306 504728005081 active site 504728005082 catalytic residues [active] 504728005083 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 504728005084 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 504728005085 active site 504728005086 phosphorylation site [posttranslational modification] 504728005087 intermolecular recognition site; other site 504728005088 dimerization interface [polypeptide binding]; other site 504728005089 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 504728005090 Zn2+ binding site [ion binding]; other site 504728005091 Mg2+ binding site [ion binding]; other site 504728005092 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 504728005093 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 504728005094 ABC-ATPase subunit interface; other site 504728005095 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 504728005096 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 504728005097 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 504728005098 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 504728005099 Isopropylmalate/homocitrate/citramalate synthases [Amino acid transport and metabolism]; Region: LeuA; COG0119 504728005100 DRE-TIM metallolyase superfamily; Region: DRE_TIM_metallolyase; cd03174 504728005101 active site 504728005102 catalytic residues [active] 504728005103 metal binding site [ion binding]; metal-binding site 504728005104 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 504728005105 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 504728005106 substrate binding site [chemical binding]; other site 504728005107 ligand binding site [chemical binding]; other site 504728005108 homoaconitate hydratase small subunit; Provisional; Region: PRK14023 504728005109 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 504728005110 substrate binding site [chemical binding]; other site 504728005111 DNA directed RNA polymerase, 7 kDa subunit; Region: DNA_RNApol_7kD; cl00874 504728005112 lysine biosynthesis protein LysW; Region: lysW; TIGR01206 504728005113 Lysine biosynthesis enzyme LysX; Region: LysX_arch; TIGR02144 504728005114 ATP-grasp domain; Region: ATP-grasp_4; cl17255 504728005115 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 504728005116 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 504728005117 Protein of unknown function DUF84; Region: NTPase_I-T; cl00866 504728005118 AAK_NAGK-UC: N-Acetyl-L-glutamate kinase - uncharacterized (NAGK-UC). This domain is similar to Escherichia coli and Pseudomonas aeruginosa NAGKs which catalyze the phosphorylation of the gamma-COOH group of N-acetyl-L-glutamate (NAG) by ATP in the...; Region: AAK_NAGK-UC; cd04251 504728005119 putative nucleotide binding site [chemical binding]; other site 504728005120 putative N-acetyl-L-glutamate binding site [chemical binding]; other site 504728005121 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 504728005122 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 504728005123 active site 504728005124 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 504728005125 Predicted periplasmic protein (DUF2233); Region: DUF2233; pfam09992 504728005126 alpha,alpha-trehalose-phosphate synthase [UDP-forming]; Region: trehalose_OtsA; TIGR02400 504728005127 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 504728005128 active site 504728005129 homotetramer interface [polypeptide binding]; other site 504728005130 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 504728005131 Trehalose-phosphatase; Region: Trehalose_PPase; pfam02358 504728005132 active site 504728005133 motif I; other site 504728005134 motif II; other site 504728005135 trehalose-6-phosphate phosphatase; Provisional; Region: PRK10187; cl17105 504728005136 trehalose synthase; Region: treS_nterm; TIGR02456 504728005137 Alpha amylase catalytic domain found in Trehalose synthetase; Region: AmyAc_TreS; cd11334 504728005138 active site 504728005139 catalytic site [active] 504728005140 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; cl17722 504728005141 N-acetyl-alpha-D-glucosaminyl L-malate synthase BshA; Region: thiol_BshA; TIGR03999 504728005142 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_5; cd04962 504728005143 CYTH-like Clostridium thermocellum TTM-like subgroup 1; Region: CYTH-like_CthTTM-like_1; cd07891 504728005144 putative active site [active] 504728005145 putative metal binding residues [ion binding]; other site 504728005146 signature motif; other site 504728005147 putative dimer interface [polypeptide binding]; other site 504728005148 putative phosphate binding site [ion binding]; other site 504728005149 threonine dehydratase; Provisional; Region: PRK08198 504728005150 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 504728005151 tetramer interface [polypeptide binding]; other site 504728005152 pyridoxal 5'-phosphate binding site [chemical binding]; other site 504728005153 catalytic residue [active] 504728005154 C-terminal ACT domain of biodegradative (catabolic) threonine dehydratase II (ThrD-II) and other related ACT domains; Region: ACT_ThrD-II-like; cd04886 504728005155 potential frameshift: common BLAST hit: gi|428320197|ref|YP_007118079.1| DNA-cytosine methyltransferase 504728005156 SinI restriction endonuclease; Region: RE_SinI; pfam09570 504728005157 phytoene desaturase; Region: crtI_fam; TIGR02734 504728005158 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 504728005159 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 504728005160 Quinone oxidoreductase (QOR); Region: QOR1; cd08241 504728005161 NAD(P) binding site [chemical binding]; other site 504728005162 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 504728005163 N-methyltryptophan oxidase; Provisional; Region: solA; PRK11259 504728005164 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 504728005165 Putative esterase; Region: Esterase; pfam00756 504728005166 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 504728005167 Uncharacterized conserved protein [Function unknown]; Region: COG2361 504728005168 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 504728005169 active site 504728005170 NTP binding site [chemical binding]; other site 504728005171 metal binding triad [ion binding]; metal-binding site 504728005172 antibiotic binding site [chemical binding]; other site 504728005173 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 504728005174 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 504728005175 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 504728005176 catalytic site [active] 504728005177 subunit interface [polypeptide binding]; other site 504728005178 Uncharacterized protein family (UPF0150); Region: UPF0150; pfam03681 504728005179 putative acetyltransferase; Provisional; Region: PRK03624 504728005180 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 504728005181 Coenzyme A binding pocket [chemical binding]; other site 504728005182 argininosuccinate lyase; Provisional; Region: PRK00855 504728005183 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 504728005184 active sites [active] 504728005185 tetramer interface [polypeptide binding]; other site 504728005186 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 504728005187 Coenzyme A binding pocket [chemical binding]; other site 504728005188 argininosuccinate synthase; Provisional; Region: PRK13820 504728005189 Argininosuccinate synthase. The Argininosuccinate synthase is a urea cycle enzyme that catalyzes the penultimate step in arginine biosynthesis: the ATP-dependent ligation of citrulline to aspartate to form argininosuccinate, AMP and pyrophosphate . In...; Region: Argininosuccinate_Synthase; cd01999 504728005190 ANP binding site [chemical binding]; other site 504728005191 Substrate Binding Site II [chemical binding]; other site 504728005192 Substrate Binding Site I [chemical binding]; other site 504728005193 Glycerol-3-phosphate acyltransferase; Region: G3P_acyltransf; pfam02660 504728005194 Acyl CoA:acetate/3-ketoacid CoA transferase, alpha subunit [Lipid metabolism]; Region: AtoD; COG1788 504728005195 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 504728005196 prokaryotic 3-carboxy-cis,cis-muconate cycloisomerase (CMLE)_like; Region: pCLME; cd01597 504728005197 Adenylosuccinate lyase [Nucleotide transport and metabolism]; Region: PurB; COG0015 504728005198 tetramer interface [polypeptide binding]; other site 504728005199 active site 504728005200 Intradiol dioxygenases catalyze the critical ring-cleavage step in the conversion of catecholate derivatives to citric acid cycle intermediates. This family contains catechol 1,2-dioxygenases and protocatechuate 3,4-dioxygenases which are mononuclear...; Region: intradiol_dioxygenase; cl17208 504728005201 active site 504728005202 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 504728005203 multimer interface [polypeptide binding]; other site 504728005204 heterodimer interface [polypeptide binding]; other site 504728005205 protocatechuate 3,4-dioxygenase, beta subunit; Region: protocat_beta; TIGR02422 504728005206 active site 504728005207 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 504728005208 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 504728005209 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 504728005210 beta-ketoadipate pathway transcriptional regulators, PcaR/PcaU/PobR family; Region: pcaR_pcaU; TIGR02431 504728005211 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 504728005212 Bacterial transcriptional regulator; Region: IclR; pfam01614 504728005213 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 504728005214 Type I periplasmic binding component of active transport systems that are predicted be involved in anaerobic biodegradation of alkylbenzenes such as toluene and ethylbenzene; Region: PBP1_alkylbenzenes_like; cd06360 504728005215 putative ligand binding site [chemical binding]; other site 504728005216 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 504728005217 TM-ABC transporter signature motif; other site 504728005218 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 504728005219 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 504728005220 TM-ABC transporter signature motif; other site 504728005221 urea ABC transporter, ATP-binding protein UrtD; Region: urea_trans_UrtD; TIGR03411 504728005222 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 504728005223 Walker A/P-loop; other site 504728005224 ATP binding site [chemical binding]; other site 504728005225 Q-loop/lid; other site 504728005226 ABC transporter signature motif; other site 504728005227 Walker B; other site 504728005228 D-loop; other site 504728005229 H-loop/switch region; other site 504728005230 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 504728005231 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 504728005232 Walker A/P-loop; other site 504728005233 ATP binding site [chemical binding]; other site 504728005234 Q-loop/lid; other site 504728005235 ABC transporter signature motif; other site 504728005236 Walker B; other site 504728005237 D-loop; other site 504728005238 H-loop/switch region; other site 504728005239 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 504728005240 iron-sulfur cluster [ion binding]; other site 504728005241 [2Fe-2S] cluster binding site [ion binding]; other site 504728005242 C-terminal catalytic domain of the oxygenase alpha subunit of naphthalene 1,2-dioxygenase (NDO) and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_NDO-like; cd08881 504728005243 beta subunit interface [polypeptide binding]; other site 504728005244 alpha subunit interface [polypeptide binding]; other site 504728005245 active site 504728005246 substrate binding site [chemical binding]; other site 504728005247 Fe binding site [ion binding]; other site 504728005248 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 504728005249 inter-subunit interface; other site 504728005250 4-hydroxybenzoate 3-monooxygenase; Validated; Region: PRK08243 504728005251 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 504728005252 catechol 2,3 dioxygenase; Region: catechol_2_3; TIGR03211 504728005253 N-terminal, non-catalytic, domain of BphC_JF8, (2,3-dihydroxybiphenyl 1,2-dioxygenase) from Bacillus sp. JF8 and similar proteins; Region: BphC-JF8_N_like; cd09013 504728005254 tetramer interface [polypeptide binding]; other site 504728005255 C-terminal, catalytic, domain of BphC_JF8, (2,3-dihydroxybiphenyl 1,2-dioxygenase) from Bacillus sp. JF8 and similar proteins; Region: BphC-JF8_C_like; cd09014 504728005256 tetramer interface [polypeptide binding]; other site 504728005257 active site 504728005258 metal binding site [ion binding]; metal-binding site 504728005259 Transcriptional regulators [Transcription]; Region: GntR; COG1802 504728005260 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 504728005261 DNA-binding site [nucleotide binding]; DNA binding site 504728005262 FCD domain; Region: FCD; pfam07729 504728005263 GlcNAc-PI de-N-acetylase; Region: PIG-L; cl00929 504728005264 Demethylmenaquinone methyltransferase; Region: Methyltransf_6; cl00480 504728005265 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 504728005266 D-isomer specific 2-hydroxyacid dehydrogenase, NAD binding domain; Region: 2-Hacid_dh_C; pfam02826 504728005267 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 504728005268 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 504728005269 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 504728005270 dimer interface [polypeptide binding]; other site 504728005271 motif 1; other site 504728005272 active site 504728005273 motif 2; other site 504728005274 motif 3; other site 504728005275 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 504728005276 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 504728005277 putative tRNA-binding site [nucleotide binding]; other site 504728005278 B3/4 domain; Region: B3_4; pfam03483 504728005279 tRNA synthetase B5 domain; Region: B5; smart00874 504728005280 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 504728005281 dimer interface [polypeptide binding]; other site 504728005282 motif 1; other site 504728005283 motif 3; other site 504728005284 motif 2; other site 504728005285 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 504728005286 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 504728005287 nudix motif; other site 504728005288 peptide chain release factor 1; Validated; Region: prfA; PRK00591 504728005289 PCRF domain; Region: PCRF; cl17745 504728005290 RF-1 domain; Region: RF-1; pfam00472 504728005291 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 504728005292 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: Unknown ABO13168; Region: LPLAT_ABO13168-like; cd07988 504728005293 putative acyl-acceptor binding pocket; other site 504728005294 Ion transport protein; Region: Ion_trans; pfam00520 504728005295 Bacterial transcriptional activator domain; Region: BTAD; smart01043 504728005296 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 504728005297 short chain dehydrogenase; Provisional; Region: PRK07454 504728005298 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 504728005299 NAD(P) binding site [chemical binding]; other site 504728005300 active site 504728005301 GTP-binding protein Der; Reviewed; Region: PRK00093 504728005302 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 504728005303 G1 box; other site 504728005304 GTP/Mg2+ binding site [chemical binding]; other site 504728005305 Switch I region; other site 504728005306 G2 box; other site 504728005307 Switch II region; other site 504728005308 G3 box; other site 504728005309 G4 box; other site 504728005310 G5 box; other site 504728005311 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 504728005312 G1 box; other site 504728005313 GTP/Mg2+ binding site [chemical binding]; other site 504728005314 Switch I region; other site 504728005315 G2 box; other site 504728005316 G3 box; other site 504728005317 Switch II region; other site 504728005318 G4 box; other site 504728005319 G5 box; other site 504728005320 PrcB C-terminal; Region: PrcB_C; pfam14343 504728005321 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 504728005322 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 504728005323 dimer interface [polypeptide binding]; other site 504728005324 conserved gate region; other site 504728005325 putative PBP binding loops; other site 504728005326 ABC-ATPase subunit interface; other site 504728005327 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 504728005328 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 504728005329 dimer interface [polypeptide binding]; other site 504728005330 conserved gate region; other site 504728005331 putative PBP binding loops; other site 504728005332 ABC-ATPase subunit interface; other site 504728005333 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 504728005334 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 504728005335 peptide binding site [polypeptide binding]; other site 504728005336 Uncharacterized conserved protein [Function unknown]; Region: COG3339 504728005337 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 504728005338 Coenzyme A binding pocket [chemical binding]; other site 504728005339 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 504728005340 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 504728005341 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 504728005342 Walker A/P-loop; other site 504728005343 ATP binding site [chemical binding]; other site 504728005344 Q-loop/lid; other site 504728005345 ABC transporter signature motif; other site 504728005346 Walker B; other site 504728005347 D-loop; other site 504728005348 H-loop/switch region; other site 504728005349 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 504728005350 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 504728005351 Walker A/P-loop; other site 504728005352 ATP binding site [chemical binding]; other site 504728005353 Q-loop/lid; other site 504728005354 ABC transporter signature motif; other site 504728005355 Walker B; other site 504728005356 D-loop; other site 504728005357 H-loop/switch region; other site 504728005358 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 504728005359 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 504728005360 TM-ABC transporter signature motif; other site 504728005361 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 504728005362 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 504728005363 TM-ABC transporter signature motif; other site 504728005364 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 504728005365 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 504728005366 dimerization interface [polypeptide binding]; other site 504728005367 ligand binding site [chemical binding]; other site 504728005368 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 504728005369 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 504728005370 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 504728005371 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 504728005372 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 504728005373 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 504728005374 CD73 ecto-5'-nucleotidase and related proteins, N-terminal metallophosphatase domain; Region: MPP_CD73_N; cd07409 504728005375 active site 504728005376 metal binding site [ion binding]; metal-binding site 504728005377 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 504728005378 Protein of unknown function (DUF4127); Region: DUF4127; pfam13552 504728005379 GAF domain; Region: GAF_3; pfam13492 504728005380 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 504728005381 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 504728005382 GAF domain; Region: GAF; cl17456 504728005383 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 504728005384 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 504728005385 Zn2+ binding site [ion binding]; other site 504728005386 Mg2+ binding site [ion binding]; other site 504728005387 S-adenosylmethionine synthetase; Validated; Region: PRK05250 504728005388 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 504728005389 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 504728005390 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 504728005391 Transcriptional regulators [Transcription]; Region: FadR; COG2186 504728005392 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 504728005393 DNA-binding site [nucleotide binding]; DNA binding site 504728005394 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 504728005395 Proline dehydrogenase; Region: Pro_dh; cl03282 504728005396 1-pyrroline-5-carboxylate dehydrogenase; Provisional; Region: PRK03137 504728005397 Delta(1)-pyrroline-5-carboxylate dehydrogenase, RocA; Region: ALDH_PutA-P5CDH-RocA; cd07124 504728005398 Glutamate binding site [chemical binding]; other site 504728005399 homodimer interface [polypeptide binding]; other site 504728005400 NAD binding site [chemical binding]; other site 504728005401 catalytic residues [active] 504728005402 Major intrinsic protein (MIP) superfamily. Members of the MIP superfamily function as membrane channels that selectively transport water, small neutral molecules, and ions out of and between cells. The channel proteins share a common fold: the N-terminal...; Region: MIP; cl00200 504728005403 amphipathic channel; other site 504728005404 Asn-Pro-Ala signature motifs; other site 504728005405 Family-5 Uracil-DNA glycosylases (UDG), found in thermophilic organisms; Region: UDG_F5_TTUDGB_like; cd10031 504728005406 Fe-S cluster binding site [ion binding]; other site 504728005407 DNA binding site [nucleotide binding] 504728005408 active site 504728005409 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 504728005410 FMN binding site [chemical binding]; other site 504728005411 substrate binding site [chemical binding]; other site 504728005412 putative catalytic residue [active] 504728005413 von Willebrand factor type A domain; Region: VWA_2; pfam13519 504728005414 metal ion-dependent adhesion site (MIDAS); other site 504728005415 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 504728005416 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 504728005417 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 504728005418 Adenosylmethionine-8-amino-7-oxononanoate aminotransferase [Coenzyme metabolism]; Region: BioA; COG0161 504728005419 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 504728005420 inhibitor-cofactor binding pocket; inhibition site 504728005421 pyridoxal 5'-phosphate binding site [chemical binding]; other site 504728005422 catalytic residue [active] 504728005423 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 504728005424 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 504728005425 PaaX-like protein; Region: PaaX; pfam07848 504728005426 phenylacetic acid degradation operon negative regulatory protein PaaX; Region: PaaX_trns_reg; TIGR02277 504728005427 PaaX-like protein C-terminal domain; Region: PaaX_C; pfam08223 504728005428 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 504728005429 putative active site [active] 504728005430 putative CoA binding site [chemical binding]; other site 504728005431 nudix motif; other site 504728005432 metal binding site [ion binding]; metal-binding site 504728005433 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: PRK12333 504728005434 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) N-terminal tandem-domain of MazG proteins from Escherichia coli and bacterial homologs; Region: NTP-PPase_MazG_Nterm; cd11528 504728005435 homodimer interface [polypeptide binding]; other site 504728005436 metal binding site [ion binding]; metal-binding site 504728005437 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 504728005438 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 504728005439 Cu(I) binding site [ion binding]; other site 504728005440 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 504728005441 S17 interaction site [polypeptide binding]; other site 504728005442 S8 interaction site; other site 504728005443 16S rRNA interaction site [nucleotide binding]; other site 504728005444 streptomycin interaction site [chemical binding]; other site 504728005445 23S rRNA interaction site [nucleotide binding]; other site 504728005446 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 504728005447 30S ribosomal protein S7; Validated; Region: PRK05302 504728005448 elongation factor G; Reviewed; Region: PRK00007 504728005449 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 504728005450 G1 box; other site 504728005451 putative GEF interaction site [polypeptide binding]; other site 504728005452 GTP/Mg2+ binding site [chemical binding]; other site 504728005453 Switch I region; other site 504728005454 G2 box; other site 504728005455 G3 box; other site 504728005456 Switch II region; other site 504728005457 G4 box; other site 504728005458 G5 box; other site 504728005459 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 504728005460 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 504728005461 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 504728005462 elongation factor Tu; Reviewed; Region: PRK00049 504728005463 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 504728005464 G1 box; other site 504728005465 GEF interaction site [polypeptide binding]; other site 504728005466 GTP/Mg2+ binding site [chemical binding]; other site 504728005467 Switch I region; other site 504728005468 G2 box; other site 504728005469 G3 box; other site 504728005470 Switch II region; other site 504728005471 G4 box; other site 504728005472 G5 box; other site 504728005473 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 504728005474 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 504728005475 Antibiotic Binding Site [chemical binding]; other site 504728005476 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 504728005477 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 504728005478 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 504728005479 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 504728005480 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 504728005481 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 504728005482 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 504728005483 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 504728005484 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 504728005485 putative translocon binding site; other site 504728005486 protein-rRNA interface [nucleotide binding]; other site 504728005487 ribosomal protein S3, bacterial type; Region: rpsC_bact; TIGR01009 504728005488 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 504728005489 G-X-X-G motif; other site 504728005490 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 504728005491 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 504728005492 23S rRNA interface [nucleotide binding]; other site 504728005493 5S rRNA interface [nucleotide binding]; other site 504728005494 putative antibiotic binding site [chemical binding]; other site 504728005495 L25 interface [polypeptide binding]; other site 504728005496 L27 interface [polypeptide binding]; other site 504728005497 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 504728005498 putative translocon interaction site; other site 504728005499 signal recognition particle (SRP54) interaction site; other site 504728005500 L23 interface [polypeptide binding]; other site 504728005501 trigger factor interaction site; other site 504728005502 23S rRNA interface [nucleotide binding]; other site 504728005503 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 504728005504 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 504728005505 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 504728005506 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 504728005507 RNA binding site [nucleotide binding]; other site 504728005508 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 504728005509 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 504728005510 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 504728005511 Ribosomal protein S14p/S29e; Region: Ribosomal_S14; cl00355 504728005512 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 504728005513 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 504728005514 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 504728005515 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 504728005516 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 504728005517 5S rRNA interface [nucleotide binding]; other site 504728005518 L27 interface [polypeptide binding]; other site 504728005519 23S rRNA interface [nucleotide binding]; other site 504728005520 L5 interface [polypeptide binding]; other site 504728005521 ribosomal protein S5, bacterial/organelle type; Region: rpsE_bact; TIGR01021 504728005522 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 504728005523 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 504728005524 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 504728005525 23S rRNA binding site [nucleotide binding]; other site 504728005526 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 504728005527 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 504728005528 SecY translocase; Region: SecY; pfam00344 504728005529 adenylate kinase; Provisional; Region: PRK14527 504728005530 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 504728005531 AMP-binding site [chemical binding]; other site 504728005532 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 504728005533 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 504728005534 active site 504728005535 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 504728005536 rRNA binding site [nucleotide binding]; other site 504728005537 predicted 30S ribosome binding site; other site 504728005538 50S ribosomal protein L36; Reviewed; Region: rpmJ; PRK00465 504728005539 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 504728005540 30S ribosomal protein S13; Region: bact_S13; TIGR03631 504728005541 30S ribosomal protein S11; Validated; Region: PRK05309 504728005542 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 504728005543 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 504728005544 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 504728005545 RNA binding surface [nucleotide binding]; other site 504728005546 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 504728005547 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 504728005548 alphaNTD - beta interaction site [polypeptide binding]; other site 504728005549 alphaNTD homodimer interface [polypeptide binding]; other site 504728005550 alphaNTD - beta' interaction site [polypeptide binding]; other site 504728005551 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 504728005552 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 504728005553 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 504728005554 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 504728005555 dimer interface [polypeptide binding]; other site 504728005556 conserved gate region; other site 504728005557 putative PBP binding loops; other site 504728005558 ABC-ATPase subunit interface; other site 504728005559 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 504728005560 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 504728005561 Walker A/P-loop; other site 504728005562 ATP binding site [chemical binding]; other site 504728005563 Q-loop/lid; other site 504728005564 ABC transporter signature motif; other site 504728005565 Walker B; other site 504728005566 D-loop; other site 504728005567 H-loop/switch region; other site 504728005568 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 504728005569 replicative DNA helicase; Validated; Region: PRK07773 504728005570 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 504728005571 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 504728005572 Walker A motif; other site 504728005573 ATP binding site [chemical binding]; other site 504728005574 Walker B motif; other site 504728005575 DNA binding loops [nucleotide binding] 504728005576 Hedgehog/Intein domain, found in Hedgehog proteins as well as proteins which contain inteins and undergo protein splicing (e.g. DnaB, RIR1-2, GyrA and Pol). In protein splicing an intervening polypeptide sequence - the intein - is excised from a protein; Region: Hint; cd00081 504728005577 protein-splicing catalytic site; other site 504728005578 thioester formation/cholesterol transfer; other site 504728005579 Hedgehog/Intein domain, found in Hedgehog proteins as well as proteins which contain inteins and undergo protein splicing (e.g. DnaB, RIR1-2, GyrA and Pol). In protein splicing an intervening polypeptide sequence - the intein - is excised from a protein; Region: Hint; cd00081 504728005580 protein-splicing catalytic site; other site 504728005581 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 504728005582 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 504728005583 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 504728005584 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 504728005585 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 504728005586 Deoxynucleoside kinases [Nucleotide transport and metabolism]; Region: COG1428 504728005587 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 504728005588 Substrate-binding site [chemical binding]; other site 504728005589 Substrate specificity [chemical binding]; other site 504728005590 Deoxynucleoside kinases [Nucleotide transport and metabolism]; Region: COG1428 504728005591 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 504728005592 Substrate-binding site [chemical binding]; other site 504728005593 Substrate specificity [chemical binding]; other site 504728005594 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 504728005595 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 504728005596 Uncharacterized protein conserved in bacteria with the myosin-like domain [Function unknown]; Region: COG4372 504728005597 Protein of unknown function (DUF3084); Region: DUF3084; pfam11283 504728005598 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 504728005599 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 504728005600 Walker A/P-loop; other site 504728005601 ATP binding site [chemical binding]; other site 504728005602 Q-loop/lid; other site 504728005603 ABC transporter signature motif; other site 504728005604 Walker B; other site 504728005605 D-loop; other site 504728005606 H-loop/switch region; other site 504728005607 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 504728005608 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 504728005609 HIGH motif; other site 504728005610 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 504728005611 active site 504728005612 KMSKS motif; other site 504728005613 PEP synthetase regulatory protein; Provisional; Region: PRK05339 504728005614 phosphoenolpyruvate synthase; Validated; Region: PRK06464 504728005615 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 504728005616 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 504728005617 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 504728005618 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 504728005619 DNA methylase; Region: N6_N4_Mtase; pfam01555 504728005620 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 504728005621 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 504728005622 non-specific DNA binding site [nucleotide binding]; other site 504728005623 salt bridge; other site 504728005624 sequence-specific DNA binding site [nucleotide binding]; other site 504728005625 Restriction endonuclease PvuII; Region: Endonuc-PvuII; pfam09225 504728005626 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Provisional; Region: PRK14618 504728005627 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 504728005628 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 504728005629 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 504728005630 active site 504728005631 tRNA 2-selenouridine synthase; Provisional; Region: PRK11784 504728005632 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 504728005633 Mandelate racemase / muconate lactonizing enzyme, N-terminal domain; Region: MR_MLE_N; pfam02746 504728005634 Enolase-superfamily, characterized by the presence of an enolate anion intermediate which is generated by abstraction of the alpha-proton of the carboxylate substrate by an active site residue and is stabilized by coordination to the essential Mg2+ ion; Region: enolase_like; cl17188 504728005635 metal binding site [ion binding]; metal-binding site 504728005636 substrate binding pocket [chemical binding]; other site 504728005637 RelA- and SpoT-like ppGpp Synthetases and Hydrolases, catalytic domain; Region: Rel-Spo_like; cl11966 504728005638 metal binding triad [ion binding]; metal-binding site 504728005639 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 504728005640 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 504728005641 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 504728005642 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]; Region: LCB5; COG1597 504728005643 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 504728005644 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 504728005645 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 504728005646 metal binding site [ion binding]; metal-binding site 504728005647 active site 504728005648 I-site; other site 504728005649 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 504728005650 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 504728005651 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 504728005652 Ligand Binding Site [chemical binding]; other site 504728005653 Malate/L-lactate dehydrogenases [Energy production and conversion]; Region: COG2055 504728005654 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 504728005655 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 504728005656 NAD(P) binding site [chemical binding]; other site 504728005657 active site 504728005658 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 504728005659 2,3-dihydro-2,3-dihydroxybenzoate dehydrogenase; Region: dhbA_paeA; TIGR04316 504728005660 NAD(P) binding site [chemical binding]; other site 504728005661 active site 504728005662 DctM-like transporters; Region: DctM; pfam06808 504728005663 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 504728005664 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 504728005665 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 504728005666 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 504728005667 Transcriptional regulators [Transcription]; Region: PurR; COG1609 504728005668 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 504728005669 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 504728005670 K+-dependent Na+/Ca+ exchanger related-protein; Region: TIGR00367 504728005671 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 504728005672 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 504728005673 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 504728005674 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 504728005675 NAD(P) binding site [chemical binding]; other site 504728005676 active site 504728005677 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 504728005678 classical (c) SDRs; Region: SDR_c; cd05233 504728005679 NAD(P) binding site [chemical binding]; other site 504728005680 active site 504728005681 Gluconolactonase [Carbohydrate transport and metabolism]; Region: COG3386 504728005682 hypothetical protein; Provisional; Region: PRK06847 504728005683 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 504728005684 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 504728005685 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 504728005686 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 504728005687 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 504728005688 Amidohydrolase; Region: Amidohydro_2; pfam04909 504728005689 Putative cyclase; Region: Cyclase; pfam04199 504728005690 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 504728005691 catechol 2,3 dioxygenase; Region: catechol_2_3; TIGR03211 504728005692 active site 504728005693 metal binding site [ion binding]; metal-binding site 504728005694 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 504728005695 active site 504728005696 metal binding site [ion binding]; metal-binding site 504728005697 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 504728005698 classical (c) SDRs; Region: SDR_c; cd05233 504728005699 NAD(P) binding site [chemical binding]; other site 504728005700 active site 504728005701 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 504728005702 histidinol dehydrogenase; Region: hisD; TIGR00069 504728005703 NAD binding site [chemical binding]; other site 504728005704 dimerization interface [polypeptide binding]; other site 504728005705 product binding site; other site 504728005706 substrate binding site [chemical binding]; other site 504728005707 zinc binding site [ion binding]; other site 504728005708 catalytic residues [active] 504728005709 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 504728005710 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cd06587 504728005711 active site 504728005712 metal binding site [ion binding]; metal-binding site 504728005713 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 504728005714 FAD binding domain; Region: FAD_binding_4; pfam01565 504728005715 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 504728005716 classical (c) SDRs; Region: SDR_c; cd05233 504728005717 NAD(P) binding site [chemical binding]; other site 504728005718 active site 504728005719 SnoaL-like domain; Region: SnoaL_2; pfam12680 504728005720 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 504728005721 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 504728005722 Walker A/P-loop; other site 504728005723 ATP binding site [chemical binding]; other site 504728005724 Q-loop/lid; other site 504728005725 ABC transporter signature motif; other site 504728005726 Walker B; other site 504728005727 D-loop; other site 504728005728 H-loop/switch region; other site 504728005729 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 504728005730 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 504728005731 TM-ABC transporter signature motif; other site 504728005732 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 504728005733 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 504728005734 Walker A/P-loop; other site 504728005735 ATP binding site [chemical binding]; other site 504728005736 Q-loop/lid; other site 504728005737 ABC transporter signature motif; other site 504728005738 Walker B; other site 504728005739 D-loop; other site 504728005740 H-loop/switch region; other site 504728005741 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 504728005742 TM-ABC transporter signature motif; other site 504728005743 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 504728005744 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_ligand_binding_like_7; cd06341 504728005745 putative ligand binding site [chemical binding]; other site 504728005746 phosphonate utilization associated transcriptional regulator; Region: phnR_burk; TIGR03338 504728005747 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 504728005748 DNA-binding site [nucleotide binding]; DNA binding site 504728005749 FCD domain; Region: FCD; pfam07729 504728005750 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 504728005751 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 504728005752 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 504728005753 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 504728005754 dimer interface [polypeptide binding]; other site 504728005755 conserved gate region; other site 504728005756 putative PBP binding loops; other site 504728005757 ABC-ATPase subunit interface; other site 504728005758 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 504728005759 dimer interface [polypeptide binding]; other site 504728005760 conserved gate region; other site 504728005761 putative PBP binding loops; other site 504728005762 ABC-ATPase subunit interface; other site 504728005763 fumarate reductase iron-sulfur subunit; Provisional; Region: PRK12386 504728005764 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 504728005765 catalytic loop [active] 504728005766 iron binding site [ion binding]; other site 504728005767 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK07803 504728005768 L-aspartate oxidase; Provisional; Region: PRK06175 504728005769 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 504728005770 S-adenosylmethionine decarboxylase; Region: AdoMet_dc; pfam02675 504728005771 transcriptional repressor IclR; Provisional; Region: PRK11569 504728005772 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 504728005773 Bacterial transcriptional regulator; Region: IclR; pfam01614 504728005774 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 504728005775 malate synthase A; Region: malate_syn_A; TIGR01344 504728005776 active site 504728005777 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 504728005778 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 504728005779 dimer interface [polypeptide binding]; other site 504728005780 ssDNA binding site [nucleotide binding]; other site 504728005781 tetramer (dimer of dimers) interface [polypeptide binding]; other site 504728005782 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 504728005783 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 504728005784 dimer interface [polypeptide binding]; other site 504728005785 ssDNA binding site [nucleotide binding]; other site 504728005786 tetramer (dimer of dimers) interface [polypeptide binding]; other site 504728005787 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 504728005788 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 504728005789 5S rRNA interface [nucleotide binding]; other site 504728005790 CTC domain interface [polypeptide binding]; other site 504728005791 L16 interface [polypeptide binding]; other site 504728005792 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 504728005793 putative active site [active] 504728005794 catalytic residue [active] 504728005795 ABC-type phosphate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: PstB; COG1117 504728005796 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 504728005797 Walker A/P-loop; other site 504728005798 ATP binding site [chemical binding]; other site 504728005799 Q-loop/lid; other site 504728005800 ABC transporter signature motif; other site 504728005801 Walker B; other site 504728005802 D-loop; other site 504728005803 H-loop/switch region; other site 504728005804 phosphate ABC transporter, permease protein PstA; Region: 3a0107s02c; TIGR00974 504728005805 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 504728005806 dimer interface [polypeptide binding]; other site 504728005807 conserved gate region; other site 504728005808 ABC-ATPase subunit interface; other site 504728005809 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstC; COG0573 504728005810 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 504728005811 dimer interface [polypeptide binding]; other site 504728005812 conserved gate region; other site 504728005813 putative PBP binding loops; other site 504728005814 ABC-ATPase subunit interface; other site 504728005815 PBP superfamily domain; Region: PBP_like_2; cl17296 504728005816 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 504728005817 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 504728005818 GTP binding site; other site 504728005819 Protein of unknown function, DUF480; Region: DUF480; pfam04337 504728005820 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 504728005821 D-xylulose kinase; Region: XylB; TIGR01312 504728005822 nucleotide binding site [chemical binding]; other site 504728005823 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 504728005824 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 504728005825 Walker A/P-loop; other site 504728005826 ATP binding site [chemical binding]; other site 504728005827 Q-loop/lid; other site 504728005828 ABC transporter signature motif; other site 504728005829 Walker B; other site 504728005830 D-loop; other site 504728005831 H-loop/switch region; other site 504728005832 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 504728005833 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 504728005834 TM-ABC transporter signature motif; other site 504728005835 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 504728005836 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 504728005837 ligand binding site [chemical binding]; other site 504728005838 Transcriptional regulators [Transcription]; Region: PurR; COG1609 504728005839 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 504728005840 DNA binding site [nucleotide binding] 504728005841 domain linker motif; other site 504728005842 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 504728005843 dimerization interface [polypeptide binding]; other site 504728005844 ligand binding site [chemical binding]; other site 504728005845 Prokaryotic phospholipase A2; Region: Phospholip_A2_3; pfam09056 504728005846 pyridoxamine kinase; Validated; Region: PRK05756 504728005847 Pyridoxal kinase plays a key role in the synthesis of the active coenzyme pyridoxal-5'-phosphate (PLP), by catalyzing the phosphorylation of the precursor vitamin B6 in the presence of Zn2+ and ATP. Mammals are unable to synthesize PLP de novo and...; Region: pyridoxal_pyridoxamine_kinase; cd01173 504728005848 dimer interface [polypeptide binding]; other site 504728005849 pyridoxal binding site [chemical binding]; other site 504728005850 ATP binding site [chemical binding]; other site 504728005851 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 504728005852 Histone deacetylase class IV also known as histone deacetylase 11; Region: HDAC_classIV; cd09993 504728005853 putative active site [active] 504728005854 Zn binding site [ion binding]; other site 504728005855 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 504728005856 active site 504728005857 catalytic residue [active] 504728005858 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 504728005859 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 504728005860 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 504728005861 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 504728005862 Uncharacterized conserved protein [Function unknown]; Region: COG0327 504728005863 NIF3 (NGG1p interacting factor 3); Region: NIF3; pfam01784 504728005864 thymidylate kinase; Validated; Region: tmk; PRK00698 504728005865 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 504728005866 TMP-binding site; other site 504728005867 ATP-binding site [chemical binding]; other site 504728005868 Glutamine cyclotransferase [Posttranslational modification, protein turnover, chaperones]; Region: COG3823 504728005869 Uncharacterized ACR, COG1430; Region: DUF192; pfam02643 504728005870 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 504728005871 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; cl02525 504728005872 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; cl00993 504728005873 5-formyltetrahydrofolate cyclo-ligase [Coenzyme metabolism]; Region: COG0212 504728005874 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 504728005875 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 504728005876 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 504728005877 Peptidase family M23; Region: Peptidase_M23; pfam01551 504728005878 Protein of unknown function DUF86; Region: DUF86; cl01031 504728005879 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 504728005880 active site 504728005881 NTP binding site [chemical binding]; other site 504728005882 metal binding triad [ion binding]; metal-binding site 504728005883 antibiotic binding site [chemical binding]; other site 504728005884 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; pfam01923 504728005885 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 504728005886 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 504728005887 cobalamin binding residues [chemical binding]; other site 504728005888 putative BtuC binding residues; other site 504728005889 dimer interface [polypeptide binding]; other site 504728005890 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cd00200 504728005891 structural tetrad; other site 504728005892 FOG: WD40 repeat [General function prediction only]; Region: COG2319 504728005893 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cd00200 504728005894 structural tetrad; other site 504728005895 FOG: WD40 repeat [General function prediction only]; Region: COG2319 504728005896 polyphosphate:nucleotide phosphotransferase, PPK2 family; Region: PPK2_rel_1; TIGR03709 504728005897 Methyltransferase domain; Region: Methyltransf_26; pfam13659 504728005898 Acetyltransferase (GNAT) domain; Region: Acetyltransf_4; pfam13420 504728005899 acetyl coenzyme A synthetase (ADP forming), alpha domain; Region: AcCoA-syn-alpha; TIGR02717 504728005900 CoA binding domain; Region: CoA_binding_2; pfam13380 504728005901 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 504728005902 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 504728005903 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 504728005904 active site 504728005905 dimer interfaces [polypeptide binding]; other site 504728005906 catalytic residues [active] 504728005907 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 504728005908 binding surface 504728005909 TPR motif; other site 504728005910 FtsH Extracellular; Region: FtsH_ext; pfam06480 504728005911 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 504728005912 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 504728005913 Walker A motif; other site 504728005914 ATP binding site [chemical binding]; other site 504728005915 Walker B motif; other site 504728005916 arginine finger; other site 504728005917 Peptidase family M41; Region: Peptidase_M41; pfam01434 504728005918 Signal peptidase (SPase) II; Region: Peptidase_A8; pfam01252 504728005919 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 504728005920 Peptidase family M23; Region: Peptidase_M23; pfam01551 504728005921 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 504728005922 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 504728005923 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; cl00465 504728005924 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 504728005925 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 504728005926 Domain of unknown function (DUF4384); Region: DUF4384; pfam14326 504728005927 Integral membrane protein possibly involved in chromosome condensation [Cell division and chromosome partitioning]; Region: CrcB; COG0239 504728005928 PII-like signaling protein [Signal transduction mechanisms]; Region: COG1993 504728005929 Sulfite oxidase and related enzymes [General function prediction only]; Region: COG2041 504728005930 bacterial and archael members of the sulfite oxidase (SO) family of molybdopterin binding domains. This molybdopterin cofactor (Moco) binding domain is found in a variety of oxidoreductases, main members of this family are nitrate reductase (NR) and...; Region: arch_bact_SO_family_Moco; cd02109 504728005931 Moco binding site; other site 504728005932 metal coordination site [ion binding]; other site 504728005933 membrane protein; Provisional; Region: PRK14402 504728005934 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 504728005935 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 504728005936 metal binding site [ion binding]; metal-binding site 504728005937 active site 504728005938 I-site; other site 504728005939 Putative peptidoglycan binding domain; Region: PG_binding_4; pfam12229 504728005940 Putative peptidoglycan binding domain; Region: PG_binding_4; pfam12229 504728005941 VanW like protein; Region: VanW; pfam04294 504728005942 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 504728005943 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 504728005944 active site 504728005945 Predicted N-acetylglucosamine kinase [Carbohydrate transport and metabolism]; Region: COG2971 504728005946 N-acetylmuramic acid-6-phosphate etherase; Reviewed; Region: murQ; PRK05441 504728005947 N-acetylmuramic acid 6-phosphate etherase. Members of this family contain the SIS (Sugar ISomerase) domain. The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. The bacterial cell wall sugar N-acetylmuramic acid...; Region: SIS_Etherase; cd05007 504728005948 putative active site [active] 504728005949 Transcriptional regulators [Transcription]; Region: GntR; COG1802 504728005950 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 504728005951 DNA-binding site [nucleotide binding]; DNA binding site 504728005952 FCD domain; Region: FCD; pfam07729 504728005953 Domains similar to fish antifreeze type III protein; Region: SAF_AH_GD; cd11613 504728005954 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 504728005955 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 504728005956 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_4; cd12173 504728005957 ligand binding site [chemical binding]; other site 504728005958 NAD binding site [chemical binding]; other site 504728005959 dimerization interface [polypeptide binding]; other site 504728005960 catalytic site [active] 504728005961 Malate/L-lactate dehydrogenase; Region: Ldh_2; cl00900 504728005962 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 504728005963 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 504728005964 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 504728005965 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 504728005966 dimer interface [polypeptide binding]; other site 504728005967 putative PBP binding loops; other site 504728005968 ABC-ATPase subunit interface; other site 504728005969 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 504728005970 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 504728005971 dimer interface [polypeptide binding]; other site 504728005972 conserved gate region; other site 504728005973 putative PBP binding loops; other site 504728005974 ABC-ATPase subunit interface; other site 504728005975 L-fucose isomerase (FucIase) and L-arabinose isomerase (AI) family; composed of FucIase, AI and similar proteins. FucIase converts L-fucose, an aldohexose, to its ketose form, which prepares it for aldol cleavage (similar to the isomerization of glucose...; Region: L-fuc_L-ara-isomerases; cl00947 504728005976 trimer interface [polypeptide binding]; other site 504728005977 substrate binding site [chemical binding]; other site 504728005978 hexamer (dimer of trimers) interface [polypeptide binding]; other site 504728005979 Mn binding site [ion binding]; other site 504728005980 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 504728005981 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 504728005982 substrate binding site [chemical binding]; other site 504728005983 ATP binding site [chemical binding]; other site 504728005984 Class I aldolases; Region: Aldolase_Class_I; cl17187 504728005985 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 504728005986 HsdM N-terminal domain; Region: HsdM_N; pfam12161 504728005987 Methyltransferase domain; Region: Methyltransf_26; pfam13659 504728005988 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 504728005989 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 504728005990 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 504728005991 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG1943 504728005992 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 504728005993 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 504728005994 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 504728005995 ATP binding site [chemical binding]; other site 504728005996 putative Mg++ binding site [ion binding]; other site 504728005997 Domain of unknown function (DUF3387); Region: DUF3387; pfam11867 504728005998 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 504728005999 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 504728006000 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 504728006001 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4102 504728006002 Protein of unknown function (DUF1800); Region: DUF1800; pfam08811 504728006003 bifunctional biotin--[acetyl-CoA-carboxylase] synthetase/biotin operon repressor; Provisional; Region: PRK11886 504728006004 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 504728006005 dimerization interface [polypeptide binding]; other site 504728006006 putative Zn2+ binding site [ion binding]; other site 504728006007 putative DNA binding site [nucleotide binding]; other site 504728006008 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 504728006009 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 504728006010 BioY family; Region: BioY; pfam02632 504728006011 Uncharacterized enzyme involved in biosynthesis of extracellular polysaccharides [General function prediction only]; Region: COG2329 504728006012 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 504728006013 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 504728006014 intersubunit interface [polypeptide binding]; other site 504728006015 Protein of unknown function (DUF3386); Region: DUF3386; pfam11866 504728006016 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 504728006017 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 504728006018 ABC-ATPase subunit interface; other site 504728006019 dimer interface [polypeptide binding]; other site 504728006020 putative PBP binding regions; other site 504728006021 hemin importer ATP-binding subunit; Provisional; Region: hmuV; PRK13548 504728006022 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 504728006023 Walker A/P-loop; other site 504728006024 ATP binding site [chemical binding]; other site 504728006025 Q-loop/lid; other site 504728006026 ABC transporter signature motif; other site 504728006027 Walker B; other site 504728006028 D-loop; other site 504728006029 H-loop/switch region; other site 504728006030 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 504728006031 Dehydroquinase class II; Region: DHquinase_II; pfam01220 504728006032 active site 504728006033 trimer interface [polypeptide binding]; other site 504728006034 dimer interface [polypeptide binding]; other site 504728006035 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 504728006036 Imelysin; Region: Peptidase_M75; cl09159 504728006037 Iron permease FTR1 family; Region: FTR1; cl00475 504728006038 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 504728006039 Plasmid encoded toxin Txe; Region: Plasmid_Txe; cl17389 504728006040 Uncharacterized protein with a von Willebrand factor type A (vWA) domain [General function prediction only]; Region: COG4867 504728006041 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 504728006042 metal ion-dependent adhesion site (MIDAS); other site 504728006043 Mg-chelatase subunit ChlI [Coenzyme metabolism]; Region: ChlI; COG1239 504728006044 Nitroreductase-like family which includes NADH oxidase and arsenite oxidiase. NADH oxidase catalyses the oxidation of NAD(P)H and accepts a wide broad range of compounds as electron acceptors, such as nitrocompound. Arsenite oxidase in a...; Region: Arsenite_oxidase; cd02135 504728006045 putative FMN binding site [chemical binding]; other site 504728006046 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cd06587 504728006047 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 504728006048 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 504728006049 intersubunit interface [polypeptide binding]; other site 504728006050 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 504728006051 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 504728006052 Walker A/P-loop; other site 504728006053 ATP binding site [chemical binding]; other site 504728006054 Q-loop/lid; other site 504728006055 ABC transporter signature motif; other site 504728006056 Walker B; other site 504728006057 D-loop; other site 504728006058 H-loop/switch region; other site 504728006059 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 504728006060 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 504728006061 Walker A/P-loop; other site 504728006062 ATP binding site [chemical binding]; other site 504728006063 Q-loop/lid; other site 504728006064 ABC transporter signature motif; other site 504728006065 Walker B; other site 504728006066 D-loop; other site 504728006067 H-loop/switch region; other site 504728006068 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 504728006069 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 504728006070 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 504728006071 intersubunit interface [polypeptide binding]; other site 504728006072 Polyketide cyclase / dehydrase and lipid transport; Region: Polyketide_cyc2; pfam10604 504728006073 hydrophobic ligand binding site; other site 504728006074 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 504728006075 Fe3+-siderophore binding domain FhuD. These proteins have been shown to function as initial receptors in ABC transport of Fe3+-siderophores in many eubacterial species. They belong to the TroA-like superfamily of helical backbone metal receptor proteins...; Region: FhuD; cd01146 504728006076 siderophore binding site; other site 504728006077 Fe3+-siderophore binding domain FhuD. These proteins have been shown to function as initial receptors in ABC transport of Fe3+-siderophores in many eubacterial species. They belong to the TroA-like superfamily of helical backbone metal receptor proteins...; Region: FhuD; cd01146 504728006078 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 504728006079 siderophore binding site; other site 504728006080 flavodoxin FldA; Validated; Region: PRK09267 504728006081 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 504728006082 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 504728006083 ABC-ATPase subunit interface; other site 504728006084 dimer interface [polypeptide binding]; other site 504728006085 putative PBP binding regions; other site 504728006086 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 504728006087 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 504728006088 Walker A/P-loop; other site 504728006089 ATP binding site [chemical binding]; other site 504728006090 Q-loop/lid; other site 504728006091 ABC transporter signature motif; other site 504728006092 Walker B; other site 504728006093 D-loop; other site 504728006094 H-loop/switch region; other site 504728006095 Fe3+-siderophore binding domain FhuD. These proteins have been shown to function as initial receptors in ABC transport of Fe3+-siderophores in many eubacterial species. They belong to the TroA-like superfamily of helical backbone metal receptor proteins...; Region: FhuD; cd01146 504728006096 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 504728006097 siderophore binding site; other site 504728006098 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 504728006099 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 504728006100 ABC-ATPase subunit interface; other site 504728006101 dimer interface [polypeptide binding]; other site 504728006102 putative PBP binding regions; other site 504728006103 Predicted metal-sulfur cluster biosynthetic enzyme [General function prediction only]; Region: PaaD; COG2151 504728006104 phenylacetate-CoA oxygenase, PaaJ subunit; Region: PA_CoA_Oxy4; TIGR02159 504728006105 Phenylacetic acid catabolic protein; Region: PaaA_PaaC; pfam05138 504728006106 Phenylacetic acid degradation B; Region: PaaB; cl01371 504728006107 Phenylacetic acid degradation B; Region: PaaB; cl01371 504728006108 phenylacetate-CoA oxygenase subunit PaaA; Provisional; Region: paaA; PRK13778 504728006109 phenylacetate-CoA oxygenase, PaaG subunit; Region: PA_CoA_Oxy1; TIGR02156 504728006110 Protein of unknown function (DUF402); Region: DUF402; pfam04167 504728006111 aspartate aminotransferase; Provisional; Region: PRK05764 504728006112 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 504728006113 pyridoxal 5'-phosphate binding site [chemical binding]; other site 504728006114 homodimer interface [polypeptide binding]; other site 504728006115 catalytic residue [active] 504728006116 N-terminal domain of molybdenum-binding protein [General function prediction only]; Region: ModE; cl17549 504728006117 Putative zinc binding domain; Region: Methyltransf_13; pfam08421 504728006118 C-methyltransferase C-terminal domain; Region: Methyltransf_14; pfam08484 504728006119 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 504728006120 threonine synthase; Validated; Region: PRK09225 504728006121 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 504728006122 catalytic residue [active] 504728006123 Homoserine dehydrogenase [Amino acid transport and metabolism]; Region: ThrA; COG0460 504728006124 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 504728006125 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 504728006126 Restriction endonuclease BglII; Region: Endonuc-BglII; pfam09195 504728006127 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 504728006128 DNA methylase; Region: N6_N4_Mtase; pfam01555 504728006129 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 504728006130 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 504728006131 GIY-YIG motif/motif A; other site 504728006132 active site 504728006133 catalytic site [active] 504728006134 putative DNA binding site [nucleotide binding]; other site 504728006135 metal binding site [ion binding]; metal-binding site 504728006136 UvrB/uvrC motif; Region: UVR; pfam02151 504728006137 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 504728006138 NADH-quinone oxidoreductase chain 15; Region: NADH_Oxid_Nqo15; pfam11497 504728006139 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 504728006140 This subfamily contains Escherichia coli WecA, Bacillus subtilis TagO and related proteins. WecA is an UDP-N-acetylglucosamine (GlcNAc):undecaprenyl-phosphate (Und-P) GlcNAc-1-phosphate transferase that catalyzes the formation of a phosphodiester bond...; Region: GT_WecA_like; cd06853 504728006141 Mg++ binding site [ion binding]; other site 504728006142 putative catalytic motif [active] 504728006143 substrate binding site [chemical binding]; other site 504728006144 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 504728006145 active site 504728006146 Phosphotransferase enzyme family; Region: APH; pfam01636 504728006147 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cl17270 504728006148 H+ Antiporter protein; Region: 2A0121; TIGR00900 504728006149 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 504728006150 putative substrate translocation pore; other site 504728006151 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 504728006152 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 504728006153 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 504728006154 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 504728006155 Domain of unknown function (DUF4160); Region: DUF4160; pfam13711 504728006156 DNA polymerase III, delta subunit; Region: holA; TIGR01128 504728006157 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 504728006158 Ca2+/Na+ antiporter [Inorganic ion transport and metabolism]; Region: ECM27; COG0530 504728006159 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 504728006160 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 504728006161 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 504728006162 TaqI-like C-terminal specificity domain; Region: TaqI_C; pfam12950 504728006163 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 504728006164 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 504728006165 active site 504728006166 metal binding site [ion binding]; metal-binding site 504728006167 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 504728006168 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 504728006169 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; COG0312 504728006170 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; COG0312 504728006171 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 504728006172 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 504728006173 Transcriptional regulator [Transcription]; Region: PaiB; COG2808 504728006174 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 504728006175 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 504728006176 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 504728006177 TM-ABC transporter signature motif; other site 504728006178 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 504728006179 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 504728006180 Walker A/P-loop; other site 504728006181 ATP binding site [chemical binding]; other site 504728006182 Q-loop/lid; other site 504728006183 ABC transporter signature motif; other site 504728006184 Walker B; other site 504728006185 D-loop; other site 504728006186 H-loop/switch region; other site 504728006187 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 504728006188 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 504728006189 Walker A/P-loop; other site 504728006190 ATP binding site [chemical binding]; other site 504728006191 Q-loop/lid; other site 504728006192 ABC transporter signature motif; other site 504728006193 Walker B; other site 504728006194 D-loop; other site 504728006195 H-loop/switch region; other site 504728006196 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 504728006197 Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907 504728006198 acyl-activating enzyme (AAE) consensus motif; other site 504728006199 putative AMP binding site [chemical binding]; other site 504728006200 putative active site [active] 504728006201 putative CoA binding site [chemical binding]; other site 504728006202 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 504728006203 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 504728006204 TM-ABC transporter signature motif; other site 504728006205 Asp23 family; Region: Asp23; cl00574 504728006206 transcription antitermination factor NusB; Region: nusB; TIGR01951 504728006207 putative RNA binding site [nucleotide binding]; other site 504728006208 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14173 504728006209 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 504728006210 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 504728006211 homodimer interface [polypeptide binding]; other site 504728006212 NADP binding site [chemical binding]; other site 504728006213 substrate binding site [chemical binding]; other site 504728006214 Divergent PAP2 family; Region: DUF212; pfam02681 504728006215 SCP_bacterial: SCP-like extracellular protein domain, as found in bacteria and archaea. The wider family of SCP containing proteins includes plant pathogenesis-related protein 1 (PR-1), CRISPs, mammalian cysteine-rich secretory proteins, and allergen 5...; Region: SCP_bacterial; cd05379 504728006216 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 504728006217 4Fe-4S binding domain; Region: Fer4; cl02805 504728006218 Cysteine-rich domain; Region: CCG; pfam02754 504728006219 Cysteine-rich domain; Region: CCG; pfam02754 504728006220 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 504728006221 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 504728006222 Walker A/P-loop; other site 504728006223 ATP binding site [chemical binding]; other site 504728006224 Q-loop/lid; other site 504728006225 ABC transporter signature motif; other site 504728006226 Walker B; other site 504728006227 D-loop; other site 504728006228 H-loop/switch region; other site 504728006229 TOBE domain; Region: TOBE; pfam03459 504728006230 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 504728006231 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 504728006232 putative substrate binding site [chemical binding]; other site 504728006233 putative ATP binding site [chemical binding]; other site 504728006234 Uridine kinase [Nucleotide transport and metabolism]; Region: Udk; COG0572 504728006235 Uridine monophosphate kinase (UMPK, EC 2.7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK), catalyzes the reversible phosphoryl transfer from ATP to uridine or cytidine to yield UMP or CMP. In the primidine nucleotide-salvage pathway; Region: UMPK; cd02023 504728006236 ATP-binding site [chemical binding]; other site 504728006237 Sugar specificity; other site 504728006238 Pyrimidine base specificity; other site 504728006239 Polysaccharide pyruvyl transferase family protein [Cell wall/membrane/envelope biogenesis]; Region: WcaK; COG2327 504728006240 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; cl09156 504728006241 methylmalonyl-CoA decarboxylase alpha subunit; Region: mmdA; TIGR01117 504728006242 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 504728006243 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 504728006244 heavy metal translocating P-type ATPase; Region: ATPase-IB_hvy; TIGR01525 504728006245 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 504728006246 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 504728006247 motif II; other site 504728006248 Stage II sporulation protein; Region: SpoIID; pfam08486 504728006249 SpoIID/LytB domain; Region: SpoIID_LytB; TIGR02669 504728006250 ATP-dependent nuclease, subunit B [DNA replication, recombination, and repair]; Region: AddB; COG3857 504728006251 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 504728006252 PyridoxaL 5'-Phosphate Dependent Enzymes class IV (PLPDE_IV). This D-amino acid superfamily, one of five classes of PLPDE, consists of branched-chain amino acid aminotransferases (BCAT), D-amino acid transferases (DAAT), and...; Region: PLPDE_IV; cl00224 504728006253 homodimer interface [polypeptide binding]; other site 504728006254 substrate-cofactor binding pocket; other site 504728006255 pyridoxal 5'-phosphate binding site [chemical binding]; other site 504728006256 catalytic residue [active] 504728006257 Fic/DOC family; Region: Fic; cl00960 504728006258 Part of AAA domain; Region: AAA_19; pfam13245 504728006259 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 504728006260 Family description; Region: UvrD_C_2; pfam13538 504728006261 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 504728006262 Predicted redox protein, regulator of disulfide bond formation [Posttranslational modification, protein turnover, chaperones]; Region: COG1765 504728006263 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 504728006264 classical (c) SDRs; Region: SDR_c; cd05233 504728006265 NAD(P) binding site [chemical binding]; other site 504728006266 active site 504728006267 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 504728006268 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 504728006269 Methylmalonyl-CoA epimerase (MMCE); Region: MMCE; cd07249 504728006270 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 504728006271 dimer interface [polypeptide binding]; other site 504728006272 substrate binding site [chemical binding]; other site 504728006273 metal binding site [ion binding]; metal-binding site 504728006274 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 504728006275 Predicted permeases [General function prediction only]; Region: COG0795 504728006276 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 504728006277 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 504728006278 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 504728006279 tRNA-binding-domain-containing CsaA-like proteins. CsaA is a molecular chaperone with export related activities. CsaA has a putative tRNA binding activity. The functional unit of CsaA is a homodimer and this domain acts as a dimerization domain; Region: tRNA_bind_CsaA; cd02798 504728006280 dimer interface [polypeptide binding]; other site 504728006281 putative tRNA-binding site [nucleotide binding]; other site 504728006282 FOG: CBS domain [General function prediction only]; Region: COG0517 504728006283 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in the acetoin utilization proteins in bacteria. Acetoin is a product of fermentative metabolism in many prokaryotic and eukaryotic microorganisms. They produce...; Region: CBS_pair_ACT_assoc2; cd04585 504728006284 hypothetical protein; Provisional; Region: PRK08609 504728006285 RelA- and SpoT-like ppGpp Synthetases and Hydrolases, catalytic domain; Region: Rel-Spo_like; cl11966 504728006286 metal binding triad [ion binding]; metal-binding site 504728006287 Polymerase and Histidinol Phosphatase domain of bacterial polymerase X; Region: PHP_PolX; cd07436 504728006288 active site 504728006289 histidinol-phosphatase; Provisional; Region: PRK07328 504728006290 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase of Hisj like; Region: PHP_HisPPase_Hisj_like; cd12110 504728006291 active site 504728006292 dimer interface [polypeptide binding]; other site 504728006293 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 504728006294 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 504728006295 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 504728006296 Walker A/P-loop; other site 504728006297 ATP binding site [chemical binding]; other site 504728006298 Q-loop/lid; other site 504728006299 ABC transporter signature motif; other site 504728006300 Walker B; other site 504728006301 D-loop; other site 504728006302 H-loop/switch region; other site 504728006303 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 504728006304 trimer interface [polypeptide binding]; other site 504728006305 dimer interface [polypeptide binding]; other site 504728006306 putative active site [active] 504728006307 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 504728006308 endonuclease III; Region: ENDO3c; smart00478 504728006309 minor groove reading motif; other site 504728006310 helix-hairpin-helix signature motif; other site 504728006311 substrate binding pocket [chemical binding]; other site 504728006312 active site 504728006313 imidazolonepropionase; Validated; Region: PRK09356 504728006314 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 504728006315 active site 504728006316 urocanate hydratase; Provisional; Region: PRK05414 504728006317 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 504728006318 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 504728006319 DNA-binding site [nucleotide binding]; DNA binding site 504728006320 UTRA domain; Region: UTRA; pfam07702 504728006321 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 504728006322 active sites [active] 504728006323 tetramer interface [polypeptide binding]; other site 504728006324 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 504728006325 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 504728006326 Walker A/P-loop; other site 504728006327 ATP binding site [chemical binding]; other site 504728006328 Q-loop/lid; other site 504728006329 ABC transporter signature motif; other site 504728006330 Walker B; other site 504728006331 D-loop; other site 504728006332 H-loop/switch region; other site 504728006333 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 504728006334 inhibitor site; inhibition site 504728006335 active site 504728006336 dimer interface [polypeptide binding]; other site 504728006337 catalytic residue [active] 504728006338 Protein of unknown function (DUF420); Region: DUF420; pfam04238 504728006339 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 504728006340 Pyruvate/2-oxoglutarate dehydrogenase complex, dihydrolipoamide dehydrogenase (E3) component, and related enzymes [Energy production and conversion]; Region: Lpd; COG1249 504728006341 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; cl17730 504728006342 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 504728006343 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 504728006344 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 504728006345 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 504728006346 E3 interaction surface; other site 504728006347 lipoyl attachment site [posttranslational modification]; other site 504728006348 e3 binding domain; Region: E3_binding; pfam02817 504728006349 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 504728006350 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 504728006351 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 504728006352 alpha subunit interface [polypeptide binding]; other site 504728006353 TPP binding site [chemical binding]; other site 504728006354 heterodimer interface [polypeptide binding]; other site 504728006355 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 504728006356 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, alpha subunit [Energy production and conversion]; Region: AcoA; COG1071 504728006357 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 504728006358 tetramer interface [polypeptide binding]; other site 504728006359 TPP-binding site [chemical binding]; other site 504728006360 heterodimer interface [polypeptide binding]; other site 504728006361 phosphorylation loop region [posttranslational modification] 504728006362 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 504728006363 Peptidase S8 family domain, uncharacterized subfamily 13; Region: Peptidases_S8_13; cd07496 504728006364 active site 504728006365 catalytic triad [active] 504728006366 Major Facilitator Superfamily; Region: MFS_1; pfam07690 504728006367 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 504728006368 putative substrate translocation pore; other site 504728006369 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 504728006370 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 504728006371 Cysteine desulfurase (SufS)-like. This family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to cysteine desulfurase (SufS) and selenocysteine lyase. SufS...; Region: SufS_like; cd06453 504728006372 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 504728006373 catalytic residue [active] 504728006374 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 504728006375 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 504728006376 trimerization site [polypeptide binding]; other site 504728006377 active site 504728006378 putative GTP cyclohydrolase; Provisional; Region: PRK13674 504728006379 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK12825 504728006380 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 504728006381 NAD(P) binding site [chemical binding]; other site 504728006382 active site 504728006383 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_37; cd04696 504728006384 nudix motif; other site 504728006385 Domain of unknown function (DUF955); Region: DUF955; cl01076 504728006386 Bacterial transcription activator, effector binding domain; Region: AraC_E_bind; smart00871 504728006387 RibD C-terminal domain; Region: RibD_C; cl17279 504728006388 RibD C-terminal domain; Region: RibD_C; cl17279 504728006389 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 504728006390 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 504728006391 non-specific DNA binding site [nucleotide binding]; other site 504728006392 salt bridge; other site 504728006393 sequence-specific DNA binding site [nucleotide binding]; other site 504728006394 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 504728006395 dimer interface [polypeptide binding]; other site 504728006396 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 504728006397 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 504728006398 dimer interface [polypeptide binding]; other site 504728006399 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 504728006400 Bleomycin binding protein (BLMA) and similar proteins; BLMA confers bleomycin (Bm) resistance by directly binding to Bm; Region: BLMA_like; cd08349 504728006401 ligand binding site [chemical binding]; other site 504728006402 dimer interface [polypeptide binding]; other site 504728006403 This family contains NADPH-dependent flavin reductase and oxygen-insensitive nitroreductase. These enzymes are homodimeric flavoproteins that contain one FMN per monomer as a cofactor. Flavin reductase catalyzes the reduction of flavin by using NADPH as...; Region: NfsA_FRP; cd02146 504728006404 dimer interface [polypeptide binding]; other site 504728006405 FMN binding site [chemical binding]; other site 504728006406 NADPH bind site [chemical binding]; other site 504728006407 Glutamine phosphoribosylpyrophosphate amidotransferase [Nucleotide transport and metabolism]; Region: PurF; COG0034 504728006408 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 504728006409 active site 504728006410 tetramer interface [polypeptide binding]; other site 504728006411 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 504728006412 active site 504728006413 phosphoribosylformylglycinamidine synthase II; Provisional; Region: PRK01213 504728006414 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 504728006415 dimerization interface [polypeptide binding]; other site 504728006416 ATP binding site [chemical binding]; other site 504728006417 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 504728006418 dimerization interface [polypeptide binding]; other site 504728006419 ATP binding site [chemical binding]; other site 504728006420 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 504728006421 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 504728006422 motif II; other site 504728006423 phosphoribosylformylglycinamidine synthase I; Provisional; Region: PRK03619 504728006424 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 504728006425 putative active site [active] 504728006426 catalytic triad [active] 504728006427 Phosphoribosylformylglycinamidine (FGAM) synthase; Region: PurS; cl00789 504728006428 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 504728006429 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 504728006430 ATP binding site [chemical binding]; other site 504728006431 active site 504728006432 substrate binding site [chemical binding]; other site 504728006433 adenylosuccinate lyase; Provisional; Region: PRK07492 504728006434 Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360 504728006435 tetramer interface [polypeptide binding]; other site 504728006436 active site 504728006437 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 504728006438 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 504728006439 motif II; other site 504728006440 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 504728006441 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 504728006442 DNA-binding site [nucleotide binding]; DNA binding site 504728006443 RNA-binding motif; other site 504728006444 Fatty acid desaturase [Lipid metabolism]; Region: DesA; COG3239 504728006445 The Delta6 Fatty Acid Desaturase (Delta6-FADS)-like CD includes the integral-membrane enzymes: delta-4, delta-5, delta-6, delta-8, delta-8-sphingolipid, and delta-11 desaturases found in vertebrates, higher plants, fungi, and bacteria. These desaturases...; Region: Delta6-FADS-like; cd03506 504728006446 putative di-iron ligands [ion binding]; other site 504728006447 HRDC domain; Region: HRDC; pfam00570 504728006448 aspartyl-tRNA synthetase; Provisional; Region: aspC; PRK05159 504728006449 Replication protein A, class 2b aminoacyl-tRNA synthetases, and related proteins with oligonucleotide/oligosaccharide (OB) fold; Region: RPA_2b-aaRSs_OBF_like; cl09930 504728006450 Dimer interface [polypeptide binding]; other site 504728006451 anticodon binding site; other site 504728006452 Asx tRNA synthetase (AspRS/AsnRS) class II core domain. Assignment to class II aminoacyl-tRNA synthetases (aaRS) based upon its structure and the presence of three characteristic sequence motifs in the core domain. This family includes AsnRS as well as...; Region: AsxRS_core; cd00776 504728006453 homodimer interface [polypeptide binding]; other site 504728006454 motif 1; other site 504728006455 motif 2; other site 504728006456 active site 504728006457 motif 3; other site 504728006458 5'-3' exonuclease; Region: 53EXOc; smart00475 504728006459 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 504728006460 active site 504728006461 metal binding site 1 [ion binding]; metal-binding site 504728006462 putative 5' ssDNA interaction site; other site 504728006463 metal binding site 3; metal-binding site 504728006464 metal binding site 2 [ion binding]; metal-binding site 504728006465 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 504728006466 putative DNA binding site [nucleotide binding]; other site 504728006467 putative metal binding site [ion binding]; other site 504728006468 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 504728006469 active site 504728006470 catalytic site [active] 504728006471 substrate binding site [chemical binding]; other site 504728006472 Family A polymerase primarily fills DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A; cl02626 504728006473 active site 504728006474 DNA binding site [nucleotide binding] 504728006475 catalytic site [active] 504728006476 Hedgehog/Intein domain, found in Hedgehog proteins as well as proteins which contain inteins and undergo protein splicing (e.g. DnaB, RIR1-2, GyrA and Pol). In protein splicing an intervening polypeptide sequence - the intein - is excised from a protein; Region: Hint; cd00081 504728006477 protein-splicing catalytic site; other site 504728006478 thioester formation/cholesterol transfer; other site 504728006479 Hint (Hedgehog/Intein) domain C-terminal region; Region: HintC; smart00305 504728006480 Family A polymerase primarily fills DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A; cl02626 504728006481 3-hydroxybutyryl-CoA dehydratase; Validated; Region: PRK05809 504728006482 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 504728006483 substrate binding site [chemical binding]; other site 504728006484 oxyanion hole (OAH) forming residues; other site 504728006485 trimer interface [polypeptide binding]; other site 504728006486 2-enoyl-CoA Hydratase C-terminal region; Region: ECH_C; pfam13766 504728006487 HD supefamily hydrolase [General function prediction only]; Region: COG3294 504728006488 Transcriptional regulator [Transcription]; Region: LytR; COG1316 504728006489 Phosphoribosylpyrophosphate synthetase [Nucleotide transport and metabolism / Amino acid transport and metabolism]; Region: PrsA; COG0462 504728006490 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 504728006491 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 504728006492 active site 504728006493 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 504728006494 Metallopeptidase family M24; Region: Peptidase_M24; pfam00557 504728006495 active site 504728006496 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 504728006497 potential frameshift: common BLAST hit: gi|384431816|ref|YP_005641176.1| ABC transporter periplasmic protein 504728006498 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 504728006499 The substrate-binding component of ABC-type thermophilic oligopeptide-binding protein Hb8-like import systems, contains the type 2 periplasmic binding fold; Region: PBP2_thermophilic_Hb8_like; cd08513 504728006500 peptide binding site [polypeptide binding]; other site 504728006501 dimer interface [polypeptide binding]; other site 504728006502 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 504728006503 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 504728006504 dimer interface [polypeptide binding]; other site 504728006505 conserved gate region; other site 504728006506 putative PBP binding loops; other site 504728006507 ABC-ATPase subunit interface; other site 504728006508 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 504728006509 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 504728006510 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 504728006511 putative PBP binding loops; other site 504728006512 dimer interface [polypeptide binding]; other site 504728006513 ABC-ATPase subunit interface; other site 504728006514 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 504728006515 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 504728006516 dimerization interface 3.5A [polypeptide binding]; other site 504728006517 active site 504728006518 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 504728006519 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 504728006520 Walker A/P-loop; other site 504728006521 ATP binding site [chemical binding]; other site 504728006522 Q-loop/lid; other site 504728006523 ABC transporter signature motif; other site 504728006524 Walker B; other site 504728006525 D-loop; other site 504728006526 H-loop/switch region; other site 504728006527 TOBE domain; Region: TOBE_2; pfam08402 504728006528 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 504728006529 putative PBP binding loops; other site 504728006530 ABC-ATPase subunit interface; other site 504728006531 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 504728006532 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 504728006533 dimer interface [polypeptide binding]; other site 504728006534 conserved gate region; other site 504728006535 putative PBP binding loops; other site 504728006536 ABC-ATPase subunit interface; other site 504728006537 YwiC-like protein; Region: YwiC; pfam14256 504728006538 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 504728006539 MgtE intracellular N domain; Region: MgtE_N; cl15244 504728006540 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domain in the magnesium transporter, MgtE. MgtE and its homologs are found in eubacteria, archaebacteria, and eukaryota. Members of this family transport Mg2+ or other...; Region: CBS_pair_Mg_transporter; cd04606 504728006541 Predicted membrane protein [Function unknown]; Region: COG2860 504728006542 UPF0126 domain; Region: UPF0126; pfam03458 504728006543 UPF0126 domain; Region: UPF0126; pfam03458 504728006544 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 504728006545 homotrimer interaction site [polypeptide binding]; other site 504728006546 zinc binding site [ion binding]; other site 504728006547 CDP-binding sites; other site 504728006548 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 504728006549 acetyl-CoA acetyltransferases; Region: AcCoA-C-Actrans; TIGR01930 504728006550 dimer interface [polypeptide binding]; other site 504728006551 active site 504728006552 short chain dehydrogenase; Provisional; Region: PRK07677 504728006553 Trans-2-enoyl-CoA reductase (TER) and 2,4-dienoyl-CoA reductase (DECR), atypical (a) SDR; Region: TER_DECR_SDR_a; cd05369 504728006554 NAD(P) binding site [chemical binding]; other site 504728006555 substrate binding site [chemical binding]; other site 504728006556 homotetramer interface [polypeptide binding]; other site 504728006557 active site 504728006558 homodimer interface [polypeptide binding]; other site 504728006559 FUN14 family; Region: FUN14; pfam04930 504728006560 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 504728006561 active site 504728006562 catalytic residues [active] 504728006563 metal binding site [ion binding]; metal-binding site 504728006564 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4634 504728006565 Protein of unknown function (DUF433); Region: DUF433; pfam04255 504728006566 Uncharacterized conserved protein [Function unknown]; Region: LemA; COG1704 504728006567 Predicted membrane protein (DUF2207); Region: DUF2207; pfam09972 504728006568 Predicted membrane protein (DUF2207); Region: DUF2207; pfam09972 504728006569 Predicted membrane protein [Function unknown]; Region: COG4907 504728006570 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl17215 504728006571 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 504728006572 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 504728006573 NAD(P) binding site [chemical binding]; other site 504728006574 active site 504728006575 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 504728006576 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 504728006577 active site 504728006578 metal binding site [ion binding]; metal-binding site 504728006579 Thermus thermophilus TTHA0053 and related proteins, metallophosphatase domain; Region: MPP_TTHA0053; cd07403 504728006580 putative active site [active] 504728006581 Phosphomannose isomerase [Carbohydrate transport and metabolism]; Region: ManA; COG1482 504728006582 Alpha-Mannosidase Binding Domain of Atg19/34; Region: ABD; cl15429 504728006583 Peroxiredoxin (PRX)-like 1 family; hypothetical proteins that show sequence similarity to PRXs. Members of this group contain a conserved cysteine that aligns to the first cysteine in the CXXC motif of TRX. This does not correspond to the peroxidatic...; Region: PRX_like1; cd02969 504728006584 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 504728006585 putative catalytic residue [active] 504728006586 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 504728006587 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 504728006588 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 504728006589 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 504728006590 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 504728006591 Protein of unknown function (DUF1517); Region: DUF1517; pfam07466 504728006592 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 504728006593 Found in ATP-dependent protease La (LON); Region: LON; smart00464 504728006594 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 504728006595 Walker A motif; other site 504728006596 ATP binding site [chemical binding]; other site 504728006597 Walker B motif; other site 504728006598 arginine finger; other site 504728006599 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 504728006600 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 504728006601 Zn-dependent dipeptidase, microsomal dipeptidase homolog [Amino acid transport and metabolism]; Region: COG2355 504728006602 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 504728006603 active site 504728006604 Acyltransferase family; Region: Acyl_transf_3; pfam01757 504728006605 Fucose 4-O-acetylase and related acetyltransferases [Carbohydrate transport and metabolism]; Region: NolL; COG3594 504728006606 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 504728006607 cryptochrome, DASH family; Region: crypto_DASH; TIGR02765 504728006608 DNA photolyase; Region: DNA_photolyase; pfam00875 504728006609 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 504728006610 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 504728006611 metal binding site [ion binding]; metal-binding site 504728006612 active site 504728006613 I-site; other site 504728006614 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 504728006615 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 504728006616 HIGH motif; other site 504728006617 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 504728006618 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 504728006619 active site 504728006620 KMSKS motif; other site 504728006621 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 504728006622 tRNA binding surface [nucleotide binding]; other site 504728006623 anticodon binding site; other site 504728006624 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 504728006625 Maf-like protein; Region: Maf; pfam02545 504728006626 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 504728006627 active site 504728006628 dimer interface [polypeptide binding]; other site 504728006629 Catalytic domain of EDTA-resistant nuclease Nuc, vertebrate phospholipase D6, and similar proteins; Region: PLDc_Nuc_like; cd09116 504728006630 PLD-like domain; Region: PLDc_2; pfam13091 504728006631 putative active site [active] 504728006632 catalytic site [active] 504728006633 Catalytic domain of EDTA-resistant nuclease Nuc from Salmonella typhimurium and similar proteins; Region: PLDc_Nuc; cd09170 504728006634 PLD-like domain; Region: PLDc_2; pfam13091 504728006635 putative active site [active] 504728006636 catalytic site [active] 504728006637 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 504728006638 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 504728006639 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 504728006640 DNA binding site [nucleotide binding] 504728006641 active site 504728006642 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 504728006643 Periplasmic binding domain of basic membrane lipoprotein, PnrA, in Treponema pallidum and its homologs from other bacteria and Archaea; Region: PBP1_BmpA_PnrA_like; cd06354 504728006644 ligand binding site [chemical binding]; other site 504728006645 Aldehyde dehydrogenase family 16A1-like; Region: ALDH_F16; cd07111 504728006646 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 504728006647 NAD(P) binding site [chemical binding]; other site 504728006648 catalytic residues [active] 504728006649 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 504728006650 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 504728006651 NAD(P) binding site [chemical binding]; other site 504728006652 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 504728006653 intersubunit interface [polypeptide binding]; other site 504728006654 active site 504728006655 catalytic residue [active] 504728006656 lysine biosynthesis protein LysW; Region: lysW; TIGR01206 504728006657 Transcriptional regulator [Transcription]; Region: LytR; COG1316 504728006658 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 504728006659 Zn2+ binding site [ion binding]; other site 504728006660 Mg2+ binding site [ion binding]; other site 504728006661 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 504728006662 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 504728006663 GTPase CgtA; Reviewed; Region: obgE; PRK12297 504728006664 GTP1/OBG; Region: GTP1_OBG; pfam01018 504728006665 Obg GTPase; Region: Obg; cd01898 504728006666 G1 box; other site 504728006667 GTP/Mg2+ binding site [chemical binding]; other site 504728006668 Switch I region; other site 504728006669 G2 box; other site 504728006670 G3 box; other site 504728006671 Switch II region; other site 504728006672 G4 box; other site 504728006673 G5 box; other site 504728006674 Obg family GTPase CgtA, C-terminal extension; Region: Obg_CgtA_exten; TIGR03595 504728006675 iojap-like ribosome-associated protein; Region: iojap_ybeB; TIGR00090 504728006676 pilus retraction protein PilT; Region: pilT_fam; TIGR01420 504728006677 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 504728006678 Walker A motif; other site 504728006679 ATP binding site [chemical binding]; other site 504728006680 Walker B motif; other site 504728006681 Domain of unknown function (DUF3448); Region: DUF3448; pfam11930 504728006682 acetate--CoA ligase; Region: Ac_CoA_lig_AcsA; TIGR02188 504728006683 Uncharacterized acyl-CoA synthetase subfamily similar to Acetoacetyl-CoA synthetase; Region: AACS_like; cd05968 504728006684 acyl-activating enzyme (AAE) consensus motif; other site 504728006685 putative AMP binding site [chemical binding]; other site 504728006686 putative active site [active] 504728006687 putative CoA binding site [chemical binding]; other site 504728006688 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 504728006689 Catalytic domain of Protein Kinases; Region: PKc; cd00180 504728006690 active site 504728006691 ATP binding site [chemical binding]; other site 504728006692 substrate binding site [chemical binding]; other site 504728006693 activation loop (A-loop); other site 504728006694 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 504728006695 metal-dependent hydrolase; Provisional; Region: PRK00685 504728006696 Protein of unknown function (DUF3809); Region: DUF3809; pfam12723 504728006697 Protein of unknown function (DUF3248); Region: DUF3248; pfam11609 504728006698 MobA-like NTP transferase domain; Region: NTP_transf_3; pfam12804 504728006699 active site 504728006700 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 504728006701 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 504728006702 Walker A motif; other site 504728006703 ATP binding site [chemical binding]; other site 504728006704 Walker B motif; other site 504728006705 Transposase IS200 like; Region: Y1_Tnp; pfam01797 504728006706 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 504728006707 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 504728006708 Probable transposase; Region: OrfB_IS605; pfam01385 504728006709 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 504728006710 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 504728006711 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 504728006712 active site 504728006713 Zn binding site [ion binding]; other site 504728006714 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 504728006715 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 504728006716 inhibitor-cofactor binding pocket; inhibition site 504728006717 pyridoxal 5'-phosphate binding site [chemical binding]; other site 504728006718 catalytic residue [active] 504728006719 Predicted permeases [General function prediction only]; Region: COG0795 504728006720 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 504728006721 A family including aminopeptidase P, aminopeptidase M, and prolidase. Also known as metallopeptidase family M24. This family of enzymes is able to cleave amido-, imido- and amidino-containing bonds. Members exibit relatively narrow substrate specificity...; Region: APP_MetAP; cl00279 504728006722 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 504728006723 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 504728006724 active site 504728006725 metal binding site [ion binding]; metal-binding site 504728006726 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 504728006727 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 504728006728 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 504728006729 motif II; other site 504728006730 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 504728006731 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 504728006732 substrate binding pocket [chemical binding]; other site 504728006733 membrane-bound complex binding site; other site 504728006734 hinge residues; other site 504728006735 ABC-type phosphate/phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: COG3638 504728006736 ATP-binding cassette domain of the binding protein-dependent phosphonate transport system; Region: ABC_PhnC_transporter; cd03256 504728006737 Walker A/P-loop; other site 504728006738 ATP binding site [chemical binding]; other site 504728006739 Q-loop/lid; other site 504728006740 ABC transporter signature motif; other site 504728006741 Walker B; other site 504728006742 D-loop; other site 504728006743 H-loop/switch region; other site 504728006744 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 504728006745 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 504728006746 dimer interface [polypeptide binding]; other site 504728006747 conserved gate region; other site 504728006748 ABC-ATPase subunit interface; other site 504728006749 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 504728006750 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 504728006751 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 504728006752 DNA Polymerase alpha zinc finger; Region: zf-DNA_Pol; pfam08996 504728006753 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 504728006754 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 504728006755 Peptidase family M23; Region: Peptidase_M23; pfam01551 504728006756 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 504728006757 TATA element modulatory factor 1 DNA binding; Region: TMF_DNA_bd; pfam12329 504728006758 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 504728006759 Peptidase family M23; Region: Peptidase_M23; pfam01551 504728006760 Uridine phosphorylase [Nucleotide transport and metabolism]; Region: Udp; COG2820 504728006761 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 504728006762 anhydro-N-acetylmuramic acid kinase; Reviewed; Region: anmK; PRK09585 504728006763 Beta-lactamase; Region: Beta-lactamase; pfam00144 504728006764 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 504728006765 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 504728006766 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 504728006767 generic binding surface II; other site 504728006768 ssDNA binding site; other site 504728006769 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 504728006770 ATP binding site [chemical binding]; other site 504728006771 putative Mg++ binding site [ion binding]; other site 504728006772 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 504728006773 nucleotide binding region [chemical binding]; other site 504728006774 ATP-binding site [chemical binding]; other site 504728006775 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 504728006776 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 504728006777 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 504728006778 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 504728006779 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 504728006780 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 504728006781 Uncharacterized protein with SCP/PR1 domains [Function unknown]; Region: COG2340 504728006782 SCP_bacterial: SCP-like extracellular protein domain, as found in bacteria and archaea. The wider family of SCP containing proteins includes plant pathogenesis-related protein 1 (PR-1), CRISPs, mammalian cysteine-rich secretory proteins, and allergen 5...; Region: SCP_bacterial; cd05379 504728006783 Uncharacterized protein with SCP/PR1 domains [Function unknown]; Region: COG2340 504728006784 SCP_bacterial: SCP-like extracellular protein domain, as found in bacteria and archaea. The wider family of SCP containing proteins includes plant pathogenesis-related protein 1 (PR-1), CRISPs, mammalian cysteine-rich secretory proteins, and allergen 5...; Region: SCP_bacterial; cd05379 504728006785 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 504728006786 EamA-like transporter family; Region: EamA; pfam00892 504728006787 EamA-like transporter family; Region: EamA; pfam00892 504728006788 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 504728006789 active site 504728006790 catalytic residues [active] 504728006791 metal binding site [ion binding]; metal-binding site 504728006792 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 504728006793 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 504728006794 putative active site [active] 504728006795 substrate binding site [chemical binding]; other site 504728006796 putative cosubstrate binding site; other site 504728006797 catalytic site [active] 504728006798 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 504728006799 substrate binding site [chemical binding]; other site 504728006800 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 504728006801 Catalytic domain of Protein Kinases; Region: PKc; cd00180 504728006802 active site 504728006803 ATP binding site [chemical binding]; other site 504728006804 substrate binding site [chemical binding]; other site 504728006805 activation loop (A-loop); other site 504728006806 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 504728006807 PQQ-like domain; Region: PQQ_2; pfam13360 504728006808 Trp docking motif [polypeptide binding]; other site 504728006809 active site 504728006810 Predicted ATPase [General function prediction only]; Region: COG4637 504728006811 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 504728006812 Walker A/P-loop; other site 504728006813 ATP binding site [chemical binding]; other site 504728006814 Domain of unknown function (DUF4276); Region: DUF4276; pfam14103 504728006815 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 504728006816 Family description; Region: UvrD_C_2; pfam13538 504728006817 GAF domain-containing protein [Signal transduction mechanisms]; Region: COG1956 504728006818 GAF domain; Region: GAF_2; pfam13185 504728006819 GAF domain; Region: GAF_3; pfam13492 504728006820 GAF domain; Region: GAF; cl17456 504728006821 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 504728006822 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 504728006823 metal binding site [ion binding]; metal-binding site 504728006824 active site 504728006825 I-site; other site 504728006826 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 504728006827 PAS domain; Region: PAS_9; pfam13426 504728006828 putative active site [active] 504728006829 heme pocket [chemical binding]; other site 504728006830 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 504728006831 GAF domain; Region: GAF; cl17456 504728006832 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 504728006833 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 504728006834 Predicted transcriptional regulator [Transcription]; Region: COG2345 504728006835 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 504728006836 putative DNA binding site [nucleotide binding]; other site 504728006837 putative Zn2+ binding site [ion binding]; other site 504728006838 Domain of unknown function DUF59; Region: DUF59; pfam01883 504728006839 antiporter inner membrane protein; Provisional; Region: PRK11670 504728006840 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 504728006841 Secreted and surface protein containing fasciclin-like repeats [Cell envelope biogenesis, outer membrane]; Region: COG2335 504728006842 Fasciclin domain; Region: Fasciclin; pfam02469 504728006843 Domain of unknown function (DUF4397); Region: DUF4397; pfam14344 504728006844 Domain of unknown function (DUF4397); Region: DUF4397; pfam14344 504728006845 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 504728006846 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 504728006847 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 504728006848 Uncharacterized protein related to deoxyribodipyrimidine photolyase [General function prediction only]; Region: COG3046 504728006849 Deoxyribodipyrimidine photo-lyase-related protein; Region: DPRP; pfam04244 504728006850 PAS domain S-box; Region: sensory_box; TIGR00229 504728006851 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 504728006852 putative active site [active] 504728006853 heme pocket [chemical binding]; other site 504728006854 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 504728006855 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 504728006856 metal binding site [ion binding]; metal-binding site 504728006857 active site 504728006858 I-site; other site 504728006859 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 504728006860 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl17483 504728006861 Putative addiction module component; Region: Unstab_antitox; cl09921 504728006862 short chain dehydrogenase; Provisional; Region: PRK08219 504728006863 Tthb094 and related proteins, classical (c) SDRs; Region: Tthb094_like_SDR_c; cd11730 504728006864 NAD(P) binding site [chemical binding]; other site 504728006865 putative active site [active] 504728006866 YceI-like domain; Region: YceI; pfam04264 504728006867 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 504728006868 FAD binding domain; Region: FAD_binding_4; pfam01565 504728006869 monogalactosyldiacylglycerol synthase; Region: PLN02605 504728006870 Monogalactosyldiacylglycerol (MGDG) synthase; Region: MGDG_synth; pfam06925 504728006871 Glycosyltransferase family 28 C-terminal domain; Region: Glyco_tran_28_C; cl17369 504728006872 voltage-dependent potassium channel beta subunit, animal; Region: Kv_beta; TIGR01293 504728006873 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 504728006874 active site 504728006875 catalytic tetrad [active] 504728006876 Iron-binding zinc finger CDGSH type; Region: zf-CDGSH; pfam09360 504728006877 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 504728006878 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 504728006879 active site 504728006880 metal binding site [ion binding]; metal-binding site 504728006881 Protein related to penicillin acylase [General function prediction only]; Region: COG2366 504728006882 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 504728006883 active site 504728006884 Penicillin G acylase (PGA) belongs to a family of beta-lactam acylases that includes cephalosporin acylase (CA) and aculeacin A acylase. PGA and CA are crucial for the production of backbone chemicals like 6-aminopenicillanic acid and...; Region: Ntn_PGA_like; cd03747 504728006885 active site 504728006886 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 504728006887 DNA-binding site [nucleotide binding]; DNA binding site 504728006888 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 504728006889 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 504728006890 Walker A/P-loop; other site 504728006891 ATP binding site [chemical binding]; other site 504728006892 Q-loop/lid; other site 504728006893 ABC transporter signature motif; other site 504728006894 Walker B; other site 504728006895 D-loop; other site 504728006896 H-loop/switch region; other site 504728006897 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 504728006898 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 504728006899 HlyD family secretion protein; Region: HlyD_3; pfam13437 504728006900 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 504728006901 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 504728006902 Walker A/P-loop; other site 504728006903 ATP binding site [chemical binding]; other site 504728006904 Q-loop/lid; other site 504728006905 ABC transporter signature motif; other site 504728006906 Walker B; other site 504728006907 D-loop; other site 504728006908 H-loop/switch region; other site 504728006909 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 504728006910 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 504728006911 FtsX-like permease family; Region: FtsX; pfam02687 504728006912 Pectinacetylesterase; Region: PAE; pfam03283 504728006913 Protein related to penicillin acylase [General function prediction only]; Region: COG2366 504728006914 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 504728006915 Penicillin G acylase (PGA) belongs to a family of beta-lactam acylases that includes cephalosporin acylase (CA) and aculeacin A acylase. PGA and CA are crucial for the production of backbone chemicals like 6-aminopenicillanic acid and...; Region: Ntn_PGA_like; cd03747 504728006916 active site 504728006917 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 504728006918 CoA-transferase family III; Region: CoA_transf_3; pfam02515 504728006919 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 504728006920 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 504728006921 NAD(P) binding site [chemical binding]; other site 504728006922 active site 504728006923 FAD binding domain; Region: FAD_binding_4; pfam01565 504728006924 glycolate oxidase, subunit GlcD; Region: glcD; TIGR00387 504728006925 Uncharacterized conserved protein [Function unknown]; Region: COG2947 504728006926 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 504728006927 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 504728006928 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 504728006929 Putative transcriptional regulators (Ypuh-like); Region: DUF387; pfam04079 504728006930 Phosphosulfolactate phosphohydrolase and related enzymes [Coenzyme metabolism / General function prediction only]; Region: COG2045 504728006931 2-phosphosulpholactate phosphatase; Region: 2-ph_phosp; cl00895 504728006932 Teichoic acid biosynthesis proteins [Cell envelope biogenesis, outer membrane]; Region: WecG; COG1922 504728006933 The glycosyltransferase WecG/TagA superfamily contains Escherichia coli WecG, Bacillus subtilis TagA and related proteins. E. coli WecG is believed to be a UDP-N-acetyl-D-mannosaminuronic acid transferase, and is involved in enterobacterial common...; Region: Glyco_transf_WecG_TagA; cd06533 504728006934 peptidylprolyl isomerase; Provisional; Region: prsA; PRK00059 504728006935 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 504728006936 Protoporphyrinogen oxidase [Coenzyme metabolism]; Region: HemY; COG1232 504728006937 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 504728006938 cell division ATP-binding protein FtsE; Region: FtsE; TIGR02673 504728006939 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 504728006940 Walker A/P-loop; other site 504728006941 ATP binding site [chemical binding]; other site 504728006942 Q-loop/lid; other site 504728006943 ABC transporter signature motif; other site 504728006944 Walker B; other site 504728006945 D-loop; other site 504728006946 H-loop/switch region; other site 504728006947 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 504728006948 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 504728006949 ligand binding site [chemical binding]; other site 504728006950 flexible hinge region; other site 504728006951 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 504728006952 putative switch regulator; other site 504728006953 non-specific DNA interactions [nucleotide binding]; other site 504728006954 DNA binding site [nucleotide binding] 504728006955 sequence specific DNA binding site [nucleotide binding]; other site 504728006956 putative cAMP binding site [chemical binding]; other site 504728006957 2-phosphosulfolactate phosphatase; Provisional; Region: PRK14100 504728006958 2-phosphosulpholactate phosphatase; Region: 2-ph_phosp; pfam04029 504728006959 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 504728006960 AsnRS_cyto_like_N: N-terminal, anticodon recognition domain of the type found in human and Saccharomyces cerevisiae cytoplasmic asparaginyl-tRNA synthetase (AsnRS), in Brugia malayai AsnRs and, in various putative bacterial AsnRSs. This domain is a...; Region: AsnRS_cyto_like_N; cd04323 504728006961 putative dimer interface [polypeptide binding]; other site 504728006962 putative anticodon binding site; other site 504728006963 Asx tRNA synthetase (AspRS/AsnRS) class II core domain. Assignment to class II aminoacyl-tRNA synthetases (aaRS) based upon its structure and the presence of three characteristic sequence motifs in the core domain. This family includes AsnRS as well as...; Region: AsxRS_core; cd00776 504728006964 homodimer interface [polypeptide binding]; other site 504728006965 motif 1; other site 504728006966 motif 2; other site 504728006967 active site 504728006968 motif 3; other site 504728006969 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 504728006970 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE3; Region: PHP_PolIIIA_DnaE3; cd12113 504728006971 active site 504728006972 PHP Thumb interface [polypeptide binding]; other site 504728006973 metal binding site [ion binding]; metal-binding site 504728006974 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 504728006975 generic binding surface II; other site 504728006976 generic binding surface I; other site 504728006977 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 504728006978 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 504728006979 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 504728006980 Walker A/P-loop; other site 504728006981 ATP binding site [chemical binding]; other site 504728006982 Q-loop/lid; other site 504728006983 ABC transporter signature motif; other site 504728006984 Walker B; other site 504728006985 D-loop; other site 504728006986 H-loop/switch region; other site 504728006987 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 504728006988 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 504728006989 Walker A/P-loop; other site 504728006990 ATP binding site [chemical binding]; other site 504728006991 Q-loop/lid; other site 504728006992 ABC transporter signature motif; other site 504728006993 Walker B; other site 504728006994 D-loop; other site 504728006995 H-loop/switch region; other site 504728006996 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 504728006997 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 504728006998 TM-ABC transporter signature motif; other site 504728006999 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 504728007000 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 504728007001 TM-ABC transporter signature motif; other site 504728007002 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 504728007003 Type I periplasmic binding component of active transport systems that are predicted to be involved in 2-nitrobenzoic acid degradation pathway; Region: PBP1_Nba_like; cd06359 504728007004 putative ligand binding site [chemical binding]; other site 504728007005 tryptophan 2,3-dioxygenase; Region: trp_2_3_diox; TIGR03036 504728007006 Kynureninase [Amino acid transport and metabolism]; Region: COG3844 504728007007 kynureninase; Region: kynureninase; TIGR01814 504728007008 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 504728007009 catalytic residue [active] 504728007010 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 504728007011 homotrimer interaction site [polypeptide binding]; other site 504728007012 putative active site [active] 504728007013 2-aminobenzoate-CoA ligase (ABCL); Region: ABCL; cd05958 504728007014 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 504728007015 putative dimer interface [polypeptide binding]; other site 504728007016 acyl-activating enzyme (AAE) consensus motif; other site 504728007017 putative active site [active] 504728007018 putative AMP binding site [chemical binding]; other site 504728007019 putative CoA binding site [chemical binding]; other site 504728007020 putative chemical substrate binding site [chemical binding]; other site 504728007021 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 504728007022 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 504728007023 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 504728007024 active site 504728007025 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 504728007026 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 504728007027 substrate binding site [chemical binding]; other site 504728007028 oxyanion hole (OAH) forming residues; other site 504728007029 trimer interface [polypeptide binding]; other site 504728007030 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 504728007031 MarR family; Region: MarR; pfam01047 504728007032 short chain dehydrogenase; Provisional; Region: PRK08265 504728007033 classical (c) SDRs; Region: SDR_c; cd05233 504728007034 NAD(P) binding site [chemical binding]; other site 504728007035 active site 504728007036 salicylyl-CoA 5-hydroxylase; Reviewed; Region: PRK08255 504728007037 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 504728007038 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 504728007039 active site 504728007040 FMN binding site [chemical binding]; other site 504728007041 substrate binding site [chemical binding]; other site 504728007042 homotetramer interface [polypeptide binding]; other site 504728007043 catalytic residue [active] 504728007044 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 504728007045 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 504728007046 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 504728007047 Predicted acetamidase/formamidase [Energy production and conversion]; Region: COG2421 504728007048 MoxR-like ATPases [General function prediction only]; Region: COG0714 504728007049 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 504728007050 Walker A motif; other site 504728007051 ATP binding site [chemical binding]; other site 504728007052 Walker B motif; other site 504728007053 arginine finger; other site 504728007054 UGMP family protein; Validated; Region: PRK09604 504728007055 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl17884 504728007056 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 504728007057 SecA DEAD-like domain; Region: SecA_DEAD; smart00957 504728007058 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 504728007059 SecA Wing and Scaffold domain; Region: SecA_SW; pfam07516 504728007060 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 504728007061 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 504728007062 putative active site [active] 504728007063 putative metal binding site [ion binding]; other site 504728007064 prephenate dehydrogenase; Validated; Region: PRK06545 504728007065 prephenate dehydrogenase; Validated; Region: PRK08507 504728007066 C-terminal ACT domain of the monofunctional, NAD dependent, prephenate dehydrogenase (PDH); Region: ACT_PDH-BS; cd04909 504728007067 3-deoxy-7-phosphoheptulonate synthase; Reviewed; Region: PRK08673 504728007068 3-deoxy-D-manno-octulosonic acid (KDO) 8-phosphate synthase [Cell envelope biogenesis, outer membrane]; Region: KdsA; cl17225 504728007069 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 504728007070 CoenzymeA binding site [chemical binding]; other site 504728007071 subunit interaction site [polypeptide binding]; other site 504728007072 PHB binding site; other site 504728007073 von Willebrand factor type A domain; Region: VWA_2; pfam13519 504728007074 Elongation factor G (EF-G) family; Region: EF-G_bact; cd04170 504728007075 elongation factor G; Reviewed; Region: PRK12740 504728007076 G1 box; other site 504728007077 putative GEF interaction site [polypeptide binding]; other site 504728007078 GTP/Mg2+ binding site [chemical binding]; other site 504728007079 Switch I region; other site 504728007080 G2 box; other site 504728007081 G3 box; other site 504728007082 Switch II region; other site 504728007083 G4 box; other site 504728007084 G5 box; other site 504728007085 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 504728007086 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 504728007087 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 504728007088 Multiple antibiotic transporter [Intracellular trafficking and secretion]; Region: MarC; COG2095 504728007089 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 504728007090 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 504728007091 Walker A/P-loop; other site 504728007092 ATP binding site [chemical binding]; other site 504728007093 Q-loop/lid; other site 504728007094 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 504728007095 ABC transporter signature motif; other site 504728007096 Walker B; other site 504728007097 D-loop; other site 504728007098 H-loop/switch region; other site 504728007099 Arginine repressor [Transcription]; Region: ArgR; COG1438 504728007100 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 504728007101 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 504728007102 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 504728007103 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 504728007104 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 504728007105 catalytic site [active] 504728007106 G-X2-G-X-G-K; other site 504728007107 Alpha amylase catalytic domain found in cyclomaltodextrinases and related proteins; Region: AmyAc_CMD; cd11338 504728007108 active site 504728007109 homodimer interface [polypeptide binding]; other site 504728007110 catalytic site [active] 504728007111 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 504728007112 Class II ribonucleotide reductase, dimeric form; Region: RNR_II_dimer; cd02888 504728007113 effector binding site; other site 504728007114 dimer interface [polypeptide binding]; other site 504728007115 active site 504728007116 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 504728007117 TSCPD domain; Region: TSCPD; pfam12637 504728007118 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 504728007119 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 504728007120 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 504728007121 dimer interface [polypeptide binding]; other site 504728007122 conserved gate region; other site 504728007123 putative PBP binding loops; other site 504728007124 ABC-ATPase subunit interface; other site 504728007125 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 504728007126 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 504728007127 dimer interface [polypeptide binding]; other site 504728007128 conserved gate region; other site 504728007129 putative PBP binding loops; other site 504728007130 ABC-ATPase subunit interface; other site 504728007131 Alpha-glucosidases, family 31 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: COG1501 504728007132 Galactose mutarotase-like; Region: Gal_mutarotas_2; pfam13802 504728007133 Alpha-glucosidase II (alpha-D-glucoside glucohydrolase) is a glycosyl hydrolase family 31 (GH31) enzyme, found in bacteria and plants, which has exo-alpha-1,4-glucosidase and oligo-1,6-glucosidase activities. Alpha-glucosidase II has been characterized...; Region: GH31_glucosidase_II_MalA; cd06604 504728007134 trimer interface [polypeptide binding]; other site 504728007135 active site 504728007136 homohexamer (dimer of homotrimer) interface [polypeptide binding]; other site 504728007137 catalytic site [active] 504728007138 Zn-dependent carboxypeptidase [Amino acid transport and metabolism]; Region: COG2317 504728007139 Peptidase family M32 includes thermostable carboxypeptidases TaqCP and PfuCP; Region: M32_Taq; cd06460 504728007140 active site 504728007141 Zn binding site [ion binding]; other site 504728007142 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 504728007143 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 504728007144 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 504728007145 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 504728007146 FMN binding site [chemical binding]; other site 504728007147 active site 504728007148 catalytic residues [active] 504728007149 substrate binding site [chemical binding]; other site 504728007150 Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]; Region: Smf; COG0758 504728007151 DNA protecting protein DprA; Region: dprA; TIGR00732 504728007152 GTPase Era; Reviewed; Region: era; PRK00089 504728007153 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 504728007154 G1 box; other site 504728007155 GTP/Mg2+ binding site [chemical binding]; other site 504728007156 Switch I region; other site 504728007157 G2 box; other site 504728007158 Switch II region; other site 504728007159 G3 box; other site 504728007160 G4 box; other site 504728007161 G5 box; other site 504728007162 KH domain; Region: KH_2; pfam07650 504728007163 Protein of unknown function (DUF2905); Region: DUF2905; pfam11146 504728007164 superfamily containing globins and truncated hemoglobins; Region: globin_like; cl00280 504728007165 heme-binding site [chemical binding]; other site 504728007166 deoxyhypusine synthase; Region: dhys; TIGR00321 504728007167 Deoxyhypusine synthase; Region: DS; cl00826 504728007168 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 504728007169 Transcriptional regulator [Transcription]; Region: IclR; COG1414 504728007170 Bacterial transcriptional regulator; Region: IclR; pfam01614 504728007171 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 504728007172 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 504728007173 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 504728007174 LamB/YcsF family of lactam utilization protein; Region: LamB_YcsF_like; cd10787 504728007175 putative active site [active] 504728007176 Allophanate hydrolase subunit 1; Region: AHS1; pfam02682 504728007177 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; cl00896 504728007178 Allophanate hydrolase subunit 2; Region: AHS2; cl00865 504728007179 potential frameshift: common BLAST hit: gi|320451256|ref|YP_004203352.1| tetratricopeptide repeat domain-containing protein 504728007180 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 504728007181 active site 504728007182 dimer interface [polypeptide binding]; other site 504728007183 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4222 504728007184 L-asparaginase II; Region: Asparaginase_II; pfam06089 504728007185 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 504728007186 Alkaline phosphatase [Inorganic ion transport and metabolism]; Region: PhoA; COG1785 504728007187 active site 504728007188 dimer interface [polypeptide binding]; other site 504728007189 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 504728007190 iron-sulfur cluster [ion binding]; other site 504728007191 [2Fe-2S] cluster binding site [ion binding]; other site 504728007192 Domain of unknown function (DUF309); Region: DUF309; pfam03745 504728007193 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 504728007194 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 504728007195 catalytic residues [active] 504728007196 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 504728007197 Cytochrome P450; Region: p450; cl12078 504728007198 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 504728007199 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 504728007200 NAD(P) binding site [chemical binding]; other site 504728007201 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 504728007202 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 504728007203 NAD(P) binding site [chemical binding]; other site 504728007204 active site 504728007205 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 504728007206 L-threonine dehydrogenase; Region: threonine_DH_like; cd08234 504728007207 putative NAD(P) binding site [chemical binding]; other site 504728007208 catalytic Zn binding site [ion binding]; other site 504728007209 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 504728007210 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 504728007211 dimer interface [polypeptide binding]; other site 504728007212 conserved gate region; other site 504728007213 putative PBP binding loops; other site 504728007214 ABC-ATPase subunit interface; other site 504728007215 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 504728007216 dimer interface [polypeptide binding]; other site 504728007217 conserved gate region; other site 504728007218 putative PBP binding loops; other site 504728007219 ABC-ATPase subunit interface; other site 504728007220 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 504728007221 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 504728007222 ribulokinase; Provisional; Region: PRK04123 504728007223 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 504728007224 nucleotide binding site [chemical binding]; other site 504728007225 Transcriptional regulators [Transcription]; Region: PurR; COG1609 504728007226 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 504728007227 DNA binding site [nucleotide binding] 504728007228 domain linker motif; other site 504728007229 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 504728007230 dimerization interface [polypeptide binding]; other site 504728007231 ligand binding site [chemical binding]; other site 504728007232 putative phosphate acyltransferase; Provisional; Region: PRK05331 504728007233 Mechanosensitive ion channel; Region: MS_channel; pfam00924 504728007234 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 504728007235 Predicted dehydrogenase [General function prediction only]; Region: COG0579 504728007236 hydroxyglutarate oxidase; Provisional; Region: PRK11728 504728007237 phosphoglucomutase; Validated; Region: PRK07564 504728007238 This bacterial PGM-like (phosphoglucomutase-like) protein of unknown function belongs to the alpha-D-phosphohexomutase superfamily. The alpha-D-phosphohexomutases include several related enzymes that catalyze a reversible intramolecular phosphoryl...; Region: PGM_like3; cd05801 504728007239 active site 504728007240 substrate binding site [chemical binding]; other site 504728007241 metal binding site [ion binding]; metal-binding site 504728007242 Domain of unknown function (DUF4388); Region: DUF4388; pfam14332 504728007243 homoserine kinase; Provisional; Region: PRK01212 504728007244 pantothenate kinase; Reviewed; Region: PRK13318 504728007245 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 504728007246 Flavoprotein; Region: Flavoprotein; pfam02441 504728007247 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 504728007248 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 504728007249 dimer interface [polypeptide binding]; other site 504728007250 substrate binding site [chemical binding]; other site 504728007251 ATP binding site [chemical binding]; other site 504728007252 thiamine biosynthesis protein ThiC; Provisional; Region: PRK13352 504728007253 thiamine biosynthesis protein ThiC; Region: thiC; TIGR00190 504728007254 glycine oxidase ThiO; Region: thiamin_ThiO; TIGR02352 504728007255 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 504728007256 ThiS interaction site; other site 504728007257 putative active site [active] 504728007258 tetramer interface [polypeptide binding]; other site 504728007259 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 504728007260 thiS-thiF/thiG interaction site; other site 504728007261 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 504728007262 thiamine phosphate binding site [chemical binding]; other site 504728007263 active site 504728007264 pyrophosphate binding site [ion binding]; other site 504728007265 Uncharacterized conserved protein [Function unknown]; Region: COG0062 504728007266 putative carbohydrate kinase; Provisional; Region: PRK10565 504728007267 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 504728007268 putative substrate binding site [chemical binding]; other site 504728007269 putative ATP binding site [chemical binding]; other site 504728007270 NAD-dependent deacetylase; Provisional; Region: PRK00481 504728007271 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 504728007272 NAD+ binding site [chemical binding]; other site 504728007273 substrate binding site [chemical binding]; other site 504728007274 Zn binding site [ion binding]; other site 504728007275 Uncharacterized conserved protein [Function unknown]; Region: COG0398 504728007276 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 504728007277 Protein of unknown function (DUF2847); Region: DUF2847; cl17683 504728007278 Class II Aldolase and Adducin N-terminal domain; Region: Aldolase_II; pfam00596 504728007279 glucose-1-phosphate thymidylylransferase, long form; Region: rmlA_long; TIGR01208 504728007280 G1P_TT_long represents the long form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_long; cd04189 504728007281 substrate binding site; other site 504728007282 metal-binding site 504728007283 Oligomer interface; other site 504728007284 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cl00160 504728007285 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 504728007286 PIN domain of the VapC-like Sll0205 protein and homologs; Region: PIN_Sll0205; cd09872 504728007287 putative active site [active] 504728007288 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 504728007289 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 504728007290 Probable Catalytic site; other site 504728007291 metal-binding site 504728007292 dTDP-4-dehydrorhamnose 3,5-epimerase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfbC; COG1898 504728007293 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 504728007294 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 504728007295 NAD binding site [chemical binding]; other site 504728007296 substrate binding site [chemical binding]; other site 504728007297 homodimer interface [polypeptide binding]; other site 504728007298 active site 504728007299 dTDP-4-dehydrorhamnose reductase [Cell envelope biogenesis, outer membrane]; Region: RfbD; COG1091 504728007300 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 504728007301 NAD(P) binding site [chemical binding]; other site 504728007302 active site 504728007303 potential frameshift: common BLAST hit: gi|386854898|ref|YP_006262638.1| transposase 504728007304 SEC10/PgrA surface exclusion domain; Region: Surf_Exclu_PgrA; TIGR04320 504728007305 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 504728007306 Wzx, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_Wzx_like; cd13128 504728007307 UDP-galactopyranose mutase; Region: GLF; pfam03275 504728007308 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 504728007309 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_b; cd04185 504728007310 Probable Catalytic site; other site 504728007311 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 504728007312 O-Antigen ligase; Region: Wzy_C; pfam04932 504728007313 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 504728007314 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 504728007315 active site 504728007316 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 504728007317 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 504728007318 Undecaprenyl-phosphate galactose phosphotransferase, WbaP; Region: WbaP_sugtrans; TIGR03022 504728007319 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cl00160 504728007320 Bacterial sugar transferase; Region: Bac_transf; pfam02397 504728007321 O-Antigen ligase; Region: Wzy_C; pfam04932 504728007322 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 504728007323 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 504728007324 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 504728007325 Protein of unknown function (DUF454); Region: DUF454; cl01063 504728007326 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 504728007327 active site 504728007328 putative DNA-binding cleft [nucleotide binding]; other site 504728007329 dimer interface [polypeptide binding]; other site 504728007330 cell division protein FtsZ; Validated; Region: PRK09330 504728007331 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 504728007332 nucleotide binding site [chemical binding]; other site 504728007333 SulA interaction site; other site 504728007334 Cell division ATPase FtsA [Cell division and chromosome partitioning]; Region: ftsA; COG0849 504728007335 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 504728007336 nucleotide binding site [chemical binding]; other site 504728007337 SHS2 domain inserted in FTSA; Region: SHS2_FTSA; pfam02491 504728007338 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 504728007339 Cell division protein FtsA; Region: FtsA; pfam14450 504728007340 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 504728007341 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: PRK14651 504728007342 FAD binding domain; Region: FAD_binding_4; pfam01565 504728007343 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 504728007344 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 504728007345 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 504728007346 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 504728007347 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 504728007348 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 504728007349 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 504728007350 active site 504728007351 homodimer interface [polypeptide binding]; other site 504728007352 Bacterial cell division membrane protein [Cell division and chromosome partitioning]; Region: FtsW; COG0772 504728007353 UDP-N-acetylmuramoylalanine--D-glutamate ligase; Region: murD; TIGR01087 504728007354 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 504728007355 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 504728007356 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 504728007357 Mg++ binding site [ion binding]; other site 504728007358 putative catalytic motif [active] 504728007359 putative substrate binding site [chemical binding]; other site 504728007360 UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase; Region: murF; TIGR01143 504728007361 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 504728007362 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 504728007363 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 504728007364 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 504728007365 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 504728007366 MraW methylase family; Region: Methyltransf_5; cl17771 504728007367 cell division protein MraZ; Reviewed; Region: PRK00326 504728007368 MraZ protein; Region: MraZ; pfam02381 504728007369 MraZ protein; Region: MraZ; pfam02381 504728007370 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 504728007371 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 504728007372 Catalytic site [active] 504728007373 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 504728007374 Integrase core domain; Region: rve; pfam00665 504728007375 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 504728007376 AAA domain; Region: AAA_22; pfam13401 504728007377 Walker A motif; other site 504728007378 ATP binding site [chemical binding]; other site 504728007379 Walker B motif; other site 504728007380 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 504728007381 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 504728007382 putative DNA binding site [nucleotide binding]; other site 504728007383 putative Zn2+ binding site [ion binding]; other site 504728007384 Mu-like prophage FluMu protein gp28 [General function prediction only]; Region: COG4373 504728007385 Terminase-like family; Region: Terminase_6; pfam03237 504728007386 Mu-like prophage protein gp29 [Function unknown]; Region: COG4383 504728007387 Protein of unknown function (DUF935); Region: DUF935; pfam06074 504728007388 Phage Mu protein F like protein; Region: Phage_Mu_F; cl10072 504728007389 Mu-like prophage I protein; Region: Mu-like_Pro; pfam10123 504728007390 Mu-like prophage major head subunit gpT; Region: Mu-like_gpT; cl01826 504728007391 Mu-like prophage major head subunit gpT; Region: Mu-like_gpT; cl01826 504728007392 Mu-like prophage major head subunit gpT; Region: Mu-like_gpT; cl01826 504728007393 Protein of unknown function (DUF1320); Region: DUF1320; pfam07030 504728007394 Orthopoxvirus protein of unknown function (DUF830); Region: DUF830; cl13998 504728007395 Phage virion morphogenesis family; Region: Phage_tail_S; cl02089 504728007396 Protein of unknown function (DUF2586); Region: DUF2586; pfam10758 504728007397 Baseplate J-like protein; Region: Baseplate_J; pfam04865 504728007398 Yqey-like protein; Region: YqeY; cl17540 504728007399 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 504728007400 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 504728007401 purine monophosphate binding site [chemical binding]; other site 504728007402 dimer interface [polypeptide binding]; other site 504728007403 putative catalytic residues [active] 504728007404 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 504728007405 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 504728007406 putative DMT superfamily transporter inner membrane protein; Provisional; Region: PRK11272 504728007407 EamA-like transporter family; Region: EamA; pfam00892 504728007408 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 504728007409 Fe-S cluster binding site [ion binding]; other site 504728007410 active site 504728007411 GMP synthase; Reviewed; Region: guaA; PRK00074 504728007412 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 504728007413 AMP/PPi binding site [chemical binding]; other site 504728007414 candidate oxyanion hole; other site 504728007415 catalytic triad [active] 504728007416 potential glutamine specificity residues [chemical binding]; other site 504728007417 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 504728007418 ATP Binding subdomain [chemical binding]; other site 504728007419 Ligand Binding sites [chemical binding]; other site 504728007420 Dimerization subdomain; other site 504728007421 bifunctional preprotein translocase subunit SecD/SecF; Reviewed; Region: PRK13024 504728007422 Protein export membrane protein; Region: SecD_SecF; cl14618 504728007423 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 504728007424 Protein export membrane protein; Region: SecD_SecF; pfam02355 504728007425 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 504728007426 Translation initiation factor 2 (IF-2; GTPase) [Translation, ribosomal structure and biogenesis]; Region: InfB; COG0532 504728007427 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 504728007428 G1 box; other site 504728007429 putative GEF interaction site [polypeptide binding]; other site 504728007430 GTP/Mg2+ binding site [chemical binding]; other site 504728007431 Switch I region; other site 504728007432 G2 box; other site 504728007433 G3 box; other site 504728007434 Switch II region; other site 504728007435 G4 box; other site 504728007436 G5 box; other site 504728007437 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 504728007438 Translation-initiation factor 2; Region: IF-2; pfam11987 504728007439 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 504728007440 Predicted nucleic-acid-binding protein implicated in transcription termination [Transcription]; Region: COG2740 504728007441 putative RNA binding cleft [nucleotide binding]; other site 504728007442 transcription elongation factor NusA; Provisional; Region: nusA; PRK12327 504728007443 NusA N-terminal domain; Region: NusA_N; pfam08529 504728007444 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 504728007445 RNA binding site [nucleotide binding]; other site 504728007446 homodimer interface [polypeptide binding]; other site 504728007447 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 504728007448 G-X-X-G motif; other site 504728007449 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 504728007450 G-X-X-G motif; other site 504728007451 Sm and related proteins; Region: Sm_like; cl00259 504728007452 Uncharacterized BCR, YhbC family COG0779; Region: DUF150; pfam02576 504728007453 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 504728007454 putative RNA binding site [nucleotide binding]; other site 504728007455 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 504728007456 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 504728007457 Walker A/P-loop; other site 504728007458 ATP binding site [chemical binding]; other site 504728007459 Q-loop/lid; other site 504728007460 ABC transporter signature motif; other site 504728007461 Walker B; other site 504728007462 D-loop; other site 504728007463 H-loop/switch region; other site 504728007464 TOBE domain; Region: TOBE_2; pfam08402 504728007465 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 504728007466 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 504728007467 dimer interface [polypeptide binding]; other site 504728007468 conserved gate region; other site 504728007469 putative PBP binding loops; other site 504728007470 ABC-ATPase subunit interface; other site 504728007471 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 504728007472 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 504728007473 dimer interface [polypeptide binding]; other site 504728007474 conserved gate region; other site 504728007475 putative PBP binding loops; other site 504728007476 ABC-ATPase subunit interface; other site 504728007477 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 504728007478 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 504728007479 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 504728007480 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 504728007481 Cytochrome c; Region: Cytochrom_C; pfam00034 504728007482 Transcriptional regulator PadR-like family; Region: PadR; cl17335 504728007483 Predicted transcriptional regulators [Transcription]; Region: COG1695 504728007484 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 504728007485 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 504728007486 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 504728007487 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 504728007488 dimer interface [polypeptide binding]; other site 504728007489 conserved gate region; other site 504728007490 putative PBP binding loops; other site 504728007491 ABC-ATPase subunit interface; other site 504728007492 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 504728007493 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 504728007494 Walker A/P-loop; other site 504728007495 ATP binding site [chemical binding]; other site 504728007496 Q-loop/lid; other site 504728007497 ABC transporter signature motif; other site 504728007498 Walker B; other site 504728007499 D-loop; other site 504728007500 H-loop/switch region; other site 504728007501 twin arginine-targeting protein translocase, TatA/E family; Region: tatAE; TIGR01411 504728007502 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 504728007503 putative acyltransferase; Provisional; Region: PRK05790 504728007504 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 504728007505 dimer interface [polypeptide binding]; other site 504728007506 active site 504728007507 Protein of unknown function (DUF503); Region: DUF503; pfam04456 504728007508 formate dehydrogenase accessory protein; Reviewed; Region: PRK00724 504728007509 oxidoreductase alpha (molybdopterin) subunit; Region: Fdhalpha-like; TIGR01701 504728007510 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 504728007511 molybdopterin cofactor binding site; other site 504728007512 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; cl09929 504728007513 molybdopterin cofactor binding site; other site 504728007514 Arginine-tRNA-protein transferase, N terminus; Region: ATE_N; pfam04376 504728007515 Arginine-tRNA-protein transferase, C terminus; Region: ATE_C; pfam04377 504728007516 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 504728007517 PGAP1-like protein; Region: PGAP1; pfam07819 504728007518 putative bacillithiol system oxidoreductase, YpdA family; Region: Bthiol_YpdA; TIGR04018 504728007519 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 504728007520 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 504728007521 acetolactate synthase, large subunit, biosynthetic type; Region: acolac_lg; TIGR00118 504728007522 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 504728007523 PYR/PP interface [polypeptide binding]; other site 504728007524 dimer interface [polypeptide binding]; other site 504728007525 TPP binding site [chemical binding]; other site 504728007526 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 504728007527 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 504728007528 TPP-binding site [chemical binding]; other site 504728007529 dimer interface [polypeptide binding]; other site 504728007530 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 504728007531 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 504728007532 putative valine binding site [chemical binding]; other site 504728007533 dimer interface [polypeptide binding]; other site 504728007534 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 504728007535 ketol-acid reductoisomerase; Provisional; Region: PRK05479 504728007536 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 504728007537 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 504728007538 2-isopropylmalate synthase; Validated; Region: PRK00915 504728007539 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 504728007540 active site 504728007541 catalytic residues [active] 504728007542 metal binding site [ion binding]; metal-binding site 504728007543 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 504728007544 putative alpha-isopropylmalate/homocitrate synthase family transferase; Provisional; Region: PRK12344 504728007545 Desulfobacterium autotrophicum LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA3; cd07941 504728007546 active site 504728007547 catalytic residues [active] 504728007548 metal binding site [ion binding]; metal-binding site 504728007549 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 504728007550 Phospholipid methyltransferase; Region: PEMT; cl17370 504728007551 Predicted naringenin-chalcone synthase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: BcsA; COG3424 504728007552 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 504728007553 active site 504728007554 Proteins of this family catalyze the reduction of flavin or nitrocompounds using NAD(P)H as electron donor in a obligatory two-electron transfer, utilizing FMN or FAD as cofactor. They are often found to be homodimers. Enzymes of this family are...; Region: Nitro_FMN_reductase; cd02062 504728007555 FMN binding site [chemical binding]; other site 504728007556 Proteins of this family catalyze the reduction of flavin or nitrocompounds using NAD(P)H as electron donor in a obligatory two-electron transfer, utilizing FMN or FAD as cofactor. They are often found to be homodimers. Enzymes of this family are...; Region: Nitro_FMN_reductase; cd02062 504728007557 dimer interface [polypeptide binding]; other site 504728007558 ZU5 domain; Region: ZU5; cl02517 504728007559 This PGM-like (phosphoglucomutase-like) protein of unknown function belongs to the alpha-D-phosphohexomutase superfamily and is found in both archaea and bacteria. The alpha-D-phosphohexomutases include several related enzymes that catalyze a reversible...; Region: PGM_like2; cd05800 504728007560 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 504728007561 active site 504728007562 substrate binding site [chemical binding]; other site 504728007563 metal binding site [ion binding]; metal-binding site 504728007564 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 504728007565 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 504728007566 active site 504728007567 catalytic tetrad [active] 504728007568 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 504728007569 classical (c) SDRs; Region: SDR_c; cd05233 504728007570 NAD(P) binding site [chemical binding]; other site 504728007571 active site 504728007572 NAD/NADP transhydrogenase alpha subunit [Energy production and conversion]; Region: PntA; COG3288 504728007573 Rubrum transdehydrogenase NAD-binding and catalytic domains; Region: Rubrum_tdh; cd05304 504728007574 homodimer interface [polypeptide binding]; other site 504728007575 ligand binding site [chemical binding]; other site 504728007576 NAD(P) binding site [chemical binding]; other site 504728007577 trimer interface B [polypeptide binding]; other site 504728007578 trimer interface A [polypeptide binding]; other site 504728007579 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 504728007580 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; COG1282 504728007581 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 504728007582 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 504728007583 Found in ATP-dependent protease La (LON); Region: LON; smart00464 504728007584 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 504728007585 Walker A motif; other site 504728007586 ATP binding site [chemical binding]; other site 504728007587 Walker B motif; other site 504728007588 arginine finger; other site 504728007589 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 504728007590 dihydropyrimidine dehydrogenase subunit A; Provisional; Region: PRK11749 504728007591 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 504728007592 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 504728007593 dihydropyrimidine dehydrogenase subunit B; Validated; Region: PRK08318 504728007594 Dihydropyrimidine dehydrogenase (DHPD) FMN-binding domain. DHPD catalyzes the first step in pyrimidine degradation: the NADPH-dependent reduction of uracil and thymine to the corresponding 5,6-dihydropyrimidines. DHPD contains two FAD, two FMN, and...; Region: DHPD_FMN; cd02940 504728007595 homodimer interface [polypeptide binding]; other site 504728007596 active site 504728007597 FMN binding site [chemical binding]; other site 504728007598 substrate binding site [chemical binding]; other site 504728007599 4Fe-4S binding domain; Region: Fer4; cl02805 504728007600 4Fe-4S binding domain; Region: Fer4; pfam00037 504728007601 phenylhydantoinase; Validated; Region: PRK08323 504728007602 D-hydantoinases (D-HYD) also called dihydropyrimidases (DHPase) and related proteins; DHPases are a family of enzymes that catalyze the reversible hydrolytic ring opening of the amide bond in five- or six-membered cyclic diamides, like dihydropyrimidine...; Region: D-HYD; cd01314 504728007603 tetramer interface [polypeptide binding]; other site 504728007604 active site 504728007605 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 504728007606 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 504728007607 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 504728007608 Walker A/P-loop; other site 504728007609 ATP binding site [chemical binding]; other site 504728007610 Q-loop/lid; other site 504728007611 ABC transporter signature motif; other site 504728007612 Walker B; other site 504728007613 D-loop; other site 504728007614 H-loop/switch region; other site 504728007615 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 504728007616 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 504728007617 dimer interface [polypeptide binding]; other site 504728007618 conserved gate region; other site 504728007619 putative PBP binding loops; other site 504728007620 ABC-ATPase subunit interface; other site 504728007621 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 504728007622 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 504728007623 dimer interface [polypeptide binding]; other site 504728007624 conserved gate region; other site 504728007625 putative PBP binding loops; other site 504728007626 ABC-ATPase subunit interface; other site 504728007627 NMT1/THI5 like; Region: NMT1; pfam09084 504728007628 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 504728007629 allantoate amidohydrolase; Reviewed; Region: PRK09290 504728007630 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 504728007631 active site 504728007632 metal binding site [ion binding]; metal-binding site 504728007633 dimer interface [polypeptide binding]; other site 504728007634 Purine catabolism regulatory protein-like family; Region: PucR; pfam07905 504728007635 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 504728007636 Transcription factor zinc-finger; Region: zf-TFIIB; cl01565 504728007637 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 504728007638 Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541 504728007639 acyl-activating enzyme (AAE) consensus motif; other site 504728007640 active site 504728007641 CoA binding site [chemical binding]; other site 504728007642 AMP binding site [chemical binding]; other site 504728007643 NADH-ubiquinone/plastoquinone oxidoreductase, chain 3; Region: Oxidored_q4; cl00535 504728007644 NADH dehydrogenase subunit B; Validated; Region: PRK06411 504728007645 NADH:ubiquinone oxidoreductase 27 kD subunit [Energy production and conversion]; Region: NuoC; COG0852 504728007646 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; cl16917 504728007647 NADH dehydrogenase subunit D; Validated; Region: PRK06075 504728007648 NADH dehydrogenase I, D subunit; Region: NuoD; TIGR01962 504728007649 Respiratory-chain NADH dehydrogenase 24 Kd subunit; Region: Complex1_24kDa; pfam01257 504728007650 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 504728007651 putative dimer interface [polypeptide binding]; other site 504728007652 [2Fe-2S] cluster binding site [ion binding]; other site 504728007653 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 504728007654 SLBB domain; Region: SLBB; pfam10531 504728007655 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 504728007656 NADH-quinone oxidoreductase, chain G; Region: NuoG; TIGR01973 504728007657 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 504728007658 catalytic loop [active] 504728007659 iron binding site [ion binding]; other site 504728007660 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 504728007661 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 504728007662 molybdopterin cofactor binding site; other site 504728007663 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; cl09929 504728007664 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 504728007665 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 504728007666 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 504728007667 4Fe-4S binding domain; Region: Fer4; pfam00037 504728007668 4Fe-4S binding domain; Region: Fer4; pfam00037 504728007669 NADH dehydrogenase subunit J; Provisional; Region: PRK06433 504728007670 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 504728007671 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 504728007672 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 504728007673 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 504728007674 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 504728007675 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 504728007676 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1; pfam00415 504728007677 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 504728007678 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1; pfam00415 504728007679 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 504728007680 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1; pfam00415 504728007681 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1; pfam00415 504728007682 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1; pfam00415 504728007683 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 504728007684 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 504728007685 glycyl-tRNA synthetase; Provisional; Region: PRK04173 504728007686 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 504728007687 motif 1; other site 504728007688 Glycyl-tRNA synthetase (GlyRS)-like class II core catalytic domain. GlyRS functions as a homodimer in eukaryotes, archaea and some bacteria and as a heterotetramer in the remainder of prokaryotes. It is responsible for the attachment of glycine to the 3...; Region: GlyRS-like_core; cd00774 504728007689 dimer interface [polypeptide binding]; other site 504728007690 active site 504728007691 motif 2; other site 504728007692 motif 3; other site 504728007693 GlyRS Glycyl-anticodon binding domain. GlyRS 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: GlyRS_anticodon; cd00858 504728007694 anticodon binding site; other site 504728007695 Domain of unknown function (DUF820). This family consists of hypothetical proteins that are greatly expanded in cyanobacteria. The proteins are found sporadically in other bacteria. They have been predicted to belong to the PD-(D/E)xK superfamily of...; Region: DUF820; cd06260 504728007696 putative active site [active] 504728007697 Transcriptional regulators [Transcription]; Region: MarR; COG1846 504728007698 MarR family; Region: MarR_2; pfam12802 504728007699 ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]; Region: clpA; COG0542 504728007700 Clp amino terminal domain; Region: Clp_N; pfam02861 504728007701 Clp amino terminal domain; Region: Clp_N; pfam02861 504728007702 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 504728007703 Walker A motif; other site 504728007704 ATP binding site [chemical binding]; other site 504728007705 Walker B motif; other site 504728007706 arginine finger; other site 504728007707 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 504728007708 Walker A motif; other site 504728007709 ATP binding site [chemical binding]; other site 504728007710 Walker B motif; other site 504728007711 arginine finger; other site 504728007712 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 504728007713 Golgi phosphoprotein 3 (GPP34); Region: GPP34; pfam05719 504728007714 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 504728007715 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 504728007716 folate binding site [chemical binding]; other site 504728007717 NADP+ binding site [chemical binding]; other site 504728007718 thymidylate synthase; Reviewed; Region: thyA; PRK01827 504728007719 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 504728007720 dimerization interface [polypeptide binding]; other site 504728007721 active site 504728007722 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 504728007723 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 504728007724 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14334 504728007725 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 504728007726 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 504728007727 FeS/SAM binding site; other site 504728007728 Phosphotransferase enzyme family; Region: APH; pfam01636 504728007729 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cd05120 504728007730 active site 504728007731 substrate binding site [chemical binding]; other site 504728007732 ATP binding site [chemical binding]; other site 504728007733 Protein of unknown function (DUF1679); Region: DUF1679; pfam07914 504728007734 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 504728007735 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 504728007736 substrate binding site [chemical binding]; other site 504728007737 ligand binding site [chemical binding]; other site 504728007738 Domain of unknown function (DUF820). This family consists of hypothetical proteins that are greatly expanded in cyanobacteria. The proteins are found sporadically in other bacteria. They have been predicted to belong to the PD-(D/E)xK superfamily of...; Region: DUF820; cd06260 504728007739 putative active site [active] 504728007740 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 504728007741 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 504728007742 substrate binding site [chemical binding]; other site 504728007743 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 504728007744 tartrate dehydrogenase; Region: TTC; TIGR02089 504728007745 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 504728007746 classical (c) SDRs; Region: SDR_c; cd05233 504728007747 NAD(P) binding site [chemical binding]; other site 504728007748 active site 504728007749 dihydroxy-acid dehydratase; Provisional; Region: PRK00911 504728007750 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 504728007751 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 504728007752 GAF domain; Region: GAF_2; pfam13185 504728007753 Histidine kinase; Region: HisKA_3; pfam07730 504728007754 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 504728007755 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 504728007756 ATP binding site [chemical binding]; other site 504728007757 Mg2+ binding site [ion binding]; other site 504728007758 G-X-G motif; other site 504728007759 TM1410 hypothetical-related protein; Region: DUF297; pfam03537 504728007760 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 504728007761 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 504728007762 TM1410 hypothetical-related protein; Region: DUF297; pfam03537 504728007763 Cytidine deaminase zinc-binding domain. These enzymes are Zn dependent. The zinc ion in the active site plays a central role in the proposed catalytic mechanism, activating a water molecule to form a hydroxide ion that performs a nucleophilic attack on...; Region: cytidine_deaminase; cd01283 504728007764 active site 504728007765 catalytic motif [active] 504728007766 Zn binding site [ion binding]; other site 504728007767 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 504728007768 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 504728007769 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 504728007770 Thermophilic metalloprotease (M29); Region: Peptidase_M29; pfam02073 504728007771 Leucyl aminopeptidase (aminopeptidase T) [Amino acid transport and metabolism]; Region: AmpS; COG2309 504728007772 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 504728007773 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 504728007774 active site 504728007775 catalytic site [active] 504728007776 Uncharacterized conserved protein [Function unknown]; Region: COG3743 504728007777 Transketolase [Carbohydrate transport and metabolism]; Region: TktA; COG0021 504728007778 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 504728007779 TPP-binding site [chemical binding]; other site 504728007780 dimer interface [polypeptide binding]; other site 504728007781 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 504728007782 PYR/PP interface [polypeptide binding]; other site 504728007783 dimer interface [polypeptide binding]; other site 504728007784 TPP binding site [chemical binding]; other site 504728007785 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 504728007786 ba3-like heme-copper oxidase subunit I. The ba3 family of heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and some archaea which catalyze the reduction of O2 and simultaneously pump protons across the...; Region: ba3-like_Oxidase_I; cd01660 504728007787 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 504728007788 Low-spin heme binding site [chemical binding]; other site 504728007789 Subunit I/II interface [polypeptide binding]; other site 504728007790 Putative Q-pathway; other site 504728007791 Putative D-pathway homolog; other site 504728007792 Putative alternate electron transfer pathway; other site 504728007793 Putative water exit pathway; other site 504728007794 Binuclear center (active site) [active] 504728007795 Putative K-pathway homolog; other site 504728007796 Putative proton exit pathway; other site 504728007797 Subunit I/IIa interface [polypeptide binding]; other site 504728007798 Electron transfer pathway; other site 504728007799 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 504728007800 Major Facilitator Superfamily; Region: MFS_1; pfam07690 504728007801 putative substrate translocation pore; other site 504728007802 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 504728007803 16S/18S rRNA binding site [nucleotide binding]; other site 504728007804 S13e-L30e interaction site [polypeptide binding]; other site 504728007805 25S rRNA binding site [nucleotide binding]; other site 504728007806 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 504728007807 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 504728007808 RNase E interface [polypeptide binding]; other site 504728007809 trimer interface [polypeptide binding]; other site 504728007810 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 504728007811 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 504728007812 RNase E interface [polypeptide binding]; other site 504728007813 trimer interface [polypeptide binding]; other site 504728007814 active site 504728007815 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 504728007816 nucleic acid binding region [nucleotide binding]; other site 504728007817 G-X-X-G motif; other site 504728007818 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 504728007819 RNA binding site [nucleotide binding]; other site 504728007820 domain interface; other site 504728007821 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 504728007822 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 504728007823 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 504728007824 Uncharacterized conserved protein [Function unknown]; Region: COG1739 504728007825 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 504728007826 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 504728007827 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 504728007828 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 504728007829 shikimate binding site; other site 504728007830 NAD(P) binding site [chemical binding]; other site 504728007831 Membrane-bound serine protease (ClpP class) [Posttranslational modification, protein turnover, chaperones]; Region: NfeD; COG1030 504728007832 Nodulation formation efficiency D (NfeD) is a membrane-bound ClpP-class protease; Region: Clp_protease_NfeD_like; cd07021 504728007833 dimer interface [polypeptide binding]; other site 504728007834 active site residues [active] 504728007835 NfeD-like C-terminal, partner-binding; Region: NfeD; cl00686 504728007836 hypothetical protein; Provisional; Region: PRK13665 504728007837 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 504728007838 PhoH-like protein; Region: PhoH; pfam02562 504728007839 Uncharacterized protein family UPF0054; Region: UPF0054; pfam02130 504728007840 Diacylglycerol kinase [Cell envelope biogenesis, outer membrane]; Region: DgkA; COG0818 504728007841 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 504728007842 Domain of unknown function DUF21; Region: DUF21; pfam01595 504728007843 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 504728007844 Transporter associated domain; Region: CorC_HlyC; smart01091 504728007845 Homeodomain-like domain; Region: HTH_23; pfam13384 504728007846 Winged helix-turn helix; Region: HTH_29; pfam13551 504728007847 DDE superfamily endonuclease; Region: DDE_3; pfam13358 504728007848 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 504728007849 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 504728007850 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 504728007851 Polyketide cyclase / dehydrase and lipid transport; Region: Polyketide_cyc2; pfam10604 504728007852 hydrophobic ligand binding site; other site 504728007853 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 504728007854 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 504728007855 active site 504728007856 HIGH motif; other site 504728007857 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 504728007858 KMSKS motif; other site 504728007859 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 504728007860 tRNA binding surface [nucleotide binding]; other site 504728007861 anticodon binding site; other site 504728007862 Putative neutral zinc metallopeptidase; Region: Zn_peptidase_2; pfam04298 504728007863 Stage V sporulation protein S (SpoVS); Region: SpoVS; pfam04232 504728007864 Glutamine amidotransferases class-II (GATase). The glutaminase domain catalyzes an amide nitrogen transfer from glutamine to the appropriate substrate. In this process, glutamine is hydrolyzed to glutamic acid and ammonia. This domain is related to...; Region: Gn_AT_II; cl00319 504728007865 Glutamate synthase domain 1 [Amino acid transport and metabolism]; Region: GltB; COG0067 504728007866 active site 504728007867 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 504728007868 Glutamate synthase domain 2 [Amino acid transport and metabolism]; Region: GltB; COG0069 504728007869 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 504728007870 active site 504728007871 FMN binding site [chemical binding]; other site 504728007872 substrate binding site [chemical binding]; other site 504728007873 3Fe-4S cluster binding site [ion binding]; other site 504728007874 GXGXG domain. This domain of unknown function is found at the C-terminus of the large subunit (gltB) of glutamate synthase (GltS), in subunit C of tungsten formylmethanofuran dehydrogenase (FwdC) and in subunit C of molybdenum formylmethanofuran...; Region: GXGXG; cd00504 504728007875 domain_subunit interface; other site 504728007876 superfamily containing globins and truncated hemoglobins; Region: globin_like; cl00280 504728007877 heme-binding site [chemical binding]; other site 504728007878 superfamily containing globins and truncated hemoglobins; Region: globin_like; cl00280 504728007879 heme-binding site [chemical binding]; other site 504728007880 HAD superfamily (subfamily IA) hydrolase, TIGR02253; Region: CTE7 504728007881 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 504728007882 motif II; other site 504728007883 Holliday junction DNA helicase RuvA; Provisional; Region: ruvA; PRK14603 504728007884 RuvA N terminal domain; Region: RuvA_N; pfam01330 504728007885 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 504728007886 enoyl-CoA hydratase; Provisional; Region: PRK06688 504728007887 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 504728007888 substrate binding site [chemical binding]; other site 504728007889 oxyanion hole (OAH) forming residues; other site 504728007890 trimer interface [polypeptide binding]; other site 504728007891 enoyl-CoA hydratase; Provisional; Region: PRK05862 504728007892 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 504728007893 substrate binding site [chemical binding]; other site 504728007894 oxyanion hole (OAH) forming residues; other site 504728007895 trimer interface [polypeptide binding]; other site 504728007896 Cupin domain; Region: Cupin_2; pfam07883 504728007897 ABC transporter, ATP-binding subunit, PQQ-dependent alcohol dehydrogenase system; Region: PQQ_ABC_ATP; TIGR03864 504728007898 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 504728007899 Walker A/P-loop; other site 504728007900 ATP binding site [chemical binding]; other site 504728007901 Q-loop/lid; other site 504728007902 ABC transporter signature motif; other site 504728007903 Walker B; other site 504728007904 D-loop; other site 504728007905 H-loop/switch region; other site 504728007906 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 504728007907 ABC-2 type transporter; Region: ABC2_membrane; cl17235 504728007908 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 504728007909 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 504728007910 Walker A/P-loop; other site 504728007911 ATP binding site [chemical binding]; other site 504728007912 Q-loop/lid; other site 504728007913 ABC transporter signature motif; other site 504728007914 Walker B; other site 504728007915 D-loop; other site 504728007916 H-loop/switch region; other site 504728007917 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 504728007918 ABC-2 family transporter protein; Region: ABC2_membrane_2; cl17866 504728007919 menaquinone biosynthesis protein, SCO4550 family; Region: mena_SCO4550; TIGR03699 504728007920 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 504728007921 FeS/SAM binding site; other site 504728007922 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 504728007923 Glycosyl transferase family 2; Region: Glycos_transf_2; pfam00535 504728007924 active site 504728007925 Predicted membrane-associated Zn-dependent proteases 1 [Cell envelope biogenesis, outer membrane]; Region: COG0750 504728007926 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 504728007927 active site 504728007928 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 504728007929 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 504728007930 putative substrate binding region [chemical binding]; other site 504728007931 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 504728007932 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 504728007933 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 504728007934 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 504728007935 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 504728007936 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 504728007937 ribosome recycling factor; Reviewed; Region: frr; PRK00083 504728007938 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 504728007939 hinge region; other site 504728007940 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 504728007941 putative nucleotide binding site [chemical binding]; other site 504728007942 uridine monophosphate binding site [chemical binding]; other site 504728007943 homohexameric interface [polypeptide binding]; other site 504728007944 elongation factor Ts; Reviewed; Region: tsf; PRK12332 504728007945 UBA/TS-N domain; Region: UBA; pfam00627 504728007946 Elongation factor TS; Region: EF_TS; pfam00889 504728007947 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 504728007948 rRNA interaction site [nucleotide binding]; other site 504728007949 S8 interaction site; other site 504728007950 putative laminin-1 binding site; other site 504728007951 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 504728007952 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 504728007953 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 504728007954 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 504728007955 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 504728007956 dimer interface [polypeptide binding]; other site 504728007957 ssDNA binding site [nucleotide binding]; other site 504728007958 tetramer (dimer of dimers) interface [polypeptide binding]; other site 504728007959 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 504728007960 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 504728007961 dimer interface [polypeptide binding]; other site 504728007962 ssDNA binding site [nucleotide binding]; other site 504728007963 tetramer (dimer of dimers) interface [polypeptide binding]; other site 504728007964 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 504728007965 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 504728007966 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 504728007967 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 504728007968 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2258 504728007969 MOSC domain; Region: MOSC; pfam03473 504728007970 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_6; cd06154 504728007971 homotrimer interaction site [polypeptide binding]; other site 504728007972 putative active site [active] 504728007973 Protein of unknown function (DUF3054); Region: DUF3054; pfam11255 504728007974 lipoyl synthase; Provisional; Region: PRK05481 504728007975 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 504728007976 FeS/SAM binding site; other site 504728007977 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 504728007978 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 504728007979 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 504728007980 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 504728007981 L-threonine dehydrogenase, extended (e) SDRs; Region: TDH_SDR_e; cd05272 504728007982 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 504728007983 NAD binding site [chemical binding]; other site 504728007984 homodimer interface [polypeptide binding]; other site 504728007985 active site 504728007986 putative substrate binding site [chemical binding]; other site 504728007987 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 504728007988 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 504728007989 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 504728007990 catalytic residue [active] 504728007991 Glutaredoxin-like domain (DUF836); Region: DUF836; pfam05768 504728007992 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 504728007993 N-acetylglucosamine-1-phosphate uridyltransferase (contains nucleotidyltransferase and I-patch acetyltransferase domains) [Cell envelope biogenesis, outer membrane]; Region: GlmU; COG1207 504728007994 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 504728007995 Substrate binding site; other site 504728007996 Mg++ binding site; other site 504728007997 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 504728007998 active site 504728007999 substrate binding site [chemical binding]; other site 504728008000 CoA binding site [chemical binding]; other site 504728008001 PSP1 C-terminal conserved region; Region: PSP1; cl00770 504728008002 DNA polymerase III, delta' subunit; Region: holB; TIGR00678 504728008003 DNA polymerase III subunit delta'; Validated; Region: PRK08485 504728008004 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 504728008005 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cd00838 504728008006 active site 504728008007 metal binding site [ion binding]; metal-binding site 504728008008 Caa3-Type Cytochrome Oxidase subunit 4 interacts with cyt c subunits I/III; Region: Caa3-IV; cd12222 504728008009 dimer interface [polypeptide binding]; other site 504728008010 Predicted membrane protein, hemolysin III homolog [General function prediction only]; Region: COG1272 504728008011 channel protein, hemolysin III family; Region: hlyIII; TIGR01065 504728008012 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 504728008013 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 504728008014 glutaminyl-tRNA synthetase/YqeY domain fusion protein; Provisional; Region: PRK14703 504728008015 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 504728008016 active site 504728008017 HIGH motif; other site 504728008018 nucleotide binding site [chemical binding]; other site 504728008019 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 504728008020 active site 504728008021 KMSKS motif; other site 504728008022 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 504728008023 GatB domain; Region: GatB_Yqey; smart00845 504728008024 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 504728008025 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 504728008026 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 504728008027 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 504728008028 Walker A/P-loop; other site 504728008029 ATP binding site [chemical binding]; other site 504728008030 Q-loop/lid; other site 504728008031 ABC transporter signature motif; other site 504728008032 Walker B; other site 504728008033 D-loop; other site 504728008034 H-loop/switch region; other site 504728008035 Ribose/xylose/arabinose/galactoside ABC-type transport systems, permease components [Carbohydrate transport and metabolism]; Region: AraH; COG1172 504728008036 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 504728008037 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 504728008038 TM-ABC transporter signature motif; other site 504728008039 D-xylose ABC transporter, substrate-binding protein; Region: xylF; TIGR02634 504728008040 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 504728008041 putative ligand binding site [chemical binding]; other site 504728008042 Family description; Region: VCBS; pfam13517 504728008043 Family description; Region: VCBS; pfam13517 504728008044 Family description; Region: VCBS; pfam13517 504728008045 ASPIC and UnbV; Region: UnbV_ASPIC; pfam07593 504728008046 PAP2, haloperoxidase_like subfamily. Haloperoxidases catalyze the oxidation of halides such as bromide or chloride by hydrogen peroxide, which results in subsequent halogenation of organic substrates, or halide-assisted disproportionation of hydrogen...; Region: PAP2_haloperoxidase; cd03398 504728008047 active site 504728008048 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 504728008049 putative oxidoreductase; Provisional; Region: PRK11579 504728008050 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 504728008051 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 504728008052 hypothetical protein; Provisional; Region: PRK02487 504728008053 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 504728008054 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 504728008055 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 504728008056 catalytic residue [active] 504728008057 Uncharacterized proteins, LmbE homologs [Function unknown]; Region: COG2120 504728008058 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 504728008059 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 504728008060 Cl- selectivity filter; other site 504728008061 Cl- binding residues [ion binding]; other site 504728008062 pore gating glutamate residue; other site 504728008063 dimer interface [polypeptide binding]; other site 504728008064 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 504728008065 active site 504728008066 Uncharacterized conserved protein [Function unknown]; Region: COG3375 504728008067 N-acylamino acid racemase (NAAAR), an octameric enzyme that catalyzes the racemization of N-acylamino acids. NAAARs act on a broad range of N-acylamino acids rather than amino acids. Enantiopure amino acids are of industrial interest as chiral building...; Region: NAAAR; cd03317 504728008068 o-succinylbenzoate synthase; Region: menC_lowGC/arch; TIGR01928 504728008069 active site 504728008070 octamer interface [polypeptide binding]; other site 504728008071 Subtilisin-like serine proteases [Posttranslational modification, protein turnover, chaperones]; Region: AprE; COG1404 504728008072 Peptidase inhibitor I9; Region: Inhibitor_I9; pfam05922 504728008073 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 504728008074 active site 504728008075 catalytic residues [active] 504728008076 Domain of unknown function (DUF4159); Region: DUF4159; pfam13709 504728008077 tyrosine decarboxylase; Region: PLN02880 504728008078 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 504728008079 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 504728008080 catalytic residue [active] 504728008081 S-adenosyl-L-methionine-dependent methyltransferase; Region: Methyltransf_30; cl17711 504728008082 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 504728008083 TrkA-N domain; Region: TrkA_N; pfam02254 504728008084 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 504728008085 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 504728008086 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 504728008087 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 504728008088 Circularly permuted YlqF-related GTPases; Region: YlqF_related_GTPase; cl17249 504728008089 GTP/Mg2+ binding site [chemical binding]; other site 504728008090 G5 box; other site 504728008091 trmE is a tRNA modification GTPase; Region: trmE; cd04164 504728008092 G1 box; other site 504728008093 G1 box; other site 504728008094 GTP/Mg2+ binding site [chemical binding]; other site 504728008095 Switch I region; other site 504728008096 Switch I region; other site 504728008097 G2 box; other site 504728008098 G2 box; other site 504728008099 Switch II region; other site 504728008100 G3 box; other site 504728008101 G4 box; other site 504728008102 G5 box; other site 504728008103 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 504728008104 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 504728008105 active site 504728008106 NTP binding site [chemical binding]; other site 504728008107 metal binding triad [ion binding]; metal-binding site 504728008108 antibiotic binding site [chemical binding]; other site 504728008109 helicase/secretion neighborhood putative DEAH-box helicase; Region: DECH_helic; TIGR03817 504728008110 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 504728008111 ATP binding site [chemical binding]; other site 504728008112 putative Mg++ binding site [ion binding]; other site 504728008113 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 504728008114 nucleotide binding region [chemical binding]; other site 504728008115 Domain of unknown function (DUF1998); Region: DUF1998; pfam09369 504728008116 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 504728008117 putative substrate translocation pore; other site 504728008118 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 504728008119 Major Facilitator Superfamily; Region: MFS_1; pfam07690 504728008120 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 504728008121 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 504728008122 catalytic residues [active] 504728008123 Conserved hypothetical protein (DUF2461); Region: DUF2461; pfam09365 504728008124 Mpr1p, Pad1p N-terminal (MPN) domains with catalytic isopeptidase activity (metal-binding); Region: MPN_like; cd08070 504728008125 MPN+ (JAMM) motif; other site 504728008126 Zinc-binding site [ion binding]; other site 504728008127 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 504728008128 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 504728008129 ATP binding site [chemical binding]; other site 504728008130 substrate interface [chemical binding]; other site 504728008131 Citrate synthase (CS) catalyzes the condensation of acetyl coenzyme A (AcCoA) and oxalacetate (OAA) to form citrate and coenzyme A (CoA), the first step in the oxidative citric acid cycle (TCA or Krebs cycle). Peroxisomal CS is involved in the glyoxylate...; Region: citrate_synt_like_1; cd06118 504728008132 dimer interface [polypeptide binding]; other site 504728008133 Citrate synthase; Region: Citrate_synt; pfam00285 504728008134 active site 504728008135 coenzyme A binding site [chemical binding]; other site 504728008136 citrylCoA binding site [chemical binding]; other site 504728008137 oxalacetate/citrate binding site [chemical binding]; other site 504728008138 catalytic triad [active] 504728008139 leucyl/phenylalanyl-tRNA--protein transferase; Reviewed; Region: aat; PRK00301 504728008140 HerA helicase [Replication, recombination, and repair]; Region: COG0433 504728008141 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2380 504728008142 Tetratricopeptide repeat; Region: TPR_16; pfam13432 504728008143 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 504728008144 binding surface 504728008145 TPR motif; other site 504728008146 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 504728008147 TPR motif; other site 504728008148 binding surface 504728008149 TPR repeat; Region: TPR_11; pfam13414 504728008150 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 504728008151 TPR motif; other site 504728008152 binding surface 504728008153 TPR repeat; Region: TPR_11; pfam13414 504728008154 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 504728008155 binding surface 504728008156 TPR motif; other site 504728008157 TPR repeat; Region: TPR_11; pfam13414 504728008158 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 504728008159 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 504728008160 Walker A motif; other site 504728008161 ATP binding site [chemical binding]; other site 504728008162 AAA domain (Cdc48 subfamily); Region: AAA_2; pfam07724 504728008163 Walker B motif; other site 504728008164 arginine finger; other site 504728008165 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 504728008166 ATP-dependent protease subunit HslV; Provisional; Region: PRK05456 504728008167 active site 504728008168 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 504728008169 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 504728008170 Catalytic site [active] 504728008171 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 504728008172 hypothetical protein; Provisional; Region: PRK10279 504728008173 Patatin-like phospholipase domain containing protein 6, protein 7, and fungal NTE1; Region: Pat_PNPLA6_PNPLA7_NTE1_like; cd07205 504728008174 active site 504728008175 nucleophile elbow; other site 504728008176 Protein kinase domain; Region: Pkinase; pfam00069 504728008177 Catalytic domain of Protein Kinases; Region: PKc; cd00180 504728008178 active site 504728008179 ATP binding site [chemical binding]; other site 504728008180 substrate binding site [chemical binding]; other site 504728008181 activation loop (A-loop); other site 504728008182 coproporphyrinogen III oxidase; Provisional; Region: PRK08599 504728008183 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 504728008184 FeS/SAM binding site; other site 504728008185 HemN C-terminal domain; Region: HemN_C; pfam06969 504728008186 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 504728008187 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 504728008188 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 504728008189 Roadblock/LC7 domain; Region: Robl_LC7; pfam03259 504728008190 GTPase SAR1 and related small G proteins [General function prediction only]; Region: COG1100 504728008191 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 504728008192 G1 box; other site 504728008193 GTP/Mg2+ binding site [chemical binding]; other site 504728008194 G2 box; other site 504728008195 Switch I region; other site 504728008196 G3 box; other site 504728008197 Switch II region; other site 504728008198 G4 box; other site 504728008199 G5 box; other site 504728008200 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 504728008201 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 504728008202 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 504728008203 lipoyl attachment site [posttranslational modification]; other site 504728008204 glycine dehydrogenase; Provisional; Region: PRK05367 504728008205 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 504728008206 tetramer interface [polypeptide binding]; other site 504728008207 pyridoxal 5'-phosphate binding site [chemical binding]; other site 504728008208 catalytic residue [active] 504728008209 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 504728008210 pyridoxal 5'-phosphate binding site [chemical binding]; other site 504728008211 tetramer interface [polypeptide binding]; other site 504728008212 catalytic residue [active] 504728008213 homoserine O-acetyltransferase; Region: homoserO_Ac_trn; TIGR01392 504728008214 homoserine O-acetyltransferase; Provisional; Region: metX; PRK00175 504728008215 OAH/OAS sulfhydrylase; Region: OAH_OAS_sulfhy; TIGR01326 504728008216 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 504728008217 homodimer interface [polypeptide binding]; other site 504728008218 substrate-cofactor binding pocket; other site 504728008219 pyridoxal 5'-phosphate binding site [chemical binding]; other site 504728008220 catalytic residue [active] 504728008221 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 504728008222 seryl-tRNA synthetase; Provisional; Region: PRK05431 504728008223 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 504728008224 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 504728008225 dimer interface [polypeptide binding]; other site 504728008226 active site 504728008227 motif 1; other site 504728008228 motif 2; other site 504728008229 motif 3; other site 504728008230 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 504728008231 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 504728008232 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 504728008233 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 504728008234 RPB10 interaction site [polypeptide binding]; other site 504728008235 RPB1 interaction site [polypeptide binding]; other site 504728008236 RPB11 interaction site [polypeptide binding]; other site 504728008237 RPB3 interaction site [polypeptide binding]; other site 504728008238 RPB12 interaction site [polypeptide binding]; other site 504728008239 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 504728008240 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 504728008241 DNA-directed RNA polymerase subunit beta'; Provisional; Region: PRK00566 504728008242 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 504728008243 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 504728008244 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 504728008245 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 504728008246 Rpb1 (beta') - Rpb6 (omega) interaction site [polypeptide binding]; other site 504728008247 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 504728008248 G-loop; other site 504728008249 DNA binding site [nucleotide binding] 504728008250 purine nucleoside phosphorylase; Provisional; Region: PRK08202 504728008251 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 504728008252 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 504728008253 catalytic residue [active] 504728008254 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 504728008255 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 504728008256 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 504728008257 KduI/IolB family; Region: KduI; pfam04962 504728008258 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 504728008259 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 504728008260 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 504728008261 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 504728008262 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 504728008263 DNA interaction; other site 504728008264 Metal-binding active site; metal-binding site 504728008265 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 504728008266 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 504728008267 substrate binding site [chemical binding]; other site 504728008268 ATP binding site [chemical binding]; other site 504728008269 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 504728008270 Acetolactate synthase [Amino acid transport and metabolism]; Region: COG3962 504728008271 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 504728008272 PYR/PP interface [polypeptide binding]; other site 504728008273 dimer interface [polypeptide binding]; other site 504728008274 TPP binding site [chemical binding]; other site 504728008275 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 504728008276 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 504728008277 TPP-binding site [chemical binding]; other site 504728008278 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 504728008279 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 504728008280 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 504728008281 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 504728008282 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 504728008283 Walker A/P-loop; other site 504728008284 ATP binding site [chemical binding]; other site 504728008285 Q-loop/lid; other site 504728008286 ABC transporter signature motif; other site 504728008287 Walker B; other site 504728008288 D-loop; other site 504728008289 H-loop/switch region; other site 504728008290 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 504728008291 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 504728008292 TM-ABC transporter signature motif; other site 504728008293 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_4; cd06312 504728008294 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 504728008295 putative ligand binding site [chemical binding]; other site 504728008296 DivIVA protein; Region: DivIVA; pfam05103 504728008297 DivIVA domain; Region: DivI1A_domain; TIGR03544 504728008298 Uncharacterized conserved protein [Function unknown]; Region: COG1434 504728008299 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 504728008300 putative active site [active] 504728008301 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 504728008302 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 504728008303 motif II; other site 504728008304 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 504728008305 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 504728008306 HflX GTPase family; Region: HflX; cd01878 504728008307 G1 box; other site 504728008308 GTP/Mg2+ binding site [chemical binding]; other site 504728008309 Switch I region; other site 504728008310 G2 box; other site 504728008311 G3 box; other site 504728008312 Switch II region; other site 504728008313 G4 box; other site 504728008314 G5 box; other site 504728008315 acylphosphatase; Provisional; Region: PRK14433 504728008316 Family of unknown function (DUF490); Region: DUF490; pfam04357 504728008317 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 504728008318 Outer membrane protein/protective antigen OMA87 [Cell envelope biogenesis, outer membrane]; Region: COG4775 504728008319 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 504728008320 Surface antigen; Region: Bac_surface_Ag; pfam01103 504728008321 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 504728008322 cyclase homology domain; Region: CHD; cd07302 504728008323 nucleotidyl binding site; other site 504728008324 metal binding site [ion binding]; metal-binding site 504728008325 dimer interface [polypeptide binding]; other site 504728008326 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 504728008327 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 504728008328 Walker A motif; other site 504728008329 ATP binding site [chemical binding]; other site 504728008330 DNA primase; Validated; Region: dnaG; PRK05667 504728008331 CHC2 zinc finger; Region: zf-CHC2; pfam01807 504728008332 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 504728008333 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 504728008334 active site 504728008335 metal binding site [ion binding]; metal-binding site 504728008336 interdomain interaction site; other site 504728008337 3-hydroxybutyrate dehydrogenase; Provisional; Region: PRK12429 504728008338 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 504728008339 NAD(P) binding site [chemical binding]; other site 504728008340 active site 504728008341 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 504728008342 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 504728008343 Walker A/P-loop; other site 504728008344 ATP binding site [chemical binding]; other site 504728008345 Q-loop/lid; other site 504728008346 ABC transporter signature motif; other site 504728008347 Walker B; other site 504728008348 D-loop; other site 504728008349 H-loop/switch region; other site 504728008350 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 504728008351 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 504728008352 Walker A/P-loop; other site 504728008353 ATP binding site [chemical binding]; other site 504728008354 Q-loop/lid; other site 504728008355 ABC transporter signature motif; other site 504728008356 Walker B; other site 504728008357 D-loop; other site 504728008358 H-loop/switch region; other site 504728008359 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 504728008360 TM-ABC transporter signature motif; other site 504728008361 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 504728008362 TM-ABC transporter signature motif; other site 504728008363 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 504728008364 Periplasmic binding domain of ATP-binding cassette transporter-like systems that belong to the type I periplasmic binding fold protein superfamily; Region: PBP1_ABC_transporter_LIVBP_like; cd06268 504728008365 ligand binding site [chemical binding]; other site 504728008366 (R)-hydratase [(R)-specific enoyl-CoA hydratase] catalyzes the hydration of trans-2-enoyl CoA to (R)-3-hydroxyacyl-CoA as part of the PHA (polyhydroxyalkanoate) biosynthetic pathway. (R)-hydratase contains a hot-dog fold similar to those of thioesterase...; Region: R_hydratase; cd03449 504728008367 dimer interaction site [polypeptide binding]; other site 504728008368 substrate-binding tunnel; other site 504728008369 active site 504728008370 catalytic site [active] 504728008371 substrate binding site [chemical binding]; other site 504728008372 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 504728008373 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 504728008374 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 504728008375 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 504728008376 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 504728008377 acyl-activating enzyme (AAE) consensus motif; other site 504728008378 putative AMP binding site [chemical binding]; other site 504728008379 putative active site [active] 504728008380 putative CoA binding site [chemical binding]; other site 504728008381 hypothetical protein; Validated; Region: PRK06840 504728008382 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 504728008383 active site 504728008384 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 504728008385 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 504728008386 nucleotide binding pocket [chemical binding]; other site 504728008387 K-X-D-G motif; other site 504728008388 catalytic site [active] 504728008389 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 504728008390 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 504728008391 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 504728008392 Dimer interface [polypeptide binding]; other site 504728008393 BRCT sequence motif; other site 504728008394 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 504728008395 Periplasmic binding domain of basic membrane lipoprotein, PnrA, in Treponema pallidum and its homologs from other bacteria and Archaea; Region: PBP1_BmpA_PnrA_like; cd06354 504728008396 ligand binding site [chemical binding]; other site 504728008397 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 504728008398 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 504728008399 Walker A/P-loop; other site 504728008400 ATP binding site [chemical binding]; other site 504728008401 Q-loop/lid; other site 504728008402 ABC transporter signature motif; other site 504728008403 Walker B; other site 504728008404 D-loop; other site 504728008405 H-loop/switch region; other site 504728008406 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 504728008407 OstA-like protein; Region: OstA; cl00844 504728008408 lipopolysaccharide transport periplasmic protein LptA; Region: outer_YhbN_LptA; TIGR03002 504728008409 OstA-like protein; Region: OstA; cl00844 504728008410 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 504728008411 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 504728008412 DNA-binding site [nucleotide binding]; DNA binding site 504728008413 UTRA domain; Region: UTRA; pfam07702 504728008414 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 504728008415 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_4; cd08500 504728008416 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 504728008417 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 504728008418 dimer interface [polypeptide binding]; other site 504728008419 conserved gate region; other site 504728008420 putative PBP binding loops; other site 504728008421 ABC-ATPase subunit interface; other site 504728008422 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 504728008423 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4239 504728008424 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 504728008425 dimer interface [polypeptide binding]; other site 504728008426 conserved gate region; other site 504728008427 putative PBP binding loops; other site 504728008428 ABC-ATPase subunit interface; other site 504728008429 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_4; cd08500 504728008430 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 504728008431 Protein of unknown function (DUF1343); Region: DUF1343; cl01598 504728008432 ATP-dependent transcriptional regulator [Transcription]; Region: MalT; COG2909 504728008433 PIN domain of Thermus Thermophilus Hb8, uncharacterized Bacillus subtilis YacL, and other bacterial homologs; Region: PIN_YacL; cd09877 504728008434 putative active site [active] 504728008435 TRAM domain; Region: TRAM; cl01282 504728008436 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 504728008437 Walker A motif; other site 504728008438 ATP binding site [chemical binding]; other site 504728008439 Walker B motif; other site 504728008440 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 504728008441 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 504728008442 dimer interface [polypeptide binding]; other site 504728008443 pyridoxal 5'-phosphate binding site [chemical binding]; other site 504728008444 catalytic residue [active] 504728008445 FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]; Region: SlpA; COG1047 504728008446 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 504728008447 Immune inhibitor A peptidase M6; Region: Peptidase_M6; cl11525 504728008448 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 504728008449 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 504728008450 S-adenosylmethionine binding site [chemical binding]; other site 504728008451 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 504728008452 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 504728008453 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 504728008454 TM-ABC transporter signature motif; other site 504728008455 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 504728008456 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 504728008457 TM-ABC transporter signature motif; other site 504728008458 twin arginine translocase protein A; Provisional; Region: tatA; PRK14861 504728008459 Sec-independent protein secretion pathway component TatC [Intracellular trafficking and secretion]; Region: TatC; COG0805 504728008460 bifunctional 3-deoxy-7-phosphoheptulonate synthase/chorismate mutase; Reviewed; Region: PRK12595 504728008461 Chorismate mutase type II; Region: CM_2; cl00693 504728008462 phospho-2-dehydro-3-deoxyheptonate aldolase; Region: DAHP_synth_Bsub; TIGR01361 504728008463 4Fe-4S double cluster binding domain; Region: Fer4_16; pfam13484 504728008464 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 504728008465 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 504728008466 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 504728008467 putative DNA binding site [nucleotide binding]; other site 504728008468 putative Zn2+ binding site [ion binding]; other site 504728008469 AsnC family; Region: AsnC_trans_reg; pfam01037 504728008470 Response regulator receiver domain; Region: Response_reg; pfam00072 504728008471 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 504728008472 active site 504728008473 phosphorylation site [posttranslational modification] 504728008474 intermolecular recognition site; other site 504728008475 dimerization interface [polypeptide binding]; other site 504728008476 Membrane carboxypeptidase (penicillin-binding protein) [Cell envelope biogenesis, outer membrane]; Region: MrcB; COG0744 504728008477 Transglycosylase; Region: Transgly; pfam00912 504728008478 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 504728008479 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 504728008480 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 504728008481 Bacterial fructose-1,6-bisphosphatase, glpX-encoded. A dimeric enzyme dependent on Mg(2+). glpX-encoded FPBase (FBPase class II) differs from other members of the inositol-phosphatase superfamily by permutation of secondary structure elements. The core...; Region: FBPase_glpX; cd01516 504728008482 Bacterial fructose-1,6-bisphosphatase, glpX-encoded; Region: FBPase_glpX; pfam03320 504728008483 putative active site [active] 504728008484 bifunctional phosphoribosyl-AMP cyclohydrolase/phosphoribosyl-ATP pyrophosphatase protein; Reviewed; Region: PRK02759 504728008485 phosphoribosyl-AMP cyclohydrolase; Reviewed; Region: hisI; PRK00051 504728008486 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 504728008487 metal binding site [ion binding]; metal-binding site 504728008488 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 504728008489 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 504728008490 substrate binding site [chemical binding]; other site 504728008491 glutamase interaction surface [polypeptide binding]; other site 504728008492 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 504728008493 TRAM domain; Region: TRAM; cl01282 504728008494 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 504728008495 S-adenosylmethionine binding site [chemical binding]; other site 504728008496 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 504728008497 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 504728008498 membrane-bound complex binding site; other site 504728008499 TRAP-type uncharacterized transport system, fused permease components [General function prediction only]; Region: COG4666 504728008500 DctM-like transporters; Region: DctM; pfam06808 504728008501 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 504728008502 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 504728008503 active site 504728008504 nucleophile elbow; other site 504728008505 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 504728008506 active site 504728008507 ribulose/triose binding site [chemical binding]; other site 504728008508 phosphate binding site [ion binding]; other site 504728008509 substrate (anthranilate) binding pocket [chemical binding]; other site 504728008510 product (indole) binding pocket [chemical binding]; other site 504728008511 DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]; Region: DnrI; COG3629 504728008512 Tetratricopeptide repeat; Region: TPR_12; pfam13424 504728008513 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 504728008514 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 504728008515 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 504728008516 fumarate hydratase; Reviewed; Region: fumC; PRK00485 504728008517 Class II fumarases; Region: Fumarase_classII; cd01362 504728008518 active site 504728008519 tetramer interface [polypeptide binding]; other site 504728008520 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 504728008521 putative substrate translocation pore; other site 504728008522 Major Facilitator Superfamily; Region: MFS_1; pfam07690 504728008523 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 504728008524 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 504728008525 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 504728008526 active site 504728008527 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4370 504728008528 conserved hypothetical protein; Region: TIGR03492 504728008529 Predicted nucleic acid-binding protein, contains PIN domain [General function prediction only]; Region: COG2402 504728008530 Ribbon-helix-helix domain; Region: RHH_4; cl01775 504728008531 CarD-like/TRCF domain; Region: CarD_CdnL_TRCF; pfam02559 504728008532 DEAD-like helicases superfamily; Region: DEXDc; smart00487 504728008533 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 504728008534 ATP binding site [chemical binding]; other site 504728008535 putative Mg++ binding site [ion binding]; other site 504728008536 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 504728008537 nucleotide binding region [chemical binding]; other site 504728008538 ATP-binding site [chemical binding]; other site 504728008539 TRCF domain; Region: TRCF; pfam03461 504728008540 HEPN domain; Region: HEPN; pfam05168 504728008541 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 504728008542 active site 504728008543 NTP binding site [chemical binding]; other site 504728008544 metal binding triad [ion binding]; metal-binding site 504728008545 antibiotic binding site [chemical binding]; other site 504728008546 HEPN domain; Region: HEPN; pfam05168 504728008547 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 504728008548 active site 504728008549 NTP binding site [chemical binding]; other site 504728008550 metal binding triad [ion binding]; metal-binding site 504728008551 TOPRIM_TopoIA_TopoI: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to Escherichia coli DNA topoisomerase I. Type IA DNA topoisomerases remove (relax) negative supercoils in the...; Region: TOPRIM_TopoIA_TopoI; cd03363 504728008552 DNA topoisomerase I; Validated; Region: PRK06599 504728008553 active site 504728008554 interdomain interaction site; other site 504728008555 putative metal-binding site [ion binding]; other site 504728008556 nucleotide binding site [chemical binding]; other site 504728008557 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 504728008558 domain I; other site 504728008559 DNA binding groove [nucleotide binding] 504728008560 phosphate binding site [ion binding]; other site 504728008561 domain II; other site 504728008562 domain III; other site 504728008563 nucleotide binding site [chemical binding]; other site 504728008564 catalytic site [active] 504728008565 domain IV; other site 504728008566 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 504728008567 Zn-finger domain associated with topoisomerase type I [DNA replication, recombination, and repair]; Region: TopA; COG0551 504728008568 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 504728008569 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 504728008570 Acetyl-CoA hydrolase [Energy production and conversion]; Region: ACH1; COG0427 504728008571 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 504728008572 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 504728008573 Uncharacterized conserved protein [Function unknown]; Region: COG2928 504728008574 Protein of unknown function (DUF456); Region: DUF456; pfam04306 504728008575 Uncharacterized conserved protein [Function unknown]; Region: COG3342 504728008576 Family of unknown function (DUF1028); Region: DUF1028; pfam06267 504728008577 Putative peptidoglycan binding domain; Region: PG_binding_2; pfam08823 504728008578 Diadenosine hexaphosphate (Ap6A) hydrolase is a member of the Nudix hydrolase superfamily. Ap6A hydrolase specifically hydrolyzes diadenosine polyphosphates, but not ATP or diadenosine triphosphate, and it generates ATP as the product. Ap6A, the most...; Region: Ap6A_hydrolase; cd03673 504728008579 active site 504728008580 Ap6A binding site [chemical binding]; other site 504728008581 nudix motif; other site 504728008582 metal binding site [ion binding]; metal-binding site 504728008583 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 504728008584 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 504728008585 trimer interface [polypeptide binding]; other site 504728008586 putative metal binding site [ion binding]; other site 504728008587 CopC domain; Region: CopC; cl01012 504728008588 CopC domain; Region: CopC; cl01012 504728008589 CopC domain; Region: CopC; cl01012 504728008590 Copper resistance protein D; Region: CopD; pfam05425 504728008591 AZL_007920/MXAN_0976 family protein; Region: AZL_007920_fam; TIGR04052 504728008592 di-heme enzyme, MXAN_0977 family; Region: MXAN_0977_Heme2; TIGR04039 504728008593 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 504728008594 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 504728008595 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 504728008596 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 504728008597 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 504728008598 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 504728008599 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 504728008600 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 504728008601 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 504728008602 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 504728008603 dimer interface [polypeptide binding]; other site 504728008604 putative PBP binding regions; other site 504728008605 ABC-ATPase subunit interface; other site 504728008606 Transcriptional regulator; Region: Rrf2; cl17282 504728008607 Rrf2 family protein; Region: rrf2_super; TIGR00738 504728008608 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 504728008609 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 504728008610 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 504728008611 catalytic residue [active] 504728008612 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06710 504728008613 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 504728008614 acyl-activating enzyme (AAE) consensus motif; other site 504728008615 putative AMP binding site [chemical binding]; other site 504728008616 putative active site [active] 504728008617 putative CoA binding site [chemical binding]; other site 504728008618 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 504728008619 M20 Peptidase Aminoacylase 1 family; Region: M20_Acy1; cd03886 504728008620 metal binding site [ion binding]; metal-binding site 504728008621 dimer interface [polypeptide binding]; other site 504728008622 Predicted permeases [General function prediction only]; Region: COG0679 504728008623 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 504728008624 RNA methyltransferase, RsmE family; Region: TIGR00046 504728008625 ribosomal protein L11 methyltransferase; Reviewed; Region: prmA; PRK00517 504728008626 aldose 1-epimerase, similar to Escherichia coli YphB; Region: Aldose_epim_Ec_YphB; cd09021 504728008627 active site 504728008628 catalytic residues [active] 504728008629 Periplasmic binding protein YvrC. These proteins are predicted to function as initial receptors in ABC transport of metal ions in eubacteria and archaea. They belong to the TroA superfamily of periplasmic metal binding proteins that share a distinct...; Region: YvrC; cd01143 504728008630 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 504728008631 putative binding site residues; other site 504728008632 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 504728008633 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 504728008634 CoA-binding site [chemical binding]; other site 504728008635 ATP-binding [chemical binding]; other site 504728008636 SCP_bacterial: SCP-like extracellular protein domain, as found in bacteria and archaea. The wider family of SCP containing proteins includes plant pathogenesis-related protein 1 (PR-1), CRISPs, mammalian cysteine-rich secretory proteins, and allergen 5...; Region: SCP_bacterial; cd05379 504728008637 ribonuclease R; Region: RNase_R; TIGR02063 504728008638 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 504728008639 RNB domain; Region: RNB; pfam00773 504728008640 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 504728008641 RNA binding site [nucleotide binding]; other site 504728008642 Ornithine/acetylornithine aminotransferase [Amino acid transport and metabolism]; Region: ArgD; COG4992 504728008643 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 504728008644 inhibitor-cofactor binding pocket; inhibition site 504728008645 pyridoxal 5'-phosphate binding site [chemical binding]; other site 504728008646 catalytic residue [active] 504728008647 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 504728008648 active site 504728008649 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14323 504728008650 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 504728008651 active site 504728008652 substrate binding site [chemical binding]; other site 504728008653 metal binding site [ion binding]; metal-binding site 504728008654 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 504728008655 Glucose inhibited division protein A; Region: GIDA; pfam01134 504728008656 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 504728008657 hydrophobic ligand binding site; other site 504728008658 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 504728008659 B12 binding site [chemical binding]; other site 504728008660 cobalt ligand [ion binding]; other site 504728008661 uncharacterized peroxidase-related enzyme; Region: peroxid_rel; TIGR01926 504728008662 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 504728008663 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 504728008664 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 504728008665 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 504728008666 QacR-like protein, C-terminal region; Region: TetR_C_5; pfam08360 504728008667 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 504728008668 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 504728008669 trigger factor; Region: tig; TIGR00115 504728008670 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 504728008671 Clp protease; Region: CLP_protease; pfam00574 504728008672 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 504728008673 oligomer interface [polypeptide binding]; other site 504728008674 active site residues [active] 504728008675 ClpX C4-type zinc finger; Region: zf-C4_ClpX; smart00994 504728008676 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 504728008677 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 504728008678 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 504728008679 Walker A motif; other site 504728008680 ATP binding site [chemical binding]; other site 504728008681 Walker B motif; other site 504728008682 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 504728008683 Thioredoxin; Region: Thioredoxin_4; pfam13462 504728008684 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 504728008685 spermidine synthase; Provisional; Region: PRK00811 504728008686 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 504728008687 S-adenosylmethionine binding site [chemical binding]; other site 504728008688 S-adenosylmethionine decarboxylase; Region: AdoMet_dc; cl00687 504728008689 Cof subfamily of IIB subfamily of haloacid dehalogenase superfamily; Region: Cof-subfamily; TIGR00099 504728008690 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 504728008691 active site 504728008692 motif I; other site 504728008693 motif II; other site 504728008694 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 504728008695 Predicted hydrolases of the HAD superfamily [General function prediction only]; Region: Cof; COG0561 504728008696 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 504728008697 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 504728008698 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 504728008699 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 504728008700 dimer interface [polypeptide binding]; other site 504728008701 anticodon binding site; other site 504728008702 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 504728008703 homodimer interface [polypeptide binding]; other site 504728008704 motif 1; other site 504728008705 active site 504728008706 motif 2; other site 504728008707 GAD domain; Region: GAD; pfam02938 504728008708 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 504728008709 motif 3; other site 504728008710 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 504728008711 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 504728008712 dimer interface [polypeptide binding]; other site 504728008713 motif 1; other site 504728008714 active site 504728008715 motif 2; other site 504728008716 motif 3; other site 504728008717 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 504728008718 anticodon binding site; other site 504728008719 GAF domain; Region: GAF; cl17456 504728008720 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 504728008721 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 504728008722 metal binding site [ion binding]; metal-binding site 504728008723 active site 504728008724 I-site; other site 504728008725 S-layer homology domain; Region: SLH; pfam00395 504728008726 S-layer homology domain; Region: SLH; pfam00395 504728008727 S-layer homology domain; Region: SLH; pfam00395 504728008728 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 504728008729 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 504728008730 active site 504728008731 DNA binding site [nucleotide binding] 504728008732 Int/Topo IB signature motif; other site 504728008733 Predicted membrane protein [Function unknown]; Region: COG3431 504728008734 Serine dehydrogenase proteinase; Region: SDH_sah; pfam01972 504728008735 Caseinolytic protease (ClpP) is an ATP-dependent protease; Region: Clp_protease_like; cl15763 504728008736 active site 504728008737 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 504728008738 AAA domain; Region: AAA_23; pfam13476 504728008739 Walker A/P-loop; other site 504728008740 ATP binding site [chemical binding]; other site 504728008741 Q-loop/lid; other site 504728008742 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; smart00968 504728008743 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 504728008744 ABC transporter signature motif; other site 504728008745 Walker B; other site 504728008746 D-loop; other site 504728008747 H-loop/switch region; other site 504728008748 Sporulation and spore germination; Region: Germane; pfam10646 504728008749 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 504728008750 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 504728008751 active site 504728008752 metal binding site [ion binding]; metal-binding site 504728008753 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 504728008754 SmpB-tmRNA interface; other site 504728008755 Glutamine Amidotransferase (GATase_I) involved in pyridoxine biosynthesis; Region: GATase1_PB; cd01749 504728008756 imidazole glycerol phosphate synthase, glutamine amidotransferase subunit; Region: IMP_synth_hisH; TIGR01855 504728008757 predicted active site [active] 504728008758 catalytic triad [active] 504728008759 pyridoxal 5'-phosphate synthase, synthase subunit Pdx1; Region: TIGR00343 504728008760 PdxS is a subunit of the pyridoxal 5'-phosphate (PLP) synthase, an important enzyme in deoxyxylulose 5-phosphate (DXP)-independent pathway for de novo biosynthesis of PLP, present in some eubacteria, in archaea, fungi, plants, plasmodia, and some...; Region: pdxS; cd04727 504728008761 active site 504728008762 multimer interface [polypeptide binding]; other site 504728008763 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 504728008764 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 504728008765 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 504728008766 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 504728008767 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 504728008768 carboxyltransferase (CT) interaction site; other site 504728008769 biotinylation site [posttranslational modification]; other site 504728008770 elongation factor P; Validated; Region: PRK00529 504728008771 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 504728008772 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 504728008773 RNA binding site [nucleotide binding]; other site 504728008774 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 504728008775 RNA binding site [nucleotide binding]; other site 504728008776 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 504728008777 PhoU domain; Region: PhoU; pfam01895 504728008778 PhoU domain; Region: PhoU; pfam01895 504728008779 PAS domain; Region: PAS; smart00091 504728008780 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 504728008781 dimer interface [polypeptide binding]; other site 504728008782 phosphorylation site [posttranslational modification] 504728008783 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 504728008784 Mg2+ binding site [ion binding]; other site 504728008785 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 504728008786 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 504728008787 active site 504728008788 phosphorylation site [posttranslational modification] 504728008789 intermolecular recognition site; other site 504728008790 dimerization interface [polypeptide binding]; other site 504728008791 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 504728008792 DNA binding site [nucleotide binding] 504728008793 DinB superfamily; Region: DinB_2; pfam12867 504728008794 DinB family; Region: DinB; cl17821 504728008795 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 504728008796 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 504728008797 23S rRNA interface [nucleotide binding]; other site 504728008798 L3 interface [polypeptide binding]; other site 504728008799 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; cd00488 504728008800 aromatic arch; other site 504728008801 DCoH dimer interaction site [polypeptide binding]; other site 504728008802 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 504728008803 DCoH tetramer interaction site [polypeptide binding]; other site 504728008804 substrate binding site [chemical binding]; other site 504728008805 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 504728008806 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 504728008807 TPP-binding site [chemical binding]; other site 504728008808 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 504728008809 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 504728008810 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 504728008811 E3 interaction surface; other site 504728008812 lipoyl attachment site [posttranslational modification]; other site 504728008813 e3 binding domain; Region: E3_binding; pfam02817 504728008814 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 504728008815 dihydrolipoamide dehydrogenase; Validated; Region: PRK06327 504728008816 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 504728008817 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 504728008818 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 504728008819 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 504728008820 short chain dehydrogenase; Provisional; Region: PRK09072 504728008821 Class II Aldolase and Adducin head (N-terminal) domain. Aldolases are ubiquitous enzymes catalyzing central steps of carbohydrate metabolism. Based on enzymatic mechanisms, this superfamily has been divided into two distinct classes (Class I and II); Region: Aldolase_II; cl00214 504728008822 intersubunit interface [polypeptide binding]; other site 504728008823 active site 504728008824 Zn2+ binding site [ion binding]; other site 504728008825 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 504728008826 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 504728008827 XdhC Rossmann domain; Region: XdhC_C; pfam13478 504728008828 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 504728008829 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 504728008830 catalytic loop [active] 504728008831 iron binding site [ion binding]; other site 504728008832 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 504728008833 carbon-monoxide dehydrogenase, large subunit; Region: CO_dehy_Mo_lg; TIGR02416 504728008834 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 504728008835 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 504728008836 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 504728008837 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; smart01092 504728008838 MoxR-like ATPases [General function prediction only]; Region: COG0714 504728008839 Protein containing von Willebrand factor type A (vWA) domain [General function prediction only]; Region: CoxE; COG3552 504728008840 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 504728008841 metal ion-dependent adhesion site (MIDAS); other site 504728008842 Peptidase inhibitor I9; Region: Inhibitor_I9; pfam05922 504728008843 Subtilisin-like serine proteases [Posttranslational modification, protein turnover, chaperones]; Region: AprE; COG1404 504728008844 Peptidase S8 family domain in ProteinaseK-like proteins; Region: Peptidases_S8_PCSK9_ProteinaseK_like; cd04077 504728008845 calcium binding site 2 [ion binding]; other site 504728008846 active site 504728008847 catalytic triad [active] 504728008848 calcium binding site 1 [ion binding]; other site 504728008849 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 504728008850 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 504728008851 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 504728008852 triosephosphate isomerase; Provisional; Region: PRK14567 504728008853 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 504728008854 substrate binding site [chemical binding]; other site 504728008855 dimer interface [polypeptide binding]; other site 504728008856 catalytic triad [active] 504728008857 Membrane-bound lysozyme-inhibitor of c-type lysozyme; Region: MliC; pfam09864 504728008858 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 504728008859 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 504728008860 pyridoxal 5'-phosphate binding site [chemical binding]; other site 504728008861 homodimer interface [polypeptide binding]; other site 504728008862 catalytic residue [active] 504728008863 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_x; TIGR03181 504728008864 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 504728008865 TPP-binding site [chemical binding]; other site 504728008866 tetramer interface [polypeptide binding]; other site 504728008867 heterodimer interface [polypeptide binding]; other site 504728008868 phosphorylation loop region [posttranslational modification] 504728008869 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 504728008870 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 504728008871 alpha subunit interface [polypeptide binding]; other site 504728008872 TPP binding site [chemical binding]; other site 504728008873 heterodimer interface [polypeptide binding]; other site 504728008874 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 504728008875 bifunctional aldehyde dehydrogenase/enoyl-CoA hydratase; Provisional; Region: PRK11563 504728008876 N-terminal domain of the monoamine oxidase C dehydratase; Region: ALDH_MaoC-N; cd07128 504728008877 substrate binding site [chemical binding]; other site 504728008878 dimer interface [polypeptide binding]; other site 504728008879 NADP binding site [chemical binding]; other site 504728008880 catalytic residues [active] 504728008881 MaoC_C The C-terminal hot dog fold of the MaoC (monoamine oxidase C) dehydratase regulatory protein. Orthologs of MaoC include PaaZ [Escherichia coli] and PaaN [Pseudomonas putida], which are putative ring-opening enzymes involved in phenylacetic acid...; Region: MaoC_C; cd03452 504728008882 substrate binding site [chemical binding]; other site 504728008883 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 504728008884 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 504728008885 DNA methylase; Region: N6_N4_Mtase; pfam01555 504728008886 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 504728008887 substrate binding site [chemical binding]; other site 504728008888 active site 504728008889 catalytic residues [active] 504728008890 heterodimer interface [polypeptide binding]; other site 504728008891 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 504728008892 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 504728008893 pyridoxal 5'-phosphate binding site [chemical binding]; other site 504728008894 catalytic residue [active] 504728008895 Thermophilic metalloprotease (M29); Region: Peptidase_M29; pfam02073 504728008896 Leucyl aminopeptidase (aminopeptidase T) [Amino acid transport and metabolism]; Region: AmpS; COG2309 504728008897 recombination regulator RecX; Reviewed; Region: recX; PRK00117 504728008898 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 504728008899 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 504728008900 active site 504728008901 metal binding site [ion binding]; metal-binding site 504728008902 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 504728008903 AsnC family; Region: AsnC_trans_reg; pfam01037 504728008904 CAAX protease self-immunity; Region: Abi; pfam02517 504728008905 isocitrate dehydrogenase; Validated; Region: PRK07362 504728008906 isocitrate dehydrogenase; Reviewed; Region: PRK07006 504728008907 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 504728008908 active site 504728008909 catalytic site [active] 504728008910 substrate binding site [chemical binding]; other site 504728008911 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 504728008912 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 504728008913 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 504728008914 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 504728008915 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 504728008916 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 504728008917 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 504728008918 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 504728008919 putative membrane fusion protein; Region: TIGR02828 504728008920 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 504728008921 Outer membrane efflux protein; Region: OEP; pfam02321 504728008922 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 504728008923 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 504728008924 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 504728008925 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 504728008926 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 504728008927 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 504728008928 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 504728008929 dimer interface [polypeptide binding]; other site 504728008930 putative anticodon binding site; other site 504728008931 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 504728008932 motif 1; other site 504728008933 active site 504728008934 motif 2; other site 504728008935 motif 3; other site 504728008936 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 504728008937 TPR motif; other site 504728008938 binding surface 504728008939 WYL domain; Region: WYL; pfam13280 504728008940 CRISPR/Cas system-associated protein Cas3'' Region: Cas3''_I; cd09641 504728008941 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 504728008942 CRISPR/Cas system-associated RAMP superfamily protein Cas5; Region: Cas5_I; cl12040 504728008943 CRISPR-associated protein (Cas_Cas5); Region: Cas_Cas5d; pfam09704 504728008944 CRISPR/Cas system-associated protein Cas8c; Region: Cas8c_I-C; cl12004 504728008945 CRISPR/Cas system-associated RAMP superfamily protein Cas7; Region: Cas7_I-C; cl01465 504728008946 CRISPR/Cas system-associated RAMP superfamily protein Cmr1; Region: Cmr1_III-B; cl17436 504728008947 CRISPR/Cas system-associated protein Cas10; Region: Cas10_III; cd09679 504728008948 CRISPR-associated protein Cas10/Cmr2, subtype III-B; Region: cas_TM1794_Cmr2; TIGR02577 504728008949 CRISPR-associated protein (Cas_Cmr3); Region: Cas_Cmr3; pfam09700 504728008950 CRISPR/Cas system-associated RAMP superfamily protein Cmr3; Region: Cmr3_III-B; cl12075 504728008951 CRISPR/Cas system-associated RAMP superfamily protein Cmr4; Region: Cmr4_III-B; cl17440 504728008952 CRISPR/Cas system-associated protein Cmr5; Region: Cmr5_III-B; cd09749 504728008953 CRISPR/Cas system-associated RAMP superfamily protein; Region: RAMP_I_III; cl17214 504728008954 CRISPR/Cas system-associated protein Csm6; Region: Csm6_III-A; cd09742 504728008955 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cd09637 504728008956 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-II-III; cl00656 504728008957 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I_II_III; cd09725 504728008958 YibE/F-like protein; Region: YibE_F; pfam07907 504728008959 FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]; Region: SlpA; COG1047 504728008960 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 504728008961 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 504728008962 active site 504728008963 metal binding site [ion binding]; metal-binding site 504728008964 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 504728008965 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 504728008966 intersubunit interface [polypeptide binding]; other site 504728008967 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 504728008968 metal binding site 2 [ion binding]; metal-binding site 504728008969 putative DNA binding helix; other site 504728008970 metal binding site 1 [ion binding]; metal-binding site 504728008971 dimer interface [polypeptide binding]; other site 504728008972 structural Zn2+ binding site [ion binding]; other site 504728008973 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 504728008974 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 504728008975 catalytic residues [active] 504728008976 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 504728008977 TPR motif; other site 504728008978 binding surface 504728008979 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism]; Region: FadB; COG1250 504728008980 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 504728008981 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 504728008982 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 504728008983 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 504728008984 substrate binding site [chemical binding]; other site 504728008985 oxyanion hole (OAH) forming residues; other site 504728008986 trimer interface [polypeptide binding]; other site 504728008987 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; cl17344 504728008988 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 504728008989 nudix motif; other site 504728008990 guanine deaminase; Provisional; Region: PRK09228 504728008991 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 504728008992 active site 504728008993 Adenine deaminase [Nucleotide transport and metabolism]; Region: AdeC; COG1001 504728008994 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 504728008995 Adenine deaminase (AdeC) directly deaminates adenine to form hypoxanthine. This reaction is part of one of the adenine salvage pathways, as well as the degradation pathway. It is important for adenine utilization as a purine, as well as a nitrogen source...; Region: AdeC; cd01295 504728008996 active site 504728008997 Adenine deaminase C-terminal domain; Region: Adenine_deam_C; pfam13382 504728008998 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 504728008999 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 504728009000 putative ligand binding site [chemical binding]; other site 504728009001 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 504728009002 TM-ABC transporter signature motif; other site 504728009003 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK06816 504728009004 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 504728009005 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 504728009006 TM-ABC transporter signature motif; other site 504728009007 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 504728009008 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 504728009009 Walker A/P-loop; other site 504728009010 ATP binding site [chemical binding]; other site 504728009011 Q-loop/lid; other site 504728009012 ABC transporter signature motif; other site 504728009013 Walker B; other site 504728009014 D-loop; other site 504728009015 H-loop/switch region; other site 504728009016 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 504728009017 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 504728009018 xanthine dehydrogenase accessory protein XdhC; Region: xanthine_xdhC; TIGR02964 504728009019 XdhC Rossmann domain; Region: XdhC_C; pfam13478 504728009020 Antitoxin of toxin-antitoxin stability system [Cell division and chromosome partitioning]; Region: Phd; COG4118 504728009021 Xanthine dehydrogenase, molybdopterin-binding subunit B [Nucleotide transport and metabolism]; Region: XdhB; COG4631 504728009022 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 504728009023 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 504728009024 Xanthine dehydrogenase, iron-sulfur cluster and FAD-binding subunit A [Nucleotide transport and metabolism]; Region: XdhA; COG4630 504728009025 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 504728009026 FAD binding domain; Region: FAD_binding_4; pfam01565 504728009027 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; pfam03450 504728009028 ATP-dependent Clp protease ATP-binding subunit clpA; Region: ClpA; TIGR02639 504728009029 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 504728009030 Walker A motif; other site 504728009031 ATP binding site [chemical binding]; other site 504728009032 Walker B motif; other site 504728009033 arginine finger; other site 504728009034 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 504728009035 Walker A motif; other site 504728009036 ATP binding site [chemical binding]; other site 504728009037 Walker B motif; other site 504728009038 arginine finger; other site 504728009039 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 504728009040 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 504728009041 Uncharacterized conserved protein [Function unknown]; Region: COG2127 504728009042 RDD family; Region: RDD; pfam06271 504728009043 Highly conserved protein containing a thioredoxin domain [Posttranslational modification, protein turnover, chaperones]; Region: COG1331 504728009044 TRX domain, SSP411 protein family; members of this family are highly conserved proteins present in eukaryotes, bacteria and archaea, about 600-800 amino acids in length, which contain a TRX domain with a redox active CXXC motif. The human/rat protein; Region: SSP411; cd02955 504728009045 catalytic residues [active] 504728009046 Deinococcus radiodurans DR1281 and related proteins, metallophosphatase domain; Region: MPP_DR1281; cd07382 504728009047 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 504728009048 putative active site [active] 504728009049 metal binding site [ion binding]; metal-binding site 504728009050 homodimer binding site [polypeptide binding]; other site 504728009051 Transcriptional regulators [Transcription]; Region: FadR; COG2186 504728009052 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 504728009053 DNA-binding site [nucleotide binding]; DNA binding site 504728009054 FCD domain; Region: FCD; pfam07729 504728009055 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_5; cd08511 504728009056 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 504728009057 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 504728009058 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 504728009059 dimer interface [polypeptide binding]; other site 504728009060 conserved gate region; other site 504728009061 putative PBP binding loops; other site 504728009062 ABC-ATPase subunit interface; other site 504728009063 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 504728009064 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 504728009065 putative PBP binding loops; other site 504728009066 dimer interface [polypeptide binding]; other site 504728009067 ABC-ATPase subunit interface; other site 504728009068 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 504728009069 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 504728009070 Dodecin; Region: Dodecin; pfam07311 504728009071 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 504728009072 CTP synthetase; Validated; Region: pyrG; PRK05380 504728009073 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 504728009074 Catalytic site [active] 504728009075 active site 504728009076 UTP binding site [chemical binding]; other site 504728009077 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 504728009078 active site 504728009079 putative oxyanion hole; other site 504728009080 catalytic triad [active] 504728009081 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 504728009082 Walker A motif; other site 504728009083 ATP binding site [chemical binding]; other site 504728009084 Walker B motif; other site 504728009085 arginine finger; other site 504728009086 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 504728009087 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 504728009088 Zn2+ binding site [ion binding]; other site 504728009089 Mg2+ binding site [ion binding]; other site 504728009090 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 504728009091 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 504728009092 N-acetyl-D-glucosamine binding site [chemical binding]; other site 504728009093 catalytic residue [active]