-- dump date 20140619_011654 -- class Genbank::misc_feature -- table misc_feature_note -- id note 1112912000001 replication initiation protein RepC; Provisional; Region: PRK13824 1112912000002 Replication protein C N-terminal domain; Region: RP-C; pfam03428 1112912000003 Replication protein C C-terminal region; Region: RP-C_C; pfam11800 1112912000004 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1112912000005 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 1112912000006 substrate binding site [chemical binding]; other site 1112912000007 dimer interface [polypeptide binding]; other site 1112912000008 ATP binding site [chemical binding]; other site 1112912000009 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 1112912000010 active site 1112912000011 tetramer interface [polypeptide binding]; other site 1112912000012 Transmembrane subunit (TM) of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which are involved in the uptake of branched-chain amino acids (AAs), as well as TMs of transporters involved in the uptake of...; Region: TM_PBP1_branched-chain-AA_like; cl00454 1112912000013 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 1112912000014 TM-ABC transporter signature motif; other site 1112912000015 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1112912000016 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 1112912000017 TM-ABC transporter signature motif; other site 1112912000018 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 1112912000019 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1112912000020 Walker A/P-loop; other site 1112912000021 ATP binding site [chemical binding]; other site 1112912000022 Q-loop/lid; other site 1112912000023 ABC transporter signature motif; other site 1112912000024 Walker B; other site 1112912000025 D-loop; other site 1112912000026 H-loop/switch region; other site 1112912000027 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1112912000028 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 1112912000029 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 1112912000030 ligand binding site [chemical binding]; other site 1112912000031 Predicted secreted Zn-dependent protease [Posttranslational modification, protein turnover, chaperones]; Region: COG5664 1112912000032 Phosphopantetheinyl transferase component of siderophore synthetase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntD; COG2977 1112912000033 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 1112912000034 2,3-dihydroxybenzoate-2,3-dehydrogenase; Validated; Region: PRK08220 1112912000035 2,3 dihydro-2,3 dihydrozybenzoate dehydrogenases, classical (c) SDRs; Region: DH-DHB-DH_SDR_c; cd05331 1112912000036 putative NAD(P) binding site [chemical binding]; other site 1112912000037 active site 1112912000038 Isochorismatase, also known as 2,3 dihydro-2,3 dihydroxybenzoate synthase, catalyses the conversion of isochorismate, in the presence of water, to 2,3-dihydroxybenzoate and pyruvate, via the hydrolysis of a vinyl ether, an uncommon reaction in biological...; Region: isochorismatase; cd01013 1112912000039 hydrophobic substrate binding pocket; other site 1112912000040 Isochorismatase family; Region: Isochorismatase; pfam00857 1112912000041 active site 1112912000042 conserved cis-peptide bond; other site 1112912000043 Aryl carrier domain [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3433 1112912000044 enterobactin synthase subunit E; Provisional; Region: entE; PRK10946 1112912000045 2,3-dihydroxybenzoate-AMP ligase; Region: 23DHB-AMP_lg; cd05920 1112912000046 acyl-activating enzyme (AAE) consensus motif; other site 1112912000047 active site 1112912000048 AMP binding site [chemical binding]; other site 1112912000049 substrate binding site [chemical binding]; other site 1112912000050 Isochorismate synthase [Coenzyme metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: MenF; COG1169 1112912000051 isochorismate synthases; Region: isochor_syn; TIGR00543 1112912000052 Condensation domain; Region: Condensation; pfam00668 1112912000053 Sulfite oxidase and related enzymes [General function prediction only]; Region: COG2041 1112912000054 bacterial subgroup of the sulfite oxidase (SO) family of molybdopterin binding domains. This domain is found in a variety of oxidoreductases. Common features of all known members of this family, like sulfite oxidase and nitrite reductase, are that they...; Region: bact_SO_family_Moco; cd02108 1112912000055 Moco binding site; other site 1112912000056 metal coordination site [ion binding]; other site 1112912000057 Thiosulfate reductase cytochrome B subunit (membrane anchoring protein) [Energy production and conversion]; Region: COG4117 1112912000058 Cytochrome b(N-terminal)/b6/petB; Region: Cytochrom_B_N; pfam00033 1112912000059 pentapeptide MXKDX repeat protein; Region: penta_MxKDx; TIGR02953 1112912000060 RNA polymerase sigma factor; Provisional; Region: PRK12539 1112912000061 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1112912000062 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 1112912000063 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4944 1112912000064 Transcriptional regulators [Transcription]; Region: FadR; COG2186 1112912000065 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1112912000066 DNA-binding site [nucleotide binding]; DNA binding site 1112912000067 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 1112912000068 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 1112912000069 Periplasmic solute-binding domain of active transport proteins; Region: PBP1_SBP_like_3; cd06329 1112912000070 putative ligand binding site [chemical binding]; other site 1112912000071 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 1112912000072 TM-ABC transporter signature motif; other site 1112912000073 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 1112912000074 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 1112912000075 TM-ABC transporter signature motif; other site 1112912000076 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 1112912000077 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 1112912000078 Walker A/P-loop; other site 1112912000079 ATP binding site [chemical binding]; other site 1112912000080 Q-loop/lid; other site 1112912000081 ABC transporter signature motif; other site 1112912000082 Walker B; other site 1112912000083 D-loop; other site 1112912000084 H-loop/switch region; other site 1112912000085 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 1112912000086 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 1112912000087 Walker A/P-loop; other site 1112912000088 ATP binding site [chemical binding]; other site 1112912000089 Q-loop/lid; other site 1112912000090 ABC transporter signature motif; other site 1112912000091 Walker B; other site 1112912000092 D-loop; other site 1112912000093 H-loop/switch region; other site 1112912000094 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 1112912000095 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1112912000096 active site 1112912000097 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1112912000098 classical (c) SDRs; Region: SDR_c; cd05233 1112912000099 NAD(P) binding site [chemical binding]; other site 1112912000100 active site 1112912000101 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1112912000102 classical (c) SDRs; Region: SDR_c; cd05233 1112912000103 NAD(P) binding site [chemical binding]; other site 1112912000104 active site 1112912000105 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, alpha subunit [Energy production and conversion]; Region: AcoA; COG1071 1112912000106 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 1112912000107 tetramer interface [polypeptide binding]; other site 1112912000108 TPP-binding site [chemical binding]; other site 1112912000109 heterodimer interface [polypeptide binding]; other site 1112912000110 phosphorylation loop region [posttranslational modification] 1112912000111 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 1112912000112 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 1112912000113 alpha subunit interface [polypeptide binding]; other site 1112912000114 TPP binding site [chemical binding]; other site 1112912000115 heterodimer interface [polypeptide binding]; other site 1112912000116 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1112912000117 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 1112912000118 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 1112912000119 E3 interaction surface; other site 1112912000120 lipoyl attachment site [posttranslational modification]; other site 1112912000121 e3 binding domain; Region: E3_binding; pfam02817 1112912000122 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 1112912000123 Shikimate 5-dehydrogenase [Amino acid transport and metabolism]; Region: AroE; COG0169 1112912000124 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 1112912000125 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 1112912000126 shikimate binding site; other site 1112912000127 NAD(P) binding site [chemical binding]; other site 1112912000128 magnesium-transporting ATPase; Provisional; Region: PRK15122 1112912000129 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; smart00831 1112912000130 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1112912000131 Soluble P-type ATPase [General function prediction only]; Region: COG4087 1112912000132 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 1112912000133 Uncharacterized membrane protein [Function unknown]; Region: SapB; COG1285 1112912000134 MgtC family; Region: MgtC; pfam02308 1112912000135 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 1112912000136 ATP binding site [chemical binding]; other site 1112912000137 Mg2+ binding site [ion binding]; other site 1112912000138 G-X-G motif; other site 1112912000139 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 1112912000140 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 1112912000141 active site 1112912000142 phosphorylation site [posttranslational modification] 1112912000143 intermolecular recognition site; other site 1112912000144 dimerization interface [polypeptide binding]; other site 1112912000145 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 1112912000146 dimerization interface [polypeptide binding]; other site 1112912000147 DNA binding residues [nucleotide binding] 1112912000148 Response regulator receiver domain; Region: Response_reg; pfam00072 1112912000149 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 1112912000150 active site 1112912000151 phosphorylation site [posttranslational modification] 1112912000152 intermolecular recognition site; other site 1112912000153 dimerization interface [polypeptide binding]; other site 1112912000154 N-formylglutamate amidohydrolase [Amino acid transport and metabolism]; Region: HutG; COG3741 1112912000155 Predominantly bacterial family of Mg++ dependend phosphatases, related to inositol monophosphatases. These enzymes may dephosphorylate fructose-1,6-bisphosphate, inositol monophospate, 3'-phosphoadenosine-5'-phosphate, or similar substrates; Region: Bacterial_IMPase_like_1; cd01641 1112912000156 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 1112912000157 active site 1112912000158 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 1112912000159 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1112912000160 Peptidase propeptide and YPEB domain; Region: PepSY_2; pfam13670 1112912000161 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 1112912000162 Alpha-crystallin domain (ACD) found in Escherichia coli inclusion body-associated proteins IbpA and IbpB, and similar proteins. IbpA and IbpB are 16 kDa small heat shock proteins (sHsps). sHsps are molecular chaperones that suppress protein aggregation...; Region: ACD_IbpA-B_like; cd06470 1112912000163 putative dimer interface [polypeptide binding]; other site 1112912000164 Threonine aldolase [Amino acid transport and metabolism]; Region: GLY1; COG2008 1112912000165 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 1112912000166 tetramer interface [polypeptide binding]; other site 1112912000167 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1112912000168 catalytic residue [active] 1112912000169 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 1112912000170 Glutamine amidotransferases class-II (Gn-AT), glutamate synthase (GltS)-type. GltS is a homodimer that synthesizes L-glutamate from 2-oxoglutarate and L-glutamine, an important step in ammonia assimilation in bacteria, cyanobacteria and plants. The...; Region: GltS; cd00713 1112912000171 active site 1112912000172 dimer interface [polypeptide binding]; other site 1112912000173 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 1112912000174 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 1112912000175 active site 1112912000176 FMN binding site [chemical binding]; other site 1112912000177 substrate binding site [chemical binding]; other site 1112912000178 3Fe-4S cluster binding site [ion binding]; other site 1112912000179 gltb_C. This domain is found at the C-terminus of the large subunit (gltB) of glutamate synthase (GltS). GltS encodes a complex iron-sulfur flavoprotein that catalyzes the synthesis of L-glutamate from L-glutamine and 2-oxoglutarate. It requires the...; Region: gltB_C; cd00982 1112912000180 domain interface; other site 1112912000181 glutamate synthase subunit beta; Reviewed; Region: gltD; PRK12810 1112912000182 D-alanine/D-serine/glycine permease; Provisional; Region: PRK11049 1112912000183 SGNH_peri2; putative periplasmic member of the SGNH-family of hydrolases, a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known...; Region: SGNH_hydrolase_peri2; cd01829 1112912000184 active site 1112912000185 catalytic triad [active] 1112912000186 oxyanion hole [active] 1112912000187 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 1112912000188 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1112912000189 ligand binding site [chemical binding]; other site 1112912000190 P-type DNA transfer ATPase VirB11; Region: VirB11; TIGR02788 1112912000191 Type IV secretory pathway component VirB11, and related ATPases. The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to...; Region: VirB11-like_ATPase; cd01130 1112912000192 ATP binding site [chemical binding]; other site 1112912000193 Walker A motif; other site 1112912000194 hexamer interface [polypeptide binding]; other site 1112912000195 Walker B motif; other site 1112912000196 Type IV secretory pathway, VirB10 components [Intracellular trafficking and secretion]; Region: VirB10; COG2948 1112912000197 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cl11423 1112912000198 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 1112912000199 VirB7 interaction site; other site 1112912000200 Type IV secretory pathway, component VirB8 [Intracellular trafficking and secretion]; Region: VirB8; COG3736 1112912000201 Prokaryotic membrane lipoprotein lipid attachment site; Region: LPAM_1; pfam08139 1112912000202 Type IV secretory pathway, VirB6 components [Intracellular trafficking and secretion]; Region: VirB6; COG3704 1112912000203 P-type DNA transfer protein VirB5; Region: VirB5; TIGR02791 1112912000204 Type IV secretion system proteins; Region: T4SS; pfam07996 1112912000205 Type IV secretory pathway, VirB4 components [Intracellular trafficking and secretion]; Region: VirB4; COG3451 1112912000206 CagE, TrbE, VirB family, component of type IV transporter system; Region: CagE_TrbE_VirB; pfam03135 1112912000207 Type IV secretory pathway, VirB3 components [Intracellular trafficking and secretion]; Region: VirB3; COG3702 1112912000208 TrbC/VIRB2 family; Region: TrbC; pfam04956 1112912000209 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 1112912000210 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1112912000211 catalytic residue [active] 1112912000212 lytic murein transglycosylase; Region: MltB_2; TIGR02283 1112912000213 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 1112912000214 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1112912000215 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1112912000216 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 1112912000217 active site 1112912000218 tetramer interface; other site 1112912000219 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5338 1112912000220 Uncharacterized protein conserved in bacteria (DUF2320); Region: DUF2320; pfam10082 1112912000221 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 1112912000222 KpsF-like protein. KpsF is an arabinose-5-phosphate isomerase which contains SIS (Sugar ISomerase) domains. SIS domains are found in many phosphosugar isomerases and phosphosugar binding proteins. KpsF catalyzes the reversible reaction of ribulose...; Region: SIS_Kpsf; cd05014 1112912000223 putative active site [active] 1112912000224 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with KpsF/GutQ domains in the API [A5P (D-arabinose 5-phosphate) isomerase] protein. These APIs catalyze the conversion of the pentose pathway...; Region: CBS_pair_KpsF_GutQ_assoc; cd04604 1112912000225 Membrane protein implicated in regulation of membrane protease activity [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: COG1585 1112912000226 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 1112912000227 Band_7_stomatin_like: A subgroup of the band 7 domain of flotillin (reggie) like proteins similar to stomatin and podicin (two lipid raft-associated integral membrane proteins). Individual proteins of this band 7 domain family may cluster to form...; Region: Band_7_stomatin_like; cd03403 1112912000228 ferrochelatase; Reviewed; Region: hemH; PRK00035 1112912000229 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 1112912000230 C-terminal domain interface [polypeptide binding]; other site 1112912000231 active site 1112912000232 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 1112912000233 active site 1112912000234 N-terminal domain interface [polypeptide binding]; other site 1112912000235 Homospermidine synthase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG5310 1112912000236 Saccharopine dehydrogenase; Region: Saccharop_dh; pfam03435 1112912000237 hypothetical protein; Provisional; Region: PRK07546 1112912000238 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 1112912000239 substrate-cofactor binding pocket; other site 1112912000240 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1112912000241 homodimer interface [polypeptide binding]; other site 1112912000242 catalytic residue [active] 1112912000243 aminodeoxychorismate synthase; Provisional; Region: PRK07508 1112912000244 chorismate binding enzyme; Region: Chorismate_bind; cl10555 1112912000245 oligoendopeptidase, pepF/M3 family; Region: M3_fam_3; TIGR02290 1112912000246 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_5; cd09610 1112912000247 active site 1112912000248 Zn binding site [ion binding]; other site 1112912000249 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 1112912000250 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 1112912000251 active site 1112912000252 phosphorylation site [posttranslational modification] 1112912000253 intermolecular recognition site; other site 1112912000254 dimerization interface [polypeptide binding]; other site 1112912000255 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 1112912000256 Walker A motif; other site 1112912000257 ATP binding site [chemical binding]; other site 1112912000258 Walker B motif; other site 1112912000259 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1112912000260 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3108 1112912000261 Bacterial protein of unknown function (DUF882); Region: Peptidase_M15_2; pfam05951 1112912000262 Predicted sulfurtransferase [General function prediction only]; Region: COG1054 1112912000263 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 1112912000264 active site residue [active] 1112912000265 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 1112912000266 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1112912000267 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 1112912000268 dimer interface [polypeptide binding]; other site 1112912000269 conserved gate region; other site 1112912000270 putative PBP binding loops; other site 1112912000271 ABC-ATPase subunit interface; other site 1112912000272 ABC-type molybdate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: ModC; COG4148 1112912000273 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1112912000274 Walker A/P-loop; other site 1112912000275 ATP binding site [chemical binding]; other site 1112912000276 Q-loop/lid; other site 1112912000277 ABC transporter signature motif; other site 1112912000278 Walker B; other site 1112912000279 D-loop; other site 1112912000280 H-loop/switch region; other site 1112912000281 TOBE domain; Region: TOBE; cl01440 1112912000282 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 1112912000283 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG2215 1112912000284 ABC-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: COG3683 1112912000285 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1112912000286 LysR family transcriptional regulator; Provisional; Region: PRK14997 1112912000287 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 1112912000288 putative effector binding pocket; other site 1112912000289 dimerization interface [polypeptide binding]; other site 1112912000290 amidase; Provisional; Region: PRK08310 1112912000291 indole-3-acetamide amidohydrolase; Region: PLN02722 1112912000292 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 1112912000293 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Ornithine Decarboxylase; Region: PLPDE_III_ODC; cd00622 1112912000294 dimer interface [polypeptide binding]; other site 1112912000295 active site 1112912000296 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1112912000297 catalytic residues [active] 1112912000298 substrate binding site [chemical binding]; other site 1112912000299 Uncharacterized protein involved in exopolysaccharide biosynthesis [Cell envelope biogenesis, outer membrane]; Region: GumC; COG3206 1112912000300 Chain length determinant protein; Region: Wzz; pfam02706 1112912000301 Teichoic acid biosynthesis proteins [Cell envelope biogenesis, outer membrane]; Region: WecG; COG1922 1112912000302 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 1112912000303 Glycosyl transferases group 1; Region: Glyco_trans_1_4; pfam13692 1112912000304 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 1112912000305 Glycosyl transferase family 2; Region: Glycos_transf_2; pfam00535 1112912000306 active site 1112912000307 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 1112912000308 O-Antigen ligase; Region: Wzy_C; pfam04932 1112912000309 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1112912000310 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1112912000311 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1112912000312 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1112912000313 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 1112912000314 6-phosphogluconate dehydrogenase [Carbohydrate transport and metabolism]; Region: Gnd; COG0362 1112912000315 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 1112912000316 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 1112912000317 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 1112912000318 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1112912000319 Walker A/P-loop; other site 1112912000320 ATP binding site [chemical binding]; other site 1112912000321 Q-loop/lid; other site 1112912000322 ABC transporter signature motif; other site 1112912000323 Walker B; other site 1112912000324 D-loop; other site 1112912000325 H-loop/switch region; other site 1112912000326 TOBE domain; Region: TOBE_2; pfam08402 1112912000327 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 1112912000328 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 1112912000329 dimer interface [polypeptide binding]; other site 1112912000330 conserved gate region; other site 1112912000331 putative PBP binding loops; other site 1112912000332 ABC-ATPase subunit interface; other site 1112912000333 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 1112912000334 dimer interface [polypeptide binding]; other site 1112912000335 conserved gate region; other site 1112912000336 putative PBP binding loops; other site 1112912000337 ABC-ATPase subunit interface; other site 1112912000338 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 1112912000339 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 1112912000340 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 1112912000341 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 1112912000342 putative substrate translocation pore; other site 1112912000343 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 1112912000344 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1112912000345 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1112912000346 AefR-like transcriptional repressor, C-terminal region; Region: TetR_C_7; pfam14246 1112912000347 Autoinducer binding domain; Region: Autoind_bind; pfam03472 1112912000348 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 1112912000349 DNA binding residues [nucleotide binding] 1112912000350 dimerization interface [polypeptide binding]; other site 1112912000351 Flagellar biosynthesis pathway, component FlhB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlhB; COG1377 1112912000352 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 1112912000353 Flagellar motor switch/type III secretory pathway protein [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FliN; COG1886 1112912000354 Flagellar motor switch protein [Cell motility and secretion]; Region: FliM; COG1868 1112912000355 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 1112912000356 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 1112912000357 flagellar motor protein MotA; Validated; Region: PRK09110 1112912000358 Protein of unknown function (DUF1217); Region: DUF1217; pfam06748 1112912000359 Protein of unknown function (DUF1217); Region: DUF1217; pfam06748 1112912000360 flagellar basal body rod protein FlgF; Reviewed; Region: flgF; PRK12642 1112912000361 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 1112912000362 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 1112912000363 flagellum-specific ATP synthase; Validated; Region: fliI; PRK06002 1112912000364 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 1112912000365 Walker A motif; other site 1112912000366 ATP binding site [chemical binding]; other site 1112912000367 Walker B motif; other site 1112912000368 PAP2_like proteins, Lipid A 1-phosphatase subfamily. Lipid A 1-phosphatase, or LpxE from Francisella novicida selectively dephosphorylates lipid A at the 1-position. Lipid A is the membrane-anchor component of lipopolysaccharides (LPS), the major...; Region: PAP2_lipid_A_1_phosphatase; cd03389 1112912000369 active site 1112912000370 GtrA-like protein; Region: GtrA; pfam04138 1112912000371 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 1112912000372 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 1112912000373 Ligand binding site; other site 1112912000374 Putative Catalytic site; other site 1112912000375 DXD motif; other site 1112912000376 Peptidase family M48; Region: Peptidase_M48; cl12018 1112912000377 uncharacterized YdjC-like family proteins from bacteria; Region: YdjC_like_3; cd10807 1112912000378 putative active site [active] 1112912000379 YdjC motif; other site 1112912000380 Mg binding site [ion binding]; other site 1112912000381 putative homodimer interface [polypeptide binding]; other site 1112912000382 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 1112912000383 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl17364 1112912000384 Helix-turn-helix domain; Region: HTH_18; pfam12833 1112912000385 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1112912000386 Transposase; Region: HTH_Tnp_1; cl17663 1112912000387 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 1112912000388 D-galactonate transporter; Region: 2A0114; TIGR00893 1112912000389 putative substrate translocation pore; other site 1112912000390 putative aldolase; Validated; Region: PRK08130 1112912000391 intersubunit interface [polypeptide binding]; other site 1112912000392 active site 1112912000393 Zn2+ binding site [ion binding]; other site 1112912000394 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1112912000395 Escherichia coli Gne (a nucleoside-diphosphate-sugar 4-epimerase)-like, extended (e) SDRs; Region: Gne_like_SDR_e; cd05238 1112912000396 putative NAD(P) binding site [chemical binding]; other site 1112912000397 active site 1112912000398 putative substrate binding site [chemical binding]; other site 1112912000399 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 1112912000400 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 1112912000401 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1112912000402 Hydroxypyruvate isomerase [Carbohydrate transport and metabolism]; Region: Hfi; COG3622 1112912000403 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 1112912000404 Metal-binding active site; metal-binding site 1112912000405 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3395 1112912000406 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK06003 1112912000407 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK12782 1112912000408 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 1112912000409 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 1112912000410 flagellar hook-basal body protein FliE; Reviewed; Region: fliE; PRK00790 1112912000411 flagellar basal body rod protein FlgG; Reviewed; Region: flgG; PRK12691 1112912000412 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 1112912000413 flagellar basal body P-ring biosynthesis protein FlgA; Reviewed; Region: flgA; PRK06005 1112912000414 Flagellar basal body P-ring biosynthesis protein [Cell motility and secretion / Posttranslational modification, protein turnover, chaperones]; Region: FlgA; COG1261 1112912000415 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 1112912000416 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 1112912000417 Uncharacterized conserved protein [Function unknown]; Region: COG3334 1112912000418 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK00249 1112912000419 Flagellar basal body L-ring protein [Cell motility and secretion]; Region: FlgH; COG2063 1112912000420 Flagellar basal body-associated protein FliL; Region: FliL; pfam03748 1112912000421 FliP family; Region: FliP; cl00593 1112912000422 Domain of unknown function (DUF4381); Region: DUF4381; pfam14316 1112912000423 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4893 1112912000424 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1112912000425 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1112912000426 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_1; cd08421 1112912000427 putative dimerization interface [polypeptide binding]; other site 1112912000428 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1112912000429 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1112912000430 Uncharacterized conserved protein [Function unknown]; Region: COG3777 1112912000431 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 1112912000432 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 1112912000433 active site 2 [active] 1112912000434 active site 1 [active] 1112912000435 Citrate lyase beta subunit [Carbohydrate transport and metabolism]; Region: CitE; COG2301 1112912000436 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 1112912000437 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 1112912000438 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 1112912000439 Pertactin-like passenger domains (virulence factors), C-terminal, subgroup 2, of autotransporter proteins of the type V secretion system of Gram-negative bacteria. This subgroup includes the passenger domains of the nonprotease autotransporters, Ag43; Region: PL2_Passenger_AT; cd01344 1112912000440 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 1112912000441 Autotransporter beta-domain; Region: Autotransporter; pfam03797 1112912000442 Cytochrome c2 [Energy production and conversion]; Region: COG3474 1112912000443 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2841 1112912000444 transcriptional regulator PdhR; Reviewed; Region: pdhR; PRK09464 1112912000445 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1112912000446 DNA-binding site [nucleotide binding]; DNA binding site 1112912000447 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 1112912000448 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1112912000449 transcriptional activator TtdR; Provisional; Region: PRK09801 1112912000450 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 1112912000451 putative effector binding pocket; other site 1112912000452 dimerization interface [polypeptide binding]; other site 1112912000453 glycolate oxidase subunit GlcD; Provisional; Region: PRK11230 1112912000454 FAD binding domain; Region: FAD_binding_4; pfam01565 1112912000455 FAD binding domain; Region: FAD_binding_4; pfam01565 1112912000456 glycolate oxidase FAD binding subunit; Provisional; Region: glcE; PRK11282 1112912000457 glycolate oxidase iron-sulfur subunit; Provisional; Region: glcF; PRK11274 1112912000458 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 1112912000459 Cysteine-rich domain; Region: CCG; pfam02754 1112912000460 Cysteine-rich domain; Region: CCG; pfam02754 1112912000461 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 1112912000462 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 1112912000463 active site 1112912000464 catalytic tetrad [active] 1112912000465 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 1112912000466 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 1112912000467 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 1112912000468 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 1112912000469 Histidyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: HisS; COG0124 1112912000470 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 1112912000471 dimer interface [polypeptide binding]; other site 1112912000472 motif 1; other site 1112912000473 motif 2; other site 1112912000474 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 1112912000475 active site 1112912000476 motif 3; other site 1112912000477 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 1112912000478 anticodon binding site; other site 1112912000479 ATP phosphoribosyltransferase regulatory subunit; Provisional; Region: hisZ; PRK12295 1112912000480 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 1112912000481 motif 1; other site 1112912000482 dimer interface [polypeptide binding]; other site 1112912000483 active site 1112912000484 motif 2; other site 1112912000485 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 1112912000486 active site 1112912000487 motif 3; other site 1112912000488 ATP phosphoribosyltransferase catalytic subunit; Provisional; Region: hisG; PRK13583 1112912000489 ATP phosphoribosyltransferase [Amino acid transport and metabolism]; Region: HisG; COG0040 1112912000490 Predicted membrane protein [Function unknown]; Region: COG2259 1112912000491 fumarate hydratase; Reviewed; Region: fumC; PRK00485 1112912000492 Class II fumarases; Region: Fumarase_classII; cd01362 1112912000493 active site 1112912000494 tetramer interface [polypeptide binding]; other site 1112912000495 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 1112912000496 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 1112912000497 ring oligomerisation interface [polypeptide binding]; other site 1112912000498 ATP/Mg binding site [chemical binding]; other site 1112912000499 stacking interactions; other site 1112912000500 hinge regions; other site 1112912000501 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 1112912000502 oligomerisation interface [polypeptide binding]; other site 1112912000503 mobile loop; other site 1112912000504 roof hairpin; other site 1112912000505 Predicted sugar phosphatases of the HAD superfamily [Carbohydrate transport and metabolism]; Region: NagD; COG0647 1112912000506 Haloacid dehalogenase-like hydrolase; Region: Hydrolase_6; pfam13344 1112912000507 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 1112912000508 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 1112912000509 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 1112912000510 active site 1112912000511 Riboflavin kinase; Region: Flavokinase; smart00904 1112912000512 isoleucyl-tRNA synthetase; Provisional; Region: ileS; PRK13804 1112912000513 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1112912000514 active site 1112912000515 HIGH motif; other site 1112912000516 nucleotide binding site [chemical binding]; other site 1112912000517 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 1112912000518 active site 1112912000519 KMSKS motif; other site 1112912000520 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 1112912000521 tRNA binding surface [nucleotide binding]; other site 1112912000522 anticodon binding site; other site 1112912000523 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 1112912000524 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 1112912000525 nucleoside/Zn binding site; other site 1112912000526 dimer interface [polypeptide binding]; other site 1112912000527 catalytic motif [active] 1112912000528 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 1112912000529 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 1112912000530 RNA binding surface [nucleotide binding]; other site 1112912000531 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 1112912000532 active site 1112912000533 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 1112912000534 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 1112912000535 S-adenosylmethionine binding site [chemical binding]; other site 1112912000536 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 1112912000537 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 1112912000538 glutathione-regulated potassium-efflux system protein KefB; Provisional; Region: PRK03659 1112912000539 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 1112912000540 TrkA-N domain; Region: TrkA_N; pfam02254 1112912000541 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; COG0312 1112912000542 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 1112912000543 CysQ, a 3'-Phosphoadenosine-5'-phosphosulfate (PAPS) 3'-phosphatase, is a bacterial member of the inositol monophosphatase family. It has been proposed that CysQ helps control intracellular levels of PAPS, which is an intermediate in...; Region: CysQ; cd01638 1112912000544 active site 1112912000545 Domain of unknown function (DUF4170); Region: DUF4170; pfam13773 1112912000546 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: DUF374; Region: LPLAT_DUF374-like; cd07983 1112912000547 putative acyl-acceptor binding pocket; other site 1112912000548 3-deoxy-D-manno-octulosonic-acid transferase [Cell envelope biogenesis, outer membrane]; Region: KdtA; COG1519 1112912000549 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 1112912000550 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 1112912000551 Tetraacyldisaccharide-1-P 4'-kinase [Cell envelope biogenesis, outer membrane]; Region: LpxK; COG1663 1112912000552 tetraacyldisaccharide 4'-kinase; Reviewed; Region: lpxK; PRK00652 1112912000553 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3908 1112912000554 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 1112912000555 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 1112912000556 ATP binding site [chemical binding]; other site 1112912000557 Mg2+ binding site [ion binding]; other site 1112912000558 G-X-G motif; other site 1112912000559 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 1112912000560 ATP binding site [chemical binding]; other site 1112912000561 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 1112912000562 benzoate transport; Region: 2A0115; TIGR00895 1112912000563 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 1112912000564 putative substrate translocation pore; other site 1112912000565 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1112912000566 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1112912000567 active site 1112912000568 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 1112912000569 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1112912000570 Bacterial transcriptional regulator; Region: IclR; pfam01614 1112912000571 enoyl-CoA hydratase; Provisional; Region: PRK08138 1112912000572 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 1112912000573 substrate binding site [chemical binding]; other site 1112912000574 oxyanion hole (OAH) forming residues; other site 1112912000575 trimer interface [polypeptide binding]; other site 1112912000576 3-hydroxy-acyl-CoA dehydrogenase; Validated; Region: PRK08268 1112912000577 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 1112912000578 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1112912000579 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1112912000580 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1112912000581 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1112912000582 Helix-Turn-Helix DNA binding domain of putative transcription regulators from the MerR superfamily; Region: HTH_MerR-like_sg7; cd04786 1112912000583 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 1112912000584 DNA binding residues [nucleotide binding] 1112912000585 putative dimer interface [polypeptide binding]; other site 1112912000586 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Escherichia coli Hsp31 protein; Region: GATase1_Hsp31_like; cd03141 1112912000587 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 1112912000588 potential catalytic triad [active] 1112912000589 conserved cys residue [active] 1112912000590 sensor protein QseC; Provisional; Region: PRK10337 1112912000591 HAMP domain; Region: HAMP; pfam00672 1112912000592 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 1112912000593 dimer interface [polypeptide binding]; other site 1112912000594 phosphorylation site [posttranslational modification] 1112912000595 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 1112912000596 Mg2+ binding site [ion binding]; other site 1112912000597 G-X-G motif; other site 1112912000598 Uncharacterized conserved protein [Function unknown]; Region: COG5591 1112912000599 Predicted periplasmic protein (DUF2271); Region: DUF2271; pfam10029 1112912000600 Sulfite reductase, alpha subunit (flavoprotein) [Inorganic ion transport and metabolism]; Region: CysJ; COG0369 1112912000601 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 1112912000602 Flavodoxin; Region: Flavodoxin_1; pfam00258 1112912000603 Cytochrome p450- like alpha subunits of E. coli sulfite reductase (SiR) multimerize with beta subunits to catalyze the NADPH dependent reduction of sulfite to sulfide. Beta subunits have an Fe4S4 cluster and a siroheme, while the alpha subunits (cysJ...; Region: SiR_like2; cd06201 1112912000604 FAD binding pocket [chemical binding]; other site 1112912000605 FAD binding motif [chemical binding]; other site 1112912000606 catalytic residues [active] 1112912000607 NAD binding pocket [chemical binding]; other site 1112912000608 phosphate binding motif [ion binding]; other site 1112912000609 beta-alpha-beta structure motif; other site 1112912000610 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 1112912000611 ApbE family; Region: ApbE; pfam02424 1112912000612 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 1112912000613 GAF domain; Region: GAF; pfam01590 1112912000614 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1112912000615 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1112912000616 metal binding site [ion binding]; metal-binding site 1112912000617 active site 1112912000618 I-site; other site 1112912000619 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1112912000620 EamA-like transporter family; Region: EamA; pfam00892 1112912000621 EamA-like transporter family; Region: EamA; cl17759 1112912000622 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1112912000623 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1112912000624 DNA-binding site [nucleotide binding]; DNA binding site 1112912000625 FCD domain; Region: FCD; pfam07729 1112912000626 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 1112912000627 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 1112912000628 inhibitor site; inhibition site 1112912000629 active site 1112912000630 dimer interface [polypeptide binding]; other site 1112912000631 catalytic residue [active] 1112912000632 Malate/L-lactate dehydrogenases [Energy production and conversion]; Region: COG2055 1112912000633 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 1112912000634 Polysaccharide biosynthesis protein; Region: Polysacc_synt_3; pfam13440 1112912000635 Hemerythrin HHE cation binding domain; Region: Hemerythrin; pfam01814 1112912000636 NorE_like subfamily of heme-copper oxidase subunit III. Heme-copper oxidases include cytochrome c and ubiquinol oxidases. Alcaligenes faecalis norE is found in a gene cluster containing norCB. norCB encodes the cytochrome c and cytochrome b subunits of...; Region: NorE_like; cd02862 1112912000637 Cytochrome c; Region: Cytochrom_C; pfam00034 1112912000638 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 1112912000639 Heme-copper oxidase subunit I. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which catalyze the reduction of O2 and simultaneously pump protons across the membrane. The superfamily is...; Region: Heme_Cu_Oxidase_I; cl00275 1112912000640 Binuclear center (active site) [active] 1112912000641 K-pathway; other site 1112912000642 Putative proton exit pathway; other site 1112912000643 MoxR-like ATPases [General function prediction only]; Region: COG0714 1112912000644 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 1112912000645 Walker A motif; other site 1112912000646 ATP binding site [chemical binding]; other site 1112912000647 Walker B motif; other site 1112912000648 CbbQ/NirQ/NorQ C-terminal; Region: CbbQ_C; pfam08406 1112912000649 Nitric oxide reductase activation protein [Inorganic ion transport and metabolism]; Region: NorD; COG4548 1112912000650 norD type: Denitrifying bacteria contain both membrane bound and periplasmic nitrate reductases. Denitrification plays a major role in completing the nitrogen cycle by converting nitrate or nitrite to nitrogen gas. The pathway for microbial...; Region: vWA_norD_type; cd01454 1112912000651 metal ion-dependent adhesion site (MIDAS); other site 1112912000652 Uncharacterized conserved protein [Function unknown]; Region: COG4309 1112912000653 Uncharacterized conserved protein (DUF2249); Region: DUF2249; pfam10006 1112912000654 SirA, YedF, and YeeD. Two-layered alpha/beta sandwich domain. SirA (also known as UvrY, and YhhP) belongs to a family of bacterial two-component response regulators that controls secondary metabolism and virulence. The other member of this...; Region: SirA_YedF_YeeD; cd00291 1112912000655 CPxP motif; other site 1112912000656 Predicted metal-sulfur cluster biosynthetic enzyme [General function prediction only]; Region: PaaD; COG2151 1112912000657 Putative protein-S-isoprenylcysteine methyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: STE14; COG2020 1112912000658 Thioesterase domains of type I polyketide synthases or non-ribosomal peptide synthetases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3319 1112912000659 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 1112912000660 nucleophilic elbow; other site 1112912000661 catalytic triad; other site 1112912000662 nitrite reductase, copper-containing; Region: Cu_nitrite_red; TIGR02376 1112912000663 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 1112912000664 Multicopper oxidase; Region: Cu-oxidase; pfam00394 1112912000665 Uncharacterized conserved protein [Function unknown]; Region: COG1262 1112912000666 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 1112912000667 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1112912000668 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 1112912000669 ligand binding site [chemical binding]; other site 1112912000670 flexible hinge region; other site 1112912000671 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 1112912000672 putative switch regulator; other site 1112912000673 non-specific DNA interactions [nucleotide binding]; other site 1112912000674 DNA binding site [nucleotide binding] 1112912000675 sequence specific DNA binding site [nucleotide binding]; other site 1112912000676 putative cAMP binding site [chemical binding]; other site 1112912000677 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1112912000678 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1112912000679 DNA binding site [nucleotide binding] 1112912000680 domain linker motif; other site 1112912000681 Ligand binding domain of DNA transcription repressor specific for fructose (FruR) and its close homologs; Region: PBP1_FruR; cd06274 1112912000682 dimerization interface [polypeptide binding]; other site 1112912000683 ligand binding site [chemical binding]; other site 1112912000684 ABC-type xylose transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: XylF; COG4213 1112912000685 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 1112912000686 putative ligand binding site [chemical binding]; other site 1112912000687 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1112912000688 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1112912000689 Walker A/P-loop; other site 1112912000690 ATP binding site [chemical binding]; other site 1112912000691 Q-loop/lid; other site 1112912000692 ABC transporter signature motif; other site 1112912000693 Walker B; other site 1112912000694 D-loop; other site 1112912000695 H-loop/switch region; other site 1112912000696 Transmembrane subunit (TM) of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which are involved in the uptake of branched-chain amino acids (AAs), as well as TMs of transporters involved in the uptake of...; Region: TM_PBP1_branched-chain-AA_like; cl00454 1112912000697 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1112912000698 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 1112912000699 TM-ABC transporter signature motif; other site 1112912000700 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 1112912000701 classical (c) SDRs; Region: SDR_c; cd05233 1112912000702 NAD(P) binding site [chemical binding]; other site 1112912000703 active site 1112912000704 Ribulose kinase [Energy production and conversion]; Region: AraB; COG1069 1112912000705 Yersinia Pseudotuberculosis carbohydrate kinase-like subgroup; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_YpCarbK_like; cd07782 1112912000706 N- and C-terminal domain interface [polypeptide binding]; other site 1112912000707 active site 1112912000708 MgATP binding site [chemical binding]; other site 1112912000709 catalytic site [active] 1112912000710 metal binding site [ion binding]; metal-binding site 1112912000711 carbohydrate binding site [chemical binding]; other site 1112912000712 putative homodimer interface [polypeptide binding]; other site 1112912000713 RES domain; Region: RES; smart00953 1112912000714 Protein of unknown function (DUF2384); Region: DUF2384; pfam09722 1112912000715 Regulator of nitric oxide reductase transcription [Transcription]; Region: NosR; COG3901 1112912000716 ferredoxin-type protein, NapH/MauN family; Region: napH_; TIGR02163 1112912000717 4Fe-4S binding domain; Region: Fer4_5; pfam12801 1112912000718 4Fe-4S binding domain; Region: Fer4_5; pfam12801 1112912000719 nitrous-oxide reductase; Validated; Region: PRK02888 1112912000720 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 1112912000721 Nitrous oxidase accessory protein [Inorganic ion transport and metabolism]; Region: NosD; COG3420 1112912000722 parallel beta-helix repeat (two copies); Region: para_beta_helix; TIGR03804 1112912000723 parallel beta-helix repeat (two copies); Region: para_beta_helix; TIGR03804 1112912000724 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 1112912000725 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1112912000726 Walker A/P-loop; other site 1112912000727 ATP binding site [chemical binding]; other site 1112912000728 Q-loop/lid; other site 1112912000729 ABC transporter signature motif; other site 1112912000730 Walker B; other site 1112912000731 D-loop; other site 1112912000732 H-loop/switch region; other site 1112912000733 ABC-2 family transporter protein; Region: ABC2_membrane_2; pfam12679 1112912000734 Predicted lipoprotein involved in nitrous oxide reduction [Energy production and conversion]; Region: NosL; COG4314 1112912000735 thiamine biosynthesis lipoprotein ApbE; Provisional; Region: PRK10461 1112912000736 ApbE family; Region: ApbE; pfam02424 1112912000737 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1112912000738 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 1112912000739 ligand binding site [chemical binding]; other site 1112912000740 flexible hinge region; other site 1112912000741 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 1112912000742 putative switch regulator; other site 1112912000743 non-specific DNA interactions [nucleotide binding]; other site 1112912000744 DNA binding site [nucleotide binding] 1112912000745 sequence specific DNA binding site [nucleotide binding]; other site 1112912000746 putative cAMP binding site [chemical binding]; other site 1112912000747 Plastocyanin [Energy production and conversion]; Region: PetE; COG3794 1112912000748 pseudoazurin; Region: pseudoazurin; TIGR02375 1112912000749 Uncharacterized protein involved in response to NO [Inorganic ion transport and metabolism]; Region: NnrS; COG3213 1112912000750 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 1112912000751 NMT1-like family; Region: NMT1_2; pfam13379 1112912000752 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 1112912000753 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 1112912000754 dimer interface [polypeptide binding]; other site 1112912000755 conserved gate region; other site 1112912000756 putative PBP binding loops; other site 1112912000757 ABC-ATPase subunit interface; other site 1112912000758 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 1112912000759 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 1112912000760 Walker A/P-loop; other site 1112912000761 ATP binding site [chemical binding]; other site 1112912000762 Q-loop/lid; other site 1112912000763 ABC transporter signature motif; other site 1112912000764 Walker B; other site 1112912000765 D-loop; other site 1112912000766 H-loop/switch region; other site 1112912000767 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 1112912000768 putative protease; Provisional; Region: PRK15447 1112912000769 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 1112912000770 Peptidase family U32; Region: Peptidase_U32; pfam01136 1112912000771 Putative lipid carrier protein [Lipid metabolism]; Region: COG3154 1112912000772 3-polyprenyl-4-hydroxybenzoate decarboxylase and related decarboxylases [Coenzyme metabolism]; Region: UbiD; COG0043 1112912000773 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Provisional; Region: PRK06029 1112912000774 Flavoprotein; Region: Flavoprotein; pfam02441 1112912000775 Protein of unknown function (DUF2478); Region: DUF2478; pfam10649 1112912000776 Parvulin-like peptidyl-prolyl isomerase [Posttranslational modification, protein turnover, chaperones]; Region: SurA; COG0760 1112912000777 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 1112912000778 Nitrate reductase gamma subunit; Region: Nitrate_red_gam; pfam02665 1112912000779 Nitrate reductase delta subunit [Energy production and conversion]; Region: NarJ; COG2180 1112912000780 Nitrate reductase beta subunit [Energy production and conversion]; Region: NarY; COG1140 1112912000781 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; cl00470 1112912000782 Nitrate reductase alpha subunit [Energy production and conversion]; Region: NarG; COG5013 1112912000783 Respiratory nitrate reductase A (NarGHI), alpha chain (NarG) and related proteins. Under anaerobic conditions in the presence of nitrate, E. coli synthesizes the cytoplasmic membrane-bound quinol-nitrate oxidoreductase (NarGHI), which reduces nitrate to...; Region: MopB_Nitrate-R-NarG-like; cd02750 1112912000784 [4Fe-4S] binding site [ion binding]; other site 1112912000785 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 1112912000786 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 1112912000787 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 1112912000788 Respiratory nitrate reductase A (NarGHI), alpha chain (NarG) and related proteins. Under anaerobic conditions in the presence of nitrate, E. coli synthesizes the cytoplasmic membrane-bound quinol-nitrate oxidoreductase (NarGHI), which reduces nitrate to...; Region: MopB_CT_Nitrate-R-NarG-like; cd02776 1112912000789 molybdopterin cofactor binding site; other site 1112912000790 Nitrate/nitrite transporter [Inorganic ion transport and metabolism]; Region: NarK; COG2223 1112912000791 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 1112912000792 putative substrate translocation pore; other site 1112912000793 nitrate/nitrite transport protein NarU; Provisional; Region: PRK15034 1112912000794 transcriptional activator FtrB; Provisional; Region: ftrB; PRK09392 1112912000795 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 1112912000796 ligand binding site [chemical binding]; other site 1112912000797 flexible hinge region; other site 1112912000798 helix_turn_helix, cAMP Regulatory protein; Region: HTH_CRP; smart00419 1112912000799 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1112912000800 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1112912000801 DNA binding site [nucleotide binding] 1112912000802 domain linker motif; other site 1112912000803 Ligand-binding domain of DNA transcription repressors specific for raffinose (RafR) and alpha-glucosides (AglR) which are members of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_AglR_RafR_like; cd06271 1112912000804 ligand binding site [chemical binding]; other site 1112912000805 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 1112912000806 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 1112912000807 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 1112912000808 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 1112912000809 dimer interface [polypeptide binding]; other site 1112912000810 conserved gate region; other site 1112912000811 putative PBP binding loops; other site 1112912000812 ABC-ATPase subunit interface; other site 1112912000813 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1112912000814 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 1112912000815 dimer interface [polypeptide binding]; other site 1112912000816 conserved gate region; other site 1112912000817 putative PBP binding loops; other site 1112912000818 ABC-ATPase subunit interface; other site 1112912000819 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 1112912000820 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 1112912000821 Walker A/P-loop; other site 1112912000822 ATP binding site [chemical binding]; other site 1112912000823 Q-loop/lid; other site 1112912000824 ABC transporter signature motif; other site 1112912000825 Walker B; other site 1112912000826 D-loop; other site 1112912000827 H-loop/switch region; other site 1112912000828 TOBE domain; Region: TOBE_2; pfam08402 1112912000829 Trehalose utilization protein [Carbohydrate transport and metabolism]; Region: ThuA; COG4813 1112912000830 conserved cys residue [active] 1112912000831 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1112912000832 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1112912000833 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 1112912000834 Transmembrane secretion effector; Region: MFS_3; pfam05977 1112912000835 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 1112912000836 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 1112912000837 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 1112912000838 catalytic residues [active] 1112912000839 ribonucleotide reductase stimulatory protein; Reviewed; Region: nrdI; PRK03600 1112912000840 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK08188 1112912000841 Ribonucleotide reductase N-terminal; Region: RNR_N; pfam08343 1112912000842 Class I ribonucleotide reductase; Region: RNR_I; cd01679 1112912000843 active site 1112912000844 dimer interface [polypeptide binding]; other site 1112912000845 catalytic residues [active] 1112912000846 effector binding site; other site 1112912000847 R2 peptide binding site; other site 1112912000848 ribonucleotide-diphosphate reductase subunit beta; Provisional; Region: nrdF2; PRK13966 1112912000849 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 1112912000850 dimer interface [polypeptide binding]; other site 1112912000851 putative radical transfer pathway; other site 1112912000852 diiron center [ion binding]; other site 1112912000853 tyrosyl radical; other site 1112912000854 septum formation inhibitor; Reviewed; Region: minC; PRK05177 1112912000855 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 1112912000856 Septum formation inhibitor-activating ATPase [Cell division and chromosome partitioning]; Region: MinD; COG2894 1112912000857 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 1112912000858 Switch I; other site 1112912000859 Switch II; other site 1112912000860 cell division topological specificity factor MinE; Reviewed; Region: minE; PRK00296 1112912000861 Domain of unknown function (DUF3597); Region: DUF3597; pfam12200 1112912000862 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 1112912000863 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1112912000864 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 1112912000865 ATP-binding cassette domain of the polyamine transporter; Region: ABC_PotA_N; cd03300 1112912000866 Walker A/P-loop; other site 1112912000867 ATP binding site [chemical binding]; other site 1112912000868 Q-loop/lid; other site 1112912000869 ABC transporter signature motif; other site 1112912000870 Walker B; other site 1112912000871 D-loop; other site 1112912000872 H-loop/switch region; other site 1112912000873 TOBE domain; Region: TOBE_2; pfam08402 1112912000874 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 1112912000875 dimer interface [polypeptide binding]; other site 1112912000876 conserved gate region; other site 1112912000877 putative PBP binding loops; other site 1112912000878 ABC-ATPase subunit interface; other site 1112912000879 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 1112912000880 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 1112912000881 dimer interface [polypeptide binding]; other site 1112912000882 conserved gate region; other site 1112912000883 putative PBP binding loops; other site 1112912000884 ABC-ATPase subunit interface; other site 1112912000885 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 1112912000886 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 1112912000887 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1112912000888 HlyD family secretion protein; Region: HlyD_3; pfam13437 1112912000889 Predicted membrane protein [Function unknown]; Region: COG4803 1112912000890 glutaminase; Reviewed; Region: PRK12356 1112912000891 Glutaminase [Amino acid transport and metabolism]; Region: GlsA; COG2066 1112912000892 acid-resistance protein; Provisional; Region: PRK10208 1112912000893 Predicted signal transduction protein containing sensor and EAL domains [Signal transduction mechanisms]; Region: COG4943 1112912000894 CSS motif domain associated with EAL; Region: CSS-motif; pfam12792 1112912000895 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 1112912000896 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 1112912000897 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1112912000898 LysR substrate binding domain; Region: LysR_substrate; pfam03466 1112912000899 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 1112912000900 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 1112912000901 Substrate binding site; other site 1112912000902 Mannose-6-phosphate isomerase; Region: MannoseP_isomer; pfam01050 1112912000903 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 1112912000904 ManB is a bacterial phosphomannomutase (PMM) that catalyzes the conversion of mannose 6-phosphate to mannose-1-phosphate in the second of three steps in the GDP-mannose pathway, in which GDP-D-mannose is synthesized from fructose-6-phosphate. In...; Region: ManB; cd03088 1112912000905 active site 1112912000906 substrate binding site [chemical binding]; other site 1112912000907 metal binding site [ion binding]; metal-binding site 1112912000908 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 1112912000909 putative active site pocket [active] 1112912000910 cleavage site 1112912000911 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 1112912000912 ClC chloride channel family. These protein sequences, closely related to the ClC Eric family, are putative halogen ion (Cl-, Br- and I-) transport proteins found in eubacteria. They belong to the ClC superfamily of chloride ion channels, which share a...; Region: EriC_like; cd01034 1112912000913 putative ion selectivity filter; other site 1112912000914 putative pore gating glutamate residue; other site 1112912000915 putative H+/Cl- coupling transport residue; other site 1112912000916 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 1112912000917 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 1112912000918 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 1112912000919 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 1112912000920 active site 1112912000921 Cytochrome c [Energy production and conversion]; Region: COG3258 1112912000922 Cytochrome c; Region: Cytochrom_C; pfam00034 1112912000923 DNA-binding transcriptional regulator OxyR; Provisional; Region: PRK11151 1112912000924 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1112912000925 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 1112912000926 dimerization interface [polypeptide binding]; other site 1112912000927 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 1112912000928 Clade 3 of the heme-binding enzyme catalase; Region: catalase_clade_3; cd08156 1112912000929 tetramer interface [polypeptide binding]; other site 1112912000930 heme binding pocket [chemical binding]; other site 1112912000931 NADPH binding site [chemical binding]; other site 1112912000932 Disulfide bond formation protein DsbB [Posttranslational modification, protein turnover, chaperones]; Region: DsbB; COG1495 1112912000933 tRNA and rRNA cytosine-C5-methylases [Translation, ribosomal structure and biogenesis]; Region: Sun; COG0144 1112912000934 NOL1/NOP2/sun family putative RNA methylase; Region: nop2p; TIGR00446 1112912000935 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 1112912000936 CoenzymeA binding site [chemical binding]; other site 1112912000937 subunit interaction site [polypeptide binding]; other site 1112912000938 PHB binding site; other site 1112912000939 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Validated; Region: PRK06026 1112912000940 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase, putative; Region: MTA/SAH-nuc-hyp; TIGR01705 1112912000941 GMP synthase; Reviewed; Region: guaA; PRK00074 1112912000942 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 1112912000943 AMP/PPi binding site [chemical binding]; other site 1112912000944 candidate oxyanion hole; other site 1112912000945 catalytic triad [active] 1112912000946 potential glutamine specificity residues [chemical binding]; other site 1112912000947 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 1112912000948 ATP Binding subdomain [chemical binding]; other site 1112912000949 Ligand Binding sites [chemical binding]; other site 1112912000950 Dimerization subdomain; other site 1112912000951 integrase; Provisional; Region: PRK09692 1112912000952 Bacteriophage P4 integrase. P4-like integrases are found in temperate bacteriophages, integrative plasmids, pathogenicity and symbiosis islands, and other mobile genetic elements. They share the same fold in their catalytic domain and the overall...; Region: INT_P4; cd00801 1112912000953 active site 1112912000954 Int/Topo IB signature motif; other site 1112912000955 Prophage CP4-57 regulatory protein (AlpA); Region: Phage_AlpA; pfam05930 1112912000956 Replication initiator protein A; Region: RPA; pfam10134 1112912000957 P-type conjugative transfer protein TrbL; Region: TrbL_P; TIGR02783 1112912000958 P-type conjugative transfer protein TrbJ; Region: TrbJ_Ti; TIGR02780 1112912000959 TraC-like protein; Region: TraC; cl06725 1112912000960 conjugal transfer relaxosome component TraJ; Provisional; Region: PRK13877 1112912000961 Relaxase/Mobilisation nuclease domain; Region: Relaxase; pfam03432 1112912000962 conjugal transfer relaxase TraI; Provisional; Region: PRK13878 1112912000963 Predicted ATPase [General function prediction only]; Region: COG5293 1112912000964 Uncharacterized protein conserved in bacteria (DUF2326); Region: DUF2326; pfam10088 1112912000965 DNA-damage-inducible protein J [DNA replication, recombination, and repair]; Region: RelB; COG3077 1112912000966 Uncharacterized protein probably involved in high-affinity Fe2+ transport [Inorganic ion transport and metabolism]; Region: Tpd; COG3470 1112912000967 Cupredoxin-like domain; Region: Cupredoxin_1; pfam13473 1112912000968 High-affinity Fe2+/Pb2+ permease [Inorganic ion transport and metabolism]; Region: FTR1; COG0672 1112912000969 Polyferredoxin [Energy production and conversion]; Region: NapH; COG0348 1112912000970 4Fe-4S binding domain; Region: Fer4_5; pfam12801 1112912000971 putative phosphoketolase; Provisional; Region: PRK05261 1112912000972 Thiamine pyrophosphate (TPP) family, Phosphoketolase (PK) subfamily, TPP-binding module; PK catalyzes the conversion of D-xylulose 5-phosphate and phosphate to acetyl phosphate, D-glyceraldehyde-3-phosphate and H2O. This enzyme requires divalent...; Region: TPP_PK; cd02011 1112912000973 TPP-binding site; other site 1112912000974 XFP C-terminal domain; Region: XFP_C; pfam09363 1112912000975 acetate kinase; Provisional; Region: PRK07058 1112912000976 propionate/acetate kinase; Provisional; Region: PRK12379 1112912000977 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 1112912000978 Cytochrome P450; Region: p450; cl12078 1112912000979 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1112912000980 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1112912000981 DNA-binding site [nucleotide binding]; DNA binding site 1112912000982 FCD domain; Region: FCD; pfam07729 1112912000983 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 1112912000984 PIG3 p53-inducible quinone oxidoreductase; Region: p53_inducible_oxidoreductase; cd05276 1112912000985 NAD(P) binding site [chemical binding]; other site 1112912000986 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 1112912000987 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 1112912000988 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1112912000989 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 1112912000990 TM-ABC transporter signature motif; other site 1112912000991 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 1112912000992 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 1112912000993 Walker A/P-loop; other site 1112912000994 ATP binding site [chemical binding]; other site 1112912000995 Q-loop/lid; other site 1112912000996 ABC transporter signature motif; other site 1112912000997 Walker B; other site 1112912000998 D-loop; other site 1112912000999 H-loop/switch region; other site 1112912001000 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1112912001001 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1112912001002 NAD(P) binding site [chemical binding]; other site 1112912001003 active site 1112912001004 Shikimate 5-dehydrogenase [Amino acid transport and metabolism]; Region: AroE; COG0169 1112912001005 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 1112912001006 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 1112912001007 shikimate binding site; other site 1112912001008 NAD(P) binding site [chemical binding]; other site 1112912001009 choline dehydrogenase; Validated; Region: PRK02106 1112912001010 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 1112912001011 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1112912001012 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 1112912001013 tetramerization interface [polypeptide binding]; other site 1112912001014 NAD(P) binding site [chemical binding]; other site 1112912001015 catalytic residues [active] 1112912001016 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 1112912001017 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 1112912001018 Zn-dependent alcohol dehydrogenases, class III [Energy production and conversion]; Region: AdhC; COG1062 1112912001019 Zinc-dependent alcohol dehydrogenases (ADH) and class III ADG (AKA formaldehyde dehydrogenase); Region: liver_ADH_like1; cd08281 1112912001020 NAD binding site [chemical binding]; other site 1112912001021 catalytic Zn binding site [ion binding]; other site 1112912001022 substrate binding site [chemical binding]; other site 1112912001023 structural Zn binding site [ion binding]; other site 1112912001024 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1112912001025 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1112912001026 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1112912001027 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1112912001028 ABC-type oligopeptide transport system, ATPase component [Amino acid transport and metabolism]; Region: AppF; COG4608 1112912001029 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1112912001030 Walker A/P-loop; other site 1112912001031 ATP binding site [chemical binding]; other site 1112912001032 Q-loop/lid; other site 1112912001033 ABC transporter signature motif; other site 1112912001034 Walker B; other site 1112912001035 D-loop; other site 1112912001036 H-loop/switch region; other site 1112912001037 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 1112912001038 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 1112912001039 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1112912001040 Walker A/P-loop; other site 1112912001041 ATP binding site [chemical binding]; other site 1112912001042 Q-loop/lid; other site 1112912001043 ABC transporter signature motif; other site 1112912001044 Walker B; other site 1112912001045 D-loop; other site 1112912001046 H-loop/switch region; other site 1112912001047 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 1112912001048 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 1112912001049 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 1112912001050 inhibitor site; inhibition site 1112912001051 active site 1112912001052 dimer interface [polypeptide binding]; other site 1112912001053 catalytic residue [active] 1112912001054 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 1112912001055 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 1112912001056 dimer interface [polypeptide binding]; other site 1112912001057 conserved gate region; other site 1112912001058 putative PBP binding loops; other site 1112912001059 ABC-ATPase subunit interface; other site 1112912001060 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1112912001061 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 1112912001062 dimer interface [polypeptide binding]; other site 1112912001063 conserved gate region; other site 1112912001064 putative PBP binding loops; other site 1112912001065 ABC-ATPase subunit interface; other site 1112912001066 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1112912001067 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cd00995 1112912001068 Transcriptional regulators [Transcription]; Region: FadR; COG2186 1112912001069 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1112912001070 DNA-binding site [nucleotide binding]; DNA binding site 1112912001071 FCD domain; Region: FCD; pfam07729 1112912001072 Putative N-acetylmannosamine-6-phosphate epimerase [Carbohydrate transport and metabolism]; Region: NanE; COG3010 1112912001073 N-acetylmannosamine-6-phosphate epimerase (NanE) converts N-acetylmannosamine-6-phosphate to N-acetylglucosamine-6-phosphate. This reaction is part of the pathway that allows the usage of sialic acid as a carbohydrate source. Sialic acids are a family of...; Region: NanE; cd04729 1112912001074 putative active site cavity [active] 1112912001075 N-acetylmannosamine kinase; Provisional; Region: PRK05082 1112912001076 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 1112912001077 nucleotide binding site [chemical binding]; other site 1112912001078 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1112912001079 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 1112912001080 ligand binding site [chemical binding]; other site 1112912001081 flexible hinge region; other site 1112912001082 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 1112912001083 putative switch regulator; other site 1112912001084 non-specific DNA interactions [nucleotide binding]; other site 1112912001085 DNA binding site [nucleotide binding] 1112912001086 sequence specific DNA binding site [nucleotide binding]; other site 1112912001087 putative cAMP binding site [chemical binding]; other site 1112912001088 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1112912001089 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 1112912001090 DNA binding residues [nucleotide binding] 1112912001091 dimerization interface [polypeptide binding]; other site 1112912001092 Uncharacterized protein involved in exopolysaccharide biosynthesis [Cell envelope biogenesis, outer membrane]; Region: GumC; COG3206 1112912001093 Chain length determinant protein; Region: Wzz; cl15801 1112912001094 AAA domain; Region: AAA_31; pfam13614 1112912001095 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 1112912001096 G3 box; other site 1112912001097 Switch II region; other site 1112912001098 G4 box; other site 1112912001099 Periplasmic protein involved in polysaccharide export, contains SLBB domain of b-grasp fold [Cell wall/membrane/envelope biogenesis]; Region: Wza; COG1596 1112912001100 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 1112912001101 GDP-fucose synthetase, extended (e) SDRs; Region: GDP_FS_SDR_e; cd05239 1112912001102 GDP-4-keto-6-deoxymannose-3, 5-epimerase-4-reductase; Region: PLN02725 1112912001103 NADP binding site [chemical binding]; other site 1112912001104 active site 1112912001105 putative substrate binding site [chemical binding]; other site 1112912001106 GDP-D-mannose dehydratase [Cell envelope biogenesis, outer membrane]; Region: Gmd; COG1089 1112912001107 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 1112912001108 NADP-binding site; other site 1112912001109 homotetramer interface [polypeptide binding]; other site 1112912001110 substrate binding site [chemical binding]; other site 1112912001111 homodimer interface [polypeptide binding]; other site 1112912001112 active site 1112912001113 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1112912001114 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 1112912001115 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1112912001116 This family is most closely related to the GT1 family of glycosyltransferases. Bme6 in Brucella melitensis has been shown to be involved in the biosynthesis of a polysaccharide; Region: GT1_Bme6_like; cd03821 1112912001117 putative ADP-binding pocket [chemical binding]; other site 1112912001118 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 1112912001119 wcaF-like: This group is composed of the protein product of the E. coli wcaF gene and similar proteins. WcaF is part of the gene cluster responsible for the biosynthesis of the extracellular polysaccharide colanic acid. The wcaF protein is predicted to...; Region: LbH_wcaF_like; cd05825 1112912001120 putative trimer interface [polypeptide binding]; other site 1112912001121 putative active site [active] 1112912001122 putative substrate binding site [chemical binding]; other site 1112912001123 putative CoA binding site [chemical binding]; other site 1112912001124 Uncharacterized conserved protein [Function unknown]; Region: COG1434 1112912001125 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 1112912001126 putative active site [active] 1112912001127 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1112912001128 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 1112912001129 putative metal binding site; other site 1112912001130 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 1112912001131 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 1112912001132 Mg++ binding site [ion binding]; other site 1112912001133 putative catalytic motif [active] 1112912001134 substrate binding site [chemical binding]; other site 1112912001135 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 1112912001136 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_tuaB_like; cd13127 1112912001137 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 1112912001138 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 1112912001139 active site 1112912001140 Polysaccharide pyruvyl transferase family protein [Cell wall/membrane/envelope biogenesis]; Region: WcaK; COG2327 1112912001141 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; cl09156 1112912001142 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 1112912001143 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1112912001144 glutamate-1-semialdehyde 2,1-aminomutase; Provisional; Region: PRK06209 1112912001145 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 1112912001146 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1112912001147 catalytic residue [active] 1112912001148 Protein of unknown function (DUF4038); Region: DUF4038; pfam13204 1112912001149 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1112912001150 extended (e) SDRs; Region: SDR_e; cd08946 1112912001151 NAD(P) binding site [chemical binding]; other site 1112912001152 active site 1112912001153 substrate binding site [chemical binding]; other site 1112912001154 Uncharacterized protein conserved in bacteria with an aminopeptidase-like domain [General function prediction only]; Region: COG4310 1112912001155 M28 Zn-Peptidases; Region: M28_like_3; cd05644 1112912001156 active site 1112912001157 metal binding site [ion binding]; metal-binding site 1112912001158 dTDP-4-dehydrorhamnose 3,5-epimerase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfbC; COG1898 1112912001159 Putative zinc binding domain; Region: Methyltransf_13; pfam08421 1112912001160 Methyltransferase domain; Region: Methyltransf_23; pfam13489 1112912001161 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 1112912001162 S-adenosylmethionine binding site [chemical binding]; other site 1112912001163 C-methyltransferase C-terminal domain; Region: Methyltransf_14; pfam08484 1112912001164 Nucleoside-diphosphate-sugar pyrophosphorylase involved in lipopolysaccharide biosynthesis/translation initiation factor 2B, gamma/epsilon subunits (eIF-2Bgamma/eIF-2Bepsilon) [Cell envelope biogenesis, outer membrane / Translation, ribosomal structure...; Region: GCD1; COG1208 1112912001165 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 1112912001166 active site 1112912001167 Uncharacterized proteins, LmbE homologs [Function unknown]; Region: COG2120 1112912001168 pyrimidine utilization transport protein G; Region: RutG; TIGR03616 1112912001169 Glycerol kinase [Energy production and conversion]; Region: GlpK; COG0554 1112912001170 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 1112912001171 N- and C-terminal domain interface [polypeptide binding]; other site 1112912001172 active site 1112912001173 MgATP binding site [chemical binding]; other site 1112912001174 catalytic site [active] 1112912001175 metal binding site [ion binding]; metal-binding site 1112912001176 glycerol binding site [chemical binding]; other site 1112912001177 homotetramer interface [polypeptide binding]; other site 1112912001178 homodimer interface [polypeptide binding]; other site 1112912001179 FBP binding site [chemical binding]; other site 1112912001180 protein IIAGlc interface [polypeptide binding]; other site 1112912001181 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 1112912001182 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1112912001183 putative substrate translocation pore; other site 1112912001184 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 1112912001185 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1112912001186 The C-terminal substrate binding domain of LysR-type transcrptional regulator BudR, which is responsible for activation of the expression of the butanediol operon genes; contains the type 2 periplasmic binding fold; Region: PBP2_BudR; cd08451 1112912001187 putative dimerization interface [polypeptide binding]; other site 1112912001188 putative substrate binding pocket [chemical binding]; other site 1112912001189 methionine sulfoxide reductase B; Provisional; Region: PRK00222 1112912001190 SelR domain; Region: SelR; pfam01641 1112912001191 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1112912001192 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1112912001193 active site 1112912001194 acetyl-CoA acetyltransferase; Provisional; Region: PRK06954 1112912001195 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 1112912001196 dimer interface [polypeptide binding]; other site 1112912001197 active site 1112912001198 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK08217 1112912001199 17hydroxysteroid dehydrogenase type 10 (HSD10)-like, classical (c) SDRs; Region: HSD10-like_SDR_c; cd05371 1112912001200 NAD binding site [chemical binding]; other site 1112912001201 homodimer interface [polypeptide binding]; other site 1112912001202 homotetramer interface [polypeptide binding]; other site 1112912001203 active site 1112912001204 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 1112912001205 Uncharacterized subfamily of medium-chain acyl-CoA synthetase (MACS); Region: MACS_like_2; cd05973 1112912001206 active site 1112912001207 acyl-activating enzyme (AAE) consensus motif; other site 1112912001208 putative CoA binding site [chemical binding]; other site 1112912001209 AMP binding site [chemical binding]; other site 1112912001210 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 1112912001211 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1112912001212 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1112912001213 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK11790 1112912001214 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_3; cd12176 1112912001215 ligand binding site [chemical binding]; other site 1112912001216 NAD binding site [chemical binding]; other site 1112912001217 tetramer interface [polypeptide binding]; other site 1112912001218 catalytic site [active] 1112912001219 C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria; Region: ACT_3PGDH; cd04901 1112912001220 L-serine binding site [chemical binding]; other site 1112912001221 ACT domain interface; other site 1112912001222 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 1112912001223 active site 1112912001224 catalytic residues [active] 1112912001225 metal binding site [ion binding]; metal-binding site 1112912001226 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2354 1112912001227 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 1112912001228 dimerization interface [polypeptide binding]; other site 1112912001229 putative DNA binding site [nucleotide binding]; other site 1112912001230 putative Zn2+ binding site [ion binding]; other site 1112912001231 Domain of unknown function (DUF4341); Region: DUF4341; pfam14241 1112912001232 Predicted transporter component [General function prediction only]; Region: COG2391 1112912001233 Predicted transporter component [General function prediction only]; Region: COG2391 1112912001234 Sulphur transport; Region: Sulf_transp; pfam04143 1112912001235 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1112912001236 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1112912001237 DNA-binding site [nucleotide binding]; DNA binding site 1112912001238 FCD domain; Region: FCD; pfam07729 1112912001239 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 1112912001240 Domain of unknown function DUF20; Region: UPF0118; pfam01594 1112912001241 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11552 1112912001242 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1112912001243 Domain of unknown function (DUF1956); Region: DUF1956; pfam09209 1112912001244 putative efflux pump membrane fusion protein; Provisional; Region: PRK03598 1112912001245 Peptidase family M23; Region: Peptidase_M23; pfam01551 1112912001246 HlyD family secretion protein; Region: HlyD_3; pfam13437 1112912001247 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 1112912001248 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 1112912001249 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 1112912001250 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 1112912001251 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 1112912001252 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 1112912001253 dimer interface [polypeptide binding]; other site 1112912001254 conserved gate region; other site 1112912001255 putative PBP binding loops; other site 1112912001256 ABC-ATPase subunit interface; other site 1112912001257 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 1112912001258 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 1112912001259 Walker A/P-loop; other site 1112912001260 ATP binding site [chemical binding]; other site 1112912001261 Q-loop/lid; other site 1112912001262 ABC transporter signature motif; other site 1112912001263 Walker B; other site 1112912001264 D-loop; other site 1112912001265 H-loop/switch region; other site 1112912001266 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 1112912001267 NMT1/THI5 like; Region: NMT1; pfam09084 1112912001268 substrate binding pocket [chemical binding]; other site 1112912001269 membrane-bound complex binding site; other site 1112912001270 hinge residues; other site 1112912001271 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 1112912001272 putative substrate translocation pore; other site 1112912001273 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 1112912001274 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 1112912001275 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1112912001276 HlyD family secretion protein; Region: HlyD_3; pfam13437 1112912001277 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1112912001278 HAMP domain; Region: HAMP; pfam00672 1112912001279 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 1112912001280 dimer interface [polypeptide binding]; other site 1112912001281 phosphorylation site [posttranslational modification] 1112912001282 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 1112912001283 ATP binding site [chemical binding]; other site 1112912001284 Mg2+ binding site [ion binding]; other site 1112912001285 G-X-G motif; other site 1112912001286 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1112912001287 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 1112912001288 active site 1112912001289 phosphorylation site [posttranslational modification] 1112912001290 intermolecular recognition site; other site 1112912001291 dimerization interface [polypeptide binding]; other site 1112912001292 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 1112912001293 DNA binding site [nucleotide binding] 1112912001294 Uncharacterized conserved protein [Function unknown]; Region: COG3189 1112912001295 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 1112912001296 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1112912001297 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1112912001298 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 1112912001299 N-terminal domain of Streptomyces griseus SgaA (suppression of growth disturbance caused by A-factor at a high concentration under high osmolality during early growth phase), and similar domains; Region: SgaA_N_like; cd07247 1112912001300 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1112912001301 N-terminal domain of Streptomyces griseus SgaA (suppression of growth disturbance caused by A-factor at a high concentration under high osmolality during early growth phase), and similar domains; Region: SgaA_N_like; cd07247 1112912001302 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1112912001303 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 1112912001304 Sodium:alanine symporter family; Region: Na_Ala_symp; pfam01235 1112912001305 Homoserine trans-succinylase [Amino acid transport and metabolism]; Region: MetA; COG1897 1112912001306 Type 1 glutamine amidotransferase (GATase1)-like domain found in homoserine trans-succinylase (HTS); Region: GATase1_HTS; cd03131 1112912001307 proposed active site lysine [active] 1112912001308 conserved cys residue [active] 1112912001309 Lyzozyme M1 (1,4-beta-N-acetylmuramidase) [Cell envelope biogenesis, outer membrane]; Region: Acm; COG3757 1112912001310 Uncharacterized bacterial muramidase containing a glycosyl hydrolase family 25 (GH25) catalytic domain. Endo-N-acetylmuramidases are lysozymes (also referred to as peptidoglycan hydrolases) that degrade bacterial cell walls by catalyzing the hydrolysis...; Region: GH25_muramidase_1; cd06413 1112912001311 active site 1112912001312 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK05963 1112912001313 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 1112912001314 dimer interface [polypeptide binding]; other site 1112912001315 active site 1112912001316 CoA binding pocket [chemical binding]; other site 1112912001317 adenosylmethionine--8-amino-7-oxononanoate transaminase; Provisional; Region: PRK05964 1112912001318 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 1112912001319 inhibitor-cofactor binding pocket; inhibition site 1112912001320 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1112912001321 catalytic residue [active] 1112912001322 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 1112912001323 AAA domain; Region: AAA_26; pfam13500 1112912001324 8-amino-7-oxononanoate synthase; Reviewed; Region: PRK05958 1112912001325 hypothetical protein; Provisional; Region: PRK07505 1112912001326 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1112912001327 catalytic residue [active] 1112912001328 biotin synthase; Region: bioB; TIGR00433 1112912001329 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 1112912001330 FeS/SAM binding site; other site 1112912001331 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 1112912001332 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 1112912001333 MPT binding site; other site 1112912001334 trimer interface [polypeptide binding]; other site 1112912001335 Nitroreductase-like family 4. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes, nitrofurans and...; Region: Nitroreductase_4; cd02140 1112912001336 dimer interface [polypeptide binding]; other site 1112912001337 FMN binding site [chemical binding]; other site 1112912001338 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4529 1112912001339 FAD-NAD(P)-binding; Region: NAD_binding_9; pfam13454 1112912001340 putative monovalent cation/H+ antiporter subunit A; Reviewed; Region: PRK12648 1112912001341 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 1112912001342 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1112912001343 Multisubunit Na+/H+ antiporter, MnhB subunit [Inorganic ion transport and metabolism]; Region: MnhB; COG2111 1112912001344 monovalent cation:proton antiporter; Region: 2a6301s02; TIGR00943 1112912001345 putative monovalent cation/H+ antiporter subunit C; Reviewed; Region: PRK09094 1112912001346 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK12666 1112912001347 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1112912001348 putative monovalent cation/H+ antiporter subunit E; Reviewed; Region: PRK12596 1112912001349 putative monovalent cation/H+ antiporter subunit F; Reviewed; Region: PRK06161 1112912001350 putative monovalent cation/H+ antiporter subunit G; Reviewed; Region: PRK12671 1112912001351 Predicted transcriptional regulators [Transcription]; Region: COG1510 1112912001352 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 1112912001353 dimerization interface [polypeptide binding]; other site 1112912001354 putative DNA binding site [nucleotide binding]; other site 1112912001355 putative Zn2+ binding site [ion binding]; other site 1112912001356 ABC-type transport system involved in cytochrome bd biosynthesis, ATPase and permease components [Energy production and conversion / Posttranslational modification, protein turnover, chaperones]; Region: CydD; COG4988 1112912001357 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1112912001358 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 1112912001359 Walker A/P-loop; other site 1112912001360 ATP binding site [chemical binding]; other site 1112912001361 Q-loop/lid; other site 1112912001362 ABC transporter signature motif; other site 1112912001363 Walker B; other site 1112912001364 D-loop; other site 1112912001365 H-loop/switch region; other site 1112912001366 ABC-type transport system involved in cytochrome bd biosynthesis, fused ATPase and permease components [Energy production and conversion / Posttranslational modification, protein turnover, chaperones]; Region: CydC; COG4987 1112912001367 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1112912001368 Walker A/P-loop; other site 1112912001369 ATP binding site [chemical binding]; other site 1112912001370 Q-loop/lid; other site 1112912001371 ABC transporter signature motif; other site 1112912001372 Walker B; other site 1112912001373 D-loop; other site 1112912001374 H-loop/switch region; other site 1112912001375 cytochrome d terminal oxidase subunit 1; Provisional; Region: PRK15097 1112912001376 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 1112912001377 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 1112912001378 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 1112912001379 Predicted outer membrane lipoprotein [Function unknown]; Region: COG4890 1112912001380 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 1112912001381 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1112912001382 DNA-binding site [nucleotide binding]; DNA binding site 1112912001383 UTRA domain; Region: UTRA; pfam07702 1112912001384 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 1112912001385 nucleotide binding site [chemical binding]; other site 1112912001386 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 1112912001387 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 1112912001388 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 1112912001389 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 1112912001390 dimer interface [polypeptide binding]; other site 1112912001391 conserved gate region; other site 1112912001392 putative PBP binding loops; other site 1112912001393 ABC-ATPase subunit interface; other site 1112912001394 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1112912001395 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 1112912001396 dimer interface [polypeptide binding]; other site 1112912001397 conserved gate region; other site 1112912001398 putative PBP binding loops; other site 1112912001399 ABC-ATPase subunit interface; other site 1112912001400 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1112912001401 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1112912001402 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 1112912001403 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 1112912001404 Walker A/P-loop; other site 1112912001405 ATP binding site [chemical binding]; other site 1112912001406 Q-loop/lid; other site 1112912001407 ABC transporter signature motif; other site 1112912001408 Walker B; other site 1112912001409 D-loop; other site 1112912001410 H-loop/switch region; other site 1112912001411 TOBE domain; Region: TOBE_2; pfam08402 1112912001412 2-oxoisovalerate dehydrogenase E1 alpha subunit N terminal; Region: OxoDH_E1alpha_N; pfam12573 1112912001413 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, alpha subunit [Energy production and conversion]; Region: AcoA; COG1071 1112912001414 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 1112912001415 tetramer interface [polypeptide binding]; other site 1112912001416 TPP-binding site [chemical binding]; other site 1112912001417 heterodimer interface [polypeptide binding]; other site 1112912001418 phosphorylation loop region [posttranslational modification] 1112912001419 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 1112912001420 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 1112912001421 alpha subunit interface [polypeptide binding]; other site 1112912001422 TPP binding site [chemical binding]; other site 1112912001423 heterodimer interface [polypeptide binding]; other site 1112912001424 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1112912001425 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 1112912001426 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 1112912001427 E3 interaction surface; other site 1112912001428 lipoyl attachment site [posttranslational modification]; other site 1112912001429 e3 binding domain; Region: E3_binding; pfam02817 1112912001430 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 1112912001431 dihydrolipoamide dehydrogenase; Validated; Region: PRK05976 1112912001432 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1112912001433 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1112912001434 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1112912001435 SURF1 superfamily. Surf1/Shy1 has been implicated in the posttranslational steps of the biogenesis of the mitochondrially-encoded Cox1 subunit of cytochrome c oxidase (complex IV). Cytochrome c oxidase (complex IV), the terminal electron-transferring...; Region: SURF1; cd06662 1112912001436 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 1112912001437 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 1112912001438 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 1112912001439 L-Aminopeptidase D-amidase/D-esterase (DmpA) family; DmpA catalyzes the release of N-terminal D and L amino acids from peptide susbtrates. DmpA is synthesized as a single polypeptide precursor, which is autocatalytically cleaved to the active...; Region: DmpA; cd02253 1112912001440 homodimer interface [polypeptide binding]; other site 1112912001441 homotetramer interface [polypeptide binding]; other site 1112912001442 active site pocket [active] 1112912001443 cleavage site 1112912001444 benzoate transport; Region: 2A0115; TIGR00895 1112912001445 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 1112912001446 putative substrate translocation pore; other site 1112912001447 alpha-ketoglutarate-dependent dioxygenase AlkB; Provisional; Region: PRK15401 1112912001448 ABC-type uncharacterized transport system, duplicated ATPase component [General function prediction only]; Region: COG4172 1112912001449 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1112912001450 Walker A/P-loop; other site 1112912001451 ATP binding site [chemical binding]; other site 1112912001452 Q-loop/lid; other site 1112912001453 ABC transporter signature motif; other site 1112912001454 Walker B; other site 1112912001455 D-loop; other site 1112912001456 H-loop/switch region; other site 1112912001457 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 1112912001458 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1112912001459 Walker A/P-loop; other site 1112912001460 ATP binding site [chemical binding]; other site 1112912001461 Q-loop/lid; other site 1112912001462 ABC transporter signature motif; other site 1112912001463 Walker B; other site 1112912001464 D-loop; other site 1112912001465 H-loop/switch region; other site 1112912001466 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1112912001467 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 1112912001468 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 1112912001469 dimer interface [polypeptide binding]; other site 1112912001470 conserved gate region; other site 1112912001471 ABC-ATPase subunit interface; other site 1112912001472 oligopeptide transporter permease; Reviewed; Region: oppB; PRK09471 1112912001473 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 1112912001474 dimer interface [polypeptide binding]; other site 1112912001475 conserved gate region; other site 1112912001476 putative PBP binding loops; other site 1112912001477 ABC-ATPase subunit interface; other site 1112912001478 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 1112912001479 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 1112912001480 peptide binding site [polypeptide binding]; other site 1112912001481 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 1112912001482 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 1112912001483 peptide binding site [polypeptide binding]; other site 1112912001484 Predicted integral membrane protein [Function unknown]; Region: COG5455 1112912001485 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1112912001486 UDP-glucuronate decarboxylase (UGD) and related proteins, extended (e) SDRs; Region: UGD_SDR_e; cd05230 1112912001487 NAD binding site [chemical binding]; other site 1112912001488 putative substrate binding site 2 [chemical binding]; other site 1112912001489 putative substrate binding site 1 [chemical binding]; other site 1112912001490 active site 1112912001491 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 1112912001492 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 1112912001493 NAD binding site [chemical binding]; other site 1112912001494 homodimer interface [polypeptide binding]; other site 1112912001495 active site 1112912001496 substrate binding site [chemical binding]; other site 1112912001497 Glycosyltransferases, probably involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG1215 1112912001498 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 1112912001499 active site 1112912001500 Cellulose synthase-like protein; Region: PLN02893 1112912001501 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 1112912001502 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 1112912001503 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 1112912001504 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 1112912001505 Protein of unknown function (DUF995); Region: DUF995; pfam06191 1112912001506 Beta-mannanase [Carbohydrate transport and metabolism]; Region: ManB; COG4124 1112912001507 Protein of unknown function (DUF995); Region: DUF995; pfam06191 1112912001508 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1112912001509 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1112912001510 heme biosynthesis-associated TPR protein; Region: TPR_hemY_coli; TIGR00540 1112912001511 yecA family protein; Region: ygfB_yecA; TIGR02292 1112912001512 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 1112912001513 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 1112912001514 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 1112912001515 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 1112912001516 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 1112912001517 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 1112912001518 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 1112912001519 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1112912001520 Transposase; Region: HTH_Tnp_1; pfam01527 1112912001521 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 1112912001522 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 1112912001523 putative deacylase active site [active] 1112912001524 iron-responsive transcriptional regulator; Reviewed; Region: rirA; PRK11920 1112912001525 Predicted transcriptional regulator [Transcription]; Region: COG1959 1112912001526 Uncharacterized enzyme involved in biosynthesis of extracellular polysaccharides [General function prediction only]; Region: COG2329 1112912001527 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 1112912001528 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 1112912001529 heme binding site [chemical binding]; other site 1112912001530 ferroxidase pore; other site 1112912001531 ferroxidase diiron center [ion binding]; other site 1112912001532 ribosomal protein S12 methylthiotransferase; Provisional; Region: rimO; PRK14862 1112912001533 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 1112912001534 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 1112912001535 FeS/SAM binding site; other site 1112912001536 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 1112912001537 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 1112912001538 putative ligand binding site [chemical binding]; other site 1112912001539 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 1112912001540 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1112912001541 TM-ABC transporter signature motif; other site 1112912001542 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1112912001543 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 1112912001544 TM-ABC transporter signature motif; other site 1112912001545 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 1112912001546 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1112912001547 Walker A/P-loop; other site 1112912001548 ATP binding site [chemical binding]; other site 1112912001549 Q-loop/lid; other site 1112912001550 ABC transporter signature motif; other site 1112912001551 Walker B; other site 1112912001552 D-loop; other site 1112912001553 H-loop/switch region; other site 1112912001554 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1112912001555 quinone oxidoreductase, NADPH-dependent; Provisional; Region: PRK10754 1112912001556 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 1112912001557 NADP binding site [chemical binding]; other site 1112912001558 dimer interface [polypeptide binding]; other site 1112912001559 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 1112912001560 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 1112912001561 2-octaprenyl-6-methoxyphenyl hydroxylase; Provisional; Region: PRK07494 1112912001562 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 1112912001563 Uncharacterized conserved protein [Function unknown]; Region: COG3785 1112912001564 Invasion protein B, involved in pathogenesis [General function prediction only]; Region: COG5342 1112912001565 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 1112912001566 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_14; cd08497 1112912001567 Predicted dithiol-disulfide isomerase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FrnE; COG2761 1112912001568 DsbA family, FrnE subfamily; FrnE is a DsbA-like protein containing a CXXC motif. It is presumed to be a thiol oxidoreductase involved in polyketide biosynthesis, specifically in the production of the aromatic antibiotics frenolicin and nanaomycins; Region: DsbA_FrnE; cd03024 1112912001569 catalytic residues [active] 1112912001570 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 1112912001571 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1112912001572 active site 1112912001573 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 1112912001574 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 1112912001575 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 1112912001576 ATP binding site [chemical binding]; other site 1112912001577 putative Mg++ binding site [ion binding]; other site 1112912001578 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 1112912001579 nucleotide binding region [chemical binding]; other site 1112912001580 ATP-binding site [chemical binding]; other site 1112912001581 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 1112912001582 Uncharacterized conserved protein [Function unknown]; Region: COG2938 1112912001583 RecG-like helicase [DNA replication, recombination, and repair / Transcription]; Region: RecG; COG1200 1112912001584 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 1112912001585 generic binding surface II; other site 1112912001586 ssDNA binding site; other site 1112912001587 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 1112912001588 ATP binding site [chemical binding]; other site 1112912001589 putative Mg++ binding site [ion binding]; other site 1112912001590 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 1112912001591 nucleotide binding region [chemical binding]; other site 1112912001592 ATP-binding site [chemical binding]; other site 1112912001593 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 1112912001594 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 1112912001595 glutaminase active site [active] 1112912001596 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 1112912001597 dimer interface [polypeptide binding]; other site 1112912001598 active site 1112912001599 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 1112912001600 dimer interface [polypeptide binding]; other site 1112912001601 active site 1112912001602 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK14353 1112912001603 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 1112912001604 Substrate binding site; other site 1112912001605 Mg++ binding site; other site 1112912001606 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 1112912001607 active site 1112912001608 substrate binding site [chemical binding]; other site 1112912001609 CoA binding site [chemical binding]; other site 1112912001610 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 1112912001611 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 1112912001612 Predicted integral membrane protein [Function unknown]; Region: COG0392 1112912001613 Uncharacterized conserved protein [Function unknown]; Region: COG2898 1112912001614 Uncharacterized conserved protein (DUF2156); Region: DUF2156; pfam09924 1112912001615 Type IV secretory pathway, VirJ component [Intracellular trafficking and secretion]; Region: VirJ; COG3946 1112912001616 Bacterial virulence protein (VirJ); Region: VirJ; pfam06057 1112912001617 BA14K-like protein; Region: BA14K; pfam07886 1112912001618 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 1112912001619 PAS domain; Region: PAS_9; pfam13426 1112912001620 putative active site [active] 1112912001621 heme pocket [chemical binding]; other site 1112912001622 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 1112912001623 PAS fold; Region: PAS_3; pfam08447 1112912001624 putative active site [active] 1112912001625 heme pocket [chemical binding]; other site 1112912001626 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 1112912001627 HWE histidine kinase; Region: HWE_HK; pfam07536 1112912001628 lipoate-protein ligase B; Provisional; Region: PRK14341 1112912001629 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1112912001630 EamA-like transporter family; Region: EamA; pfam00892 1112912001631 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 1112912001632 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 1112912001633 Mg2+ binding site [ion binding]; other site 1112912001634 G-X-G motif; other site 1112912001635 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 1112912001636 anchoring element; other site 1112912001637 dimer interface [polypeptide binding]; other site 1112912001638 ATP binding site [chemical binding]; other site 1112912001639 Topoisomerase-primase domain. This is a nucleotidyl transferase/hydrolase domain found in type IA, type IIA and type IIB topoisomerases, bacterial DnaG-type primases, small primase-like proteins from bacteria and archaea, OLD family nucleases from...; Region: TOPRIM; cl00718 1112912001640 active site 1112912001641 metal binding site [ion binding]; metal-binding site 1112912001642 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 1112912001643 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 1112912001644 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 1112912001645 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 1112912001646 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 1112912001647 metal-dependent hydrolase; Provisional; Region: PRK00685 1112912001648 Predicted endonuclease involved in recombination (possible Holliday junction resolvase in Mycoplasmas and B. subtilis) [DNA replication, recombination, and repair]; Region: COG0816 1112912001649 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1112912001650 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1112912001651 active site 1112912001652 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 1112912001653 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 1112912001654 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 1112912001655 dihydroorotase; Validated; Region: PRK09059 1112912001656 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 1112912001657 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 1112912001658 active site 1112912001659 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 1112912001660 Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]; Region: Smf; COG0758 1112912001661 DNA protecting protein DprA; Region: dprA; TIGR00732 1112912001662 DNA topoisomerase I subunit omega; Validated; Region: PRK07561 1112912001663 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 1112912001664 active site 1112912001665 interdomain interaction site; other site 1112912001666 putative metal-binding site [ion binding]; other site 1112912001667 nucleotide binding site [chemical binding]; other site 1112912001668 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 1112912001669 domain I; other site 1112912001670 DNA binding groove [nucleotide binding] 1112912001671 phosphate binding site [ion binding]; other site 1112912001672 domain II; other site 1112912001673 domain III; other site 1112912001674 nucleotide binding site [chemical binding]; other site 1112912001675 catalytic site [active] 1112912001676 domain IV; other site 1112912001677 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 1112912001678 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 1112912001679 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 1112912001680 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 1112912001681 ribonuclease R; Region: RNase_R; TIGR02063 1112912001682 RNB domain; Region: RNB; pfam00773 1112912001683 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 1112912001684 RNA binding site [nucleotide binding]; other site 1112912001685 hypothetical protein; Provisional; Region: PRK05978 1112912001686 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1112912001687 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 1112912001688 putative substrate translocation pore; other site 1112912001689 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 1112912001690 response regulator PleD; Reviewed; Region: pleD; PRK09581 1112912001691 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 1112912001692 active site 1112912001693 phosphorylation site [posttranslational modification] 1112912001694 intermolecular recognition site; other site 1112912001695 dimerization interface [polypeptide binding]; other site 1112912001696 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 1112912001697 active site 1112912001698 phosphorylation site [posttranslational modification] 1112912001699 intermolecular recognition site; other site 1112912001700 dimerization interface [polypeptide binding]; other site 1112912001701 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1112912001702 metal binding site [ion binding]; metal-binding site 1112912001703 active site 1112912001704 I-site; other site 1112912001705 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1112912001706 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 1112912001707 active site 1112912001708 phosphorylation site [posttranslational modification] 1112912001709 intermolecular recognition site; other site 1112912001710 dimerization interface [polypeptide binding]; other site 1112912001711 Protein of unknown function (DUF3572); Region: DUF3572; pfam12096 1112912001712 nucleoside diphosphate kinase regulator; Provisional; Region: PRK05753 1112912001713 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 1112912001714 DNA polymerase IV; Provisional; Region: PRK02794 1112912001715 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 1112912001716 active site 1112912001717 DNA binding site [nucleotide binding] 1112912001718 Uncharacterized conserved protein [Function unknown]; Region: COG3391 1112912001719 Esterase-like activity of phytase; Region: Phytase-like; pfam13449 1112912001720 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1112912001721 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1112912001722 metal binding site [ion binding]; metal-binding site 1112912001723 active site 1112912001724 I-site; other site 1112912001725 Pyrimidine dimer DNA glycosylase; Region: Pyr_excise; pfam03013 1112912001726 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 1112912001727 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 1112912001728 active site 1112912001729 catalytic site [active] 1112912001730 substrate binding site [chemical binding]; other site 1112912001731 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1112912001732 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1112912001733 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1112912001734 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1112912001735 hydroxyglutarate oxidase; Provisional; Region: PRK11728 1112912001736 hydroxyglutarate oxidase; Provisional; Region: PRK11728 1112912001737 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 1112912001738 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1112912001739 substrate binding pocket [chemical binding]; other site 1112912001740 membrane-bound complex binding site; other site 1112912001741 hinge residues; other site 1112912001742 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 1112912001743 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1112912001744 substrate binding pocket [chemical binding]; other site 1112912001745 membrane-bound complex binding site; other site 1112912001746 hinge residues; other site 1112912001747 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 1112912001748 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1112912001749 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 1112912001750 putative DNA binding site [nucleotide binding]; other site 1112912001751 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1112912001752 putative Zn2+ binding site [ion binding]; other site 1112912001753 AsnC family; Region: AsnC_trans_reg; pfam01037 1112912001754 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 1112912001755 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 1112912001756 active site 1112912001757 beta-ketoadipyl CoA thiolase; Validated; Region: PRK09050 1112912001758 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 1112912001759 dimer interface [polypeptide binding]; other site 1112912001760 active site 1112912001761 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 1112912001762 3-oxoacid CoA-transferase, A subunit; Region: pcaI_scoA_fam; TIGR02429 1112912001763 beta-ketoadipate pathway transcriptional regulators, PcaR/PcaU/PobR family; Region: pcaR_pcaU; TIGR02431 1112912001764 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 1112912001765 Bacterial transcriptional regulator; Region: IclR; pfam01614 1112912001766 4-hydroxyphenylacetate catabolism regulatory protein HpaA; Region: HpaA; TIGR02297 1112912001767 Cupin domain; Region: Cupin_2; cl17218 1112912001768 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1112912001769 4-hydroxybenzoate 3-monooxygenase; Validated; Region: PRK08243 1112912001770 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 1112912001771 hypothetical protein; Provisional; Region: PRK07236 1112912001772 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 1112912001773 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1112912001774 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 1112912001775 dimerization interface [polypeptide binding]; other site 1112912001776 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 1112912001777 4-carboxymuconolactone decarboxylase; Region: decarb_PcaC; TIGR02425 1112912001778 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 1112912001779 protocatechuate 3,4-dioxygenase, beta subunit; Region: protocat_beta; TIGR02422 1112912001780 active site 1112912001781 Protocatechuate 3,4-dioxygenase beta subunit [Secondary metabolites biosynthesis, transport, and catabolism]; Region: PcaH; COG3485 1112912001782 Protocatechuate 3,4-dioxygenase (3,4-PCD) , alpha subunit. 3,4-PCD catalyzes the oxidative ring cleavage of 3,4-dihydroxybenzoate to produce beta-carboxy-cis,cis-muconate. 3,4-PCDs are large aggregates of 12 protomers, each composed of an alpha- and...; Region: 3,4-PCD_alpha; cd03463 1112912001783 heterodimer interface [polypeptide binding]; other site 1112912001784 active site 1112912001785 3-carboxy-cis,cis-muconate cycloisomerase; Provisional; Region: PRK05975 1112912001786 Adenylosuccinate lyase [Nucleotide transport and metabolism]; Region: PurB; COG0015 1112912001787 tetramer interface [polypeptide binding]; other site 1112912001788 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 1112912001789 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 1112912001790 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1112912001791 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 1112912001792 TM-ABC transporter signature motif; other site 1112912001793 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 1112912001794 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 1112912001795 TM-ABC transporter signature motif; other site 1112912001796 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 1112912001797 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 1112912001798 Walker A/P-loop; other site 1112912001799 ATP binding site [chemical binding]; other site 1112912001800 Q-loop/lid; other site 1112912001801 ABC transporter signature motif; other site 1112912001802 Walker B; other site 1112912001803 D-loop; other site 1112912001804 H-loop/switch region; other site 1112912001805 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 1112912001806 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 1112912001807 Walker A/P-loop; other site 1112912001808 ATP binding site [chemical binding]; other site 1112912001809 Q-loop/lid; other site 1112912001810 ABC transporter signature motif; other site 1112912001811 Walker B; other site 1112912001812 D-loop; other site 1112912001813 H-loop/switch region; other site 1112912001814 Adenine deaminase [Nucleotide transport and metabolism]; Region: AdeC; COG1001 1112912001815 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 1112912001816 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 1112912001817 active site 1112912001818 Zn-dependent dipeptidase, microsomal dipeptidase homolog [Amino acid transport and metabolism]; Region: COG2355 1112912001819 renal dipeptidase (rDP), best studied in mammals and also called membrane or microsomal dipeptidase, is a membrane-bound glycoprotein hydrolyzing dipeptides and is involved in hydrolytic metabolism of penem and carbapenem beta-lactam antibiotics; Region: rDP_like; cd01301 1112912001820 active site 1112912001821 dimer interface [polypeptide binding]; other site 1112912001822 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 1112912001823 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1112912001824 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 1112912001825 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 1112912001826 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1112912001827 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 1112912001828 dimer interface [polypeptide binding]; other site 1112912001829 conserved gate region; other site 1112912001830 ABC-ATPase subunit interface; other site 1112912001831 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 1112912001832 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 1112912001833 Walker A/P-loop; other site 1112912001834 ATP binding site [chemical binding]; other site 1112912001835 Q-loop/lid; other site 1112912001836 ABC transporter signature motif; other site 1112912001837 Walker B; other site 1112912001838 D-loop; other site 1112912001839 H-loop/switch region; other site 1112912001840 TOBE domain; Region: TOBE_2; pfam08402 1112912001841 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 1112912001842 transmembrane helices; other site 1112912001843 TrkA-C domain; Region: TrkA_C; pfam02080 1112912001844 Putative regulatory, ligand-binding protein related to C-terminal domains of K+ channels [Inorganic ion transport and metabolism]; Region: COG0490 1112912001845 TrkA-C domain; Region: TrkA_C; pfam02080 1112912001846 Permease SLC13 (solute carrier 13). The sodium/dicarboxylate cotransporter NaDC-1 has been shown to translocate Krebs cycle intermediates such as succinate, citrate, and alpha-ketoglutarate across plasma membranes rabbit, human, and rat kidney. It is...; Region: SLC13_permease; cd01115 1112912001847 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 1112912001848 nucleoside/Zn binding site; other site 1112912001849 dimer interface [polypeptide binding]; other site 1112912001850 catalytic motif [active] 1112912001851 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 1112912001852 Domain of unknown function (DUF1127); Region: DUF1127; pfam06568 1112912001853 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1112912001854 EamA-like transporter family; Region: EamA; pfam00892 1112912001855 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1112912001856 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 1112912001857 FAD binding domain; Region: FAD_binding_2; pfam00890 1112912001858 Protein of unknown function (DUF3775); Region: DUF3775; pfam12616 1112912001859 Rhodococcus ruber 6-oxolauric acid dehydrogenase-like; Region: ALDH_CddD_SSP0762; cd07138 1112912001860 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1112912001861 NAD binding site [chemical binding]; other site 1112912001862 catalytic residues [active] 1112912001863 Siderophore binding protein FatB. These proteins have been shown to function as ABC-type initial receptors in the siderophore-mediated iron uptake in some eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins...; Region: FatB; cd01140 1112912001864 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 1112912001865 putative ligand binding residues [chemical binding]; other site 1112912001866 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 1112912001867 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 1112912001868 ABC-ATPase subunit interface; other site 1112912001869 dimer interface [polypeptide binding]; other site 1112912001870 putative PBP binding regions; other site 1112912001871 ABC-type enterochelin transport system, permease component [Inorganic ion transport and metabolism]; Region: CeuC; COG4605 1112912001872 ABC-ATPase subunit interface; other site 1112912001873 dimer interface [polypeptide binding]; other site 1112912001874 putative PBP binding regions; other site 1112912001875 ABC-type enterochelin transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CeuD; COG4604 1112912001876 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 1112912001877 Walker A/P-loop; other site 1112912001878 ATP binding site [chemical binding]; other site 1112912001879 Q-loop/lid; other site 1112912001880 ABC transporter signature motif; other site 1112912001881 Walker B; other site 1112912001882 D-loop; other site 1112912001883 H-loop/switch region; other site 1112912001884 Predicted transcription regulator, contains HTH domain (MarR family) [Transcription]; Region: COG5631 1112912001885 5-oxoprolinase; Region: PLN02666 1112912001886 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 1112912001887 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; pfam01968 1112912001888 N-methylhydantoinase B/acetone carboxylase, alpha subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuB; COG0146 1112912001889 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1112912001890 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 1112912001891 substrate binding pocket [chemical binding]; other site 1112912001892 membrane-bound complex binding site; other site 1112912001893 hinge residues; other site 1112912001894 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 1112912001895 dimer interface [polypeptide binding]; other site 1112912001896 conserved gate region; other site 1112912001897 putative PBP binding loops; other site 1112912001898 ABC-ATPase subunit interface; other site 1112912001899 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1112912001900 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1112912001901 Walker A/P-loop; other site 1112912001902 ATP binding site [chemical binding]; other site 1112912001903 Q-loop/lid; other site 1112912001904 ABC transporter signature motif; other site 1112912001905 Walker B; other site 1112912001906 D-loop; other site 1112912001907 H-loop/switch region; other site 1112912001908 exopolyphosphatase; Region: exo_poly_only; TIGR03706 1112912001909 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 1112912001910 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 1112912001911 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 1112912001912 S-adenosylmethionine binding site [chemical binding]; other site 1112912001913 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 1112912001914 putative transporter; Provisional; Region: PRK10504 1112912001915 putative substrate translocation pore; other site 1112912001916 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 1112912001917 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1112912001918 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 1112912001919 dimer interface [polypeptide binding]; other site 1112912001920 conserved gate region; other site 1112912001921 putative PBP binding loops; other site 1112912001922 ABC-ATPase subunit interface; other site 1112912001923 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 1112912001924 dimer interface [polypeptide binding]; other site 1112912001925 conserved gate region; other site 1112912001926 putative PBP binding loops; other site 1112912001927 ABC-ATPase subunit interface; other site 1112912001928 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 1112912001929 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 1112912001930 lumazine synthase (6,7-dimethyl-8-ribityllumazine synthase, LS), catalyzes the penultimate step in the biosynthesis of riboflavin (vitamin B2); type-II; Region: Lumazine_synthase-II; cd09208 1112912001931 active site 1112912001932 homopentamer interface [polypeptide binding]; other site 1112912001933 dimer interface [polypeptide binding]; other site 1112912001934 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3453 1112912001935 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 1112912001936 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 1112912001937 dimer interface [polypeptide binding]; other site 1112912001938 conserved gate region; other site 1112912001939 putative PBP binding loops; other site 1112912001940 ABC-ATPase subunit interface; other site 1112912001941 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 1112912001942 dimer interface [polypeptide binding]; other site 1112912001943 conserved gate region; other site 1112912001944 putative PBP binding loops; other site 1112912001945 ABC-ATPase subunit interface; other site 1112912001946 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 1112912001947 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 1112912001948 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 1112912001949 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 1112912001950 Walker A/P-loop; other site 1112912001951 ATP binding site [chemical binding]; other site 1112912001952 Q-loop/lid; other site 1112912001953 ABC transporter signature motif; other site 1112912001954 Walker B; other site 1112912001955 D-loop; other site 1112912001956 H-loop/switch region; other site 1112912001957 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1112912001958 hydroxyglutarate oxidase; Provisional; Region: PRK11728 1112912001959 Cu/Zn superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodC; COG2032 1112912001960 Copper/zinc superoxide dismutase (SOD). superoxide dismutases catalyse the conversion of superoxide radicals to molecular oxygen. Three evolutionarily distinct families of SODs are known, of which the copper/zinc-binding family is one. Defects in the...; Region: Cu-Zn_Superoxide_Dismutase; cd00305 1112912001961 E-class dimer interface [polypeptide binding]; other site 1112912001962 P-class dimer interface [polypeptide binding]; other site 1112912001963 active site 1112912001964 Cu2+ binding site [ion binding]; other site 1112912001965 Zn2+ binding site [ion binding]; other site 1112912001966 multicopper oxidase; Provisional; Region: PRK10965 1112912001967 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 1112912001968 Multicopper oxidase; Region: Cu-oxidase; pfam00394 1112912001969 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 1112912001970 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 1112912001971 metabolite-proton symporter; Region: 2A0106; TIGR00883 1112912001972 putative substrate translocation pore; other site 1112912001973 alkylhydroperoxidase, AhpD family; Region: ahpD; TIGR00777 1112912001974 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 1112912001975 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 1112912001976 Peroxiredoxin (PRX) family, Typical 2-Cys PRX subfamily; PRXs are thiol-specific antioxidant (TSA) proteins, which confer a protective role in cells through its peroxidase activity by reducing hydrogen peroxide, peroxynitrite, and organic hydroperoxides; Region: PRX_Typ2cys; cd03015 1112912001977 dimer interface [polypeptide binding]; other site 1112912001978 decamer (pentamer of dimers) interface [polypeptide binding]; other site 1112912001979 catalytic triad [active] 1112912001980 peroxidatic and resolving cysteines [active] 1112912001981 DNA-binding transcriptional regulator OxyR; Provisional; Region: PRK11151 1112912001982 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1112912001983 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 1112912001984 dimerization interface [polypeptide binding]; other site 1112912001985 Protein of unknown function (DUF1612); Region: DUF1612; pfam07756 1112912001986 HTH DNA binding domain; Region: HTH_13; pfam11972 1112912001987 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1112912001988 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1112912001989 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 1112912001990 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 1112912001991 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 1112912001992 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 1112912001993 putative active site [active] 1112912001994 Acetolactate synthase [Amino acid transport and metabolism]; Region: COG3962 1112912001995 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1112912001996 PYR/PP interface [polypeptide binding]; other site 1112912001997 dimer interface [polypeptide binding]; other site 1112912001998 TPP binding site [chemical binding]; other site 1112912001999 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1112912002000 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 1112912002001 TPP-binding site [chemical binding]; other site 1112912002002 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 1112912002003 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 1112912002004 Bacterial family of Mg++ dependent phosphatases, related to inositol monophosphatases. These enzymes may dephosphorylate inositol monophosphate or similar substrates; Region: Bacterial_IMPase_like_2; cd01643 1112912002005 active site 1112912002006 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 1112912002007 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1112912002008 Walker A/P-loop; other site 1112912002009 ATP binding site [chemical binding]; other site 1112912002010 Q-loop/lid; other site 1112912002011 ABC transporter signature motif; other site 1112912002012 Walker B; other site 1112912002013 D-loop; other site 1112912002014 H-loop/switch region; other site 1112912002015 TOBE domain; Region: TOBE_2; pfam08402 1112912002016 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 1112912002017 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 1112912002018 dimer interface [polypeptide binding]; other site 1112912002019 conserved gate region; other site 1112912002020 putative PBP binding loops; other site 1112912002021 ABC-ATPase subunit interface; other site 1112912002022 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 1112912002023 dimer interface [polypeptide binding]; other site 1112912002024 conserved gate region; other site 1112912002025 putative PBP binding loops; other site 1112912002026 ABC-ATPase subunit interface; other site 1112912002027 2-aminoethylphosphonate ABC transporter substrate-binding protein; Provisional; Region: PRK15046 1112912002028 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 1112912002029 bifunctional proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: PRK11905 1112912002030 Proline dehydrogenase [Amino acid transport and metabolism]; Region: PutA; COG0506 1112912002031 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 1112912002032 Glutamate binding site [chemical binding]; other site 1112912002033 NAD binding site [chemical binding]; other site 1112912002034 catalytic residues [active] 1112912002035 leucine-responsive transcriptional regulator; Provisional; Region: PRK11169 1112912002036 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 1112912002037 putative DNA binding site [nucleotide binding]; other site 1112912002038 putative Zn2+ binding site [ion binding]; other site 1112912002039 AsnC family; Region: AsnC_trans_reg; pfam01037 1112912002040 glycine dehydrogenase; Provisional; Region: PRK05367 1112912002041 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 1112912002042 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1112912002043 catalytic residue [active] 1112912002044 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 1112912002045 tetramer interface [polypeptide binding]; other site 1112912002046 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1112912002047 catalytic residue [active] 1112912002048 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 1112912002049 lipoyl attachment site [posttranslational modification]; other site 1112912002050 glycine cleavage system aminomethyltransferase T; Provisional; Region: gcvT; PRK13579 1112912002051 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 1112912002052 Uncharacterized conserved small protein [Function unknown]; Region: COG5457 1112912002053 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 1112912002054 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1112912002055 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1112912002056 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 1112912002057 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 1112912002058 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 1112912002059 putative active site [active] 1112912002060 Predicted N-formylglutamate amidohydrolase [Amino acid transport and metabolism]; Region: COG3931 1112912002061 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 1112912002062 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 1112912002063 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 1112912002064 Iron-containing alcohol dehydrogenases-like, involved in the linear alkylbenzenesulfonate (LAS) degradation pathway; Region: Fe-ADH7; cd08192 1112912002065 putative active site [active] 1112912002066 metal binding site [ion binding]; metal-binding site 1112912002067 BA14K-like protein; Region: BA14K; pfam07886 1112912002068 EamA-like transporter family; Region: EamA; pfam00892 1112912002069 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 1112912002070 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 1112912002071 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 1112912002072 dimer interface [polypeptide binding]; other site 1112912002073 conserved gate region; other site 1112912002074 putative PBP binding loops; other site 1112912002075 ABC-ATPase subunit interface; other site 1112912002076 ABC-type proline/glycine betaine transport system, ATPase component [Amino acid transport and metabolism]; Region: ProV; COG4175 1112912002077 ATP-binding cassette domain of the osmoprotectant proline/glycine betaine uptake system; Region: ABC_Pro_Gly_Betaine; cd03294 1112912002078 Walker A/P-loop; other site 1112912002079 ATP binding site [chemical binding]; other site 1112912002080 Q-loop/lid; other site 1112912002081 ABC transporter signature motif; other site 1112912002082 Walker B; other site 1112912002083 D-loop; other site 1112912002084 H-loop/switch region; other site 1112912002085 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 1112912002086 Predicted amino acid aldolase or racemase [Amino acid transport and metabolism]; Region: COG3616 1112912002087 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Low Specificity D-Threonine Aldolase-like; Region: PLPDE_III_LS_D-TA_like; cd06820 1112912002088 dimer interface [polypeptide binding]; other site 1112912002089 active site 1112912002090 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1112912002091 substrate binding site [chemical binding]; other site 1112912002092 catalytic residue [active] 1112912002093 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 1112912002094 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 1112912002095 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 1112912002096 putative active site [active] 1112912002097 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 1112912002098 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 1112912002099 Walker A/P-loop; other site 1112912002100 ATP binding site [chemical binding]; other site 1112912002101 Q-loop/lid; other site 1112912002102 ABC transporter signature motif; other site 1112912002103 Walker B; other site 1112912002104 D-loop; other site 1112912002105 H-loop/switch region; other site 1112912002106 TOBE domain; Region: TOBE_2; pfam08402 1112912002107 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1112912002108 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1112912002109 NAD(P) binding site [chemical binding]; other site 1112912002110 active site 1112912002111 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 1112912002112 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 1112912002113 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 1112912002114 dimer interface [polypeptide binding]; other site 1112912002115 conserved gate region; other site 1112912002116 putative PBP binding loops; other site 1112912002117 ABC-ATPase subunit interface; other site 1112912002118 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1112912002119 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 1112912002120 dimer interface [polypeptide binding]; other site 1112912002121 conserved gate region; other site 1112912002122 putative PBP binding loops; other site 1112912002123 ABC-ATPase subunit interface; other site 1112912002124 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 1112912002125 homotrimer interaction site [polypeptide binding]; other site 1112912002126 putative active site [active] 1112912002127 Uncharacterized conserved protein [Function unknown]; Region: COG5476 1112912002128 Protein of unknown function (DUF1485); Region: DUF1485; pfam07364 1112912002129 MlrC C-terminus; Region: MlrC_C; pfam07171 1112912002130 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 1112912002131 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 1112912002132 Walker A/P-loop; other site 1112912002133 ATP binding site [chemical binding]; other site 1112912002134 Q-loop/lid; other site 1112912002135 ABC transporter signature motif; other site 1112912002136 Walker B; other site 1112912002137 D-loop; other site 1112912002138 H-loop/switch region; other site 1112912002139 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 1112912002140 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 1112912002141 ABC-ATPase subunit interface; other site 1112912002142 dimer interface [polypeptide binding]; other site 1112912002143 putative PBP binding regions; other site 1112912002144 Metal binding protein TroA_a. These proteins are predicted to function as initial receptors in ABC transport of metal ions in eubacteria. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a distinct fold and...; Region: TroA_a; cd01148 1112912002145 proposed F420-0 ABC transporter, periplasmic F420-0 binding protein; Region: F420-O_ABCperi; TIGR03868 1112912002146 putative ligand binding residues [chemical binding]; other site 1112912002147 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 1112912002148 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1112912002149 HlyD family secretion protein; Region: HlyD_3; pfam13437 1112912002150 Protein of unknown function (DUF1656); Region: DUF1656; pfam07869 1112912002151 Fusaric acid resistance protein family; Region: FUSC; pfam04632 1112912002152 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 1112912002153 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1112912002154 MarR family; Region: MarR_2; pfam12802 1112912002155 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1385 1112912002156 RNA methyltransferase, RsmE family; Region: TIGR00046 1112912002157 Gamma-glutamylcysteine synthetase [Coenzyme metabolism]; Region: GshA; COG3572 1112912002158 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 1112912002159 ExoVII_LU_OBF: A subfamily of OB folds corresponding to the N-terminal OB-fold domain of Escherichia coli exodeoxyribonuclease VII (ExoVII) large subunit. E. coli ExoVII is composed of two non-identical subunits. E. coli ExoVII is a...; Region: ExoVII_LU_OBF; cd04489 1112912002160 generic binding surface II; other site 1112912002161 generic binding surface I; other site 1112912002162 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1112912002163 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1112912002164 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 1112912002165 dimerization interface [polypeptide binding]; other site 1112912002166 Domain of unknown function (DUF1127); Region: DUF1127; cl02276 1112912002167 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 1112912002168 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 1112912002169 hypothetical protein; Reviewed; Region: PRK12275 1112912002170 four helix bundle protein; Region: TIGR02436 1112912002171 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 1112912002172 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1112912002173 Transcriptional regulators [Transcription]; Region: MarR; COG1846 1112912002174 Hint domain; Region: Hint_2; pfam13403 1112912002175 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1112912002176 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 1112912002177 putative DNA binding site [nucleotide binding]; other site 1112912002178 putative Zn2+ binding site [ion binding]; other site 1112912002179 AsnC family; Region: AsnC_trans_reg; pfam01037 1112912002180 Predicted branched-chain amino acid permease (azaleucine resistance) [Amino acid transport and metabolism]; Region: AzlC; COG1296 1112912002181 Predicted membrane protein [Function unknown]; Region: COG4541 1112912002182 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR), subgroup 3, classical (c) SDR; Region: BKR_3_SDR_c; cd05345 1112912002183 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 1112912002184 putative NAD(P) binding site [chemical binding]; other site 1112912002185 active site 1112912002186 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 1112912002187 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 1112912002188 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 1112912002189 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 1112912002190 6PGL: 6-Phosphogluconolactonase (6PGL) subfamily; 6PGL catalyzes the second step of the oxidative phase of the pentose phosphate pathway, the hydrolyzation of 6-phosphoglucono-1,5-lactone (delta form) to 6-phosphogluconate. 6PGL is thought to guard...; Region: 6PGL; cd01400 1112912002191 putative active site [active] 1112912002192 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14188 1112912002193 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 1112912002194 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 1112912002195 homodimer interface [polypeptide binding]; other site 1112912002196 NADP binding site [chemical binding]; other site 1112912002197 substrate binding site [chemical binding]; other site 1112912002198 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 1112912002199 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 1112912002200 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 1112912002201 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 1112912002202 dimer interface [polypeptide binding]; other site 1112912002203 conserved gate region; other site 1112912002204 putative PBP binding loops; other site 1112912002205 ABC-ATPase subunit interface; other site 1112912002206 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1112912002207 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 1112912002208 dimer interface [polypeptide binding]; other site 1112912002209 conserved gate region; other site 1112912002210 putative PBP binding loops; other site 1112912002211 ABC-ATPase subunit interface; other site 1112912002212 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1112912002213 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_13; cd08517 1112912002214 Eukaryotic translation initiation factor 3 subunit 8 N-terminus; Region: eIF-3c_N; pfam05470 1112912002215 Carbonic anhydrases (CA) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism in which the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide is followed by the regeneration of an...; Region: beta_CA_cladeA; cd00883 1112912002216 active site clefts [active] 1112912002217 zinc binding site [ion binding]; other site 1112912002218 dimer interface [polypeptide binding]; other site 1112912002219 tellurite resistance protein terB; Region: terB; cd07176 1112912002220 putative metal binding site [ion binding]; other site 1112912002221 lysyl-tRNA synthetase; Reviewed; Region: lysK; PRK00750 1112912002222 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1112912002223 active site 1112912002224 nucleotide binding site [chemical binding]; other site 1112912002225 HIGH motif; other site 1112912002226 KMSKS motif; other site 1112912002227 Micrococcal nuclease (thermonuclease) homologs [DNA replication, recombination, and repair]; Region: COG1525 1112912002228 Predicted transcriptional regulator [Transcription]; Region: COG2932 1112912002229 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 1112912002230 Catalytic site [active] 1112912002231 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 1112912002232 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 1112912002233 substrate binding site [chemical binding]; other site 1112912002234 oxyanion hole (OAH) forming residues; other site 1112912002235 trimer interface [polypeptide binding]; other site 1112912002236 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 1112912002237 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1112912002238 acetyl-CoA acetyltransferase; Validated; Region: PRK08242 1112912002239 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 1112912002240 dimer interface [polypeptide binding]; other site 1112912002241 active site 1112912002242 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 1112912002243 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 1112912002244 Putative acyl-CoA dehydrogenases similar to fadE5; Region: ACAD_fadE5; cd01153 1112912002245 FAD binding site [chemical binding]; other site 1112912002246 substrate binding site [chemical binding]; other site 1112912002247 catalytic residues [active] 1112912002248 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 1112912002249 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1112912002250 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1112912002251 active site 1112912002252 nickel transporter ATP-binding protein NikE; Provisional; Region: nikE; PRK10419 1112912002253 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1112912002254 Walker A/P-loop; other site 1112912002255 ATP binding site [chemical binding]; other site 1112912002256 Q-loop/lid; other site 1112912002257 ABC transporter signature motif; other site 1112912002258 Walker B; other site 1112912002259 D-loop; other site 1112912002260 H-loop/switch region; other site 1112912002261 nickel transporter ATP-binding protein NikD; Provisional; Region: nikD; PRK10418 1112912002262 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1112912002263 Walker A/P-loop; other site 1112912002264 ATP binding site [chemical binding]; other site 1112912002265 Q-loop/lid; other site 1112912002266 ABC transporter signature motif; other site 1112912002267 Walker B; other site 1112912002268 D-loop; other site 1112912002269 H-loop/switch region; other site 1112912002270 nickel transporter permease NikC; Provisional; Region: nikC; PRK10417 1112912002271 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 1112912002272 dimer interface [polypeptide binding]; other site 1112912002273 conserved gate region; other site 1112912002274 putative PBP binding loops; other site 1112912002275 ABC-ATPase subunit interface; other site 1112912002276 nickel transporter permease NikB; Provisional; Region: PRK10352 1112912002277 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 1112912002278 dimer interface [polypeptide binding]; other site 1112912002279 conserved gate region; other site 1112912002280 putative PBP binding loops; other site 1112912002281 ABC-ATPase subunit interface; other site 1112912002282 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1112912002283 The substrate-binding component of an ABC-type nickel import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA; cd08489 1112912002284 substrate binding site [chemical binding]; other site 1112912002285 nickel responsive regulator; Provisional; Region: PRK02967 1112912002286 Ribbon-helix-helix protein, copG family; Region: RHH_1; pfam01402 1112912002287 NikR C terminal nickel binding domain; Region: NikR_C; pfam08753 1112912002288 Domains similar to fish antifreeze type III protein; Region: SAF_AH_GD; cd11613 1112912002289 galactarate dehydratase; Region: galactar-dH20; TIGR03248 1112912002290 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 1112912002291 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 1112912002292 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 1112912002293 dimer interface [polypeptide binding]; other site 1112912002294 conserved gate region; other site 1112912002295 putative PBP binding loops; other site 1112912002296 ABC-ATPase subunit interface; other site 1112912002297 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 1112912002298 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1112912002299 Walker A/P-loop; other site 1112912002300 ATP binding site [chemical binding]; other site 1112912002301 Q-loop/lid; other site 1112912002302 ABC transporter signature motif; other site 1112912002303 Walker B; other site 1112912002304 D-loop; other site 1112912002305 H-loop/switch region; other site 1112912002306 ABC-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: COG4134 1112912002307 hypothetical protein; Provisional; Region: PRK11622 1112912002308 glucuronate isomerase; Reviewed; Region: PRK02925 1112912002309 Glucuronate isomerase [Carbohydrate transport and metabolism]; Region: UxaC; COG1904 1112912002310 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1112912002311 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1112912002312 DNA-binding site [nucleotide binding]; DNA binding site 1112912002313 FCD domain; Region: FCD; pfam07729 1112912002314 mannonate dehydratase; Region: uxuA; TIGR00695 1112912002315 mannonate dehydratase; Provisional; Region: PRK03906 1112912002316 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1112912002317 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1112912002318 HlyD family secretion protein; Region: HlyD_3; pfam13437 1112912002319 camphor resistance protein CrcB; Provisional; Region: PRK14233 1112912002320 camphor resistance protein CrcB; Provisional; Region: PRK14225 1112912002321 PII-like signaling protein [Signal transduction mechanisms]; Region: COG1993 1112912002322 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 1112912002323 Helix-Turn-Helix DNA binding domain of the regulatory protein GnyR; Region: HTH_GnyR; cd04776 1112912002324 DNA binding residues [nucleotide binding] 1112912002325 putative dimer interface [polypeptide binding]; other site 1112912002326 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 1112912002327 Sel1-like repeats; Region: SEL1; smart00671 1112912002328 Sel1-like repeats; Region: SEL1; smart00671 1112912002329 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1112912002330 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1112912002331 conserved hypothetical protein; Region: alph_Pro_TM; TIGR02186 1112912002332 Pyrococcus furiosus PF1019 and related proteins, metallophosphatase domain; Region: MPP_PF1019; cd07391 1112912002333 putative active site [active] 1112912002334 putative metal binding site [ion binding]; other site 1112912002335 DEXH box helicase, DNA ligase-associated; Region: DEXH_lig_assoc; TIGR04121 1112912002336 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 1112912002337 ATP binding site [chemical binding]; other site 1112912002338 putative Mg++ binding site [ion binding]; other site 1112912002339 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 1112912002340 nucleotide binding region [chemical binding]; other site 1112912002341 ATP-binding site [chemical binding]; other site 1112912002342 DEAD/H associated; Region: DEAD_assoc; pfam08494 1112912002343 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 1112912002344 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 1112912002345 FMN binding site [chemical binding]; other site 1112912002346 substrate binding site [chemical binding]; other site 1112912002347 putative catalytic residue [active] 1112912002348 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 1112912002349 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 1112912002350 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 1112912002351 HsdM N-terminal domain; Region: HsdM_N; pfam12161 1112912002352 Methyltransferase domain; Region: Methyltransf_26; pfam13659 1112912002353 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 1112912002354 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 1112912002355 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 1112912002356 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 1112912002357 ATP binding site [chemical binding]; other site 1112912002358 putative Mg++ binding site [ion binding]; other site 1112912002359 helicase superfamily c-terminal domain; Region: HELICc; smart00490 1112912002360 Domain of unknown function (DUF3387); Region: DUF3387; pfam11867 1112912002361 Protein of unknown function DUF45; Region: DUF45; pfam01863 1112912002362 Protein of unknown function DUF91; Region: DUF91; cl00709 1112912002363 Uncharacterized conserved protein [Function unknown]; Region: COG3586 1112912002364 heme biosynthesis-associated TPR protein; Region: TPR_hemY_coli; TIGR00540 1112912002365 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3293 1112912002366 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1112912002367 Ornithine/acetylornithine aminotransferase [Amino acid transport and metabolism]; Region: ArgD; COG4992 1112912002368 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 1112912002369 inhibitor-cofactor binding pocket; inhibition site 1112912002370 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1112912002371 catalytic residue [active] 1112912002372 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1112912002373 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1112912002374 NAD(P) binding site [chemical binding]; other site 1112912002375 active site 1112912002376 4-amino-4-deoxy-L-arabinose-phosphoundecaprenol flippase subunit ArnF; Provisional; Region: PRK02971 1112912002377 hypothetical protein; Validated; Region: PRK08238 1112912002378 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 1112912002379 phosphoribose diphosphate:decaprenyl-phosphate phosphoribosyltransferase; Provisional; Region: PRK12324 1112912002380 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 1112912002381 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; cl17531 1112912002382 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1112912002383 Periplasmic sugar-binding domain of the thermophilic Thermoanaerobacter tengcongensis ribose binding protein (ttRBP) and its mesophilic homologs; Region: PBP1_ribose_binding; cd06323 1112912002384 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 1112912002385 ligand binding site [chemical binding]; other site 1112912002386 dimerization interface [polypeptide binding]; other site 1112912002387 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 1112912002388 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1112912002389 TM-ABC transporter signature motif; other site 1112912002390 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 1112912002391 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1112912002392 Walker A/P-loop; other site 1112912002393 ATP binding site [chemical binding]; other site 1112912002394 Q-loop/lid; other site 1112912002395 ABC transporter signature motif; other site 1112912002396 Walker B; other site 1112912002397 D-loop; other site 1112912002398 H-loop/switch region; other site 1112912002399 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1112912002400 Predicted periplasmic lipoprotein (DUF2291); Region: DUF2291; pfam10054 1112912002401 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 1112912002402 L-xylulose kinases; a subfamily of the FGGY family of carbohydrate kinases; Region: FGGY_L-XK; cd07802 1112912002403 putative N- and C-terminal domain interface [polypeptide binding]; other site 1112912002404 putative active site [active] 1112912002405 MgATP binding site [chemical binding]; other site 1112912002406 catalytic site [active] 1112912002407 metal binding site [ion binding]; metal-binding site 1112912002408 putative xylulose binding site [chemical binding]; other site 1112912002409 glycerol-3-phosphate dehydrogenase; Provisional; Region: PRK13369 1112912002410 hydroxyglutarate oxidase; Provisional; Region: PRK11728 1112912002411 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 1112912002412 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 1112912002413 PCI domain; Region: PCI; cl02111 1112912002414 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 1112912002415 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 1112912002416 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 1112912002417 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1112912002418 triosephosphate isomerase; Provisional; Region: PRK14565 1112912002419 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 1112912002420 substrate binding site [chemical binding]; other site 1112912002421 dimer interface [polypeptide binding]; other site 1112912002422 catalytic triad [active] 1112912002423 ribose-5-phosphate isomerase B; Provisional; Region: PRK05571 1112912002424 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 1112912002425 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 1112912002426 intersubunit interface [polypeptide binding]; other site 1112912002427 active site 1112912002428 zinc binding site [ion binding]; other site 1112912002429 Na+ binding site [ion binding]; other site 1112912002430 Fructose-1,6-bisphosphatase, an enzyme that catalyzes the hydrolysis of fructose-1,6-biphosphate into fructose-6-phosphate and is critical in gluconeogenesis pathway. The alignment model also includes chloroplastic FBPases and sedoheptulose-1; Region: FBPase; cd00354 1112912002431 AMP binding site [chemical binding]; other site 1112912002432 metal binding site [ion binding]; metal-binding site 1112912002433 active site 1112912002434 Uncharacterized conserved protein [Function unknown]; Region: COG1739 1112912002435 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 1112912002436 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 1112912002437 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 1112912002438 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 1112912002439 G1 box; other site 1112912002440 putative GEF interaction site [polypeptide binding]; other site 1112912002441 GTP/Mg2+ binding site [chemical binding]; other site 1112912002442 Switch I region; other site 1112912002443 G2 box; other site 1112912002444 G3 box; other site 1112912002445 Switch II region; other site 1112912002446 G4 box; other site 1112912002447 G5 box; other site 1112912002448 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 1112912002449 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 1112912002450 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 1112912002451 MgtE intracellular N domain; Region: MgtE_N; pfam03448 1112912002452 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 1112912002453 Divalent cation transporter; Region: MgtE; pfam01769 1112912002454 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 1112912002455 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 1112912002456 active site 1112912002457 Zn binding site [ion binding]; other site 1112912002458 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_5; cd07238 1112912002459 dimer interface [polypeptide binding]; other site 1112912002460 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1112912002461 Uncharacterized conserved small protein [Function unknown]; Region: COG5515 1112912002462 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 1112912002463 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 1112912002464 substrate binding site [chemical binding]; other site 1112912002465 Minimal MMP-like domain found in Acidothermus cellulolyticus hypothetical protein ACEL2062 and similar protein; Region: MMP_ACEL2062; cd12952 1112912002466 peroxiredoxin, Ohr subfamily; Region: organ_hyd_perox; TIGR03561 1112912002467 Transcriptional regulators [Transcription]; Region: MarR; COG1846 1112912002468 MarR family; Region: MarR; pfam01047 1112912002469 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 1112912002470 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 1112912002471 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 1112912002472 putative substrate translocation pore; other site 1112912002473 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Ada; COG2169 1112912002474 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 1112912002475 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 1112912002476 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 1112912002477 DNA binding site [nucleotide binding] 1112912002478 active site 1112912002479 tartrate dehydrogenase; Region: TTC; TIGR02089 1112912002480 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 1112912002481 Uncharacterized conserved protein [Function unknown]; Region: COG2835 1112912002482 Uncharacterized protein, similar to the N-terminal domain of Lon protease [General function prediction only]; Region: COG2802 1112912002483 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]; Region: COG3118 1112912002484 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 1112912002485 catalytic residues [active] 1112912002486 This CD includes bacterial (Agrobacterium tumefaciens and Caulobacter crescentus ProX, and Clostridium sticklandii PrdX) and eukaryotic (Plasmodium falciparum N-terminal ProRS editing domain) sequences. The C. sticklandii PrdX protein, a homolog of the...; Region: PrdX_deacylase; cd04335 1112912002487 putative deacylase active site [active] 1112912002488 Truncated hemoglobins (trHbs) are a family of oxygen-binding heme proteins found in cyanobacteria, eubacteria, unicellular eukaryotes, and plants. The truncated hemoglobins have a characteristic two-over-two alpha helical folding pattern that is distinct...; Region: Trunc_globin; cd00454 1112912002489 apolar tunnel; other site 1112912002490 heme binding site [chemical binding]; other site 1112912002491 dimerization interface [polypeptide binding]; other site 1112912002492 ornithine cyclodeaminase; Validated; Region: PRK07589 1112912002493 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 1112912002494 Arginase family; Region: Arginase; cd09989 1112912002495 agmatinase; Region: agmatinase; TIGR01230 1112912002496 active site 1112912002497 Mn binding site [ion binding]; other site 1112912002498 oligomer interface [polypeptide binding]; other site 1112912002499 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1112912002500 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 1112912002501 AsnC family; Region: AsnC_trans_reg; pfam01037 1112912002502 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 1112912002503 Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a...; Region: OYE_like_FMN; cd02933 1112912002504 FMN binding site [chemical binding]; other site 1112912002505 active site 1112912002506 substrate binding site [chemical binding]; other site 1112912002507 catalytic residue [active] 1112912002508 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 1112912002509 dimerization interface [polypeptide binding]; other site 1112912002510 putative DNA binding site [nucleotide binding]; other site 1112912002511 putative Zn2+ binding site [ion binding]; other site 1112912002512 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 1112912002513 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 1112912002514 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 1112912002515 S1_Tex: The C-terminal S1 domain of a transcription accessory factor called Tex, which has been characterized in Bordetella pertussis and Pseudomonas aeruginosa. The tex gene is essential in Bortella pertusis and is named for its role in toxin expression; Region: S1_Tex; cd05685 1112912002516 RNA binding site [nucleotide binding]; other site 1112912002517 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 1112912002518 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1112912002519 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 1112912002520 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 1112912002521 putative Zn2+ binding site [ion binding]; other site 1112912002522 putative DNA binding site [nucleotide binding]; other site 1112912002523 dimerization interface [polypeptide binding]; other site 1112912002524 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 1112912002525 dimerization interface [polypeptide binding]; other site 1112912002526 Domain of unknown function (DUF1338); Region: DUF1338; pfam07063 1112912002527 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5383 1112912002528 aldehyde dehydrogenase family 7 member; Region: PLN02315 1112912002529 NAD+-dependent alpha-aminoadipic semialdehyde dehydrogenase, ALDH family members 7A1 and 7B; Region: ALDH_F7_AASADH; cd07130 1112912002530 tetrameric interface [polypeptide binding]; other site 1112912002531 NAD binding site [chemical binding]; other site 1112912002532 catalytic residues [active] 1112912002533 formyltetrahydrofolate deformylase; Reviewed; Region: PRK13011 1112912002534 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 1112912002535 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 1112912002536 putative active site [active] 1112912002537 putative substrate binding site [chemical binding]; other site 1112912002538 putative cosubstrate binding site; other site 1112912002539 catalytic site [active] 1112912002540 hypothetical protein; Provisional; Region: PRK02947 1112912002541 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 1112912002542 putative active site [active] 1112912002543 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 1112912002544 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 1112912002545 active site 1112912002546 dimer interface [polypeptide binding]; other site 1112912002547 Predicted phosphosugar isomerases [Cell envelope biogenesis, outer membrane]; Region: AgaS; COG2222 1112912002548 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 1112912002549 dimer interface [polypeptide binding]; other site 1112912002550 active site 1112912002551 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 1112912002552 dimer interface [polypeptide binding]; other site 1112912002553 active site 1112912002554 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 1112912002555 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1112912002556 DNA-binding site [nucleotide binding]; DNA binding site 1112912002557 UTRA domain; Region: UTRA; pfam07702 1112912002558 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 1112912002559 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1112912002560 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1112912002561 HlyD family secretion protein; Region: HlyD_3; pfam13437 1112912002562 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1112912002563 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1112912002564 HlyD family secretion protein; Region: HlyD_3; pfam13437 1112912002565 putative membrane fusion protein; Region: TIGR02828 1112912002566 oxidoreductase alpha (molybdopterin) subunit; Region: Fdhalpha-like; TIGR01701 1112912002567 The MopB_ydeP CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative molybdopterin cofactor binding site. These members belong to the molybdopterin_binding (MopB) superfamily of proteins; Region: MopB_ydeP; cd02767 1112912002568 putative molybdopterin cofactor binding site [chemical binding]; other site 1112912002569 The MopB_CT_ydeP CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative molybdopterin cofactor binding site. This CD is of the conserved molybdopterin_binding C-terminal (MopB_CT) region...; Region: MopB_CT_ydeP; cd02787 1112912002570 putative molybdopterin cofactor binding site; other site 1112912002571 Isopentenyl diphosphate isomerase (BS_ypgA, MTH48 and related proteins) [Coenzyme transport and metabolism]; Region: idi; COG1304 1112912002572 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 1112912002573 phosphate binding site [ion binding]; other site 1112912002574 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 1112912002575 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1112912002576 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 1112912002577 putative DNA binding site [nucleotide binding]; other site 1112912002578 putative Zn2+ binding site [ion binding]; other site 1112912002579 AsnC family; Region: AsnC_trans_reg; pfam01037 1112912002580 Alanine racemase [Cell envelope biogenesis, outer membrane]; Region: Alr; COG0787 1112912002581 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 1112912002582 active site 1112912002583 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1112912002584 dimer interface [polypeptide binding]; other site 1112912002585 substrate binding site [chemical binding]; other site 1112912002586 catalytic residues [active] 1112912002587 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 1112912002588 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1112912002589 hydroxyglutarate oxidase; Provisional; Region: PRK11728 1112912002590 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 1112912002591 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 1112912002592 non-specific DNA binding site [nucleotide binding]; other site 1112912002593 salt bridge; other site 1112912002594 sequence-specific DNA binding site [nucleotide binding]; other site 1112912002595 Cupin domain; Region: Cupin_2; pfam07883 1112912002596 beta alanine--pyruvate transaminase; Provisional; Region: PRK09221 1112912002597 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 1112912002598 inhibitor-cofactor binding pocket; inhibition site 1112912002599 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1112912002600 catalytic residue [active] 1112912002601 histidine utilization repressor, proteobacterial; Region: his_ut_repres; TIGR02018 1112912002602 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1112912002603 DNA-binding site [nucleotide binding]; DNA binding site 1112912002604 UTRA domain; Region: UTRA; pfam07702 1112912002605 N-formimino-L-glutamate deiminase; Validated; Region: PRK09229 1112912002606 Metallo-dependent hydrolases, subgroup D is part of the superfamily of metallo-dependent hydrolases, a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the...; Region: Met_dep_hydrolase_E; cd01313 1112912002607 active site 1112912002608 imidazolonepropionase; Validated; Region: PRK09356 1112912002609 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 1112912002610 active site 1112912002611 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 1112912002612 active sites [active] 1112912002613 tetramer interface [polypeptide binding]; other site 1112912002614 N-formylglutamate amidohydrolase; Region: hutG_amidohyd; TIGR02017 1112912002615 urocanate hydratase; Provisional; Region: PRK05414 1112912002616 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3758 1112912002617 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 1112912002618 D-Alanine aminotransferase (D-AAT_like): D-amino acid aminotransferase catalyzes transamination between D-amino acids and their respective alpha-keto acids. It plays a major role in the synthesis of bacterial cell wall components like D-alanine and...; Region: D-AAT_like; cd01558 1112912002619 homodimer interface [polypeptide binding]; other site 1112912002620 substrate-cofactor binding pocket; other site 1112912002621 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1112912002622 catalytic residue [active] 1112912002623 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 1112912002624 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 1112912002625 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1112912002626 TM-ABC transporter signature motif; other site 1112912002627 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 1112912002628 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1112912002629 Walker A/P-loop; other site 1112912002630 ATP binding site [chemical binding]; other site 1112912002631 Q-loop/lid; other site 1112912002632 ABC transporter signature motif; other site 1112912002633 Walker B; other site 1112912002634 D-loop; other site 1112912002635 H-loop/switch region; other site 1112912002636 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1112912002637 ABC-type xylose transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: XylF; COG4213 1112912002638 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 1112912002639 putative ligand binding site [chemical binding]; other site 1112912002640 2-dehydro-3-deoxy-6-phosphogalactonate aldolase; Reviewed; Region: PRK09140 1112912002641 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 1112912002642 active site 1112912002643 intersubunit interface [polypeptide binding]; other site 1112912002644 catalytic residue [active] 1112912002645 2-keto-3-deoxy-galactonokinase [Carbohydrate transport and metabolism]; Region: DgoK; COG3734 1112912002646 2-keto-3-deoxy-galactonokinase; Region: DGOK; pfam05035 1112912002647 dihydroxy-acid dehydratase; Provisional; Region: PRK13017 1112912002648 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1112912002649 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1112912002650 Uncharacterized protein conserved in bacteria [Function unknown]; Region: GguC; COG3802 1112912002651 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 1112912002652 Transmembrane subunit (TM) of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which are involved in the uptake of branched-chain amino acids (AAs), as well as TMs of transporters involved in the uptake of...; Region: TM_PBP1_branched-chain-AA_like; cl00454 1112912002653 thiamine pyrophosphate protein; Validated; Region: PRK08199 1112912002654 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1112912002655 PYR/PP interface [polypeptide binding]; other site 1112912002656 dimer interface [polypeptide binding]; other site 1112912002657 TPP binding site [chemical binding]; other site 1112912002658 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1112912002659 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cd00568 1112912002660 TPP-binding site [chemical binding]; other site 1112912002661 D-aminopeptidase; Reviewed; Region: PRK13128 1112912002662 Beta-lactamase; Region: Beta-lactamase; pfam00144 1112912002663 D-aminopeptidase, domain B; Region: DAP_B; pfam07930 1112912002664 D-aminopeptidase, domain C; Region: DAP_C; pfam07932 1112912002665 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 1112912002666 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 1112912002667 substrate binding pocket [chemical binding]; other site 1112912002668 membrane-bound complex binding site; other site 1112912002669 hinge residues; other site 1112912002670 hypothetical protein; Provisional; Region: PRK06148 1112912002671 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 1112912002672 active site 1112912002673 ATP binding site [chemical binding]; other site 1112912002674 substrate binding site [chemical binding]; other site 1112912002675 Peptidase family M23; Region: Peptidase_M23; pfam01551 1112912002676 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 1112912002677 inhibitor-cofactor binding pocket; inhibition site 1112912002678 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1112912002679 catalytic residue [active] 1112912002680 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1112912002681 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 1112912002682 AsnC family; Region: AsnC_trans_reg; pfam01037 1112912002683 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1112912002684 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1112912002685 LysR substrate binding domain; Region: LysR_substrate; pfam03466 1112912002686 dimerization interface [polypeptide binding]; other site 1112912002687 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 1112912002688 Periplasmic solute-binding domain of active transport proteins that belong to the type I periplasmic binding fold protein family; Region: PBP1_SBP_like_1; cd06327 1112912002689 putative ligand binding site [chemical binding]; other site 1112912002690 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 1112912002691 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 1112912002692 Walker A/P-loop; other site 1112912002693 ATP binding site [chemical binding]; other site 1112912002694 Q-loop/lid; other site 1112912002695 ABC transporter signature motif; other site 1112912002696 Walker B; other site 1112912002697 D-loop; other site 1112912002698 H-loop/switch region; other site 1112912002699 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 1112912002700 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 1112912002701 Walker A/P-loop; other site 1112912002702 ATP binding site [chemical binding]; other site 1112912002703 Q-loop/lid; other site 1112912002704 ABC transporter signature motif; other site 1112912002705 Walker B; other site 1112912002706 D-loop; other site 1112912002707 H-loop/switch region; other site 1112912002708 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 1112912002709 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1112912002710 TM-ABC transporter signature motif; other site 1112912002711 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 1112912002712 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 1112912002713 TM-ABC transporter signature motif; other site 1112912002714 choline dehydrogenase; Validated; Region: PRK02106 1112912002715 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 1112912002716 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 1112912002717 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 1112912002718 ABC-type metal ion transport system, ATPase component [Inorganic ion transport and metabolism]; Region: AbcC; COG1135 1112912002719 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 1112912002720 Walker A/P-loop; other site 1112912002721 ATP binding site [chemical binding]; other site 1112912002722 Q-loop/lid; other site 1112912002723 ABC transporter signature motif; other site 1112912002724 Walker B; other site 1112912002725 D-loop; other site 1112912002726 H-loop/switch region; other site 1112912002727 This domain is found at the C-terminus of ABC transporter proteins involved in D-methionine transport as well as a number of ferredoxin-like proteins; Region: NIL; smart00930 1112912002728 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 1112912002729 dimer interface [polypeptide binding]; other site 1112912002730 conserved gate region; other site 1112912002731 ABC-ATPase subunit interface; other site 1112912002732 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_19; cd07262 1112912002733 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1112912002734 type IV pilus biogenesis/stability protein PilW; Region: type_IV_pilW; TIGR02521 1112912002735 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 1112912002736 TPR motif; other site 1112912002737 binding surface 1112912002738 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 1112912002739 binding surface 1112912002740 TPR motif; other site 1112912002741 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 1112912002742 binding surface 1112912002743 TPR motif; other site 1112912002744 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 1112912002745 Alpha/beta hydrolase of unknown function (DUF900); Region: DUF900; pfam05990 1112912002746 NodN (nodulation factor N) contains a single hot dog fold similar to those of the peroxisomal Hydratase-Dehydrogenase-Epimerase (HDE) protein, and the fatty acid synthase beta subunit. Rhizobium and related species form nodules on the roots of their...; Region: NodN; cd03450 1112912002747 putative active site [active] 1112912002748 putative catalytic site [active] 1112912002749 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 1112912002750 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 1112912002751 motif II; other site 1112912002752 Predicted homoserine dehydrogenase [Amino acid transport and metabolism]; Region: COG4091 1112912002753 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 1112912002754 SAF domain of putative dehydrogenases or oxidoreductases; Region: SAF_DH_OX_like; cd11616 1112912002755 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; COG1282 1112912002756 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 1112912002757 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 1112912002758 NAD/NADP transhydrogenase alpha subunit [Energy production and conversion]; Region: PntA; COG3288 1112912002759 Rubrum transdehydrogenase NAD-binding and catalytic domains; Region: Rubrum_tdh; cd05304 1112912002760 ligand binding site [chemical binding]; other site 1112912002761 homodimer interface [polypeptide binding]; other site 1112912002762 NAD(P) binding site [chemical binding]; other site 1112912002763 trimer interface B [polypeptide binding]; other site 1112912002764 trimer interface A [polypeptide binding]; other site 1112912002765 Bacterial aa3 type cytochrome c oxidase subunit IV; Region: COX4_pro_2; pfam07835 1112912002766 Acetyltransferase (GNAT) domain; Region: Acetyltransf_5; pfam13444 1112912002767 PAS fold; Region: PAS_7; pfam12860 1112912002768 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1112912002769 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1112912002770 metal binding site [ion binding]; metal-binding site 1112912002771 active site 1112912002772 I-site; other site 1112912002773 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 1112912002774 gluconate 5-dehydrogenase; Provisional; Region: PRK08213 1112912002775 classical (c) SDRs; Region: SDR_c; cd05233 1112912002776 NAD(P) binding site [chemical binding]; other site 1112912002777 active site 1112912002778 Predicted glutamine amidotransferases [General function prediction only]; Region: COG2071 1112912002779 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 1112912002780 catalytic triad [active] 1112912002781 Hydroxy(phenyl)pyruvate Reductase, D-isomer-specific 2-hydroxyacid-related dehydrogenase; Region: HPPR; cd12156 1112912002782 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 1112912002783 putative ligand binding site [chemical binding]; other site 1112912002784 NAD binding site [chemical binding]; other site 1112912002785 catalytic site [active] 1112912002786 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1112912002787 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1112912002788 DNA binding site [nucleotide binding] 1112912002789 domain linker motif; other site 1112912002790 Ligand-binding domain of MalI, a transcription regulator of the maltose system of Escherichia coli and its close homologs from other bacteria; Region: PBP1_MalI_like; cd06289 1112912002791 putative dimerization interface [polypeptide binding]; other site 1112912002792 putative ligand binding site [chemical binding]; other site 1112912002793 Uncharacterized protein, putative amidase [General function prediction only]; Region: COG1402 1112912002794 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 1112912002795 The function of this protein family is unkown. The amino acid sequence of YjiA protein in E. coli contains several conserved motifs that characterizes it as a P-loop GTPase. YijA gene is among the genes significantly induced in response to DNA-damage...; Region: CobW_like; cd03112 1112912002796 P-loop, Walker A motif; other site 1112912002797 Base recognition motif; other site 1112912002798 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 1112912002799 FOG: WD40 repeat [General function prediction only]; Region: COG2319 1112912002800 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; cl02567 1112912002801 structural tetrad; other site 1112912002802 Predicted esterase [General function prediction only]; Region: COG0400 1112912002803 putative hydrolase; Provisional; Region: PRK11460 1112912002804 TMAO/DMSO reductase; Reviewed; Region: PRK05363 1112912002805 YedY_like molybdopterin cofactor (Moco) binding domain, a subgroup of the sulfite oxidase (SO) family of molybdopterin binding domains. Escherichia coli YedY has been propsed to form a heterodimer, consisting of a soluble catalytic subunit termed YedY; Region: YedY_like_Moco; cd02107 1112912002806 Moco binding site; other site 1112912002807 metal coordination site [ion binding]; other site 1112912002808 putative sulfite oxidase subunit YedZ; Reviewed; Region: PRK05419 1112912002809 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_2; cd06150 1112912002810 homotrimer interaction site [polypeptide binding]; other site 1112912002811 putative active site [active] 1112912002812 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1112912002813 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 1112912002814 TM-ABC transporter signature motif; other site 1112912002815 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 1112912002816 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1112912002817 TM-ABC transporter signature motif; other site 1112912002818 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 1112912002819 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1112912002820 Walker A/P-loop; other site 1112912002821 ATP binding site [chemical binding]; other site 1112912002822 Q-loop/lid; other site 1112912002823 ABC transporter signature motif; other site 1112912002824 Walker B; other site 1112912002825 D-loop; other site 1112912002826 H-loop/switch region; other site 1112912002827 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1112912002828 Periplasmic sugar-binding component of uncharacterized ABC-type transport systems that are members of the pentose/hexose sugar-binding protein family of the type I periplasmic binding protein superfamily; Region: PBP1_ABC_sugar_binding_like_1; cd06300 1112912002829 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 1112912002830 putative ligand binding site [chemical binding]; other site 1112912002831 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1112912002832 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 1112912002833 Bacterial transcriptional regulator; Region: IclR; pfam01614 1112912002834 TonB-dependent copper receptor; Region: TonB-copper; TIGR01778 1112912002835 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 1112912002836 N-terminal plug; other site 1112912002837 ligand-binding site [chemical binding]; other site 1112912002838 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_2; cd07253 1112912002839 dimer interface [polypeptide binding]; other site 1112912002840 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1112912002841 metal binding site [ion binding]; metal-binding site 1112912002842 glutathionine S-transferase; Provisional; Region: PRK10542 1112912002843 GST_N family, Class Beta subfamily; GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic alkylating agents, including carcinogens; Region: GST_N_Beta; cd03057 1112912002844 C-terminal domain interface [polypeptide binding]; other site 1112912002845 GSH binding site (G-site) [chemical binding]; other site 1112912002846 dimer interface [polypeptide binding]; other site 1112912002847 C-terminal, alpha helical domain of Class Beta Glutathione S-transferases; Region: GST_C_Beta; cd03188 1112912002848 dimer interface [polypeptide binding]; other site 1112912002849 N-terminal domain interface [polypeptide binding]; other site 1112912002850 substrate binding pocket (H-site) [chemical binding]; other site 1112912002851 Protein of unknown function (DUF2778); Region: DUF2778; pfam10908 1112912002852 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1112912002853 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1112912002854 metal binding site [ion binding]; metal-binding site 1112912002855 active site 1112912002856 I-site; other site 1112912002857 Predicted dehydrogenase [General function prediction only]; Region: COG0579 1112912002858 hydroxyglutarate oxidase; Provisional; Region: PRK11728 1112912002859 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 1112912002860 DNA polymerase III subunit epsilon; Validated; Region: PRK09182 1112912002861 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 1112912002862 active site 1112912002863 catalytic site [active] 1112912002864 substrate binding site [chemical binding]; other site 1112912002865 Amidase; Region: Amidase; cl11426 1112912002866 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 1112912002867 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1112912002868 Walker A/P-loop; other site 1112912002869 ATP binding site [chemical binding]; other site 1112912002870 Q-loop/lid; other site 1112912002871 ABC transporter signature motif; other site 1112912002872 Walker B; other site 1112912002873 D-loop; other site 1112912002874 H-loop/switch region; other site 1112912002875 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 1112912002876 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 1112912002877 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1112912002878 Walker A/P-loop; other site 1112912002879 ATP binding site [chemical binding]; other site 1112912002880 Q-loop/lid; other site 1112912002881 ABC transporter signature motif; other site 1112912002882 Walker B; other site 1112912002883 D-loop; other site 1112912002884 H-loop/switch region; other site 1112912002885 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1112912002886 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 1112912002887 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 1112912002888 dimer interface [polypeptide binding]; other site 1112912002889 conserved gate region; other site 1112912002890 putative PBP binding loops; other site 1112912002891 ABC-ATPase subunit interface; other site 1112912002892 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1112912002893 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 1112912002894 dimer interface [polypeptide binding]; other site 1112912002895 conserved gate region; other site 1112912002896 putative PBP binding loops; other site 1112912002897 ABC-ATPase subunit interface; other site 1112912002898 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1112912002899 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 1112912002900 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR), subgroup 3, classical (c) SDR; Region: BKR_3_SDR_c; cd05345 1112912002901 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 1112912002902 putative NAD(P) binding site [chemical binding]; other site 1112912002903 active site 1112912002904 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1112912002905 Uncharacterized Saccharopolyspora spinosa aldehyde dehydrogenase (AAS00426)-like; Region: ALDH_AAS00426; cd07109 1112912002906 NAD(P) binding site [chemical binding]; other site 1112912002907 catalytic residues [active] 1112912002908 catalytic residues [active] 1112912002909 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1112912002910 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1112912002911 DNA-binding site [nucleotide binding]; DNA binding site 1112912002912 FCD domain; Region: FCD; pfam07729 1112912002913 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 1112912002914 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1112912002915 putative substrate translocation pore; other site 1112912002916 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 1112912002917 Domain of unknown function (DUF4105); Region: DUF4105; pfam13387 1112912002918 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_2; cd06150 1112912002919 homotrimer interaction site [polypeptide binding]; other site 1112912002920 putative active site [active] 1112912002921 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399 1112912002922 ribonuclease P; Reviewed; Region: rnpA; PRK01313 1112912002923 membrane protein insertase; Provisional; Region: PRK01318 1112912002924 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 1112912002925 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 1112912002926 G1 box; other site 1112912002927 GTP/Mg2+ binding site [chemical binding]; other site 1112912002928 Switch I region; other site 1112912002929 G2 box; other site 1112912002930 G3 box; other site 1112912002931 Switch II region; other site 1112912002932 G4 box; other site 1112912002933 G5 box; other site 1112912002934 AAK_NAGK-C: N-Acetyl-L-glutamate kinase - cyclic (NAGK-C) catalyzes the phosphorylation of the gamma-COOH group of N-acetyl-L-glutamate (NAG) by ATP in the second step of arginine biosynthesis found in some bacteria and photosynthetic organisms using the...; Region: AAK_NAGK-C; cd04250 1112912002935 homohexameric interface [polypeptide binding]; other site 1112912002936 feedback inhibition sensing region; other site 1112912002937 nucleotide binding site [chemical binding]; other site 1112912002938 N-acetyl-L-glutamate binding site [chemical binding]; other site 1112912002939 pyrimidine 5'-nucleotidase; Region: Pyr-5-nucltdase; TIGR01993 1112912002940 ?-D-glucose-1-phosphatase; Provisional; Region: PRK09456 1112912002941 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 1112912002942 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 1112912002943 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate (THDP) N-succinyltransferase (also called THP succinyltransferase): THDP N-succinyltransferase catalyzes the conversion of tetrahydrodipicolinate and succinyl-CoA to N-succinyltetrahydrodipicolinate and CoA; Region: LbH_THP_succinylT; cd03350 1112912002944 trimer interface [polypeptide binding]; other site 1112912002945 active site 1112912002946 substrate binding site [chemical binding]; other site 1112912002947 CoA binding site [chemical binding]; other site 1112912002948 Predicted transglutaminase-like cysteine proteinase [General function prediction only]; Region: COG3672 1112912002949 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 1112912002950 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 1112912002951 metal binding site [ion binding]; metal-binding site 1112912002952 dimer interface [polypeptide binding]; other site 1112912002953 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 1112912002954 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 1112912002955 dimerization interface 3.5A [polypeptide binding]; other site 1112912002956 active site 1112912002957 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 1112912002958 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 1112912002959 putative active site [active] 1112912002960 substrate binding site [chemical binding]; other site 1112912002961 putative cosubstrate binding site; other site 1112912002962 catalytic site [active] 1112912002963 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 1112912002964 substrate binding site [chemical binding]; other site 1112912002965 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 1112912002966 active site 1112912002967 catalytic residues [active] 1112912002968 metal binding site [ion binding]; metal-binding site 1112912002969 Predicted nuclease of restriction endonuclease-like fold, RmuC family [General function prediction only]; Region: COG1322 1112912002970 RmuC family; Region: RmuC; pfam02646 1112912002971 Uncharacterized protein conserved in bacteria [Posttranslational modification, protein turnover, chaperones]; Region: COG3526 1112912002972 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 1112912002973 GIY-YIG motif/motif A; other site 1112912002974 putative active site [active] 1112912002975 putative metal binding site [ion binding]; other site 1112912002976 GTP-binding protein LepA; Provisional; Region: PRK05433 1112912002977 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 1112912002978 G1 box; other site 1112912002979 putative GEF interaction site [polypeptide binding]; other site 1112912002980 GTP/Mg2+ binding site [chemical binding]; other site 1112912002981 Switch I region; other site 1112912002982 G2 box; other site 1112912002983 G3 box; other site 1112912002984 Switch II region; other site 1112912002985 G4 box; other site 1112912002986 G5 box; other site 1112912002987 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 1112912002988 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 1112912002989 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 1112912002990 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 1112912002991 NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, subunit 9, 39 kDa, (NDUFA9) -like, atypical (a) SDRs; Region: NDUFA9_like_SDR_a; cd05271 1112912002992 putative NAD(P) binding site [chemical binding]; other site 1112912002993 active site 1112912002994 Undecaprenyl pyrophosphate phosphatase [Lipid transport and metabolism]; Region: BacA; COG1968 1112912002995 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1112912002996 Glutathione S-transferase (GST) family, N-terminal domain; a large, diverse group of cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic...; Region: GST_N_family; cd00570 1112912002997 C-terminal domain interface [polypeptide binding]; other site 1112912002998 GSH binding site (G-site) [chemical binding]; other site 1112912002999 dimer interface [polypeptide binding]; other site 1112912003000 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cd00299 1112912003001 N-terminal domain interface [polypeptide binding]; other site 1112912003002 dimer interface [polypeptide binding]; other site 1112912003003 substrate binding pocket (H-site) [chemical binding]; other site 1112912003004 epoxyqueuosine reductase; Region: TIGR00276 1112912003005 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 1112912003006 HEAT repeat; Region: HEAT; pfam02985 1112912003007 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1112912003008 atypical (a) SDRs, subgroup 4; Region: SDR_a4; cd05266 1112912003009 putative NAD(P) binding site [chemical binding]; other site 1112912003010 penicillin-insensitive murein endopeptidase; Reviewed; Region: mepA; PRK09429 1112912003011 Murein endopeptidase [Cell envelope biogenesis, outer membrane]; Region: MepA; COG3770 1112912003012 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 1112912003013 active site 1112912003014 dimer interfaces [polypeptide binding]; other site 1112912003015 catalytic residues [active] 1112912003016 Glucokinase [Carbohydrate transport and metabolism]; Region: Glk; COG0837 1112912003017 glucokinase, proteobacterial type; Region: glk; TIGR00749 1112912003018 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1112912003019 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1112912003020 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 1112912003021 Walker A/P-loop; other site 1112912003022 ATP binding site [chemical binding]; other site 1112912003023 Q-loop/lid; other site 1112912003024 ABC transporter signature motif; other site 1112912003025 Walker B; other site 1112912003026 D-loop; other site 1112912003027 H-loop/switch region; other site 1112912003028 Dihydrodipicolinate reductase [Amino acid transport and metabolism]; Region: DapB; COG0289 1112912003029 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 1112912003030 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 1112912003031 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 1112912003032 catalytic core [active] 1112912003033 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 1112912003034 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 1112912003035 active site 1112912003036 Subfamily of the nitroreductase family that includes BluB protein in Rhodobacter capsulatus is involved in the conversion of cobinamide to cobalamin in Cobalamin (vitamin B12) biosynthesis. Nitroreductases typically reduce their substrates by using NAD(P)...; Region: BluB; cd02145 1112912003037 putative FMN binding site [chemical binding]; other site 1112912003038 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 1112912003039 Ligand Binding Site [chemical binding]; other site 1112912003040 Predicted membrane protein [Function unknown]; Region: COG3714 1112912003041 aldehyde dehydrogenase family protein; Provisional; Region: PTZ00381 1112912003042 Coniferyl aldehyde dehydrogenase-like; Region: ALDH_CALDH_CalB; cd07133 1112912003043 NAD(P) binding site [chemical binding]; other site 1112912003044 catalytic residues [active] 1112912003045 Metal-dependent hydrolase [General function prediction only]; Region: ElsH; COG3568 1112912003046 putative catalytic site [active] 1112912003047 putative metal binding site [ion binding]; other site 1112912003048 putative phosphate binding site [ion binding]; other site 1112912003049 Phosphatidylserine/phosphatidylglycerophosphate/car diolipin synthases and related enzymes [Lipid metabolism]; Region: Cls; COG1502 1112912003050 Putative catalytic domain, repeat 1, of uncharacterized proteins similar to bacterial cardiolipin synthase; Region: PLDc_CLS_unchar2_1; cd09157 1112912003051 putative active site [active] 1112912003052 catalytic site [active] 1112912003053 Putative catalytic domain, repeat 2, of uncharacterized proteins similar to bacterial cardiolipin synthase; Region: PLDc_CLS_unchar2_2; cd09163 1112912003054 putative active site [active] 1112912003055 catalytic site [active] 1112912003056 Uncharacterized conserved protein [Function unknown]; Region: HdeD; COG3247 1112912003057 Peptide chain release factor RF-3 [Translation, ribosomal structure and biogenesis]; Region: PrfC; COG4108 1112912003058 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 1112912003059 G1 box; other site 1112912003060 putative GEF interaction site [polypeptide binding]; other site 1112912003061 GTP/Mg2+ binding site [chemical binding]; other site 1112912003062 Switch I region; other site 1112912003063 G2 box; other site 1112912003064 G3 box; other site 1112912003065 Switch II region; other site 1112912003066 G4 box; other site 1112912003067 G5 box; other site 1112912003068 RF3_II: this subfamily represents the domain II of bacterial Release Factor 3 (RF3). Termination of protein synthesis by the ribosome requires two release factor (RF) classes. The class II RF3 is a GTPase that removes class I RFs (RF1 or RF2) from the...; Region: RF3_II; cd03689 1112912003069 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 1112912003070 Flavoprotein; Region: Flavoprotein; pfam02441 1112912003071 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 1112912003072 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 1112912003073 ABC1 family; Region: ABC1; pfam03109 1112912003074 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 1112912003075 active site 1112912003076 ATP binding site [chemical binding]; other site 1112912003077 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 1112912003078 substrate binding site [chemical binding]; other site 1112912003079 activation loop (A-loop); other site 1112912003080 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 1112912003081 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 1112912003082 S-adenosylmethionine binding site [chemical binding]; other site 1112912003083 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1112912003084 active site 1112912003085 hypothetical protein; Provisional; Region: PRK00736 1112912003086 methionine sulfoxide reductase A; Provisional; Region: PRK00058 1112912003087 putative transposase OrfB; Reviewed; Region: PHA02517 1112912003088 HTH-like domain; Region: HTH_21; pfam13276 1112912003089 Integrase core domain; Region: rve; pfam00665 1112912003090 Integrase core domain; Region: rve_3; pfam13683 1112912003091 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1112912003092 Transposase; Region: HTH_Tnp_1; pfam01527 1112912003093 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1112912003094 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1112912003095 DNA-binding site [nucleotide binding]; DNA binding site 1112912003096 FCD domain; Region: FCD; pfam07729 1112912003097 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1112912003098 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 1112912003099 tetramerization interface [polypeptide binding]; other site 1112912003100 NAD(P) binding site [chemical binding]; other site 1112912003101 catalytic residues [active] 1112912003102 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1112912003103 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1112912003104 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 1112912003105 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1112912003106 Walker A/P-loop; other site 1112912003107 ATP binding site [chemical binding]; other site 1112912003108 Q-loop/lid; other site 1112912003109 ABC transporter signature motif; other site 1112912003110 Walker B; other site 1112912003111 D-loop; other site 1112912003112 H-loop/switch region; other site 1112912003113 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 1112912003114 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 1112912003115 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1112912003116 Walker A/P-loop; other site 1112912003117 ATP binding site [chemical binding]; other site 1112912003118 Q-loop/lid; other site 1112912003119 ABC transporter signature motif; other site 1112912003120 Walker B; other site 1112912003121 D-loop; other site 1112912003122 H-loop/switch region; other site 1112912003123 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 1112912003124 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 1112912003125 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 1112912003126 dimer interface [polypeptide binding]; other site 1112912003127 conserved gate region; other site 1112912003128 putative PBP binding loops; other site 1112912003129 ABC-ATPase subunit interface; other site 1112912003130 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1112912003131 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 1112912003132 dimer interface [polypeptide binding]; other site 1112912003133 conserved gate region; other site 1112912003134 putative PBP binding loops; other site 1112912003135 ABC-ATPase subunit interface; other site 1112912003136 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1112912003137 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 1112912003138 Bacterial transcriptional regulator; Region: IclR; pfam01614 1112912003139 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1112912003140 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 1112912003141 3-hydroxy-acyl-CoA dehydrogenase; Validated; Region: PRK08268 1112912003142 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 1112912003143 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1112912003144 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1112912003145 enoyl-CoA hydratase; Provisional; Region: PRK08138 1112912003146 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 1112912003147 substrate binding site [chemical binding]; other site 1112912003148 oxyanion hole (OAH) forming residues; other site 1112912003149 trimer interface [polypeptide binding]; other site 1112912003150 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1112912003151 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1112912003152 active site 1112912003153 Protein related to penicillin acylase [General function prediction only]; Region: COG2366 1112912003154 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 1112912003155 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 1112912003156 active site 1112912003157 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 1112912003158 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1112912003159 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_16; cd08502 1112912003160 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1112912003161 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 1112912003162 dimer interface [polypeptide binding]; other site 1112912003163 conserved gate region; other site 1112912003164 putative PBP binding loops; other site 1112912003165 ABC-ATPase subunit interface; other site 1112912003166 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 1112912003167 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 1112912003168 dimer interface [polypeptide binding]; other site 1112912003169 conserved gate region; other site 1112912003170 putative PBP binding loops; other site 1112912003171 ABC-ATPase subunit interface; other site 1112912003172 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 1112912003173 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1112912003174 Walker A/P-loop; other site 1112912003175 ATP binding site [chemical binding]; other site 1112912003176 Q-loop/lid; other site 1112912003177 ABC transporter signature motif; other site 1112912003178 Walker B; other site 1112912003179 D-loop; other site 1112912003180 H-loop/switch region; other site 1112912003181 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1112912003182 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1112912003183 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1112912003184 DNA-binding site [nucleotide binding]; DNA binding site 1112912003185 FCD domain; Region: FCD; pfam07729 1112912003186 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1112912003187 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 1112912003188 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1112912003189 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 1112912003190 dimer interface [polypeptide binding]; other site 1112912003191 conserved gate region; other site 1112912003192 putative PBP binding loops; other site 1112912003193 ABC-ATPase subunit interface; other site 1112912003194 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 1112912003195 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 1112912003196 dimer interface [polypeptide binding]; other site 1112912003197 conserved gate region; other site 1112912003198 putative PBP binding loops; other site 1112912003199 ABC-ATPase subunit interface; other site 1112912003200 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 1112912003201 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1112912003202 Walker A/P-loop; other site 1112912003203 ATP binding site [chemical binding]; other site 1112912003204 Q-loop/lid; other site 1112912003205 ABC transporter signature motif; other site 1112912003206 Walker B; other site 1112912003207 D-loop; other site 1112912003208 H-loop/switch region; other site 1112912003209 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 1112912003210 Gluconolactonase [Carbohydrate transport and metabolism]; Region: COG3386 1112912003211 amidase; Provisional; Region: PRK07486 1112912003212 Amidase; Region: Amidase; cl11426 1112912003213 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 1112912003214 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 1112912003215 dimer interface [polypeptide binding]; other site 1112912003216 conserved gate region; other site 1112912003217 putative PBP binding loops; other site 1112912003218 ABC-ATPase subunit interface; other site 1112912003219 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 1112912003220 dimer interface [polypeptide binding]; other site 1112912003221 conserved gate region; other site 1112912003222 putative PBP binding loops; other site 1112912003223 ABC-ATPase subunit interface; other site 1112912003224 Glutamate-1-semialdehyde aminotransferase [Coenzyme metabolism]; Region: HemL; COG0001 1112912003225 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 1112912003226 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1112912003227 catalytic residue [active] 1112912003228 Ribulose-5-phosphate 4-epimerase and related epimerases and aldolases [Carbohydrate transport and metabolism]; Region: AraD; COG0235 1112912003229 intersubunit interface [polypeptide binding]; other site 1112912003230 active site 1112912003231 Zn2+ binding site [ion binding]; other site 1112912003232 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3395 1112912003233 Growth inhibitor [Signal transduction mechanisms]; Region: MazF; COG2337 1112912003234 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1112912003235 Transposase; Region: HTH_Tnp_1; pfam01527 1112912003236 putative transposase OrfB; Reviewed; Region: PHA02517 1112912003237 HTH-like domain; Region: HTH_21; pfam13276 1112912003238 Integrase core domain; Region: rve; pfam00665 1112912003239 Integrase core domain; Region: rve_3; pfam13683 1112912003240 Predicted N-acetylglucosamine kinase [Carbohydrate transport and metabolism]; Region: COG2971 1112912003241 Predicted transcriptional regulator [Transcription]; Region: COG1959 1112912003242 Transcriptional regulator; Region: Rrf2; pfam02082 1112912003243 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 1112912003244 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 1112912003245 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; smart00833 1112912003246 ABC-type Zn2+ transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: ZnuA; COG4531 1112912003247 Zinc binding protein ZnuA. These proteins have been shown to function as initial receptors in the ABC uptake of Zn2+. They belong to the TroA superfamily of periplasmic metal binding proteins that share a distinct fold and ligand binding mechanism; Region: ZnuA; cd01019 1112912003248 metal binding site [ion binding]; metal-binding site 1112912003249 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 1112912003250 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 1112912003251 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 1112912003252 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 1112912003253 ABC-ATPase subunit interface; other site 1112912003254 dimer interface [polypeptide binding]; other site 1112912003255 putative PBP binding regions; other site 1112912003256 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 1112912003257 metal binding site 2 [ion binding]; metal-binding site 1112912003258 putative DNA binding helix; other site 1112912003259 metal binding site 1 [ion binding]; metal-binding site 1112912003260 dimer interface [polypeptide binding]; other site 1112912003261 structural Zn2+ binding site [ion binding]; other site 1112912003262 Rod binding protein; Region: Rod-binding; pfam10135 1112912003263 Bacterial export proteins, family 1; Region: Bac_export_1; cl00734 1112912003264 flagellar biosynthesis protein FlhA; Reviewed; Region: flhA; PRK12792 1112912003265 FHIPEP family; Region: FHIPEP; pfam00771 1112912003266 flagellar biosynthesis protein FliQ; Reviewed; Region: fliQ; PRK06010 1112912003267 flagellar basal body rod modification protein; Reviewed; Region: flgD; PRK06009 1112912003268 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 1112912003269 Flagellar biosynthesis regulator FlbT [Cell motility and secretion]; Region: FlbT; COG5443 1112912003270 Flagellar biosynthesis regulator FlaF [Cell motility and secretion]; Region: FlaF; COG5442 1112912003271 flagellar biosynthesis regulatory protein FlaF; Reviewed; Region: flaF; PRK12793 1112912003272 flagellar hook-associated protein FlgL; Validated; Region: flgL; PRK06008 1112912003273 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 1112912003274 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 1112912003275 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK07521 1112912003276 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 1112912003277 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 1112912003278 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 1112912003279 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 1112912003280 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 1112912003281 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1112912003282 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 1112912003283 DNA binding site [nucleotide binding] 1112912003284 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 1112912003285 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 1112912003286 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1112912003287 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 1112912003288 flagellar motor protein MotB; Validated; Region: motB; PRK05996 1112912003289 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 1112912003290 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1112912003291 ligand binding site [chemical binding]; other site 1112912003292 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 1112912003293 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; pfam01514 1112912003294 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 1112912003295 flagellin; Reviewed; Region: PRK12687 1112912003296 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 1112912003297 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 1112912003298 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 1112912003299 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 1112912003300 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; cl15373 1112912003301 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 1112912003302 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 1112912003303 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 1112912003304 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 1112912003305 Pertactin-like passenger domains (virulence factors), C-terminal, subgroup 2, of autotransporter proteins of the type V secretion system of Gram-negative bacteria. This subgroup includes the passenger domains of the nonprotease autotransporters, Ag43; Region: PL2_Passenger_AT; cd01344 1112912003306 outer membrane autotransporter barrel domain; Region: autotrans_barl; TIGR01414 1112912003307 Autotransporter beta-domain; Region: Autotransporter; smart00869 1112912003308 Uncharacterized conserved protein [Function unknown]; Region: COG3268 1112912003309 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 1112912003310 D-xylose ABC transporter, substrate-binding protein; Region: xylF; TIGR02634 1112912003311 putative ligand binding site [chemical binding]; other site 1112912003312 xylose transporter ATP-binding subunit; Provisional; Region: PRK13549 1112912003313 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1112912003314 Walker A/P-loop; other site 1112912003315 ATP binding site [chemical binding]; other site 1112912003316 Q-loop/lid; other site 1112912003317 ABC transporter signature motif; other site 1112912003318 Walker B; other site 1112912003319 D-loop; other site 1112912003320 H-loop/switch region; other site 1112912003321 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1112912003322 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1112912003323 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 1112912003324 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 1112912003325 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1112912003326 TM-ABC transporter signature motif; other site 1112912003327 DNA-binding transcriptional activator FeaR; Provisional; Region: PRK09685 1112912003328 HTH domain; Region: HTH_11; cl17392 1112912003329 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1112912003330 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1112912003331 Streptomyces aureofaciens putative aldehyde dehydrogenase AldA (AAD23400)-like; Region: ALDH_AldA-AAD23400; cd07106 1112912003332 NAD(P) binding site [chemical binding]; other site 1112912003333 catalytic residues [active] 1112912003334 2,4-dihydroxyhept-2-ene-1,7-dioic acid aldolase; Region: HpaI; TIGR02311 1112912003335 2-oxo-hepta-3-ene-1,7-dioic acid hydratase; Region: HpaH; TIGR02312 1112912003336 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 1112912003337 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 1112912003338 5-carboxymethyl-2-hydroxymuconate semialdehyde dehydrogenase; Region: HpaE; TIGR02299 1112912003339 Human aldehyde dehydrogenase family 8 member A1-like; Region: ALDH_F8_HMSADH; cd07093 1112912003340 NAD binding site [chemical binding]; other site 1112912003341 catalytic residues [active] 1112912003342 5-carboxymethyl-2-hydroxymuconate isomerase (CHMI) is a trimeric enzyme catalyzing the isomerization of the unsaturated ketone 5-(carboxymethyl)-2-hydroxymuconate to 5-(carboxymethyl)-2-oxo-3-hexene-1,6-dionate. This is one step in the...; Region: CHMI; cd00580 1112912003343 putative substrate binding pocket [chemical binding]; other site 1112912003344 trimer interface [polypeptide binding]; other site 1112912003345 homoprotocatechuate degradation operon regulator, HpaR; Region: HpaR; TIGR02337 1112912003346 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1112912003347 Putative homoserine kinase type II (protein kinase fold) [General function prediction only]; Region: COG2334 1112912003348 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 1112912003349 active site 1112912003350 ATP binding site [chemical binding]; other site 1112912003351 substrate binding site [chemical binding]; other site 1112912003352 4-aminobutyrate aminotransferase and related aminotransferases [Amino acid transport and metabolism]; Region: GabT; COG0160 1112912003353 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 1112912003354 inhibitor-cofactor binding pocket; inhibition site 1112912003355 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1112912003356 catalytic residue [active] 1112912003357 hypothetical protein; Provisional; Region: PRK07481 1112912003358 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 1112912003359 inhibitor-cofactor binding pocket; inhibition site 1112912003360 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1112912003361 catalytic residue [active] 1112912003362 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 1112912003363 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 1112912003364 motif II; other site 1112912003365 Uncharacterized conserved protein [Function unknown]; Region: COG5441; cl02262 1112912003366 Uncharacterized protein family (UPF0261); Region: UPF0261; pfam06792 1112912003367 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 1112912003368 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1112912003369 Bacterial transcriptional regulator; Region: IclR; pfam01614 1112912003370 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 1112912003371 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1112912003372 Escherichia coli NADP+-dependent gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase PuuC-like; Region: ALDH_GABALDH-PuuC; cd07112 1112912003373 NAD(P) binding site [chemical binding]; other site 1112912003374 catalytic residues [active] 1112912003375 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 1112912003376 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 1112912003377 active site 1112912003378 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 1112912003379 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 1112912003380 putative ligand binding site [chemical binding]; other site 1112912003381 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 1112912003382 TM-ABC transporter signature motif; other site 1112912003383 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 1112912003384 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 1112912003385 TM-ABC transporter signature motif; other site 1112912003386 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 1112912003387 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 1112912003388 Walker A/P-loop; other site 1112912003389 ATP binding site [chemical binding]; other site 1112912003390 Q-loop/lid; other site 1112912003391 ABC transporter signature motif; other site 1112912003392 Walker B; other site 1112912003393 D-loop; other site 1112912003394 H-loop/switch region; other site 1112912003395 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 1112912003396 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 1112912003397 Walker A/P-loop; other site 1112912003398 ATP binding site [chemical binding]; other site 1112912003399 Q-loop/lid; other site 1112912003400 ABC transporter signature motif; other site 1112912003401 Walker B; other site 1112912003402 D-loop; other site 1112912003403 H-loop/switch region; other site 1112912003404 Protein of unknown function (DUF1634); Region: DUF1634; pfam07843 1112912003405 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1112912003406 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 1112912003407 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1112912003408 DNA-binding site [nucleotide binding]; DNA binding site 1112912003409 UTRA domain; Region: UTRA; pfam07702 1112912003410 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 1112912003411 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1112912003412 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1112912003413 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 1112912003414 dimer interface [polypeptide binding]; other site 1112912003415 conserved gate region; other site 1112912003416 putative PBP binding loops; other site 1112912003417 ABC-ATPase subunit interface; other site 1112912003418 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 1112912003419 dimer interface [polypeptide binding]; other site 1112912003420 conserved gate region; other site 1112912003421 putative PBP binding loops; other site 1112912003422 ABC-ATPase subunit interface; other site 1112912003423 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 1112912003424 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1112912003425 Walker A/P-loop; other site 1112912003426 ATP binding site [chemical binding]; other site 1112912003427 Q-loop/lid; other site 1112912003428 ABC transporter signature motif; other site 1112912003429 Walker B; other site 1112912003430 D-loop; other site 1112912003431 H-loop/switch region; other site 1112912003432 TOBE domain; Region: TOBE_2; pfam08402 1112912003433 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 1112912003434 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1112912003435 active site 1112912003436 metal binding site [ion binding]; metal-binding site 1112912003437 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 1112912003438 Sulfatase; Region: Sulfatase; cl17466 1112912003439 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 1112912003440 NMT1-like family; Region: NMT1_2; pfam13379 1112912003441 substrate binding pocket [chemical binding]; other site 1112912003442 membrane-bound complex binding site; other site 1112912003443 hinge residues; other site 1112912003444 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 1112912003445 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 1112912003446 Walker A/P-loop; other site 1112912003447 ATP binding site [chemical binding]; other site 1112912003448 Q-loop/lid; other site 1112912003449 ABC transporter signature motif; other site 1112912003450 Walker B; other site 1112912003451 D-loop; other site 1112912003452 H-loop/switch region; other site 1112912003453 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 1112912003454 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 1112912003455 dimer interface [polypeptide binding]; other site 1112912003456 conserved gate region; other site 1112912003457 putative PBP binding loops; other site 1112912003458 ABC-ATPase subunit interface; other site 1112912003459 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 1112912003460 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 1112912003461 nucleotide binding site [chemical binding]; other site 1112912003462 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 1112912003463 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 1112912003464 N-terminal plug; other site 1112912003465 ligand-binding site [chemical binding]; other site 1112912003466 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1112912003467 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1112912003468 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 1112912003469 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_5; cd06338 1112912003470 putative ligand binding site [chemical binding]; other site 1112912003471 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1112912003472 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 1112912003473 TM-ABC transporter signature motif; other site 1112912003474 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 1112912003475 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 1112912003476 Walker A/P-loop; other site 1112912003477 ATP binding site [chemical binding]; other site 1112912003478 Q-loop/lid; other site 1112912003479 ABC transporter signature motif; other site 1112912003480 Walker B; other site 1112912003481 D-loop; other site 1112912003482 H-loop/switch region; other site 1112912003483 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 1112912003484 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 1112912003485 Walker A/P-loop; other site 1112912003486 ATP binding site [chemical binding]; other site 1112912003487 Q-loop/lid; other site 1112912003488 ABC transporter signature motif; other site 1112912003489 Walker B; other site 1112912003490 D-loop; other site 1112912003491 H-loop/switch region; other site 1112912003492 heavy metal translocating P-type ATPase; Region: ATPase-IB_hvy; TIGR01525 1112912003493 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1112912003494 Soluble P-type ATPase [General function prediction only]; Region: COG4087 1112912003495 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 1112912003496 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 1112912003497 FeS/SAM binding site; other site 1112912003498 HemN C-terminal domain; Region: HemN_C; pfam06969 1112912003499 plasmid partitioning protein RepA; Region: partition_RepA; TIGR03453 1112912003500 MerR family regulatory protein; Region: MerR; pfam00376 1112912003501 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 1112912003502 P-loop; other site 1112912003503 Magnesium ion binding site [ion binding]; other site 1112912003504 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 1112912003505 P-loop; other site 1112912003506 Magnesium ion binding site [ion binding]; other site 1112912003507 plasmid partitioning protein RepB; Region: partition_RepB; TIGR03454 1112912003508 ParB-like nuclease domain; Region: ParB; smart00470 1112912003509 DnaA N-terminal domain; Region: DnaA_N; pfam11638 1112912003510 chromosomal replication initiator protein DnaA; Region: DnaA; TIGR00362 1112912003511 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl17189 1112912003512 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 1112912003513 DnaA box-binding interface [nucleotide binding]; other site 1112912003514 DNA polymerase III subunit beta; Validated; Region: PRK05643 1112912003515 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 1112912003516 putative DNA binding surface [nucleotide binding]; other site 1112912003517 dimer interface [polypeptide binding]; other site 1112912003518 beta-clamp/clamp loader binding surface; other site 1112912003519 beta-clamp/translesion DNA polymerase binding surface; other site 1112912003520 recombination protein F; Reviewed; Region: recF; PRK00064 1112912003521 ATP-binding cassette domain of RecF; Region: ABC_RecF; cd03242 1112912003522 Walker A/P-loop; other site 1112912003523 ATP binding site [chemical binding]; other site 1112912003524 Q-loop/lid; other site 1112912003525 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1112912003526 ABC transporter signature motif; other site 1112912003527 Walker B; other site 1112912003528 D-loop; other site 1112912003529 H-loop/switch region; other site 1112912003530 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 1112912003531 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 1112912003532 ATP binding site [chemical binding]; other site 1112912003533 substrate interface [chemical binding]; other site 1112912003534 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 1112912003535 Putative glycerate dehydrogenase and related proteins of the D-specific 2-hydroxy dehydrogenase family; Region: GDH_like_2; cd12164 1112912003536 putative ligand binding site [chemical binding]; other site 1112912003537 NAD binding site [chemical binding]; other site 1112912003538 dimerization interface [polypeptide binding]; other site 1112912003539 catalytic site [active] 1112912003540 ABC-type uncharacterized transport system, duplicated ATPase component [General function prediction only]; Region: COG4172 1112912003541 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1112912003542 Walker A/P-loop; other site 1112912003543 ATP binding site [chemical binding]; other site 1112912003544 Q-loop/lid; other site 1112912003545 ABC transporter signature motif; other site 1112912003546 Walker B; other site 1112912003547 D-loop; other site 1112912003548 H-loop/switch region; other site 1112912003549 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 1112912003550 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1112912003551 Walker A/P-loop; other site 1112912003552 ATP binding site [chemical binding]; other site 1112912003553 Q-loop/lid; other site 1112912003554 ABC transporter signature motif; other site 1112912003555 Walker B; other site 1112912003556 D-loop; other site 1112912003557 H-loop/switch region; other site 1112912003558 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 1112912003559 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4239 1112912003560 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 1112912003561 dimer interface [polypeptide binding]; other site 1112912003562 conserved gate region; other site 1112912003563 putative PBP binding loops; other site 1112912003564 ABC-ATPase subunit interface; other site 1112912003565 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4174 1112912003566 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 1112912003567 dimer interface [polypeptide binding]; other site 1112912003568 conserved gate region; other site 1112912003569 putative PBP binding loops; other site 1112912003570 ABC-ATPase subunit interface; other site 1112912003571 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 1112912003572 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_14; cd08497 1112912003573 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 1112912003574 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_14; cd08497 1112912003575 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 1112912003576 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 1112912003577 dimerization interface [polypeptide binding]; other site 1112912003578 ligand binding site [chemical binding]; other site 1112912003579 enoyl-CoA hydratase; Provisional; Region: PRK07468 1112912003580 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 1112912003581 substrate binding site [chemical binding]; other site 1112912003582 oxyanion hole (OAH) forming residues; other site 1112912003583 trimer interface [polypeptide binding]; other site 1112912003584 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 1112912003585 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1112912003586 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1112912003587 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 1112912003588 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 1112912003589 carboxyltransferase (CT) interaction site; other site 1112912003590 biotinylation site [posttranslational modification]; other site 1112912003591 3-methylcrotonyl-CoA carboxylase, beta chain; Region: PLN02820 1112912003592 Isovaleryl-CoA dehydrogenase; Region: IVD; cd01156 1112912003593 isovaleryl-CoA dehydrogenase; Region: PLN02519 1112912003594 substrate binding site [chemical binding]; other site 1112912003595 FAD binding site [chemical binding]; other site 1112912003596 catalytic base [active] 1112912003597 acetoacetyl-CoA synthetase; Provisional; Region: PRK03584 1112912003598 Acetoacetyl-CoA synthetase (acetoacetate-CoA ligase, AACS); Region: AACS; cd05943 1112912003599 acyl-activating enzyme (AAE) consensus motif; other site 1112912003600 putative AMP binding site [chemical binding]; other site 1112912003601 putative active site [active] 1112912003602 putative CoA binding site [chemical binding]; other site 1112912003603 CHRD domain; Region: CHRD; pfam07452 1112912003604 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 1112912003605 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4530 1112912003606 Protein of unknown function (FYDLN_acid); Region: FYDLN_acid; pfam09538 1112912003607 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 1112912003608 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 1112912003609 hinge; other site 1112912003610 active site 1112912003611 cytidylate kinase; Provisional; Region: cmk; PRK00023 1112912003612 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 1112912003613 CMP-binding site; other site 1112912003614 The sites determining sugar specificity; other site 1112912003615 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 1112912003616 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 1112912003617 RNA binding site [nucleotide binding]; other site 1112912003618 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 1112912003619 RNA binding site [nucleotide binding]; other site 1112912003620 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 1112912003621 RNA binding site [nucleotide binding]; other site 1112912003622 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 1112912003623 RNA binding site [nucleotide binding]; other site 1112912003624 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 1112912003625 RNA binding site [nucleotide binding]; other site 1112912003626 S1_RPS1_repeat_ec6: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec6; cd05691 1112912003627 RNA binding site [nucleotide binding]; other site 1112912003628 Predicted membrane protein [Function unknown]; Region: COG2855 1112912003629 putative DNA-binding transcriptional regulator; Provisional; Region: PRK10837 1112912003630 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1112912003631 C-terminal substrate binding domain of LysR-type transcriptional regulator CysL, which activates the transcription of the cysJI operon encoding sulfite reductase, contains the type 2 periplasmic binding fold; Region: PBP2_CysL_like; cd08420 1112912003632 putative dimerization interface [polypeptide binding]; other site 1112912003633 lytic murein transglycosylase; Region: MltB_2; TIGR02283 1112912003634 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 1112912003635 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1112912003636 recombination protein RecR; Reviewed; Region: recR; PRK00076 1112912003637 RecR protein; Region: RecR; pfam02132 1112912003638 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 1112912003639 putative active site [active] 1112912003640 putative metal-binding site [ion binding]; other site 1112912003641 tetramer interface [polypeptide binding]; other site 1112912003642 hypothetical protein; Validated; Region: PRK00153 1112912003643 DNA polymerase III subunits gamma and tau; Validated; Region: PRK09111 1112912003644 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 1112912003645 Walker A motif; other site 1112912003646 ATP binding site [chemical binding]; other site 1112912003647 Walker B motif; other site 1112912003648 arginine finger; other site 1112912003649 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 1112912003650 DNA polymerase III gamma and tau subunits C terminal; Region: DUF3646; pfam12362 1112912003651 Diadenosine tetraphosphate (Ap4A) hydrolase and other HIT family hydrolases [Nucleotide transport and metabolism / Carbohydrate transport and metabolism / General function prediction only]; Region: Hit; COG0537 1112912003652 NTP pyrophosphohydrolases containing a Zn-finger, probably nucleic-acid-binding [DNA replication, recombination, and repair]; Region: NPY1; COG2816 1112912003653 NADH pyrophosphatase-like rudimentary NUDIX domain; Region: NUDIX-like; pfam09296 1112912003654 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 1112912003655 NADH pyrophosphatase, a member of the Nudix hydrolase superfamily, catalyzes the cleavage of NADH into reduced nicotinamide mononucleotide (NMNH) and AMP. Like other members of the Nudix family, it requires a divalent cation, such as Mg2+ or Mn2+, for...; Region: NADH_pyrophosphatase; cd03429 1112912003656 putative NADH binding site [chemical binding]; other site 1112912003657 putative active site [active] 1112912003658 nudix motif; other site 1112912003659 putative metal binding site [ion binding]; other site 1112912003660 prephenate dehydratase; Provisional; Region: PRK11899 1112912003661 Prephenate dehydratase; Region: PDT; pfam00800 1112912003662 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 1112912003663 putative L-Phe binding site [chemical binding]; other site 1112912003664 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 1112912003665 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 1112912003666 Ligand binding site; other site 1112912003667 oligomer interface; other site 1112912003668 Cytochrome c2 [Energy production and conversion]; Region: COG3474 1112912003669 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 1112912003670 MoeA_like. This domain is similar to a domain found in a variety of proteins involved in biosynthesis of molybdopterin cofactor, like MoaB, MogA, and MoeA. There this domain is presumed to bind molybdopterin. The exact function of this subgroup is...; Region: MoeA_like; cd03522 1112912003671 putative MPT binding site; other site 1112912003672 cytochrome o ubiquinol oxidase subunit II; Region: CyoA; TIGR01433 1112912003673 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 1112912003674 COX Aromatic Rich Motif; Region: COX_ARM; pfam06481 1112912003675 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 1112912003676 Ubiquinol oxidase subunit I. Ubiquinol oxidase, the terminal oxidase in the respiratory chains of aerobic bacteria, is a multi-chain transmembrane protein located in the cell membrane. It catalyzes the reduction of O2 and simultaneously pumps protons...; Region: Ubiquinol_Oxidase_I; cd01662 1112912003677 D-pathway; other site 1112912003678 Putative ubiquinol binding site [chemical binding]; other site 1112912003679 Low-spin heme (heme b) binding site [chemical binding]; other site 1112912003680 Putative water exit pathway; other site 1112912003681 Binuclear center (heme o3/CuB) [ion binding]; other site 1112912003682 K-pathway; other site 1112912003683 Putative proton exit pathway; other site 1112912003684 Ubiquinol oxidase subunit III subfamily. Ubiquinol oxidase, the terminal oxidase in the respiratory chains of aerobic bacteria, is a multi-chain transmembrane protein located in the cell membrane. It catalyzes the reduction of O2 and simultaneously...; Region: Ubiquinol_oxidase_III; cd02863 1112912003685 Subunit I/III interface [polypeptide binding]; other site 1112912003686 Subunit III/IV interface [polypeptide binding]; other site 1112912003687 Heme/copper-type cytochrome/quinol oxidase, subunit 4 [Energy production and conversion]; Region: CyoD; COG3125 1112912003688 Bacterial SH3 domain; Region: SH3_3; pfam08239 1112912003689 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 1112912003690 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1112912003691 Surface antigen; Region: Bac_surface_Ag; pfam01103 1112912003692 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 1112912003693 Family of unknown function (DUF490); Region: DUF490; pfam04357 1112912003694 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 1112912003695 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 1112912003696 Reeler-like domain of YcnI and similar proteins; Region: YcnI_like; cd08545 1112912003697 Copper(I)-binding protein [Inorganic ion transport and metabolism]; Region: COG2847 1112912003698 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 1112912003699 dimer interface [polypeptide binding]; other site 1112912003700 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1112912003701 active site 1112912003702 metal binding site [ion binding]; metal-binding site 1112912003703 glutathione binding site [chemical binding]; other site 1112912003704 Domain of unknown function DUF59; Region: DUF59; pfam01883 1112912003705 cell division ATPase MinD, archaeal; Region: minD_arch; TIGR01969 1112912003706 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 1112912003707 Walker A motif; other site 1112912003708 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 1112912003709 phosphoglucomutase; Region: PLN02307 1112912003710 Phosphoglucomutase 1 (PGM1) catalyzes the bidirectional interconversion of glucose-1-phosphate (G-1-P) and glucose-6-phosphate (G-6-P) via a glucose 1,6-diphosphate intermediate, an important metabolic step in prokaryotes and eukaryotes. In one direction; Region: PGM1; cd03085 1112912003711 substrate binding site [chemical binding]; other site 1112912003712 dimer interface [polypeptide binding]; other site 1112912003713 active site 1112912003714 metal binding site [ion binding]; metal-binding site 1112912003715 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1112912003716 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1112912003717 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_5; cd08474 1112912003718 putative effector binding pocket; other site 1112912003719 putative dimerization interface [polypeptide binding]; other site 1112912003720 Hydrolases of the alpha/beta superfamily [General function prediction only]; Region: COG1073 1112912003721 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1112912003722 nucleoside triphosphate hydrolase domain-containing protein; Reviewed; Region: PRK09270 1112912003723 Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates...; Region: NK; cl17190 1112912003724 active site 1112912003725 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 1112912003726 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 1112912003727 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 1112912003728 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 1112912003729 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1112912003730 catalytic residue [active] 1112912003731 Predicted membrane protein, hemolysin III homolog [General function prediction only]; Region: COG1272 1112912003732 error-prone DNA polymerase; Validated; Region: dnaE2; PRK05672 1112912003733 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III at DnaE2 gene; Region: PHP_PolIIIA_DnaE2; cd07434 1112912003734 putative active site [active] 1112912003735 putative PHP Thumb interface [polypeptide binding]; other site 1112912003736 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 1112912003737 generic binding surface II; other site 1112912003738 generic binding surface I; other site 1112912003739 DNA Polymerase Y-family; Region: PolY_like; cd03468 1112912003740 active site 1112912003741 Nucleotidyltransferase/DNA polymerase involved in DNA repair [DNA replication, recombination, and repair]; Region: DinP; COG0389 1112912003742 DNA binding site [nucleotide binding] 1112912003743 Uncharacterized conserved protein [Function unknown]; Region: COG4544 1112912003744 Autotransporter adhesin [Intracellular trafficking and secretion / Extracellular structures]; Region: Hia; COG5295 1112912003745 YadA-like, left-handed beta-roll; Region: LbR_YadA-like; cd12820 1112912003746 trimer interface [polypeptide binding]; other site 1112912003747 Haemagglutinin; Region: HIM; pfam05662 1112912003748 YadA-like C-terminal region; Region: YadA; pfam03895 1112912003749 Invasion associated locus B (IalB) protein; Region: IalB; cl02207 1112912003750 argininosuccinate synthase; Provisional; Region: PRK13820 1112912003751 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 1112912003752 ANP binding site [chemical binding]; other site 1112912003753 Substrate Binding Site II [chemical binding]; other site 1112912003754 Substrate Binding Site I [chemical binding]; other site 1112912003755 Predicted Fe-S-cluster redox enzyme [General function prediction only]; Region: COG0820 1112912003756 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 1112912003757 FeS/SAM binding site; other site 1112912003758 Invasion associated locus B (IalB) protein; Region: IalB; cl02207 1112912003759 Uncharacterized conserved protein [Function unknown]; Region: COG3339 1112912003760 PCD_DCoH: The bifunctional protein pterin-4alpha-carbinolamine dehydratase (PCD), also known as DCoH (dimerization cofactor of hepatocyte nuclear factor-1), is both a transcription activator and a metabolic enzyme. DCoH stimulates gene expression by...; Region: PCD_DCoH_subfamily_b; cd00914 1112912003761 aromatic arch; other site 1112912003762 DCoH dimer interaction site [polypeptide binding]; other site 1112912003763 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 1112912003764 DCoH tetramer interaction site [polypeptide binding]; other site 1112912003765 substrate binding site [chemical binding]; other site 1112912003766 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 1112912003767 Low molecular weight phosphatase family; Region: LMWPc; cd00115 1112912003768 active site 1112912003769 2'-5' RNA ligase; Region: 2_5_ligase; TIGR02258 1112912003770 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 1112912003771 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 1112912003772 Lysophospholipase L1-like subgroup of SGNH-hydrolases. The best characterized member in this family is TesA, an E. coli periplasmic protein with thioesterase, esterase, arylesterase, protease and lysophospholipase activity; Region: Lysophospholipase_L1_like; cd01822 1112912003773 active site 1112912003774 catalytic triad [active] 1112912003775 oxyanion hole [active] 1112912003776 switch loop; other site 1112912003777 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG4181 1112912003778 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1112912003779 Walker A/P-loop; other site 1112912003780 ATP binding site [chemical binding]; other site 1112912003781 Q-loop/lid; other site 1112912003782 ABC transporter signature motif; other site 1112912003783 Walker B; other site 1112912003784 D-loop; other site 1112912003785 H-loop/switch region; other site 1112912003786 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 1112912003787 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 1112912003788 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 1112912003789 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 1112912003790 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1112912003791 Coenzyme A binding pocket [chemical binding]; other site 1112912003792 Protein of unknown function (DUF2794); Region: DUF2794; pfam10984 1112912003793 Uncharacterized secreted protein [Function unknown]; Region: COG5429 1112912003794 aconitate hydratase; Validated; Region: PRK09277 1112912003795 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 1112912003796 substrate binding site [chemical binding]; other site 1112912003797 ligand binding site [chemical binding]; other site 1112912003798 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 1112912003799 substrate binding site [chemical binding]; other site 1112912003800 cytochrome c biogenesis protein CcmA; Provisional; Region: PRK13539 1112912003801 Cytochrome c biogenesis ATP-binding export protein; Region: ABC_CcmA_heme_exporter; cd03231 1112912003802 Walker A/P-loop; other site 1112912003803 ATP binding site [chemical binding]; other site 1112912003804 Q-loop/lid; other site 1112912003805 ABC transporter signature motif; other site 1112912003806 Walker B; other site 1112912003807 D-loop; other site 1112912003808 H-loop/switch region; other site 1112912003809 ABC-type transport system involved in cytochrome c biogenesis, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CcmB; COG2386 1112912003810 heme exporter protein CcmC; Region: ccmC; TIGR01191 1112912003811 heme exporter protein CcmD; Region: cytochro_ccmD; TIGR03141 1112912003812 periplasmic protein thiol:disulfide oxidoreductases, DsbE subfamily; Region: dsbE; TIGR00385 1112912003813 TlpA-like family, DsbE (also known as CcmG and CycY) subfamily; DsbE is a membrane-anchored, periplasmic TRX-like reductase containing a CXXC motif that specifically donates reducing equivalents to apocytochrome c via CcmH, another cytochrome c...; Region: TlpA_like_DsbE; cd03010 1112912003814 catalytic residues [active] 1112912003815 central insert; other site 1112912003816 dihydroxy-acid dehydratase; Provisional; Region: PRK12448 1112912003817 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; cl02542 1112912003818 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1112912003819 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 1112912003820 active site 1112912003821 phosphorylation site [posttranslational modification] 1112912003822 intermolecular recognition site; other site 1112912003823 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1112912003824 AsnC family; Region: AsnC_trans_reg; pfam01037 1112912003825 Domain of Unknown Function (DUF930); Region: DUF930; pfam06059 1112912003826 Membrane-bound lysozyme-inhibitor of c-type lysozyme; Region: MliC; cl01604 1112912003827 Uncharacterized conserved protein [Function unknown]; Region: COG1434 1112912003828 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 1112912003829 putative active site [active] 1112912003830 ABC-type sulfate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: Sbp; COG1613 1112912003831 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 1112912003832 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 1112912003833 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 1112912003834 dimer interface [polypeptide binding]; other site 1112912003835 conserved gate region; other site 1112912003836 putative PBP binding loops; other site 1112912003837 ABC-ATPase subunit interface; other site 1112912003838 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 1112912003839 dimer interface [polypeptide binding]; other site 1112912003840 conserved gate region; other site 1112912003841 putative PBP binding loops; other site 1112912003842 ABC-ATPase subunit interface; other site 1112912003843 ABC-type sulfate/molybdate transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: CysA; COG1118 1112912003844 ATP-binding cassette domain of the sulfate transporter; Region: ABC_CysA_sulfate_importer; cd03296 1112912003845 Walker A/P-loop; other site 1112912003846 ATP binding site [chemical binding]; other site 1112912003847 Q-loop/lid; other site 1112912003848 ABC transporter signature motif; other site 1112912003849 Walker B; other site 1112912003850 D-loop; other site 1112912003851 H-loop/switch region; other site 1112912003852 Glycosyltransferases, probably involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG1215 1112912003853 Protein of unknown function (DUF3131); Region: DUF3131; pfam11329 1112912003854 Putative glucoamylase; Region: Glycoamylase; pfam10091 1112912003855 Second GH94N domain of cyclic beta 1-2 glucan synthetase and similar domains; Region: GH94N_ChvB_NdvB_2_like; cd11753 1112912003856 Cellobiose phosphorylase [Carbohydrate transport and metabolism]; Region: COG3459 1112912003857 First GH94N domain of cyclic beta 1-2 glucan synthetase and similar domains; Region: GH94N_ChvB_NdvB_1_like; cd11756 1112912003858 Protein of unknown function, DUF608; Region: DUF608; pfam04685 1112912003859 Nicotinic acid phosphoribosyltransferase [Coenzyme metabolism]; Region: PncB; COG1488 1112912003860 nicotinate phosphoribosyltransferase; Provisional; Region: PRK05321 1112912003861 active site 1112912003862 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 1112912003863 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 1112912003864 S-adenosylmethionine binding site [chemical binding]; other site 1112912003865 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1112912003866 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 1112912003867 putative substrate binding site [chemical binding]; other site 1112912003868 putative ATP binding site [chemical binding]; other site 1112912003869 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 1112912003870 classical (c) SDRs; Region: SDR_c; cd05233 1112912003871 NAD(P) binding site [chemical binding]; other site 1112912003872 active site 1112912003873 Membrane carboxypeptidase (penicillin-binding protein) [Cell envelope biogenesis, outer membrane]; Region: MrcB; COG0744 1112912003874 Transglycosylase; Region: Transgly; pfam00912 1112912003875 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 1112912003876 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 1112912003877 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 1112912003878 Ribonuclease D [Translation, ribosomal structure and biogenesis]; Region: Rnd; COG0349 1112912003879 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 1112912003880 catalytic site [active] 1112912003881 putative active site [active] 1112912003882 putative substrate binding site [chemical binding]; other site 1112912003883 hypothetical protein; Validated; Region: PRK09104 1112912003884 Uncharacterized M20 Dipeptidases; Region: M20_dipept_like_3; cd05680 1112912003885 metal binding site [ion binding]; metal-binding site 1112912003886 putative dimer interface [polypeptide binding]; other site 1112912003887 DNA polymerase I; Region: pola; TIGR00593 1112912003888 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 1112912003889 active site 1112912003890 metal binding site 1 [ion binding]; metal-binding site 1112912003891 putative 5' ssDNA interaction site; other site 1112912003892 metal binding site 3; metal-binding site 1112912003893 metal binding site 2 [ion binding]; metal-binding site 1112912003894 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 1112912003895 putative DNA binding site [nucleotide binding]; other site 1112912003896 putative metal binding site [ion binding]; other site 1112912003897 DEDDy 3'-5' exonuclease domain of Escherichia coli DNA polymerase I and similar bacterial family-A DNA polymerases; Region: DNA_polA_I_Ecoli_like_exo; cd06139 1112912003898 active site 1112912003899 catalytic site [active] 1112912003900 substrate binding site [chemical binding]; other site 1112912003901 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 1112912003902 active site 1112912003903 DNA binding site [nucleotide binding] 1112912003904 catalytic site [active] 1112912003905 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 1112912003906 DEAD-like helicases superfamily; Region: DEXDc; smart00487 1112912003907 ATP binding site [chemical binding]; other site 1112912003908 Mg++ binding site [ion binding]; other site 1112912003909 motif III; other site 1112912003910 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 1112912003911 nucleotide binding region [chemical binding]; other site 1112912003912 ATP-binding site [chemical binding]; other site 1112912003913 RNA recognition motif in the DbpA subfamily of prokaryotic DEAD-box rRNA helicases; Region: RRM_DbpA; cd12252 1112912003914 RNA binding site [nucleotide binding]; other site 1112912003915 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 1112912003916 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 1112912003917 Mg2+ binding site [ion binding]; other site 1112912003918 G-X-G motif; other site 1112912003919 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 1112912003920 anchoring element; other site 1112912003921 dimer interface [polypeptide binding]; other site 1112912003922 ATP binding site [chemical binding]; other site 1112912003923 Topoisomerase-primase domain. This is a nucleotidyl transferase/hydrolase domain found in type IA, type IIA and type IIB topoisomerases, bacterial DnaG-type primases, small primase-like proteins from bacteria and archaea, OLD family nucleases from...; Region: TOPRIM; cl00718 1112912003924 active site 1112912003925 metal binding site [ion binding]; metal-binding site 1112912003926 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 1112912003927 S-formylglutathione hydrolase; Region: PLN02442 1112912003928 S-formylglutathione hydrolase; Region: fghA_ester_D; TIGR02821 1112912003929 Predicted membrane protein [Function unknown]; Region: COG4291 1112912003930 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 1112912003931 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1112912003932 Coenzyme A binding pocket [chemical binding]; other site 1112912003933 Transcriptional regulators RcnR and FrmR, and related domains; this domain family was previously known as part of DUF156; Region: RcnR-FrmR-like_DUF156; cd10153 1112912003934 putative metal binding site [ion binding]; other site 1112912003935 putative homodimer interface [polypeptide binding]; other site 1112912003936 putative homotetramer interface [polypeptide binding]; other site 1112912003937 putative homodimer-homodimer interface [polypeptide binding]; other site 1112912003938 putative allosteric switch controlling residues; other site 1112912003939 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1112912003940 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 1112912003941 ATP binding site [chemical binding]; other site 1112912003942 Mg2+ binding site [ion binding]; other site 1112912003943 G-X-G motif; other site 1112912003944 heme biosynthesis-associated TPR protein; Region: TPR_hemY_coli; TIGR00540 1112912003945 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3293 1112912003946 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1112912003947 Uncharacterized conserved protein (DUF2267); Region: DUF2267; cl02314 1112912003948 Response regulator consisting of a CheY-like receiver domain and a Fis-type HTH domain [Signal transduction mechanisms / Transcription]; Region: COG4567 1112912003949 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 1112912003950 active site 1112912003951 phosphorylation site [posttranslational modification] 1112912003952 intermolecular recognition site; other site 1112912003953 dimerization interface [polypeptide binding]; other site 1112912003954 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 1112912003955 Protein of unknown function (DUF1052); Region: DUF1052; pfam06319 1112912003956 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 1112912003957 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 1112912003958 Scaffold protein Nfu/NifU N terminal; Region: Nfu_N; pfam08712 1112912003959 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 1112912003960 Universal stress protein family; Region: Usp; pfam00582 1112912003961 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 1112912003962 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 1112912003963 active site 1112912003964 HIGH motif; other site 1112912003965 dimer interface [polypeptide binding]; other site 1112912003966 KMSKS motif; other site 1112912003967 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 1112912003968 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 1112912003969 PII uridylyl-transferase; Provisional; Region: PRK05092 1112912003970 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 1112912003971 metal binding triad; other site 1112912003972 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 1112912003973 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1112912003974 Zn2+ binding site [ion binding]; other site 1112912003975 Mg2+ binding site [ion binding]; other site 1112912003976 ACT domain family, ACT_UUR-like_1, includes the first of two C-terminal ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD and related domains; Region: ACT_UUR-like_1; cd04900 1112912003977 C-terminal ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD and related domains; Region: ACT_ACR-UUR-like_2; cd04899 1112912003978 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 1112912003979 MutS domain I; Region: MutS_I; pfam01624 1112912003980 MutS domain II; Region: MutS_II; pfam05188 1112912003981 MutS domain III; Region: MutS_III; pfam05192 1112912003982 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 1112912003983 Walker A/P-loop; other site 1112912003984 ATP binding site [chemical binding]; other site 1112912003985 Q-loop/lid; other site 1112912003986 ABC transporter signature motif; other site 1112912003987 Walker B; other site 1112912003988 D-loop; other site 1112912003989 H-loop/switch region; other site 1112912003990 Putative hemolysin [General function prediction only]; Region: COG3176 1112912003991 lipoprotein signal peptidase; Provisional; Region: PRK14795 1112912003992 lipoprotein signal peptidase; Provisional; Region: PRK14787 1112912003993 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 1112912003994 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 1112912003995 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 1112912003996 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 1112912003997 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 1112912003998 S-adenosylmethionine binding site [chemical binding]; other site 1112912003999 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 1112912004000 IHF dimer interface [polypeptide binding]; other site 1112912004001 IHF - DNA interface [nucleotide binding]; other site 1112912004002 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 1112912004003 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 1112912004004 tandem repeat interface [polypeptide binding]; other site 1112912004005 oligomer interface [polypeptide binding]; other site 1112912004006 active site residues [active] 1112912004007 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5375 1112912004008 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 1112912004009 lipopolysaccharide transport periplasmic protein LptA; Region: outer_YhbN_LptA; TIGR03002 1112912004010 OstA-like protein; Region: OstA; pfam03968 1112912004011 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 1112912004012 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 1112912004013 Walker A/P-loop; other site 1112912004014 ATP binding site [chemical binding]; other site 1112912004015 Q-loop/lid; other site 1112912004016 ABC transporter signature motif; other site 1112912004017 Walker B; other site 1112912004018 D-loop; other site 1112912004019 H-loop/switch region; other site 1112912004020 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 1112912004021 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 1112912004022 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 1112912004023 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 1112912004024 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 1112912004025 30S subunit binding site; other site 1112912004026 PTS_IIA, PTS system, fructose/mannitol specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_fru; cd00211 1112912004027 active site 1112912004028 phosphorylation site [posttranslational modification] 1112912004029 Uncharacterized small protein [Function unknown]; Region: COG5568 1112912004030 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 1112912004031 Alpha-crystallin domain (ACD) found in Escherichia coli inclusion body-associated proteins IbpA and IbpB, and similar proteins. IbpA and IbpB are 16 kDa small heat shock proteins (sHsps). sHsps are molecular chaperones that suppress protein aggregation...; Region: ACD_IbpA-B_like; cd06470 1112912004032 putative dimer interface [polypeptide binding]; other site 1112912004033 Integral membrane protein [Function unknown]; Region: COG5488 1112912004034 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 1112912004035 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 1112912004036 minor groove reading motif; other site 1112912004037 helix-hairpin-helix signature motif; other site 1112912004038 substrate binding pocket [chemical binding]; other site 1112912004039 active site 1112912004040 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; pfam10576 1112912004041 CysZ-like protein; Reviewed; Region: PRK12768 1112912004042 Adenosine kinase (AK) catalyzes the phosphorylation of ribofuranosyl-containing nucleoside analogues at the 5'-hydroxyl using ATP or GTP as the phosphate donor.The physiological function of AK is associated with the regulation of extracellular...; Region: adenosine_kinase; cd01168 1112912004043 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1112912004044 substrate binding site [chemical binding]; other site 1112912004045 ATP binding site [chemical binding]; other site 1112912004046 Predicted membrane protein [Function unknown]; Region: COG2860 1112912004047 UPF0126 domain; Region: UPF0126; pfam03458 1112912004048 UPF0126 domain; Region: UPF0126; pfam03458 1112912004049 heat shock protein GrpE; Provisional; Region: PRK14141 1112912004050 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 1112912004051 dimer interface [polypeptide binding]; other site 1112912004052 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 1112912004053 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 1112912004054 ribonuclease PH; Reviewed; Region: rph; PRK00173 1112912004055 Ribonuclease PH; Region: RNase_PH_bact; cd11362 1112912004056 hexamer interface [polypeptide binding]; other site 1112912004057 active site 1112912004058 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1112912004059 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 1112912004060 putative metal binding site [ion binding]; other site 1112912004061 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 1112912004062 active site 1112912004063 dimerization interface [polypeptide binding]; other site 1112912004064 coproporphyrinogen III oxidase; Provisional; Region: PRK09057 1112912004065 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 1112912004066 FeS/SAM binding site; other site 1112912004067 HemN C-terminal domain; Region: HemN_C; pfam06969 1112912004068 Predicted methyltransferases [General function prediction only]; Region: COG0313 1112912004069 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 1112912004070 putative SAM binding site [chemical binding]; other site 1112912004071 putative homodimer interface [polypeptide binding]; other site 1112912004072 hypothetical protein; Reviewed; Region: PRK12497 1112912004073 Siroheme synthase (precorrin-2 oxidase/ferrochelatase domain) [Coenzyme metabolism]; Region: CysG; COG1648 1112912004074 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 1112912004075 Sirohaem synthase dimerisation region; Region: CysG_dimeriser; pfam10414 1112912004076 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 1112912004077 active site 1112912004078 SAM binding site [chemical binding]; other site 1112912004079 homodimer interface [polypeptide binding]; other site 1112912004080 Protein of unknown function (DUF2849); Region: DUF2849; pfam11011 1112912004081 Sulfite reductase, beta subunit (hemoprotein) [Inorganic ion transport and metabolism]; Region: CysI; COG0155 1112912004082 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 1112912004083 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 1112912004084 3'-phosphoadenosine 5'-phosphosulfate sulfotransferase (PAPS reductase)/FAD synthetase and related enzymes [Amino acid transport and metabolism / Coenzyme metabolism]; Region: CysH; COG0175 1112912004085 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 1112912004086 Active Sites [active] 1112912004087 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3749 1112912004088 Stress responsive A/B Barrel Domain; Region: Dabb; pfam07876 1112912004089 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 1112912004090 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 1112912004091 active site 1112912004092 DNA binding site [nucleotide binding] 1112912004093 BA14K-like protein; Region: BA14K; pfam07886 1112912004094 B12-dependent methionine synthase; Provisional; Region: metH; PRK09490 1112912004095 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; COG0646 1112912004096 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 1112912004097 substrate binding pocket [chemical binding]; other site 1112912004098 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 1112912004099 B12 binding site [chemical binding]; other site 1112912004100 cobalt ligand [ion binding]; other site 1112912004101 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 1112912004102 Dehydratase family; Region: ILVD_EDD; cl00340 1112912004103 Autoinducer binding domain; Region: Autoind_bind; pfam03472 1112912004104 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 1112912004105 DNA binding residues [nucleotide binding] 1112912004106 aminotransferase; Provisional; Region: PRK06105 1112912004107 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 1112912004108 inhibitor-cofactor binding pocket; inhibition site 1112912004109 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1112912004110 catalytic residue [active] 1112912004111 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 1112912004112 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 1112912004113 Active Sites [active] 1112912004114 bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Provisional; Region: PRK05506 1112912004115 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 1112912004116 CysD dimerization site [polypeptide binding]; other site 1112912004117 G1 box; other site 1112912004118 putative GEF interaction site [polypeptide binding]; other site 1112912004119 GTP/Mg2+ binding site [chemical binding]; other site 1112912004120 Switch I region; other site 1112912004121 G2 box; other site 1112912004122 G3 box; other site 1112912004123 Switch II region; other site 1112912004124 G4 box; other site 1112912004125 G5 box; other site 1112912004126 CysN_NodQ_II: This subfamily represents the domain II of the large subunit of ATP sulfurylase (ATPS): CysN or the N-terminal portion of NodQ, found mainly in proteobacteria and homologous to the domain II of EF-Tu. Escherichia coli ATPS consists of CysN...; Region: CysN_NodQ_II; cd03695 1112912004127 TCysN_NoDQ_II: This subfamily represents the domain II of the large subunit of ATP sulfurylase (ATPS): CysN or the N-terminal portion of NodQ, found mainly in proteobacteria and homologous to the domain II of EF-Tu. Escherichia coli ATPS consists of CysN...; Region: CysN_NoDQ_III; cd04095 1112912004128 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 1112912004129 ligand-binding site [chemical binding]; other site 1112912004130 CysQ, a 3'-Phosphoadenosine-5'-phosphosulfate (PAPS) 3'-phosphatase, is a bacterial member of the inositol monophosphatase family. It has been proposed that CysQ helps control intracellular levels of PAPS, which is an intermediate in...; Region: CysQ; cd01638 1112912004131 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 1112912004132 active site 1112912004133 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1112912004134 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 1112912004135 ligand binding site [chemical binding]; other site 1112912004136 flexible hinge region; other site 1112912004137 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 1112912004138 putative switch regulator; other site 1112912004139 non-specific DNA interactions [nucleotide binding]; other site 1112912004140 DNA binding site [nucleotide binding] 1112912004141 sequence specific DNA binding site [nucleotide binding]; other site 1112912004142 putative cAMP binding site [chemical binding]; other site 1112912004143 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 1112912004144 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; cl17531 1112912004145 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1112912004146 glycerol-3-phosphate dehydrogenase; Reviewed; Region: glpD; PRK12266 1112912004147 Ralstonia eutrophus NAD+-dependent acetaldehyde dehydrogenase II-like; Region: ALDH_ACDHII-AcoD; cd07116 1112912004148 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1112912004149 NAD(P) binding site [chemical binding]; other site 1112912004150 catalytic residues [active] 1112912004151 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 1112912004152 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD3; cd08297 1112912004153 NAD binding site [chemical binding]; other site 1112912004154 substrate binding site [chemical binding]; other site 1112912004155 catalytic Zn binding site [ion binding]; other site 1112912004156 tetramer interface [polypeptide binding]; other site 1112912004157 structural Zn binding site [ion binding]; other site 1112912004158 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3564 1112912004159 Bacillus subtilis NADP+-dependent alpha-ketoglutaric semialdehyde dehydrogenase ycbD-like; Region: ALDH_KGSADH-YcbD; cd07097 1112912004160 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1112912004161 NAD(P) binding site [chemical binding]; other site 1112912004162 catalytic residues [active] 1112912004163 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 1112912004164 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 1112912004165 dimer interface [polypeptide binding]; other site 1112912004166 conserved gate region; other site 1112912004167 putative PBP binding loops; other site 1112912004168 ABC-ATPase subunit interface; other site 1112912004169 Putative transcription activator [Transcription]; Region: TenA; COG0819 1112912004170 NMT1/THI5 like; Region: NMT1; pfam09084 1112912004171 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 1112912004172 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 1112912004173 active site 1112912004174 thiamine phosphate binding site [chemical binding]; other site 1112912004175 pyrophosphate binding site [ion binding]; other site 1112912004176 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 1112912004177 ThiS interaction site; other site 1112912004178 putative active site [active] 1112912004179 tetramer interface [polypeptide binding]; other site 1112912004180 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 1112912004181 thiS-thiF/thiG interaction site; other site 1112912004182 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1112912004183 glycine oxidase ThiO; Region: thiamin_ThiO; TIGR02352 1112912004184 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 1112912004185 dimer interface [polypeptide binding]; other site 1112912004186 substrate binding site [chemical binding]; other site 1112912004187 ATP binding site [chemical binding]; other site 1112912004188 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 1112912004189 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 1112912004190 putative active site [active] 1112912004191 heme pocket [chemical binding]; other site 1112912004192 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 1112912004193 putative active site [active] 1112912004194 heme pocket [chemical binding]; other site 1112912004195 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1112912004196 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1112912004197 metal binding site [ion binding]; metal-binding site 1112912004198 active site 1112912004199 I-site; other site 1112912004200 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 1112912004201 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 1112912004202 metal-binding site [ion binding] 1112912004203 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 1112912004204 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 1112912004205 metal-binding site [ion binding] 1112912004206 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1112912004207 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 1112912004208 Helix-Turn-Helix DNA binding domain of CueR-like transcription regulators; Region: HTH_CueR; cd01108 1112912004209 DNA binding residues [nucleotide binding] 1112912004210 dimer interface [polypeptide binding]; other site 1112912004211 copper binding site [ion binding]; other site 1112912004212 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 1112912004213 dimer interface [polypeptide binding]; other site 1112912004214 conserved gate region; other site 1112912004215 putative PBP binding loops; other site 1112912004216 ABC-ATPase subunit interface; other site 1112912004217 ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]; Region: OpuBA; COG1125 1112912004218 ATP-binding cassette domain of the osmoprotectant transporter; Region: ABC_OpuCA_Osmoprotection; cd03295 1112912004219 Walker A/P-loop; other site 1112912004220 ATP binding site [chemical binding]; other site 1112912004221 Q-loop/lid; other site 1112912004222 ABC transporter signature motif; other site 1112912004223 Walker B; other site 1112912004224 D-loop; other site 1112912004225 H-loop/switch region; other site 1112912004226 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 1112912004227 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 1112912004228 dimer interface [polypeptide binding]; other site 1112912004229 conserved gate region; other site 1112912004230 ABC-ATPase subunit interface; other site 1112912004231 Periplasmic glycine betaine/choline-binding (lipo)protein of an ABC-type transport system (osmoprotectant binding protein) [Cell envelope biogenesis, outer membrane]; Region: OpuBC; COG1732 1112912004232 Uncharacterized conserved protein [Function unknown]; Region: COG5514 1112912004233 heme-binding site [chemical binding]; other site 1112912004234 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 1112912004235 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 1112912004236 NAD(P) binding domain of glutamate dehydrogenase, subgroup 1; Region: NAD_bind_1_Glu_DH; cd01076 1112912004237 NAD(P) binding site [chemical binding]; other site 1112912004238 sarcosine oxidase, beta subunit family, heterotetrameric form; Region: soxB; TIGR01373 1112912004239 hydroxyglutarate oxidase; Provisional; Region: PRK11728 1112912004240 Sarcosine oxidase delta subunit [Amino acid transport and metabolism]; Region: SoxD; COG4311 1112912004241 sarcosine oxidase, alpha subunit family, heterotetrameric form; Region: soxA; TIGR01372 1112912004242 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_4; pfam13510 1112912004243 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 1112912004244 Sarcosine oxidase gamma subunit [Amino acid transport and metabolism]; Region: COG4583 1112912004245 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 1112912004246 Amidohydrolase; Region: Amidohydro_2; pfam04909 1112912004247 active site 1112912004248 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1112912004249 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 1112912004250 putative DNA binding site [nucleotide binding]; other site 1112912004251 putative Zn2+ binding site [ion binding]; other site 1112912004252 Bacterial transcriptional regulator; Region: IclR; pfam01614 1112912004253 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 1112912004254 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 1112912004255 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 1112912004256 dimer interface [polypeptide binding]; other site 1112912004257 conserved gate region; other site 1112912004258 putative PBP binding loops; other site 1112912004259 ABC-ATPase subunit interface; other site 1112912004260 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 1112912004261 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 1112912004262 dimer interface [polypeptide binding]; other site 1112912004263 conserved gate region; other site 1112912004264 putative PBP binding loops; other site 1112912004265 ABC-ATPase subunit interface; other site 1112912004266 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 1112912004267 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 1112912004268 Walker A/P-loop; other site 1112912004269 ATP binding site [chemical binding]; other site 1112912004270 Q-loop/lid; other site 1112912004271 ABC transporter signature motif; other site 1112912004272 Walker B; other site 1112912004273 D-loop; other site 1112912004274 H-loop/switch region; other site 1112912004275 TOBE domain; Region: TOBE_2; pfam08402 1112912004276 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 1112912004277 Mandelate racemase (MR)-like subfamily of the enolase superfamily. Enzymes of this subgroup share three conserved carboxylate ligands for the essential divalent metal ion (usually Mg2+), two aspartates and a glutamate, and conserved catalytic residues; Region: MR_like; cd03316 1112912004278 active site pocket [active] 1112912004279 Uncharacterized conserved protein [Function unknown]; Region: COG3254 1112912004280 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1112912004281 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1112912004282 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 1112912004283 human DHRS6-like, classical (c) SDRs; Region: DHRS6_like_SDR_c; cd05368 1112912004284 NAD binding site [chemical binding]; other site 1112912004285 homotetramer interface [polypeptide binding]; other site 1112912004286 homodimer interface [polypeptide binding]; other site 1112912004287 active site 1112912004288 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 1112912004289 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 1112912004290 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 1112912004291 Human rTS beta is encoded by the rTS gene which, through alternative RNA splicing, also encodes rTS alpha whose mRNA is complementary to thymidylate synthase mRNA. rTS beta expression is associated with the production of small molecules that appear to...; Region: rTSbeta_L-fuconate_dehydratase; cd03324 1112912004292 putative active site pocket [active] 1112912004293 metal binding site [ion binding]; metal-binding site 1112912004294 zinc-binding protein; Provisional; Region: PRK01343 1112912004295 Maf-like protein; Region: Maf; pfam02545 1112912004296 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 1112912004297 active site 1112912004298 dimer interface [polypeptide binding]; other site 1112912004299 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 1112912004300 rRNA binding site [nucleotide binding]; other site 1112912004301 predicted 30S ribosome binding site; other site 1112912004302 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 1112912004303 Low molecular weight phosphatase family; Region: LMWPc; cd00115 1112912004304 active site 1112912004305 hypothetical protein; Provisional; Region: PRK02853 1112912004306 Histidinol dehydrogenase [Amino acid transport and metabolism]; Region: HisD; COG0141 1112912004307 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 1112912004308 NAD binding site [chemical binding]; other site 1112912004309 dimerization interface [polypeptide binding]; other site 1112912004310 product binding site; other site 1112912004311 substrate binding site [chemical binding]; other site 1112912004312 zinc binding site [ion binding]; other site 1112912004313 catalytic residues [active] 1112912004314 Protein of unknown function (DUF2948); Region: DUF2948; pfam11164 1112912004315 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 1112912004316 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 1112912004317 hinge; other site 1112912004318 active site 1112912004319 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 1112912004320 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 1112912004321 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 1112912004322 active site 1112912004323 DNA binding site [nucleotide binding] 1112912004324 Int/Topo IB signature motif; other site 1112912004325 Prophage antirepressor [Transcription]; Region: COG3617 1112912004326 BRO family, N-terminal domain; Region: Bro-N; smart01040 1112912004327 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 1112912004328 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 1112912004329 catalytic residues [active] 1112912004330 catalytic nucleophile [active] 1112912004331 Presynaptic Site I dimer interface [polypeptide binding]; other site 1112912004332 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 1112912004333 Synaptic Flat tetramer interface [polypeptide binding]; other site 1112912004334 Synaptic Site I dimer interface [polypeptide binding]; other site 1112912004335 DNA binding site [nucleotide binding] 1112912004336 BRO family, N-terminal domain; Region: Bro-N; cl10591 1112912004337 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 1112912004338 non-specific DNA binding site [nucleotide binding]; other site 1112912004339 salt bridge; other site 1112912004340 sequence-specific DNA binding site [nucleotide binding]; other site 1112912004341 Urease accessory protein UreH [Posttranslational modification, protein turnover, chaperones]; Region: UreH; COG0829 1112912004342 Urease gamma-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, archaea, fungi and plants. Their primary role is to allow the use...; Region: Urease_gamma; cd00390 1112912004343 alpha-gamma subunit interface [polypeptide binding]; other site 1112912004344 beta-gamma subunit interface [polypeptide binding]; other site 1112912004345 Urease beta-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, archaea, fungi and plants. Their primary role is to allow the use of...; Region: Urease_beta; cd00407 1112912004346 gamma-beta subunit interface [polypeptide binding]; other site 1112912004347 alpha-beta subunit interface [polypeptide binding]; other site 1112912004348 urease subunit alpha; Reviewed; Region: ureC; PRK13207 1112912004349 Urease alpha-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, fungi and plants. Their primary role is to allow the use of...; Region: Urease_alpha; cd00375 1112912004350 subunit interactions [polypeptide binding]; other site 1112912004351 active site 1112912004352 flap region; other site 1112912004353 Urease accessory protein UreE [Posttranslational modification, protein turnover, chaperones]; Region: UreE; COG2371 1112912004354 UreE urease accessory protein. UreE is a metallochaperone assisting the insertion of a Ni2+ ion in the active site of urease, an important step in the in vivo assembly of urease, an enzyme that hydrolyses urea into ammonia and carbamic acid. The...; Region: UreE; cd00571 1112912004355 dimer interface [polypeptide binding]; other site 1112912004356 catalytic residues [active] 1112912004357 Urease accessory protein UreF [Posttranslational modification, protein turnover, chaperones]; Region: UreF; COG0830 1112912004358 UreF; Region: UreF; pfam01730 1112912004359 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 1112912004360 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1112912004361 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 1112912004362 ATP binding site [chemical binding]; other site 1112912004363 Mg2+ binding site [ion binding]; other site 1112912004364 G-X-G motif; other site 1112912004365 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1112912004366 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1112912004367 HlyD family secretion protein; Region: HlyD_3; pfam13437 1112912004368 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 1112912004369 phenylhydantoinase; Validated; Region: PRK08323 1112912004370 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 1112912004371 tetramer interface [polypeptide binding]; other site 1112912004372 active site 1112912004373 allantoate amidohydrolase; Reviewed; Region: PRK12893 1112912004374 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 1112912004375 active site 1112912004376 metal binding site [ion binding]; metal-binding site 1112912004377 dimer interface [polypeptide binding]; other site 1112912004378 pyrimidine utilization regulatory protein R; Region: RutR; TIGR03613 1112912004379 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1112912004380 YcdC-like protein, C-terminal region; Region: TetR_C_3; pfam08362 1112912004381 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_31; cd04690 1112912004382 nudix motif; other site 1112912004383 dihydropyrimidine dehydrogenase subunit B; Validated; Region: PRK08318 1112912004384 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 1112912004385 homodimer interface [polypeptide binding]; other site 1112912004386 active site 1112912004387 FMN binding site [chemical binding]; other site 1112912004388 substrate binding site [chemical binding]; other site 1112912004389 4Fe-4S binding domain; Region: Fer4; cl02805 1112912004390 4Fe-4S binding domain; Region: Fer4; pfam00037 1112912004391 dihydropyrimidine dehydrogenase subunit A; Provisional; Region: PRK11749 1112912004392 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1112912004393 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1112912004394 Carbon monoxide dehydrogenase subunit G (CoxG); Region: CoxG; cd05018 1112912004395 putative hydrophobic ligand binding site [chemical binding]; other site 1112912004396 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 1112912004397 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 1112912004398 active site 1112912004399 dimer interface [polypeptide binding]; other site 1112912004400 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 1112912004401 dimer interface [polypeptide binding]; other site 1112912004402 active site 1112912004403 Predicted deacylase [General function prediction only]; Region: COG3608 1112912004404 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like subfamily; subgroup includes Pseudomonas aeruginosa AotO; Region: M14_PaAOTO_like; cd06250 1112912004405 active site 1112912004406 Zn binding site [ion binding]; other site 1112912004407 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 1112912004408 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 1112912004409 motif II; other site 1112912004410 HAD-hyrolase-like; Region: Hydrolase_like; pfam13242 1112912004411 Predicted alpha/beta hydrolase [General function prediction only]; Region: COG4757 1112912004412 Long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07059 1112912004413 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1112912004414 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 1112912004415 acyl-activating enzyme (AAE) consensus motif; other site 1112912004416 putative AMP binding site [chemical binding]; other site 1112912004417 putative active site [active] 1112912004418 putative CoA binding site [chemical binding]; other site 1112912004419 DNA-binding transcriptional repressor AcrR; Provisional; Region: PRK10668 1112912004420 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1112912004421 MAATS-type transcriptional repressor, C-terminal region; Region: TetR_C_2; pfam08361 1112912004422 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1112912004423 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1112912004424 HlyD family secretion protein; Region: HlyD_3; pfam13437 1112912004425 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 1112912004426 Protein export membrane protein; Region: SecD_SecF; cl14618 1112912004427 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1112912004428 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 1112912004429 substrate binding pocket [chemical binding]; other site 1112912004430 membrane-bound complex binding site; other site 1112912004431 Glycosyltransferases, probably involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG1215 1112912004432 CESA_like_2 is a member of the cellulose synthase superfamily; Region: CESA_like_2; cd06427 1112912004433 DXD motif; other site 1112912004434 Uncharacterized conserved protein [Function unknown]; Region: COG2326 1112912004435 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 1112912004436 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 1112912004437 dimer interface [polypeptide binding]; other site 1112912004438 phosphorylation site [posttranslational modification] 1112912004439 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 1112912004440 ATP binding site [chemical binding]; other site 1112912004441 Mg2+ binding site [ion binding]; other site 1112912004442 G-X-G motif; other site 1112912004443 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5352 1112912004444 acetylornithine transaminase protein; Provisional; Region: argD; PRK01278 1112912004445 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 1112912004446 inhibitor-cofactor binding pocket; inhibition site 1112912004447 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1112912004448 catalytic residue [active] 1112912004449 ornithine carbamoyltransferase; Provisional; Region: PRK00779 1112912004450 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 1112912004451 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 1112912004452 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 1112912004453 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 1112912004454 dimerization interface [polypeptide binding]; other site 1112912004455 domain crossover interface; other site 1112912004456 redox-dependent activation switch; other site 1112912004457 CO2+/MG2+ efflux protein ApaG; Reviewed; Region: apaG; PRK05461 1112912004458 O-succinylhomoserine sulfhydrylase; Reviewed; Region: PRK07504 1112912004459 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 1112912004460 homodimer interface [polypeptide binding]; other site 1112912004461 substrate-cofactor binding pocket; other site 1112912004462 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1112912004463 catalytic residue [active] 1112912004464 2'-deoxycytidine 5'-triphosphate deaminase; Provisional; Region: PRK07559 1112912004465 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cl00493 1112912004466 trimer interface [polypeptide binding]; other site 1112912004467 active site 1112912004468 Deoxycytidine deaminase [Nucleotide transport and metabolism]; Region: Dcd; COG0717 1112912004469 trimer interface [polypeptide binding]; other site 1112912004470 active site 1112912004471 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 1112912004472 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 1112912004473 conserved cys residue [active] 1112912004474 Uncharacterized protein with SCP/PR1 domains [Function unknown]; Region: COG2340 1112912004475 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 1112912004476 DinF and similar proteins, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_DinF_like; cd13136 1112912004477 DNA-damage-inducible SOS response protein; Provisional; Region: PRK10367 1112912004478 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 1112912004479 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 1112912004480 quinone interaction residues [chemical binding]; other site 1112912004481 active site 1112912004482 catalytic residues [active] 1112912004483 FMN binding site [chemical binding]; other site 1112912004484 substrate binding site [chemical binding]; other site 1112912004485 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3502 1112912004486 proline iminopeptidase, Neisseria-type subfamily; Region: pro_imino_pep_1; TIGR01249 1112912004487 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 1112912004488 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1112912004489 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 1112912004490 active site 1112912004491 phosphorylation site [posttranslational modification] 1112912004492 intermolecular recognition site; other site 1112912004493 dimerization interface [polypeptide binding]; other site 1112912004494 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 1112912004495 DNA binding residues [nucleotide binding] 1112912004496 dimerization interface [polypeptide binding]; other site 1112912004497 Na+/proline symporter [Amino acid transport and metabolism / General function prediction only]; Region: PutP; COG0591 1112912004498 Na binding site [ion binding]; other site 1112912004499 PAS fold; Region: PAS_7; pfam12860 1112912004500 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1112912004501 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 1112912004502 dimer interface [polypeptide binding]; other site 1112912004503 phosphorylation site [posttranslational modification] 1112912004504 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 1112912004505 ATP binding site [chemical binding]; other site 1112912004506 Mg2+ binding site [ion binding]; other site 1112912004507 G-X-G motif; other site 1112912004508 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1112912004509 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 1112912004510 active site 1112912004511 phosphorylation site [posttranslational modification] 1112912004512 intermolecular recognition site; other site 1112912004513 dimerization interface [polypeptide binding]; other site 1112912004514 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 1112912004515 large-conductance mechanosensitive channel; Provisional; Region: mscL; PRK13952 1112912004516 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 1112912004517 KBL_like; this family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to serine palmitoyltransferase (SPT), 5-aminolevulinate synthase (ALAS); Region: KBL_like; cd06454 1112912004518 substrate-cofactor binding pocket; other site 1112912004519 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1112912004520 catalytic residue [active] 1112912004521 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 1112912004522 Putative catalytic NodB homology domain of PgaB, IcaB, and similar proteins which consist of a deformed (beta/alpha)8 barrel fold with 5- or 6-strands; Region: CE4_NodB_like_5s_6s; cd10918 1112912004523 putative active site [active] 1112912004524 putative metal binding site [ion binding]; other site 1112912004525 Glycosyltransferase family 25 [lipooligosaccharide (LOS) biosynthesis protein] is a family of glycosyltransferases involved in LOS biosynthesis. The members include the beta(1,4) galactosyltransferases: Lgt2 of Moraxella catarrhalis, LgtB and LgtE of...; Region: Glyco_transf_25; cd06532 1112912004526 Glycosyltransferase family 29 (sialyltransferase); Region: Glyco_transf_29; pfam00777 1112912004527 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1112912004528 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1112912004529 The C-terminal substrate binding domain of LysR-like transcriptional regulator CidR, contains the type 2 periplasmic binding fold; Region: PBP2_CidR; cd08438 1112912004530 putative dimerization interface [polypeptide binding]; other site 1112912004531 Putative effector of murein hydrolase LrgA [General function prediction only]; Region: COG1380 1112912004532 Putative effector of murein hydrolase [Cell envelope biogenesis, outer membrane]; Region: LrgB; COG1346 1112912004533 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4782 1112912004534 pantoate--beta-alanine ligase; Region: panC; TIGR00018 1112912004535 Pantoate-beta-alanine ligase; Region: PanC; cd00560 1112912004536 active site 1112912004537 ATP-binding site [chemical binding]; other site 1112912004538 pantoate-binding site; other site 1112912004539 HXXH motif; other site 1112912004540 Ketopantoate hydroxymethyltransferase (KPHMT) is the first enzyme in the pantothenate biosynthesis pathway. Ketopantoate hydroxymethyltransferase (KPHMT) catalyzes the first committed step in the biosynthesis of pantothenate (vitamin B5), which is a...; Region: KPHMT-like; cd06557 1112912004541 active site 1112912004542 oligomerization interface [polypeptide binding]; other site 1112912004543 metal binding site [ion binding]; metal-binding site 1112912004544 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 1112912004545 Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible electron transfer between NADP(H) and electron carrier proteins such as ferredoxin and flavodoxin. Isoforms of these flavoproteins (i.e. having a non-covalently...; Region: FNR1; cd06195 1112912004546 FAD binding pocket [chemical binding]; other site 1112912004547 FAD binding motif [chemical binding]; other site 1112912004548 phosphate binding motif [ion binding]; other site 1112912004549 beta-alpha-beta structure motif; other site 1112912004550 NAD binding pocket [chemical binding]; other site 1112912004551 carboxynorspermidine decarboxylase; Region: nspC; TIGR01047 1112912004552 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Carboxynorspermidine Decarboxylase; Region: PLPDE_III_CANSDC; cd06829 1112912004553 dimer interface [polypeptide binding]; other site 1112912004554 active site 1112912004555 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1112912004556 catalytic residues [active] 1112912004557 substrate binding site [chemical binding]; other site 1112912004558 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 1112912004559 NAD(P) binding domain of amino acid dehydrogenase-like proteins; Region: NAD_bind_amino_acid_DH; cl17226 1112912004560 NAD(P) binding pocket [chemical binding]; other site 1112912004561 Proline racemase [Amino acid transport and metabolism]; Region: COG3938 1112912004562 hydroxyproline-2-epimerase; Provisional; Region: PRK13971 1112912004563 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 1112912004564 multidrug efflux protein; Reviewed; Region: PRK01766 1112912004565 cation binding site [ion binding]; other site 1112912004566 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1112912004567 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 1112912004568 active site 1112912004569 phosphorylation site [posttranslational modification] 1112912004570 intermolecular recognition site; other site 1112912004571 dimerization interface [polypeptide binding]; other site 1112912004572 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 1112912004573 DNA binding residues [nucleotide binding] 1112912004574 dimerization interface [polypeptide binding]; other site 1112912004575 TRAP-type mannitol/chloroaromatic compound transport system, small permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT2; COG4665 1112912004576 TRAP-type mannitol/chloroaromatic compound transport system, large permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT3; COG4664 1112912004577 DctM-like transporters; Region: DctM; pfam06808 1112912004578 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 1112912004579 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 1112912004580 hypothetical protein; Provisional; Region: PRK11171 1112912004581 Protein of unknown function (DUF861); Region: Cupin_3; pfam05899 1112912004582 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 1112912004583 putative urate catabolism protein; Region: uraD_N-term-dom; TIGR03212 1112912004584 Catalytic domain of bacterial PuuE allantoinases, Schizosaccharomyces pombe chitin deacetylase 1 (SpCDA1), and similar proteins; Region: CE4_PuuE_SpCDA1; cd10977 1112912004585 active site 1112912004586 catalytic site [active] 1112912004587 tetramer interface [polypeptide binding]; other site 1112912004588 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3195 1112912004589 Transthyretin_like. This domain is present in the transthyretin-like protein (TLP) family which includes transthyretin (TTR) and a transthyretin-related protein called 5-hydroxyisourate hydrolase (HIUase). TTR and HIUase are homotetrameric proteins...; Region: Transthyretin_like; cl17222 1112912004590 homotetramer interface [polypeptide binding]; other site 1112912004591 active site 1112912004592 Xanthine dehydrogenase, iron-sulfur cluster and FAD-binding subunit A [Nucleotide transport and metabolism]; Region: XdhA; COG4630 1112912004593 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 1112912004594 catalytic loop [active] 1112912004595 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 1112912004596 iron binding site [ion binding]; other site 1112912004597 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 1112912004598 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; pfam03450 1112912004599 Xanthine dehydrogenase, molybdopterin-binding subunit B [Nucleotide transport and metabolism]; Region: XdhB; COG4631 1112912004600 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 1112912004601 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 1112912004602 xanthine dehydrogenase accessory protein XdhC; Region: xanthine_xdhC; TIGR02964 1112912004603 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 1112912004604 XdhC Rossmann domain; Region: XdhC_C; pfam13478 1112912004605 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1112912004606 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1112912004607 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 1112912004608 putative effector binding pocket; other site 1112912004609 dimerization interface [polypeptide binding]; other site 1112912004610 Predicted membrane protein [Function unknown]; Region: COG3748 1112912004611 Protein of unknown function (DUF989); Region: DUF989; pfam06181 1112912004612 Cytochrome c; Region: Cytochrom_C; pfam00034 1112912004613 guanine deaminase; Provisional; Region: PRK09228 1112912004614 Guanine deaminase (GDEase). Guanine deaminase is an aminohydrolase responsible for the conversion of guanine to xanthine and ammonia, the first step to utilize guanine as a nitrogen source. This reaction also removes the guanine base from the pool and...; Region: GDEase; cd01303 1112912004615 active site 1112912004616 Putative glycerate kinase [Carbohydrate transport and metabolism]; Region: GckA; COG2379 1112912004617 Domain of unknown function (DUF4147); Region: DUF4147; pfam13660 1112912004618 MOFRL family; Region: MOFRL; pfam05161 1112912004619 Cytochrome oxidase maturation protein cbb3-type; Region: CcoS; pfam03597 1112912004620 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 1112912004621 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 1112912004622 metal-binding site [ion binding] 1112912004623 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1112912004624 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 1112912004625 motif II; other site 1112912004626 Predicted integral membrane protein linked to a cation pump [Inorganic ion transport and metabolism]; Region: COG5456 1112912004627 FixH; Region: FixH; pfam05751 1112912004628 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 1112912004629 4Fe-4S binding domain; Region: Fer4_5; pfam12801 1112912004630 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 1112912004631 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 1112912004632 Cytochrome c; Region: Cytochrom_C; pfam00034 1112912004633 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 1112912004634 Cytochrome cbb oxidase CcoQ. Cytochrome cbb3 oxidase, the terminal oxidase in the respiratory chains of proteobacteria, is a multi-chain transmembrane protein located in the cell membrane. Like other cytochrome oxidases, it catalyzes the reduction of O2...; Region: cbb3_Oxidase_CcoQ; cd01324 1112912004635 Cbb3-type cytochrome oxidase, cytochrome c subunit [Energy production and conversion]; Region: CcoO; COG2993 1112912004636 Cytochrome C oxidase, mono-heme subunit/FixO; Region: FixO; pfam02433 1112912004637 Cytochrome cbb3 oxidase subunit I. Cytochrome cbb3 oxidase, the terminal oxidase in the respiratory chains of proteobacteria, is a multi-chain transmembrane protein located in the cell membrane. Like other cytochrome oxidases, it catalyzes the reduction...; Region: cbb3_Oxidase_I; cd01661 1112912004638 Low-spin heme binding site [chemical binding]; other site 1112912004639 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 1112912004640 Putative water exit pathway; other site 1112912004641 Binuclear center (active site) [active] 1112912004642 Putative proton exit pathway; other site 1112912004643 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 1112912004644 metal binding site 2 [ion binding]; metal-binding site 1112912004645 putative DNA binding helix; other site 1112912004646 metal binding site 1 [ion binding]; metal-binding site 1112912004647 dimer interface [polypeptide binding]; other site 1112912004648 DsbA family, Com1-like subfamily; composed of proteins similar to Com1, a 27-kDa outer membrane-associated immunoreactive protein originally found in both acute and chronic disease strains of the pathogenic bacteria Coxiella burnetti. It contains a CXXC...; Region: DsbA_Com1_like; cd03023 1112912004649 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 1112912004650 catalytic residues [active] 1112912004651 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1112912004652 Salicylaldehyde dehydrogenase, DoxF-like; Region: ALDH_SaliADH; cd07105 1112912004653 NAD(P) binding site [chemical binding]; other site 1112912004654 catalytic residues [active] 1112912004655 bifunctional DNA-binding transcriptional dual regulator/O6-methylguanine-DNA methyltransferase; Provisional; Region: PRK15435 1112912004656 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 1112912004657 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1112912004658 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1112912004659 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 1112912004660 DNA binding site [nucleotide binding] 1112912004661 active site 1112912004662 Arsenate Reductase (ArsC) family, Yffb subfamily; Yffb is an uncharacterized bacterial protein encoded by the yffb gene, related to the thioredoxin-fold arsenic reductases, ArsC. The structure of Yffb and the conservation of the catalytic cysteine...; Region: ArsC_Yffb; cd03035 1112912004663 ArsC family; Region: ArsC; pfam03960 1112912004664 putative catalytic residues [active] 1112912004665 Predicted membrane protein [Function unknown]; Region: COG4129 1112912004666 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 1112912004667 microcin B17 transporter; Reviewed; Region: PRK11098 1112912004668 Putative catalytic domain of uncharacterized bacterial hypothetical proteins similar to insect chitin deacetylase-like proteins; Region: CE4_CDA_like_3; cd10976 1112912004669 NodB motif; other site 1112912004670 putative active site [active] 1112912004671 putative catalytic site [active] 1112912004672 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4649 1112912004673 GTP-binding protein Der; Reviewed; Region: PRK00093 1112912004674 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 1112912004675 G1 box; other site 1112912004676 GTP/Mg2+ binding site [chemical binding]; other site 1112912004677 Switch I region; other site 1112912004678 G2 box; other site 1112912004679 Switch II region; other site 1112912004680 G3 box; other site 1112912004681 G4 box; other site 1112912004682 G5 box; other site 1112912004683 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 1112912004684 G1 box; other site 1112912004685 GTP/Mg2+ binding site [chemical binding]; other site 1112912004686 Switch I region; other site 1112912004687 G2 box; other site 1112912004688 G3 box; other site 1112912004689 Switch II region; other site 1112912004690 G4 box; other site 1112912004691 G5 box; other site 1112912004692 Molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: DnaK; COG0443 1112912004693 Escherichia coli YegD, a putative chaperone protein, and related proteins; Region: YegD_like; cd10231 1112912004694 nucleotide binding site [chemical binding]; other site 1112912004695 putative NEF/HSP70 interaction site [polypeptide binding]; other site 1112912004696 SBD interface [polypeptide binding]; other site 1112912004697 Cell wall hydrolyses involved in spore germination [Cell envelope biogenesis, outer membrane]; Region: SleB; COG3773 1112912004698 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 1112912004699 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5336 1112912004700 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 1112912004701 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 1112912004702 F0F1 ATP synthase subunit C; Validated; Region: PRK07558 1112912004703 F0F1 ATP synthase subunit B'; Validated; Region: PRK09174 1112912004704 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 1112912004705 F0F1 ATP synthase subunit B; Validated; Region: PRK09173 1112912004706 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 1112912004707 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 1112912004708 RNA/DNA hybrid binding site [nucleotide binding]; other site 1112912004709 active site 1112912004710 DNA repair photolyase [DNA replication, recombination, and repair]; Region: SplB; COG1533 1112912004711 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 1112912004712 FeS/SAM binding site; other site 1112912004713 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 1112912004714 active site 1112912004715 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: PRK14608 1112912004716 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 1112912004717 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 1112912004718 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 1112912004719 tandem repeat interface [polypeptide binding]; other site 1112912004720 oligomer interface [polypeptide binding]; other site 1112912004721 active site residues [active] 1112912004722 pH-dependent sodium/proton antiporter; Reviewed; Region: nhaA; PRK09560 1112912004723 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 1112912004724 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 1112912004725 Domain of unknown function (DUF2007); Region: DUF2007; pfam09413 1112912004726 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 1112912004727 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 1112912004728 substrate binding pocket [chemical binding]; other site 1112912004729 chain length determination region; other site 1112912004730 substrate-Mg2+ binding site; other site 1112912004731 catalytic residues [active] 1112912004732 aspartate-rich region 1; other site 1112912004733 active site lid residues [active] 1112912004734 aspartate-rich region 2; other site 1112912004735 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 1112912004736 binding surface 1112912004737 TPR motif; other site 1112912004738 TPR repeat; Region: TPR_11; pfam13414 1112912004739 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 1112912004740 binding surface 1112912004741 TPR motif; other site 1112912004742 TPR repeat; Region: TPR_11; pfam13414 1112912004743 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 1112912004744 binding surface 1112912004745 TPR motif; other site 1112912004746 TPR repeat; Region: TPR_11; pfam13414 1112912004747 Class II Glycyl-tRNA synthetase (GlyRS) alpha subunit core catalytic domain. GlyRS functions as a homodimer in eukaryotes, archaea and some bacteria and as a heterotetramer in the remainder of prokaryotes and in arabidopsis. It is responsible for the...; Region: GlyRS_alpha_core; cd00733 1112912004748 dimer interface [polypeptide binding]; other site 1112912004749 motif 1; other site 1112912004750 active site 1112912004751 motif 2; other site 1112912004752 motif 3; other site 1112912004753 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 1112912004754 DALR anticodon binding domain; Region: DALR_1; pfam05746 1112912004755 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 1112912004756 Putative GTP-binding controlling metal-binding; Region: SUA5; pfam03481 1112912004757 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 1112912004758 FAD binding domain; Region: FAD_binding_4; pfam01565 1112912004759 Plasmid stabilization system protein [General function prediction only]; Region: ParE; COG3668 1112912004760 Predicted transcriptional regulator [Transcription]; Region: COG3905 1112912004761 enoyl-CoA hydratase; Provisional; Region: PRK06688 1112912004762 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 1112912004763 substrate binding site [chemical binding]; other site 1112912004764 oxyanion hole (OAH) forming residues; other site 1112912004765 trimer interface [polypeptide binding]; other site 1112912004766 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1112912004767 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1112912004768 active site 1112912004769 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 1112912004770 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 1112912004771 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 1112912004772 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 1112912004773 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 1112912004774 4-hydroxybenzoate polyprenyltransferase; Reviewed; Region: ubiA; PRK12878 1112912004775 UbiA prenyltransferase family; Region: UbiA; pfam01040 1112912004776 pyridoxamine 5'-phosphate oxidase; Provisional; Region: PRK05679 1112912004777 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 1112912004778 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 1112912004779 chaperone protein DnaJ; Provisional; Region: PRK14299 1112912004780 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 1112912004781 HSP70 interaction site [polypeptide binding]; other site 1112912004782 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 1112912004783 dimer interface [polypeptide binding]; other site 1112912004784 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK08159 1112912004785 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 1112912004786 NAD binding site [chemical binding]; other site 1112912004787 homotetramer interface [polypeptide binding]; other site 1112912004788 homodimer interface [polypeptide binding]; other site 1112912004789 substrate binding site [chemical binding]; other site 1112912004790 active site 1112912004791 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: DUF374; Region: LPLAT_DUF374-like; cd07983 1112912004792 putative acyl-acceptor binding pocket; other site 1112912004793 Protein of unknown function (DUF1344); Region: DUF1344; pfam07076 1112912004794 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 1112912004795 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 1112912004796 Tetramer interface [polypeptide binding]; other site 1112912004797 active site 1112912004798 FMN-binding site [chemical binding]; other site 1112912004799 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09314 1112912004800 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 1112912004801 GTP cyclohydrolase II [Coenzyme metabolism]; Region: RibA; COG0807 1112912004802 dimerization interface [polypeptide binding]; other site 1112912004803 active site 1112912004804 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 1112912004805 Histone deacetylases and histone-like deacetylases, classII; Region: HDAC_classII_2; cd11599 1112912004806 putative active site [active] 1112912004807 Zn binding site [ion binding]; other site 1112912004808 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 1112912004809 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 1112912004810 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 1112912004811 Predicted membrane protein [Function unknown]; Region: COG2261 1112912004812 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3753 1112912004813 Pirin-related protein [General function prediction only]; Region: COG1741 1112912004814 Pirin; Region: Pirin; pfam02678 1112912004815 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 1112912004816 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 1112912004817 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 1112912004818 TPP-binding site; other site 1112912004819 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 1112912004820 PYR/PP interface [polypeptide binding]; other site 1112912004821 dimer interface [polypeptide binding]; other site 1112912004822 TPP binding site [chemical binding]; other site 1112912004823 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1112912004824 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 1112912004825 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 1112912004826 RNA binding surface [nucleotide binding]; other site 1112912004827 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 1112912004828 S-adenosylmethionine binding site [chemical binding]; other site 1112912004829 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 1112912004830 Methyltransferase domain; Region: Methyltransf_26; pfam13659 1112912004831 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 1112912004832 Predicted periplasmic protein [General function prediction only]; Region: COG3895 1112912004833 Membrane-bound lysozyme-inhibitor of c-type lysozyme; Region: MliC; pfam09864 1112912004834 Uncharacterized protein containing LysM domain [Function unknown]; Region: XkdP; COG1652 1112912004835 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1112912004836 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1112912004837 ABC-type transport system involved in Fe-S cluster assembly, permease and ATPase components [Posttranslational modification, protein turnover, chaperones]; Region: ATM1; COG5265 1112912004838 ATP-binding cassette domain of iron-sulfur clusters transporter, subfamily C; Region: ABCC_ATM1_transporter; cd03253 1112912004839 Walker A/P-loop; other site 1112912004840 ATP binding site [chemical binding]; other site 1112912004841 Q-loop/lid; other site 1112912004842 ABC transporter signature motif; other site 1112912004843 Walker B; other site 1112912004844 D-loop; other site 1112912004845 H-loop/switch region; other site 1112912004846 phosphatidylserine decarboxylase; Provisional; Region: PRK05305 1112912004847 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 1112912004848 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 1112912004849 putative oxoacyl-(acyl carrier protein) reductase; Provisional; Region: PRK08945 1112912004850 classical (c) SDRs; Region: SDR_c; cd05233 1112912004851 NAD(P) binding site [chemical binding]; other site 1112912004852 active site 1112912004853 amidophosphoribosyltransferase; Provisional; Region: PRK09123 1112912004854 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 1112912004855 active site 1112912004856 tetramer interface [polypeptide binding]; other site 1112912004857 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1112912004858 active site 1112912004859 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 1112912004860 Colicin V production protein; Region: Colicin_V; pfam02674 1112912004861 DNA repair protein RadA; Provisional; Region: PRK11823 1112912004862 Sms (bacterial radA) DNA repair protein. This protein is not related to archael radA any more than is to other RecA-like NTPases. Sms has a role in recombination and recombinational repair and is responsible for the stabilization or processing of...; Region: Sms; cd01121 1112912004863 Walker A motif/ATP binding site; other site 1112912004864 ATP binding site [chemical binding]; other site 1112912004865 Walker B motif; other site 1112912004866 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 1112912004867 replicative DNA helicase; Provisional; Region: PRK09165 1112912004868 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 1112912004869 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 1112912004870 Walker A motif; other site 1112912004871 ATP binding site [chemical binding]; other site 1112912004872 Walker B motif; other site 1112912004873 DNA binding loops [nucleotide binding] 1112912004874 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 1112912004875 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 1112912004876 S-adenosylmethionine binding site [chemical binding]; other site 1112912004877 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 1112912004878 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 1112912004879 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 1112912004880 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 1112912004881 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 1112912004882 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 1112912004883 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 1112912004884 3-ketoacyl-(acyl-carrier-protein) reductase NodG; Reviewed; Region: PRK12936 1112912004885 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 1112912004886 NAD(P) binding site [chemical binding]; other site 1112912004887 homotetramer interface [polypeptide binding]; other site 1112912004888 homodimer interface [polypeptide binding]; other site 1112912004889 active site 1112912004890 acyl carrier protein; Provisional; Region: acpP; PRK00982 1112912004891 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK07314 1112912004892 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 1112912004893 dimer interface [polypeptide binding]; other site 1112912004894 active site 1112912004895 Aminodeoxychorismate lyase [Coenzyme transport and metabolism]; Region: COG1559 1112912004896 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 1112912004897 dimerization interface [polypeptide binding]; other site 1112912004898 Uncharacterized stress-induced protein [Function unknown]; Region: COG1561 1112912004899 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 1112912004900 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 1112912004901 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 1112912004902 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 1112912004903 catalytic site [active] 1112912004904 G-X2-G-X-G-K; other site 1112912004905 protease TldD; Provisional; Region: tldD; PRK10735 1112912004906 Invasion protein B, involved in pathogenesis [General function prediction only]; Region: COG5342 1112912004907 Heme/copper-type cytochrome/quinol oxidases, subunit 2 [Energy production and conversion]; Region: CyoA; COG1622 1112912004908 Cytochrome C oxidase subunit II, transmembrane domain; Region: COX2_TM; pfam02790 1112912004909 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 1112912004910 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 1112912004911 Cytochrome C oxidase subunit I. Cytochrome c oxidase (CcO), the terminal oxidase in the respiratory chains of eukaryotes and most bacteria, is a multi-chain transmembrane protein located in the inner membrane of mitochondria and the cell membrane of...; Region: Cyt_c_Oxidase_I; cd01663 1112912004912 Subunit I/III interface [polypeptide binding]; other site 1112912004913 D-pathway; other site 1112912004914 Subunit I/VIIc interface [polypeptide binding]; other site 1112912004915 Subunit I/IV interface [polypeptide binding]; other site 1112912004916 Subunit I/II interface [polypeptide binding]; other site 1112912004917 Low-spin heme (heme a) binding site [chemical binding]; other site 1112912004918 Subunit I/VIIa interface [polypeptide binding]; other site 1112912004919 Subunit I/VIa interface [polypeptide binding]; other site 1112912004920 Dimer interface; other site 1112912004921 Putative water exit pathway; other site 1112912004922 Binuclear center (heme a3/CuB) [ion binding]; other site 1112912004923 K-pathway; other site 1112912004924 Subunit I/Vb interface [polypeptide binding]; other site 1112912004925 Putative proton exit pathway; other site 1112912004926 Subunit I/VIb interface; other site 1112912004927 Subunit I/VIc interface [polypeptide binding]; other site 1112912004928 Electron transfer pathway; other site 1112912004929 Subunit I/VIIIb interface [polypeptide binding]; other site 1112912004930 Subunit I/VIIb interface [polypeptide binding]; other site 1112912004931 protoheme IX farnesyltransferase; Provisional; Region: PRK04375 1112912004932 UbiA prenyltransferase family; Region: UbiA; pfam01040 1112912004933 Cytochrome oxidase assembly factor [Posttranslational modification, protein turnover, chaperones]; Region: COX11; COG3175 1112912004934 Cytochrome c oxidase subunit III. Cytochrome c oxidase (CcO), the terminal oxidase in the respiratory chains of eukaryotes and most bacteria, is a multi-chain transmembrane protein located in the inner membrane of mitochondria and the cell membrane of...; Region: Cyt_c_Oxidase_III; cd01665 1112912004935 Subunit III/VIIa interface [polypeptide binding]; other site 1112912004936 Phospholipid binding site [chemical binding]; other site 1112912004937 Subunit I/III interface [polypeptide binding]; other site 1112912004938 Subunit III/VIb interface [polypeptide binding]; other site 1112912004939 Subunit III/VIa interface; other site 1112912004940 Subunit III/Vb interface [polypeptide binding]; other site 1112912004941 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5349 1112912004942 SURF1 superfamily. Surf1/Shy1 has been implicated in the posttranslational steps of the biogenesis of the mitochondrially-encoded Cox1 subunit of cytochrome c oxidase (complex IV). Cytochrome c oxidase (complex IV), the terminal electron-transferring...; Region: SURF1; cd06662 1112912004943 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 1112912004944 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 1112912004945 Putative homoserine kinase type II (protein kinase fold) [General function prediction only]; Region: COG2334 1112912004946 Homoserine Kinase, type II. Homoserine kinase is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs), RIO kinases, actin-fragmin kinase (AFK), and...; Region: HomoserineK_II; cd05153 1112912004947 putative active site [active] 1112912004948 putative substrate binding site [chemical binding]; other site 1112912004949 ATP binding site [chemical binding]; other site 1112912004950 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 1112912004951 RNA/DNA hybrid binding site [nucleotide binding]; other site 1112912004952 active site 1112912004953 Peroxiredoxin (PRX) family, PRX5-like subfamily; members are similar to the human protein, PRX5, a homodimeric TRX peroxidase, widely expressed in tissues and found cellularly in mitochondria, peroxisomes and the cytosol. The cellular location of PRX5...; Region: PRX5_like; cd03013 1112912004954 catalytic triad [active] 1112912004955 dimer interface [polypeptide binding]; other site 1112912004956 Uncharacterized protein predicted to be involved in C-type cytochrome biogenesis [Posttranslational modification, protein turnover, chaperones / Energy production and conversion]; Region: COG4233 1112912004957 hypothetical protein; Validated; Region: PRK00228 1112912004958 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 1112912004959 PAS fold; Region: PAS_3; pfam08447 1112912004960 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1112912004961 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1112912004962 metal binding site [ion binding]; metal-binding site 1112912004963 active site 1112912004964 I-site; other site 1112912004965 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 1112912004966 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 1112912004967 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1112912004968 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 1112912004969 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 1112912004970 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1112912004971 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 1112912004972 Threonine synthase catalyzes the final step of threonine biosynthesis. The conversion of O-phosphohomoserine into threonine and inorganic phosphate is pyridoxal 5'-phosphate dependent. The Thr-synth_1 CD includes members from higher plants; Region: Thr-synth_2; cd01560 1112912004973 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1112912004974 catalytic residue [active] 1112912004975 Predicted signal transduction protein containing sensor and EAL domains [Signal transduction mechanisms]; Region: COG4943 1112912004976 CSS motif domain associated with EAL; Region: CSS-motif; pfam12792 1112912004977 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 1112912004978 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 1112912004979 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 1112912004980 active site 1112912004981 motif I; other site 1112912004982 motif II; other site 1112912004983 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 1112912004984 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 1112912004985 Cl- selectivity filter; other site 1112912004986 Cl- binding residues [ion binding]; other site 1112912004987 pore gating glutamate residue; other site 1112912004988 dimer interface [polypeptide binding]; other site 1112912004989 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 1112912004990 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 1112912004991 DNA methylase; Region: N6_N4_Mtase; pfam01555 1112912004992 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 1112912004993 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 1112912004994 motif II; other site 1112912004995 A/G-specific DNA glycosylase [DNA replication, recombination, and repair]; Region: MutY; COG1194 1112912004996 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 1112912004997 minor groove reading motif; other site 1112912004998 helix-hairpin-helix signature motif; other site 1112912004999 substrate binding pocket [chemical binding]; other site 1112912005000 active site 1112912005001 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 1112912005002 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 1112912005003 DNA binding and oxoG recognition site [nucleotide binding] 1112912005004 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5389 1112912005005 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 1112912005006 DsbA family; consists of DsbA and DsbA-like proteins, including DsbC, DsbG, glutathione (GSH) S-transferase kappa (GSTK), 2-hydroxychromene-2-carboxylate (HCCA) isomerase, an oxidoreductase (FrnE) presumed to be involved in frenolicin biosynthesis, a...; Region: DsbA_family; cd02972 1112912005007 catalytic residues [active] 1112912005008 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 1112912005009 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 1112912005010 Walker A/P-loop; other site 1112912005011 ATP binding site [chemical binding]; other site 1112912005012 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 1112912005013 ABC transporter signature motif; other site 1112912005014 Walker B; other site 1112912005015 D-loop; other site 1112912005016 H-loop/switch region; other site 1112912005017 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 1112912005018 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1112912005019 N-terminal domain of Streptomyces griseus SgaA (suppression of growth disturbance caused by A-factor at a high concentration under high osmolality during early growth phase), and similar domains; Region: SgaA_N_like; cd07247 1112912005020 pyruvate phosphate dikinase; Provisional; Region: PRK09279 1112912005021 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 1112912005022 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 1112912005023 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 1112912005024 Protein of unknown function (DUF1499); Region: DUF1499; pfam07386 1112912005025 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 1112912005026 Uncharacterized conserved protein [General function prediction only]; Region: BioY; COG1268 1112912005027 Ureidoglycolate hydrolase [Nucleotide transport and metabolism]; Region: DAL3; COG3194 1112912005028 ureidoglycolate hydrolase; Provisional; Region: PRK03606 1112912005029 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 1112912005030 active site 1112912005031 homotetramer interface [polypeptide binding]; other site 1112912005032 Protein of unknown function (DUF2793); Region: DUF2793; pfam10983 1112912005033 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 1112912005034 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 1112912005035 NAD(P) binding site [chemical binding]; other site 1112912005036 homodimer interface [polypeptide binding]; other site 1112912005037 substrate binding site [chemical binding]; other site 1112912005038 active site 1112912005039 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 1112912005040 The members of this subfamily catalyze the formation of a phosphodiester bond between a membrane-associated undecaprenyl-phosphate (Und-P) molecule and N-acetylhexosamine 1-phosphate, which is usually donated by a soluble UDP-N-acetylhexosamine precursor; Region: GT_WbpL_WbcO_like; cd06854 1112912005041 Mg++ binding site [ion binding]; other site 1112912005042 putative catalytic motif [active] 1112912005043 putative substrate binding site [chemical binding]; other site 1112912005044 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 1112912005045 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1112912005046 Integrase core domain; Region: rve_3; pfam13683 1112912005047 HTH-like domain; Region: HTH_21; pfam13276 1112912005048 Integrase core domain; Region: rve; pfam00665 1112912005049 Methionyl-tRNA formyltransferase [Translation, ribosomal structure and biogenesis]; Region: Fmt; COG0223 1112912005050 Formyltransferase, catalytic core domain; Region: FMT_core; cd08369 1112912005051 active site 1112912005052 substrate binding site [chemical binding]; other site 1112912005053 cosubstrate binding site; other site 1112912005054 catalytic site [active] 1112912005055 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 1112912005056 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 1112912005057 Walker A/P-loop; other site 1112912005058 ATP binding site [chemical binding]; other site 1112912005059 Q-loop/lid; other site 1112912005060 ABC transporter signature motif; other site 1112912005061 Walker B; other site 1112912005062 D-loop; other site 1112912005063 H-loop/switch region; other site 1112912005064 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 1112912005065 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 1112912005066 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 1112912005067 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 1112912005068 inhibitor-cofactor binding pocket; inhibition site 1112912005069 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1112912005070 catalytic residue [active] 1112912005071 GDP-D-mannose dehydratase [Cell envelope biogenesis, outer membrane]; Region: Gmd; COG1089 1112912005072 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 1112912005073 NADP-binding site; other site 1112912005074 homotetramer interface [polypeptide binding]; other site 1112912005075 substrate binding site [chemical binding]; other site 1112912005076 homodimer interface [polypeptide binding]; other site 1112912005077 active site 1112912005078 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 1112912005079 Integrase core domain; Region: rve; pfam00665 1112912005080 DDE domain; Region: DDE_Tnp_IS240; pfam13610 1112912005081 Integrase core domain; Region: rve_3; pfam13683 1112912005082 heme biosynthesis-associated TPR protein; Region: TPR_hemY_coli; TIGR00540 1112912005083 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3293 1112912005084 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1112912005085 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1112912005086 This family is most closely related to the GT1 family of glycosyltransferases. mtfB (mannosyltransferase B) in E. coli has been shown to direct the growth of the O9-specific polysaccharide chain. It transfers two mannoses into the position 3 of the...; Region: GT1_mtfB_like; cd03809 1112912005087 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 1112912005088 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 1112912005089 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 1112912005090 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1112912005091 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3293 1112912005092 ManB is a bacterial phosphomannomutase (PMM) that catalyzes the conversion of mannose 6-phosphate to mannose-1-phosphate in the second of three steps in the GDP-mannose pathway, in which GDP-D-mannose is synthesized from fructose-6-phosphate. In...; Region: ManB; cd03088 1112912005093 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 1112912005094 active site 1112912005095 substrate binding site [chemical binding]; other site 1112912005096 metal binding site [ion binding]; metal-binding site 1112912005097 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 1112912005098 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 1112912005099 Substrate binding site; other site 1112912005100 Mannose-6-phosphate isomerase; Region: MannoseP_isomer; pfam01050 1112912005101 AGE domain; N-acyl-D-glucosamine 2-epimerase domain; Responsible for intermediate epimerization during biosynthesis of N-acetylneuraminic acid. Catalytic mechanism is believed to be via nucleotide elimination and readdition and is ATP modulated. AGE is...; Region: AGE; cd00249 1112912005102 dimerization interface [polypeptide binding]; other site 1112912005103 putative active cleft [active] 1112912005104 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1112912005105 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_4; cd03795 1112912005106 putative ADP-binding pocket [chemical binding]; other site 1112912005107 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 1112912005108 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1112912005109 Walker A/P-loop; other site 1112912005110 ATP binding site [chemical binding]; other site 1112912005111 Q-loop/lid; other site 1112912005112 ABC transporter signature motif; other site 1112912005113 Walker B; other site 1112912005114 D-loop; other site 1112912005115 H-loop/switch region; other site 1112912005116 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1112912005117 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1112912005118 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 1112912005119 TM-ABC transporter signature motif; other site 1112912005120 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 1112912005121 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_3; cd06311 1112912005122 putative ligand binding site [chemical binding]; other site 1112912005123 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 1112912005124 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 1112912005125 Metal-binding active site; metal-binding site 1112912005126 AP endonuclease family 2 C terminus; Region: AP_endonuc_2_N; pfam07582 1112912005127 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1112912005128 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1112912005129 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 1112912005130 xylose isomerase; Provisional; Region: PRK05474 1112912005131 xylose isomerase; Region: xylose_isom_A; TIGR02630 1112912005132 Escherichia coli xylulokinase-like D-xylulose kinases; a subgroup of the FGGY family of carbohydrate kinases; Region: FGGY_D-XK_EcXK-like; cd07808 1112912005133 N- and C-terminal domain interface [polypeptide binding]; other site 1112912005134 D-xylulose kinase; Region: XylB; TIGR01312 1112912005135 active site 1112912005136 MgATP binding site [chemical binding]; other site 1112912005137 catalytic site [active] 1112912005138 metal binding site [ion binding]; metal-binding site 1112912005139 xylulose binding site [chemical binding]; other site 1112912005140 homodimer interface [polypeptide binding]; other site 1112912005141 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1112912005142 DNA binding site [nucleotide binding] 1112912005143 domain linker motif; other site 1112912005144 Periplasmic sugar-binding domain of uncharacterized transport systems; Region: PBP1_uncharacterized_sugar_binding; cd06307 1112912005145 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 1112912005146 putative ligand binding site [chemical binding]; other site 1112912005147 Helix-turn-helix domain; Region: HTH_18; pfam12833 1112912005148 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1112912005149 betaine aldehyde dehydrogenase; Provisional; Region: PRK13252 1112912005150 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 1112912005151 NAD(P) binding site [chemical binding]; other site 1112912005152 catalytic residues [active] 1112912005153 choline dehydrogenase; Validated; Region: PRK02106 1112912005154 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 1112912005155 transcriptional regulator BetI; Validated; Region: PRK00767 1112912005156 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1112912005157 Bacterial transcriptional repressor; Region: TetR_C_6; pfam13977 1112912005158 L-asparaginase II [Amino acid transport and metabolism]; Region: AnsA; COG4448 1112912005159 transcription elongation factor regulatory protein; Validated; Region: PRK06342 1112912005160 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 1112912005161 Prophage maintenance system killer protein [General function prediction only]; Region: Doc; COG3654 1112912005162 putative addiction module antidote; Region: doc_partner; TIGR02609 1112912005163 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 1112912005164 uncharacterized subgroup of the Escherichia coli Mg2+ transporter CorA_like subfamily; Region: EcCorA-like_u1; cd12837 1112912005165 Cl binding site [ion binding]; other site 1112912005166 oligomer interface [polypeptide binding]; other site 1112912005167 Transcriptional regulators [Transcription]; Region: FadR; COG2186 1112912005168 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1112912005169 DNA-binding site [nucleotide binding]; DNA binding site 1112912005170 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 1112912005171 Cyanate permease [Inorganic ion transport and metabolism]; Region: CynX; COG2807 1112912005172 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 1112912005173 putative substrate translocation pore; other site 1112912005174 Bacterial protein of unknown function (DUF853); Region: DUF853; pfam05872 1112912005175 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 1112912005176 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 1112912005177 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 1112912005178 2-haloalkanoic acid dehalogenase, type II; Region: HAD_type_II; TIGR01428 1112912005179 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 1112912005180 motif II; other site 1112912005181 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 1112912005182 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 1112912005183 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 1112912005184 Protease II [Amino acid transport and metabolism]; Region: PtrB; COG1770 1112912005185 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1112912005186 Predicted transcriptional regulator [Transcription]; Region: COG4957 1112912005187 ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]; Region: DnaA; COG0593 1112912005188 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 1112912005189 DnaA box-binding interface [nucleotide binding]; other site 1112912005190 amidase; Validated; Region: PRK05962 1112912005191 amidase; Provisional; Region: PRK07056 1112912005192 Cysteine desulfurase SufE subunit [Posttranslational modification, protein turnover, chaperones]; Region: sufE; COG2166 1112912005193 Flavin Reductases; Region: FlaRed; cl00801 1112912005194 Bacterial virulence protein (VirJ); Region: VirJ; pfam06057 1112912005195 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 1112912005196 putative active site [active] 1112912005197 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1112912005198 heme pocket [chemical binding]; other site 1112912005199 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 1112912005200 dimer interface [polypeptide binding]; other site 1112912005201 phosphorylation site [posttranslational modification] 1112912005202 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 1112912005203 ATP binding site [chemical binding]; other site 1112912005204 Mg2+ binding site [ion binding]; other site 1112912005205 G-X-G motif; other site 1112912005206 Putative peptidoglycan-binding domain-containing protein [Cell envelope biogenesis, outer membrane]; Region: COG3409 1112912005207 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1112912005208 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1112912005209 Uncharacterized conserved protein [Function unknown]; Region: COG5447 1112912005210 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5330 1112912005211 Uncharacterized protein conserved in bacteria (DUF2336); Region: DUF2336; pfam10098 1112912005212 Predicted integral membrane protein [Function unknown]; Region: COG5436 1112912005213 Uncharacterized conserved protein [Function unknown]; Region: COG5402 1112912005214 Transglycosylase; Region: Transgly; pfam00912 1112912005215 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 1112912005216 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 1112912005217 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 1112912005218 Uncharacterized conserved protein [Function unknown]; Region: COG5323 1112912005219 Terminase-like family; Region: Terminase_6; pfam03237 1112912005220 Phage-related protein [Function unknown]; Region: COG4695 1112912005221 phage portal protein, HK97 family; Region: portal_HK97; TIGR01537 1112912005222 Caudovirus prohead protease; Region: Peptidase_U35; pfam04586 1112912005223 Predicted phage phi-C31 gp36 major capsid-like protein [General function prediction only]; Region: COG4653 1112912005224 Phage capsid family; Region: Phage_capsid; pfam05065 1112912005225 phage conserved hypothetical protein, phiE125 gp8 family; Region: phage_chp_gp8; TIGR02215 1112912005226 Head-Tail Connector Protein gp6 of Bacteriophage HK97 and similar proteins; Region: gp6; cd08054 1112912005227 Head-Tail Connector Protein gp6 of Bacteriophage HK97 and similar proteins; Region: gp6; cd08054 1112912005228 oligomerization interface [polypeptide binding]; other site 1112912005229 Phage head-tail joining protein; Region: Phage_H_T_join; pfam05521 1112912005230 Protein of unknown function (DUF3168); Region: DUF3168; pfam11367 1112912005231 Predicted secreted protein [Function unknown]; Region: COG5437 1112912005232 Protein of unknown function (DUF3356); Region: DUF3356; pfam11836 1112912005233 Phage-related minor tail protein [Function unknown]; Region: COG5281 1112912005234 TIGR02217 family protein; Region: chp_TIGR02217 1112912005235 Uncharacterized conserved protein (DUF2163); Region: DUF2163; pfam09931 1112912005236 phage conserved hypothetical protein BR0599; Region: phg_TIGR02218 1112912005237 Phage conserved hypothetical protein BR0599; Region: Phage_BR0599; pfam09356 1112912005238 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 1112912005239 putative phage cell wall peptidase, NlpC/P60 family; Region: phage_NlpC_fam; TIGR02219 1112912005240 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1112912005241 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 1112912005242 active site 1112912005243 phosphorylation site [posttranslational modification] 1112912005244 intermolecular recognition site; other site 1112912005245 dimerization interface [polypeptide binding]; other site 1112912005246 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 1112912005247 DNA binding site [nucleotide binding] 1112912005248 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1112912005249 HAMP domain; Region: HAMP; pfam00672 1112912005250 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 1112912005251 ATP binding site [chemical binding]; other site 1112912005252 Mg2+ binding site [ion binding]; other site 1112912005253 G-X-G motif; other site 1112912005254 Surface antigen [Cell envelope biogenesis, outer membrane]; Region: LipA; COG4520 1112912005255 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: COG4235 1112912005256 cytochrome c-type biogenesis protein CcmI; Region: cytochro_ccmI; TIGR03142 1112912005257 cytochrome c-type biogenesis protein CcmE; Reviewed; Region: PRK13254 1112912005258 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: CcmF; COG1138 1112912005259 Uncharacterized protein involved in biosynthesis of c-type cytochromes [Posttranslational modification, protein turnover, chaperones]; Region: CcmH; COG3088 1112912005260 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 1112912005261 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 1112912005262 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 1112912005263 protein binding site [polypeptide binding]; other site 1112912005264 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 1112912005265 protein binding site [polypeptide binding]; other site 1112912005266 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1112912005267 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 1112912005268 active site 1112912005269 phosphorylation site [posttranslational modification] 1112912005270 intermolecular recognition site; other site 1112912005271 dimerization interface [polypeptide binding]; other site 1112912005272 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 1112912005273 DNA binding site [nucleotide binding] 1112912005274 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1112912005275 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 1112912005276 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 1112912005277 dimerization interface [polypeptide binding]; other site 1112912005278 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 1112912005279 dimer interface [polypeptide binding]; other site 1112912005280 phosphorylation site [posttranslational modification] 1112912005281 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 1112912005282 ATP binding site [chemical binding]; other site 1112912005283 Mg2+ binding site [ion binding]; other site 1112912005284 G-X-G motif; other site 1112912005285 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Provisional; Region: PRK14108 1112912005286 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 1112912005287 metal binding triad; other site 1112912005288 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 1112912005289 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 1112912005290 metal binding triad; other site 1112912005291 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 1112912005292 Glycosyltransferase family 25 [lipooligosaccharide (LOS) biosynthesis protein] is a family of glycosyltransferases involved in LOS biosynthesis. The members include the beta(1,4) galactosyltransferases: Lgt2 of Moraxella catarrhalis, LgtB and LgtE of...; Region: Glyco_transf_25; cd06532 1112912005293 Glycosyltransferase family 25 [lipooligosaccharide (LOS) biosynthesis protein] is a family of glycosyltransferases involved in LOS biosynthesis. The members include the beta(1,4) galactosyltransferases: Lgt2 of Moraxella catarrhalis, LgtB and LgtE of...; Region: Glyco_transf_25; cl01298 1112912005294 O-Antigen ligase; Region: Wzy_C; pfam04932 1112912005295 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 1112912005296 PAS fold; Region: PAS_3; pfam08447 1112912005297 putative active site [active] 1112912005298 heme pocket [chemical binding]; other site 1112912005299 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 1112912005300 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 1112912005301 dimer interface [polypeptide binding]; other site 1112912005302 phosphorylation site [posttranslational modification] 1112912005303 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 1112912005304 ATP binding site [chemical binding]; other site 1112912005305 Mg2+ binding site [ion binding]; other site 1112912005306 G-X-G motif; other site 1112912005307 aminopeptidase N; Provisional; Region: pepN; PRK14015 1112912005308 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_1; cd09600 1112912005309 active site 1112912005310 Zn binding site [ion binding]; other site 1112912005311 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1112912005312 EamA-like transporter family; Region: EamA; pfam00892 1112912005313 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 1112912005314 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1112912005315 putative substrate translocation pore; other site 1112912005316 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 1112912005317 Fe-S cluster binding site [ion binding]; other site 1112912005318 active site 1112912005319 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 1112912005320 hydroxyglutarate oxidase; Provisional; Region: PRK11728 1112912005321 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 1112912005322 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3021 1112912005323 putative catalytic site [active] 1112912005324 putative metal binding site [ion binding]; other site 1112912005325 putative phosphate binding site [ion binding]; other site 1112912005326 AMP nucleosidase; Provisional; Region: PRK08292 1112912005327 Bacterial AMP nucleoside phosphorylase N-terminus; Region: AMNp_N; pfam10423 1112912005328 Nucleoside phosphorylase [Nucleotide transport and metabolism]; Region: Pfs; COG0775 1112912005329 GST_N family, Ure2p-like subfamily; composed of the Saccharomyces cerevisiae Ure2p and related GSTs. Ure2p is a regulator for nitrogen catabolism in yeast. It represses the expression of several gene products involved in the use of poor nitrogen sources...; Region: GST_N_Ure2p_like; cd03048 1112912005330 GSH-dependent disulfide bond oxidoreductase; Provisional; Region: PRK13972 1112912005331 C-terminal domain interface [polypeptide binding]; other site 1112912005332 GSH binding site (G-site) [chemical binding]; other site 1112912005333 dimer interface [polypeptide binding]; other site 1112912005334 C-terminal, alpha helical domain of Escherichia coli YfcG Glutathione S-transferases and related uncharacterized proteins; Region: GST_C_YfcG_like; cd10291 1112912005335 N-terminal domain interface [polypeptide binding]; other site 1112912005336 putative dimer interface [polypeptide binding]; other site 1112912005337 active site 1112912005338 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4731 1112912005339 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 1112912005340 Uncharacterized conserved protein [Function unknown]; Region: COG1284 1112912005341 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 1112912005342 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 1112912005343 Uncharacterized small membrane protein [Function unknown]; Region: COG2363 1112912005344 histidinol-phosphate aminotransferase; Provisional; Region: PRK08153 1112912005345 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 1112912005346 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1112912005347 homodimer interface [polypeptide binding]; other site 1112912005348 catalytic residue [active] 1112912005349 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 1112912005350 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 1112912005351 active site 1112912005352 DNA binding site [nucleotide binding] 1112912005353 Int/Topo IB signature motif; other site 1112912005354 Porin subfamily; Region: Porin_2; pfam02530 1112912005355 Porin subfamily; Region: Porin_2; pfam02530 1112912005356 Uncharacterized conserved protein [Function unknown]; Region: COG3743 1112912005357 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 1112912005358 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 1112912005359 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1112912005360 catalytic residue [active] 1112912005361 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 1112912005362 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 1112912005363 dimer interface [polypeptide binding]; other site 1112912005364 active site 1112912005365 catalytic residue [active] 1112912005366 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 1112912005367 SmpB-tmRNA interface; other site 1112912005368 Family-5 Uracil-DNA glycosylases (UDG), found in thermophilic organisms; Region: UDG_F5_TTUDGB_like; cd10031 1112912005369 Fe-S cluster binding site [ion binding]; other site 1112912005370 DNA binding site [nucleotide binding] 1112912005371 active site 1112912005372 Uncharacterized conserved protein [Function unknown]; Region: COG1432 1112912005373 LabA_like proteins; Region: LabA; cd10911 1112912005374 putative metal binding site [ion binding]; other site 1112912005375 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 1112912005376 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 1112912005377 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1112912005378 Zn2+ binding site [ion binding]; other site 1112912005379 Mg2+ binding site [ion binding]; other site 1112912005380 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 1112912005381 synthetase active site [active] 1112912005382 NTP binding site [chemical binding]; other site 1112912005383 metal binding site [ion binding]; metal-binding site 1112912005384 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 1112912005385 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 1112912005386 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1112912005387 active site 1112912005388 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1112912005389 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 1112912005390 ligand binding site [chemical binding]; other site 1112912005391 flexible hinge region; other site 1112912005392 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 1112912005393 putative switch regulator; other site 1112912005394 non-specific DNA interactions [nucleotide binding]; other site 1112912005395 DNA binding site [nucleotide binding] 1112912005396 sequence specific DNA binding site [nucleotide binding]; other site 1112912005397 putative cAMP binding site [chemical binding]; other site 1112912005398 coproporphyrinogen III oxidase; Provisional; Region: PRK13347 1112912005399 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 1112912005400 FeS/SAM binding site; other site 1112912005401 HemN C-terminal domain; Region: HemN_C; pfam06969 1112912005402 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 1112912005403 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1112912005404 putative substrate translocation pore; other site 1112912005405 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 1112912005406 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1112912005407 Helix-turn-helix domain; Region: HTH_18; pfam12833 1112912005408 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1112912005409 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3216 1112912005410 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 1112912005411 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 1112912005412 Catalytic site [active] 1112912005413 Signal peptidase, peptidase S26; Region: Peptidase_S26; pfam10502 1112912005414 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 1112912005415 ribonuclease III; Reviewed; Region: PRK12371 1112912005416 RIBOc. Ribonuclease III C terminal domain. This group consists of eukaryotic, bacterial and archeal ribonuclease III (RNAse III) proteins. RNAse III is a double stranded RNA-specific endonuclease. Prokaryotic RNAse III is important in...; Region: RIBOc; cd00593 1112912005417 dimerization interface [polypeptide binding]; other site 1112912005418 active site 1112912005419 metal binding site [ion binding]; metal-binding site 1112912005420 Double-stranded RNA binding motif. Binding is not sequence specific but is highly specific for double stranded RNA. Found in a variety of proteins including dsRNA dependent protein kinase PKR, RNA helicases, Drosophila staufen protein, E. coli RNase III; Region: DSRM; cd00048 1112912005421 dsRNA binding site [nucleotide binding]; other site 1112912005422 GTPase Era; Reviewed; Region: era; PRK00089 1112912005423 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 1112912005424 G1 box; other site 1112912005425 GTP/Mg2+ binding site [chemical binding]; other site 1112912005426 Switch I region; other site 1112912005427 G2 box; other site 1112912005428 Switch II region; other site 1112912005429 G3 box; other site 1112912005430 G4 box; other site 1112912005431 G5 box; other site 1112912005432 KH domain; Region: KH_2; pfam07650 1112912005433 Recombination protein O N terminal; Region: RecO_N; pfam11967 1112912005434 DNA repair protein RecO; Region: reco; TIGR00613 1112912005435 Recombination protein O C terminal; Region: RecO_C; pfam02565 1112912005436 Predicted protein tyrosine phosphatase [General function prediction only]; Region: COG5350 1112912005437 Predicted hydrolases of HD superfamily [General function prediction only]; Region: COG1896 1112912005438 Predicted aminomethyltransferase related to GcvT [General function prediction only]; Region: COG0354 1112912005439 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 1112912005440 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 1112912005441 dihydroorotase; Validated; Region: PRK09060 1112912005442 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 1112912005443 Dihydroorotase (DHOase), subgroup IIb; DHOases catalyze the reversible interconversion of carbamoyl aspartate to dihydroorotate, a key reaction in pyrimidine biosynthesis. This group contains the archeal members of the DHOase family; Region: DHOase_IIb; cd01318 1112912005444 active site 1112912005445 TIGR02301 family protein; Region: TIGR02301 1112912005446 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_15; cd04673 1112912005447 nudix motif; other site 1112912005448 Uncharacterized conserved protein [Function unknown]; Region: COG2135 1112912005449 Lysine efflux permease [General function prediction only]; Region: COG1279 1112912005450 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 1112912005451 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1112912005452 active site 1112912005453 HIGH motif; other site 1112912005454 nucleotide binding site [chemical binding]; other site 1112912005455 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 1112912005456 KMSKS motif; other site 1112912005457 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 1112912005458 putative alpha-isopropylmalate/homocitrate synthase family transferase; Provisional; Region: PRK12344 1112912005459 putative alpha-isopropylmalate/homocitrate synthase family transferase; Provisional; Region: PRK12344 1112912005460 Desulfobacterium autotrophicum LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA3; cd07941 1112912005461 active site 1112912005462 catalytic residues [active] 1112912005463 metal binding site [ion binding]; metal-binding site 1112912005464 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 1112912005465 Predicted permeases [General function prediction only]; Region: RarD; COG2962 1112912005466 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 1112912005467 Peptidase family M23; Region: Peptidase_M23; pfam01551 1112912005468 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 1112912005469 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 1112912005470 S-adenosylmethionine binding site [chemical binding]; other site 1112912005471 4-hydroxythreonine-4-phosphate dehydrogenase; Provisional; Region: pdxA; PRK05312 1112912005472 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 1112912005473 Parvulin-like peptidyl-prolyl isomerase [Posttranslational modification, protein turnover, chaperones]; Region: SurA; COG0760 1112912005474 SurA N-terminal domain; Region: SurA_N; pfam09312 1112912005475 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 1112912005476 OstA-like protein; Region: OstA; cl00844 1112912005477 Organic solvent tolerance protein; Region: OstA_C; pfam04453 1112912005478 Predicted permeases [General function prediction only]; Region: COG0795 1112912005479 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 1112912005480 Predicted permeases [General function prediction only]; Region: COG0795 1112912005481 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 1112912005482 multifunctional aminopeptidase A; Provisional; Region: PRK00913 1112912005483 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 1112912005484 interface (dimer of trimers) [polypeptide binding]; other site 1112912005485 Substrate-binding/catalytic site; other site 1112912005486 Zn-binding sites [ion binding]; other site 1112912005487 DNA polymerase III subunit chi; Validated; Region: PRK05728 1112912005488 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 1112912005489 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1112912005490 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1112912005491 Walker A/P-loop; other site 1112912005492 ATP binding site [chemical binding]; other site 1112912005493 ABC transporter signature motif; other site 1112912005494 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1112912005495 Walker B; other site 1112912005496 D-loop; other site 1112912005497 ABC transporter; Region: ABC_tran_2; pfam12848 1112912005498 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1112912005499 Uncharacterized protein conserved in bacteria [Function unknown]; Region: DinB; COG2318 1112912005500 DinB superfamily; Region: DinB_2; pfam12867 1112912005501 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 1112912005502 active site 1112912005503 multimer interface [polypeptide binding]; other site 1112912005504 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3126 1112912005505 Heat shock protein [Posttranslational modification, protein turnover, chaperones]; Region: HslJ; COG3187 1112912005506 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 1112912005507 MoaE homodimer interface [polypeptide binding]; other site 1112912005508 MoaD interaction [polypeptide binding]; other site 1112912005509 active site residues [active] 1112912005510 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 1112912005511 MoaE interaction surface [polypeptide binding]; other site 1112912005512 MoeB interaction surface [polypeptide binding]; other site 1112912005513 thiocarboxylated glycine; other site 1112912005514 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 1112912005515 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 1112912005516 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 1112912005517 GIY-YIG motif/motif A; other site 1112912005518 active site 1112912005519 catalytic site [active] 1112912005520 putative DNA binding site [nucleotide binding]; other site 1112912005521 metal binding site [ion binding]; metal-binding site 1112912005522 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 1112912005523 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 1112912005524 short chain dehydrogenase; Provisional; Region: PRK09134 1112912005525 pteridine reductase (PR), classical (c) SDRs; Region: PR_SDR_c; cd05357 1112912005526 NADP binding site [chemical binding]; other site 1112912005527 substrate binding pocket [chemical binding]; other site 1112912005528 active site 1112912005529 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 1112912005530 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1112912005531 GST_N family, unknown subfamily 3; composed of uncharacterized bacterial proteins with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of...; Region: GST_N_3; cd03049 1112912005532 putative C-terminal domain interface [polypeptide binding]; other site 1112912005533 putative GSH binding site (G-site) [chemical binding]; other site 1112912005534 putative dimer interface [polypeptide binding]; other site 1112912005535 C-terminal, alpha helical domain of an unknown subfamily 6 of Glutathione S-transferases; Region: GST_C_6; cd03205 1112912005536 dimer interface [polypeptide binding]; other site 1112912005537 N-terminal domain interface [polypeptide binding]; other site 1112912005538 putative substrate binding pocket (H-site) [chemical binding]; other site 1112912005539 Ribonuclease T2 (RNase T2) is a widespread family of secreted RNases found in every organism examined thus far. This family includes RNase Rh, RNase MC1, RNase LE, and self-incompatibility RNases (S-RNases). Plant T2 RNases are expressed during leaf...; Region: RNase_T2_prok; cd01062 1112912005540 B1 nucleotide binding pocket [chemical binding]; other site 1112912005541 B2 nucleotide binding pocket [chemical binding]; other site 1112912005542 CAS motifs; other site 1112912005543 active site 1112912005544 Bacteriophage capsid protein [General function prediction only]; Region: COG5511 1112912005545 Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates...; Region: NK; cl17190 1112912005546 Protein involved in catabolism of external DNA [General function prediction only]; Region: ComJ; COG2961 1112912005547 phosphonate utilization associated putative membrane protein; Region: phn_DUF6; TIGR03340 1112912005548 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 1112912005549 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 1112912005550 putative [4Fe-4S] binding site [ion binding]; other site 1112912005551 putative molybdopterin cofactor binding site [chemical binding]; other site 1112912005552 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 1112912005553 putative molybdopterin cofactor binding site; other site 1112912005554 Protein of unknown function (DUF992); Region: DUF992; pfam06186 1112912005555 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 1112912005556 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 1112912005557 active site 1112912005558 substrate binding site [chemical binding]; other site 1112912005559 cosubstrate binding site; other site 1112912005560 catalytic site [active] 1112912005561 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 1112912005562 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 1112912005563 dimerization interface [polypeptide binding]; other site 1112912005564 putative ATP binding site [chemical binding]; other site 1112912005565 Domain of unknown function DUF20; Region: UPF0118; pfam01594 1112912005566 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 1112912005567 hypothetical protein; Validated; Region: PRK09087 1112912005568 ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]; Region: DnaA; COG0593 1112912005569 Walker A motif; other site 1112912005570 ATP binding site [chemical binding]; other site 1112912005571 Walker B motif; other site 1112912005572 arginine finger; other site 1112912005573 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1112912005574 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 1112912005575 NAD(P) binding site [chemical binding]; other site 1112912005576 active site 1112912005577 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR)-like, SDR; Region: BKR_like_SDR_like; cd05344 1112912005578 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 1112912005579 putative NAD(P) binding site [chemical binding]; other site 1112912005580 putative active site [active] 1112912005581 L-lactate permease; Region: Lactate_perm; cl00701 1112912005582 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 1112912005583 ETC complex I subunit conserved region; Region: ETC_C1_NDUFA4; pfam04800 1112912005584 DEDDh 3'-5' exonuclease domain of Caenorhabditis elegans ERI-1, human 3' exonuclease, and similar proteins; Region: ERI-1_3'hExo_like; cd06133 1112912005585 active site 1112912005586 catalytic site [active] 1112912005587 substrate binding site [chemical binding]; other site 1112912005588 Archaeal adenylate kinase [Nucleotide transport and metabolism]; Region: AdkA; COG2019 1112912005589 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1112912005590 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 1112912005591 non-specific DNA binding site [nucleotide binding]; other site 1112912005592 salt bridge; other site 1112912005593 sequence-specific DNA binding site [nucleotide binding]; other site 1112912005594 Uncharacterized conserved protein [Function unknown]; Region: COG4933 1112912005595 TnsA endonuclease N terminal; Region: Tn7_Tnp_TnsA_N; pfam08722 1112912005596 Integrase core domain; Region: rve; pfam00665 1112912005597 Mu transposase, C-terminal; Region: Mu-transpos_C; pfam09299 1112912005598 AAA domain; Region: AAA_22; pfam13401 1112912005599 AAA ATPase domain; Region: AAA_16; pfam13191 1112912005600 TniQ; Region: TniQ; pfam06527 1112912005601 Domain of unknown function (DUF955); Region: DUF955; pfam06114 1112912005602 Uncharacterized protein containing a TIR (Toll-Interleukin 1-resistance) domain [Function unknown]; Region: COG4916 1112912005603 TIR domain; Region: TIR_2; pfam13676 1112912005604 Bacterial SH3 domain; Region: SH3_3; pfam08239 1112912005605 cystathionine beta-lyase; Provisional; Region: PRK05967 1112912005606 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 1112912005607 homodimer interface [polypeptide binding]; other site 1112912005608 substrate-cofactor binding pocket; other site 1112912005609 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1112912005610 catalytic residue [active] 1112912005611 PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cl00474 1112912005612 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 1112912005613 active site 1112912005614 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 1112912005615 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 1112912005616 substrate binding pocket [chemical binding]; other site 1112912005617 membrane-bound complex binding site; other site 1112912005618 hinge residues; other site 1112912005619 ABC-type amino acid transport system, permease component [Amino acid transport and metabolism]; Region: BatB; COG4597 1112912005620 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 1112912005621 conserved gate region; other site 1112912005622 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 1112912005623 putative PBP binding loops; other site 1112912005624 dimer interface [polypeptide binding]; other site 1112912005625 ABC-ATPase subunit interface; other site 1112912005626 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1112912005627 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 1112912005628 dimer interface [polypeptide binding]; other site 1112912005629 conserved gate region; other site 1112912005630 putative PBP binding loops; other site 1112912005631 ABC-ATPase subunit interface; other site 1112912005632 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1112912005633 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1112912005634 Walker A/P-loop; other site 1112912005635 ATP binding site [chemical binding]; other site 1112912005636 Q-loop/lid; other site 1112912005637 ABC transporter signature motif; other site 1112912005638 Walker B; other site 1112912005639 D-loop; other site 1112912005640 H-loop/switch region; other site 1112912005641 salicylate hydroxylase; Provisional; Region: PRK06475 1112912005642 salicylate hydroxylase; Provisional; Region: PRK08163 1112912005643 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4391 1112912005644 polyphosphate kinase; Provisional; Region: PRK05443 1112912005645 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 1112912005646 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 1112912005647 Catalytic C-terminal domain, first repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C1_like; cd09165 1112912005648 putative domain interface [polypeptide binding]; other site 1112912005649 putative active site [active] 1112912005650 catalytic site [active] 1112912005651 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 1112912005652 putative domain interface [polypeptide binding]; other site 1112912005653 putative active site [active] 1112912005654 catalytic site [active] 1112912005655 Exopolyphosphatase [Nucleotide transport and metabolism / Inorganic ion transport and metabolism]; Region: GppA; COG0248 1112912005656 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 1112912005657 Ribonuclease D [Translation, ribosomal structure and biogenesis]; Region: Rnd; COG0349 1112912005658 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 1112912005659 catalytic site [active] 1112912005660 putative active site [active] 1112912005661 putative substrate binding site [chemical binding]; other site 1112912005662 HRDC domain; Region: HRDC; pfam00570 1112912005663 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 1112912005664 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 1112912005665 dimer interface [polypeptide binding]; other site 1112912005666 anticodon binding site; other site 1112912005667 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 1112912005668 homodimer interface [polypeptide binding]; other site 1112912005669 motif 1; other site 1112912005670 active site 1112912005671 motif 2; other site 1112912005672 GAD domain; Region: GAD; pfam02938 1112912005673 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 1112912005674 active site 1112912005675 motif 3; other site 1112912005676 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 1112912005677 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 1112912005678 CAP-like domain; other site 1112912005679 active site 1112912005680 primary dimer interface [polypeptide binding]; other site 1112912005681 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1112912005682 Putative arginyl-tRNA:protein arginylyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: COG2935 1112912005683 Arginine-tRNA-protein transferase, N terminus; Region: ATE_N; pfam04376 1112912005684 Arginine-tRNA-protein transferase, C terminus; Region: ATE_C; pfam04377 1112912005685 Predicted membrane protein/domain [Function unknown]; Region: COG1714 1112912005686 Porphobilinogen synthase (PBGS), which is also called delta-aminolevulinic acid dehydratase (ALAD), catalyzes the condensation of two 5-aminolevulinic acid (ALA) molecules to form the pyrrole porphobilinogen (PBG), which is the second step in the...; Region: ALAD_PBGS_aspartate_rich; cd04823 1112912005687 dimer interface [polypeptide binding]; other site 1112912005688 allosteric magnesium binding site [ion binding]; other site 1112912005689 active site 1112912005690 aspartate-rich active site metal binding site; other site 1112912005691 Schiff base residues; other site 1112912005692 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 1112912005693 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 1112912005694 substrate binding site [chemical binding]; other site 1112912005695 oxyanion hole (OAH) forming residues; other site 1112912005696 trimer interface [polypeptide binding]; other site 1112912005697 2-enoyl-CoA Hydratase C-terminal region; Region: ECH_C; pfam13766 1112912005698 Transcriptional regulators [Transcription]; Region: MarR; COG1846 1112912005699 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 1112912005700 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2989 1112912005701 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1112912005702 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 1112912005703 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 1112912005704 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 1112912005705 dimer interface [polypeptide binding]; other site 1112912005706 active site 1112912005707 glycine-pyridoxal phosphate binding site [chemical binding]; other site 1112912005708 folate binding site [chemical binding]; other site 1112912005709 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 1112912005710 ATP cone domain; Region: ATP-cone; pfam03477 1112912005711 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 1112912005712 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 1112912005713 catalytic motif [active] 1112912005714 Zn binding site [ion binding]; other site 1112912005715 RibD C-terminal domain; Region: RibD_C; cl17279 1112912005716 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 1112912005717 Lumazine binding domain; Region: Lum_binding; pfam00677 1112912005718 Lumazine binding domain; Region: Lum_binding; pfam00677 1112912005719 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 1112912005720 homopentamer interface [polypeptide binding]; other site 1112912005721 active site 1112912005722 transcription antitermination protein NusB; Reviewed; Region: nusB; PRK00202 1112912005723 putative RNA binding site [nucleotide binding]; other site 1112912005724 Inorganic pyrophosphatase [Energy production and conversion]; Region: OVP1; COG3808 1112912005725 H(+) -translocating inorganic pyrophosphatase; Region: PLN02255; cl11452 1112912005726 Outer membrane lipoprotein OmlA (small protein A) [Cell envelope biogenesis, outer membrane]; Region: OlmA; COG2913 1112912005727 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 1112912005728 Uncharacterized conserved protein [Function unknown]; Region: COG5452 1112912005729 Uncharacterized ACR, COG1399; Region: DUF177; pfam02620 1112912005730 putative phosphate acyltransferase; Provisional; Region: PRK05331 1112912005731 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 1112912005732 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 1112912005733 dimer interface [polypeptide binding]; other site 1112912005734 active site 1112912005735 CoA binding pocket [chemical binding]; other site 1112912005736 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 1112912005737 IHF dimer interface [polypeptide binding]; other site 1112912005738 IHF - DNA interface [nucleotide binding]; other site 1112912005739 Helix-Turn-Helix DNA binding domain of putative MlrA-like transcription regulators; Region: HTH_MlrA-like_sg2; cd04765 1112912005740 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 1112912005741 DNA binding residues [nucleotide binding] 1112912005742 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 1112912005743 exopolysaccharide biosynthesis polyprenyl glycosylphosphotransferase; Region: EPS_sugtrans; TIGR03025 1112912005744 Sugar transferases involved in lipopolysaccharide synthesis [Cell envelope biogenesis, outer membrane]; Region: WcaJ; COG2148 1112912005745 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 1112912005746 putative polysaccharide export protein, PEP-CTERM sytem-associated; Region: pepcterm_export; TIGR03027 1112912005747 SLBB domain; Region: SLBB; pfam10531 1112912005748 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Mrp; COG0489 1112912005749 Protein of unknown function (DUF2842); Region: DUF2842; pfam11003 1112912005750 Uncharacterized protein required for cytochrome oxidase assembly [Posttranslational modification, protein turnover, chaperones]; Region: CtaA; COG1612 1112912005751 Cytochrome oxidase assembly protein; Region: COX15-CtaA; cl15852 1112912005752 N-acetyl-gamma-glutamyl-phosphate reductase; Provisional; Region: PRK11863 1112912005753 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 1112912005754 Agmatinase-like family includes proclavaminic acid amidinohydrolase; Region: Agmatinase_PAH; cd11592 1112912005755 oligomer interface [polypeptide binding]; other site 1112912005756 putative active site [active] 1112912005757 Mn binding site [ion binding]; other site 1112912005758 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 1112912005759 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 1112912005760 23S rRNA interface [nucleotide binding]; other site 1112912005761 L3 interface [polypeptide binding]; other site 1112912005762 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 1112912005763 CoenzymeA binding site [chemical binding]; other site 1112912005764 subunit interaction site [polypeptide binding]; other site 1112912005765 PHB binding site; other site 1112912005766 O-acetylhomoserine aminocarboxypropyltransferase; Validated; Region: PRK05994 1112912005767 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 1112912005768 homodimer interface [polypeptide binding]; other site 1112912005769 substrate-cofactor binding pocket; other site 1112912005770 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1112912005771 catalytic residue [active] 1112912005772 NADH:ubiquinone oxidoreductase subunit A; Validated; Region: PRK06602 1112912005773 NADH:ubiquinone oxidoreductase 20 kD subunit and related Fe-S oxidoreductases [Energy production and conversion]; Region: NuoB; COG0377 1112912005774 NADH dehydrogenase subunit C; Provisional; Region: PRK06074 1112912005775 NADH (or F420H2) dehydrogenase, subunit C; Region: NuoC_fam; TIGR01961 1112912005776 NADH:ubiquinone oxidoreductase 49 kD subunit 7 [Energy production and conversion]; Region: NuoD; COG0649 1112912005777 NADH dehydrogenase subunit D; Validated; Region: PRK06075 1112912005778 NADH:ubiquinone oxidoreductase 24 kD subunit [Energy production and conversion]; Region: NuoE; COG1905 1112912005779 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 1112912005780 putative dimer interface [polypeptide binding]; other site 1112912005781 [2Fe-2S] cluster binding site [ion binding]; other site 1112912005782 NADH dehydrogenase I subunit F; Provisional; Region: PRK13596 1112912005783 SLBB domain; Region: SLBB; pfam10531 1112912005784 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 1112912005785 NADH dehydrogenase subunit G; Validated; Region: PRK09130 1112912005786 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 1112912005787 catalytic loop [active] 1112912005788 iron binding site [ion binding]; other site 1112912005789 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 1112912005790 MopB_Res_Cmplx1_Nad11: The second domain of the Nad11/75-kDa subunit of the NADH-quinone oxidoreductase/respiratory complex I/NADH dehydrogenase-1(NDH-1) of eukaryotes and the Nqo3/G subunit of alphaproteobacteria NDH-1. The NADH-quinone oxidoreductase...; Region: MopB_Res-Cmplx1_Nad11; cd02773 1112912005791 Domain of unknown function (DUF1982); Region: DUF1982; pfam09326 1112912005792 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 1112912005793 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 1112912005794 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 1112912005795 4Fe-4S binding domain; Region: Fer4; pfam00037 1112912005796 4Fe-4S binding domain; Region: Fer4; pfam00037 1112912005797 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 1112912005798 NADH dehydrogenase subunit 6; Provisional; Region: ND6; MTH00213 1112912005799 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 1112912005800 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 1112912005801 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 1112912005802 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1112912005803 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 1112912005804 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1112912005805 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 1112912005806 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1112912005807 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 1112912005808 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 1112912005809 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 1112912005810 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 1112912005811 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1112912005812 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 1112912005813 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1112912005814 Methylmalonyl-CoA epimerase (MMCE); Region: MMCE; cd07249 1112912005815 dimer interface [polypeptide binding]; other site 1112912005816 substrate binding site [chemical binding]; other site 1112912005817 metal binding site [ion binding]; metal-binding site 1112912005818 Predicted secreted protein [Function unknown]; Region: COG5454 1112912005819 prolyl-tRNA synthetase; Provisional; Region: PRK12325 1112912005820 Prolyl-tRNA synthetase (ProRS) class II core catalytic domain. ProRS is a homodimer. It is responsible for the attachment of proline to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: ProRS_core_prok; cd00779 1112912005821 dimer interface [polypeptide binding]; other site 1112912005822 motif 1; other site 1112912005823 active site 1112912005824 motif 2; other site 1112912005825 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 1112912005826 active site 1112912005827 motif 3; other site 1112912005828 ProRS Prolyl-anticodon binding domain, short version found predominantly in bacteria. ProRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding; Region: ProRS_anticodon_short; cd00861 1112912005829 anticodon binding site; other site 1112912005830 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 1112912005831 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1112912005832 FtsX-like permease family; Region: FtsX; pfam02687 1112912005833 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1112912005834 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1112912005835 Walker A/P-loop; other site 1112912005836 ATP binding site [chemical binding]; other site 1112912005837 Q-loop/lid; other site 1112912005838 ABC transporter signature motif; other site 1112912005839 Walker B; other site 1112912005840 D-loop; other site 1112912005841 H-loop/switch region; other site 1112912005842 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 1112912005843 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE1; Region: PHP_PolIIIA_DnaE1; cd07433 1112912005844 putative active site [active] 1112912005845 putative PHP Thumb interface [polypeptide binding]; other site 1112912005846 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 1112912005847 generic binding surface II; other site 1112912005848 generic binding surface I; other site 1112912005849 Protein of unknwon function (DUF3008); Region: DUF3008; pfam11450 1112912005850 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3921 1112912005851 Extensin-like protein C-terminus; Region: Extensin-like_C; pfam06904 1112912005852 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 1112912005853 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 1112912005854 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 1112912005855 RNA binding surface [nucleotide binding]; other site 1112912005856 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 1112912005857 This is a subfamily of Adenine nucleotide alpha hydrolases superfamily.Adeninosine nucleotide alpha hydrolases superfamily includes N type ATP PPases and ATP sulphurylases. It forms a apha/beta/apha fold which binds to Adenosine group. This subfamily; Region: Alpha_ANH_like_II; cd01993 1112912005858 Ligand Binding Site [chemical binding]; other site 1112912005859 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 1112912005860 PAP-phosphatase_like domains. PAP-phosphatase is a member of the inositol monophosphatase family, and catalyses the hydrolysis of 3'-phosphoadenosine-5'-phosphate (PAP) to AMP. In Saccharomyces cerevisiae, HAL2 (MET22) is involved in methionine...; Region: PAP_phosphatase; cd01517 1112912005861 active site 1112912005862 putative lithium-binding site [ion binding]; other site 1112912005863 substrate binding site [chemical binding]; other site 1112912005864 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 1112912005865 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 1112912005866 putative substrate translocation pore; other site 1112912005867 Glutaredoxin (GRX) family, PKC-interacting cousin of TRX (PICOT)-like subfamily; composed of PICOT and GRX-PICOT-like proteins. The non-PICOT members of this family contain only the GRX-like domain, whereas PICOT contains an N-terminal TRX-like domain...; Region: GRX_PICOT_like; cd03028 1112912005868 putative GSH binding site [chemical binding]; other site 1112912005869 catalytic residues [active] 1112912005870 Stress-induced morphogen (activity unknown) [Signal transduction mechanisms]; Region: BolA; COG0271 1112912005871 phosphoribosylformylglycinamidine synthase II; Provisional; Region: PRK01213 1112912005872 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 1112912005873 dimerization interface [polypeptide binding]; other site 1112912005874 ATP binding site [chemical binding]; other site 1112912005875 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 1112912005876 dimerization interface [polypeptide binding]; other site 1112912005877 ATP binding site [chemical binding]; other site 1112912005878 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1112912005879 Glutathione S-transferase (GST) family, N-terminal domain; a large, diverse group of cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic...; Region: GST_N_family; cd00570 1112912005880 C-terminal domain interface [polypeptide binding]; other site 1112912005881 GSH binding site (G-site) [chemical binding]; other site 1112912005882 dimer interface [polypeptide binding]; other site 1112912005883 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cd00299 1112912005884 N-terminal domain interface [polypeptide binding]; other site 1112912005885 dimer interface [polypeptide binding]; other site 1112912005886 substrate binding pocket (H-site) [chemical binding]; other site 1112912005887 phosphoribosylformylglycinamidine synthase I; Provisional; Region: PRK03619 1112912005888 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 1112912005889 putative active site [active] 1112912005890 catalytic triad [active] 1112912005891 phosphoribosylformylglycinamidine synthase subunit PurS; Reviewed; Region: PRK05974 1112912005892 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 1112912005893 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 1112912005894 ATP binding site [chemical binding]; other site 1112912005895 active site 1112912005896 substrate binding site [chemical binding]; other site 1112912005897 Uncharacterized conserved protein [Function unknown]; Region: COG5467 1112912005898 2,4-dihydroxyhept-2-ene-1,7-dioic acid aldolase [Carbohydrate transport and metabolism]; Region: HpcH; COG3836 1112912005899 Predicted esterase of the alpha/beta hydrolase fold [General function prediction only]; Region: COG3545 1112912005900 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1112912005901 Predicted ring-cleavage extradiol dioxygenase [General function prediction only]; Region: COG2514 1112912005902 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 1112912005903 putative metal binding site [ion binding]; other site 1112912005904 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 1112912005905 active site 1112912005906 adenylosuccinate lyase; Provisional; Region: PRK07492 1112912005907 Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360 1112912005908 tetramer interface [polypeptide binding]; other site 1112912005909 active site 1112912005910 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 1112912005911 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 1112912005912 substrate binding site [chemical binding]; other site 1112912005913 hexamer interface [polypeptide binding]; other site 1112912005914 metal binding site [ion binding]; metal-binding site 1112912005915 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 1112912005916 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 1112912005917 putative acyl-acceptor binding pocket; other site 1112912005918 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 1112912005919 Alcohol dehydrogenases of the MDR family; Region: Zn_ADH_like1; cd08266 1112912005920 putative NAD(P) binding site [chemical binding]; other site 1112912005921 structural Zn binding site [ion binding]; other site 1112912005922 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK06501 1112912005923 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 1112912005924 dimer interface [polypeptide binding]; other site 1112912005925 active site 1112912005926 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK06519 1112912005927 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 1112912005928 active site 1112912005929 acyl carrier protein; Provisional; Region: PRK06508 1112912005930 Lysozyme family protein [General function prediction only]; Region: zliS; COG3926 1112912005931 Glycosyl hydrolase 108; Region: Glyco_hydro_108; pfam05838 1112912005932 Predicted Peptidoglycan domain; Region: PG_binding_3; pfam09374 1112912005933 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 1112912005934 active site 1112912005935 catalytic residues [active] 1112912005936 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1112912005937 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 1112912005938 substrate binding site [chemical binding]; other site 1112912005939 ATP binding site [chemical binding]; other site 1112912005940 putative phosphonate metabolism protein; Region: Phn_opern_protn; TIGR03223 1112912005941 Metal-dependent hydrolase involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: COG3454 1112912005942 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 1112912005943 PhnM is believed to be a subunit of the membrane associated C-P lyase complex. C-P lyase is thought to catalyze the direct cleavage of inactivated C-P bonds to yield inorganic phosphate and the corresponding hydrocarbons. It is responsible for cleavage...; Region: PhnM; cd01306 1112912005944 active site 1112912005945 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 1112912005946 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 1112912005947 active site 1112912005948 motif I; other site 1112912005949 motif II; other site 1112912005950 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 1112912005951 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 1112912005952 FMN binding site [chemical binding]; other site 1112912005953 active site 1112912005954 catalytic residues [active] 1112912005955 substrate binding site [chemical binding]; other site 1112912005956 Predicted aspartyl protease [General function prediction only]; Region: COG3577 1112912005957 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 1112912005958 catalytic motif [active] 1112912005959 Catalytic residue [active] 1112912005960 Predicted Fe-S protein [General function prediction only]; Region: COG3313 1112912005961 cobalamin synthase; Reviewed; Region: cobS; PRK00235 1112912005962 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 1112912005963 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 1112912005964 putative dimer interface [polypeptide binding]; other site 1112912005965 active site pocket [active] 1112912005966 putative cataytic base [active] 1112912005967 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1112912005968 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 1112912005969 putative DNA binding site [nucleotide binding]; other site 1112912005970 putative Zn2+ binding site [ion binding]; other site 1112912005971 AsnC family; Region: AsnC_trans_reg; pfam01037 1112912005972 Uncharacterized subfamily of Uracil-DNA glycosylases; Region: UDG_like_1; cd10033 1112912005973 putative uracil binding site [chemical binding]; other site 1112912005974 putative active site [active] 1112912005975 Staphylococcal nuclease homologues; Region: SNc; smart00318 1112912005976 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cl00140 1112912005977 Catalytic site; other site 1112912005978 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 1112912005979 Sel1-like repeats; Region: SEL1; smart00671 1112912005980 Escherichia coli exonuclease III (ExoIII) and Neisseria meningitides NExo-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: ExoIII-like_AP-endo; cd09086 1112912005981 putative catalytic site [active] 1112912005982 putative phosphate binding site [ion binding]; other site 1112912005983 active site 1112912005984 metal binding site A [ion binding]; metal-binding site 1112912005985 DNA binding site [nucleotide binding] 1112912005986 putative AP binding site [nucleotide binding]; other site 1112912005987 putative metal binding site B [ion binding]; other site 1112912005988 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2979 1112912005989 tellurium resistance terB-like protein, subgroup 3; Region: terB_like_YebE; cd07178 1112912005990 putative metal binding site [ion binding]; other site 1112912005991 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 1112912005992 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01286 1112912005993 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 1112912005994 Arginyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: ArgS; COG0018 1112912005995 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 1112912005996 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 1112912005997 active site 1112912005998 HIGH motif; other site 1112912005999 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1112912006000 KMSK motif region; other site 1112912006001 tRNA binding surface [nucleotide binding]; other site 1112912006002 DALR anticodon binding domain; Region: DALR_1; smart00836 1112912006003 anticodon binding site; other site 1112912006004 Sporulation related domain; Region: SPOR; pfam05036 1112912006005 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 1112912006006 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 1112912006007 Rec8/ScpA/Scc1-like protein (kleisin family) [Replication, recombination, and repair]; Region: scpA; COG1354 1112912006008 Chromosome segregation and condensation protein B [DNA replication, recombination and repair]; Region: scpB; COG1386 1112912006009 twin arginine translocase protein A; Provisional; Region: tatA; PRK00720 1112912006010 sec-independent translocase; Provisional; Region: PRK00708 1112912006011 twin arginine-targeting protein translocase TatB; Region: tatB; TIGR01410 1112912006012 Sec-independent protein secretion pathway component TatC [Intracellular trafficking and secretion]; Region: TatC; COG0805 1112912006013 seryl-tRNA synthetase; Provisional; Region: PRK05431 1112912006014 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 1112912006015 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 1112912006016 dimer interface [polypeptide binding]; other site 1112912006017 active site 1112912006018 motif 1; other site 1112912006019 motif 2; other site 1112912006020 motif 3; other site 1112912006021 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 1112912006022 protein-L-isoaspartate O-methyltransferase; Reviewed; Region: pcm; PRK00312 1112912006023 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 1112912006024 S-adenosylmethionine binding site [chemical binding]; other site 1112912006025 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 1112912006026 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1112912006027 Peptidase family M23; Region: Peptidase_M23; pfam01551 1112912006028 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG2607 1112912006029 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 1112912006030 Walker A motif; other site 1112912006031 ATP binding site [chemical binding]; other site 1112912006032 Walker B motif; other site 1112912006033 Preprotein translocase subunit YajC [Intracellular trafficking and secretion]; Region: YajC; COG1862 1112912006034 bifunctional preprotein translocase subunit SecD/SecF; Reviewed; Region: PRK13023 1112912006035 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 1112912006036 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 1112912006037 Protein export membrane protein; Region: SecD_SecF; pfam02355 1112912006038 Mth938-like domain. The members of this family include: Mth938, 2P1, Xcr35, Rpa2829, and several uncharacterized sequences. Mth938 is a hypothetical protein encoded by the Methanobacterium thermoautotrophicum (Mth) genome. This protein crystallizes as a...; Region: Mth938-like; cd00248 1112912006039 Phytoene/squalene synthetase [Lipid metabolism]; Region: ERG9; COG1562 1112912006040 substrate binding pocket [chemical binding]; other site 1112912006041 substrate-Mg2+ binding site; other site 1112912006042 aspartate-rich region 1; other site 1112912006043 aspartate-rich region 2; other site 1112912006044 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 1112912006045 Glucose inhibited division protein A; Region: GIDA; pfam01134 1112912006046 Uncharacterized conserved small protein [Function unknown]; Region: COG5457 1112912006047 Predicted membrane protein [Function unknown]; Region: COG4872 1112912006048 Uncharacterized membrane-anchored protein [Function unknown]; Region: COG4929 1112912006049 trigger factor; Provisional; Region: tig; PRK01490 1112912006050 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1112912006051 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 1112912006052 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 1112912006053 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 1112912006054 GatB domain; Region: GatB_Yqey; smart00845 1112912006055 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 1112912006056 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 1112912006057 NADH dehydrogenase; Validated; Region: PRK08183 1112912006058 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4765 1112912006059 leucyl/phenylalanyl-tRNA--protein transferase; Reviewed; Region: aat; PRK00301 1112912006060 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 1112912006061 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1112912006062 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 1112912006063 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 1112912006064 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 1112912006065 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 1112912006066 carboxyltransferase (CT) interaction site; other site 1112912006067 biotinylation site [posttranslational modification]; other site 1112912006068 Dehydroquinase class II; Region: DHquinase_II; pfam01220 1112912006069 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 1112912006070 trimer interface [polypeptide binding]; other site 1112912006071 active site 1112912006072 dimer interface [polypeptide binding]; other site 1112912006073 Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: DsbG; COG1651 1112912006074 DsbA family, Com1-like subfamily; composed of proteins similar to Com1, a 27-kDa outer membrane-associated immunoreactive protein originally found in both acute and chronic disease strains of the pathogenic bacteria Coxiella burnetti. It contains a CXXC...; Region: DsbA_Com1_like; cd03023 1112912006075 catalytic residues [active] 1112912006076 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]; Region: COG4783 1112912006077 Peptidase family M48; Region: Peptidase_M48; cl12018 1112912006078 aspartate aminotransferase; Provisional; Region: PRK05764 1112912006079 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 1112912006080 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1112912006081 homodimer interface [polypeptide binding]; other site 1112912006082 catalytic residue [active] 1112912006083 S1_RNase_E: RNase E and RNase G, S1-like RNA-binding domain. RNase E is an essential endoribonuclease in the processing and degradation of RNA. In addition to its role in mRNA degradation, RNase E has also been implicated in the processing of rRNA, and...; Region: S1_RNase_E; cd04453 1112912006084 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 1112912006085 Ribonuclease E/G family; Region: RNase_E_G; pfam10150 1112912006086 AMIN domain; Region: AMIN; pfam11741 1112912006087 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 1112912006088 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 1112912006089 active site 1112912006090 metal binding site [ion binding]; metal-binding site 1112912006091 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 1112912006092 Transglycosylase; Region: Transgly; pfam00912 1112912006093 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 1112912006094 heme biosynthesis-associated TPR protein; Region: TPR_hemY_coli; TIGR00540 1112912006095 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 1112912006096 dinuclear metal binding motif [ion binding]; other site 1112912006097 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 1112912006098 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 1112912006099 catalytic triad [active] 1112912006100 AsmA family; Region: AsmA; pfam05170 1112912006101 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 1112912006102 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 1112912006103 active site 1112912006104 HIGH motif; other site 1112912006105 dimer interface [polypeptide binding]; other site 1112912006106 KMSKS motif; other site 1112912006107 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 1112912006108 RNA binding surface [nucleotide binding]; other site 1112912006109 Predicted molecular chaperone distantly related to HSP70-fold metalloproteases [Posttranslational modification, protein turnover, chaperones]; Region: COG2377 1112912006110 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 1112912006111 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2945 1112912006112 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 1112912006113 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 1112912006114 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1112912006115 catalytic residue [active] 1112912006116 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814 1112912006117 putative ABC transporter; Region: ycf24; CHL00085 1112912006118 Cysteine desulfurase activator ATPase [Posttranslational modification, protein turnover, chaperones]; Region: sufC; COG0396 1112912006119 ABC-type transport system involved in Fe-S cluster assembly, ATPase component; Region: ABC_FeS_Assembly; cd03217 1112912006120 Walker A/P-loop; other site 1112912006121 ATP binding site [chemical binding]; other site 1112912006122 Q-loop/lid; other site 1112912006123 ABC transporter signature motif; other site 1112912006124 Walker B; other site 1112912006125 D-loop; other site 1112912006126 H-loop/switch region; other site 1112912006127 Cysteine desulfurase activator SufB [Posttranslational modification, protein turnover, chaperones]; Region: SufB; COG0719 1112912006128 FeS assembly protein SufD; Region: sufD; TIGR01981 1112912006129 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 1112912006130 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 1112912006131 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1112912006132 catalytic residue [active] 1112912006133 FeS assembly SUF system protein; Region: SUF_assoc; TIGR02945 1112912006134 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 1112912006135 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 1112912006136 active site 1112912006137 Glycosyl transferase family group 2; Region: Glyco_trans_2_3; pfam13632 1112912006138 ATP-NAD kinase; Region: NAD_kinase; pfam01513 1112912006139 inorganic polyphosphate/ATP-NAD kinase; Reviewed; Region: ppnK; PRK04761 1112912006140 helicase 45; Provisional; Region: PTZ00424 1112912006141 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 1112912006142 ATP binding site [chemical binding]; other site 1112912006143 Mg++ binding site [ion binding]; other site 1112912006144 motif III; other site 1112912006145 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 1112912006146 nucleotide binding region [chemical binding]; other site 1112912006147 ATP-binding site [chemical binding]; other site 1112912006148 FeS assembly scaffold SufA; Region: sufA_proteo; TIGR01997 1112912006149 Copper chaperone [Inorganic ion transport and metabolism]; Region: CopZ; COG2608 1112912006150 metal-binding site [ion binding] 1112912006151 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 1112912006152 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 1112912006153 S-adenosylmethionine binding site [chemical binding]; other site 1112912006154 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 1112912006155 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3827 1112912006156 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 1112912006157 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 1112912006158 HIGH motif; other site 1112912006159 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 1112912006160 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 1112912006161 active site 1112912006162 KMSKS motif; other site 1112912006163 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 1112912006164 tRNA binding surface [nucleotide binding]; other site 1112912006165 anticodon binding site; other site 1112912006166 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 1112912006167 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 1112912006168 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 1112912006169 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1112912006170 GST_N family, unknown subfamily 2; composed of uncharacterized bacterial proteins with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of...; Region: GST_N_2; cd03047 1112912006171 putative C-terminal domain interface [polypeptide binding]; other site 1112912006172 putative GSH binding site (G-site) [chemical binding]; other site 1112912006173 putative dimer interface [polypeptide binding]; other site 1112912006174 C-terminal, alpha helical domain of an unknown subfamily 2 of Glutathione S-transferases; Region: GST_C_2; cd03180 1112912006175 putative N-terminal domain interface [polypeptide binding]; other site 1112912006176 putative dimer interface [polypeptide binding]; other site 1112912006177 putative substrate binding pocket (H-site) [chemical binding]; other site 1112912006178 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1112912006179 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 1112912006180 dimer interface [polypeptide binding]; other site 1112912006181 conserved gate region; other site 1112912006182 putative PBP binding loops; other site 1112912006183 ABC-ATPase subunit interface; other site 1112912006184 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1112912006185 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 1112912006186 dimer interface [polypeptide binding]; other site 1112912006187 conserved gate region; other site 1112912006188 putative PBP binding loops; other site 1112912006189 ABC-ATPase subunit interface; other site 1112912006190 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 1112912006191 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1112912006192 substrate binding pocket [chemical binding]; other site 1112912006193 membrane-bound complex binding site; other site 1112912006194 hinge residues; other site 1112912006195 Molybdenum is an essential trace element in the form of molybdenum cofactor (Moco) which is associated with the metabolism of nitrogen, carbon and sulfur by redox active enzymes. In E. coli, the synthesis of Moco involves genes from several loci: moa; Region: MobB; cd03116 1112912006196 Walker A motif; other site 1112912006197 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 1112912006198 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 1112912006199 GTP binding site; other site 1112912006200 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 1112912006201 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 1112912006202 FeS/SAM binding site; other site 1112912006203 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 1112912006204 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3536 1112912006205 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 1112912006206 hypothetical protein; Provisional; Region: PRK06753 1112912006207 fumarate hydratase; Provisional; Region: PRK15389 1112912006208 Fumarate hydratase (Fumerase); Region: Fumerase; pfam05681 1112912006209 Fumarase C-terminus; Region: Fumerase_C; pfam05683 1112912006210 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2989 1112912006211 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1112912006212 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 1112912006213 Transglycosylase associated protein; Region: Transgly_assoc; pfam04226 1112912006214 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 1112912006215 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 1112912006216 active site 1112912006217 Int/Topo IB signature motif; other site 1112912006218 catalytic residues [active] 1112912006219 DNA binding site [nucleotide binding] 1112912006220 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 1112912006221 Domain of unknown function (DUF1508); Region: DUF1508; cl01356 1112912006222 Domain of unknown function (DUF4415); Region: DUF4415; pfam14384 1112912006223 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2929 1112912006224 heme biosynthesis-associated TPR protein; Region: TPR_hemY_coli; TIGR00540 1112912006225 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1112912006226 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 1112912006227 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 1112912006228 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1112912006229 Lysozyme family protein [General function prediction only]; Region: zliS; COG3926 1112912006230 Glycosyl hydrolase 108; Region: Glyco_hydro_108; pfam05838 1112912006231 Predicted Peptidoglycan domain; Region: PG_binding_3; pfam09374 1112912006232 Arsenate Reductase (ArsC) family, ArsC subfamily; arsenic reductases similar to that encoded by arsC on the R733 plasmid of Escherichia coli. E. coli ArsC catalyzes the reduction of arsenate [As(V)] to arsenite [As(III)], the first step in the...; Region: ArsC_ArsC; cd03034 1112912006233 ArsC family; Region: ArsC; pfam03960 1112912006234 catalytic residues [active] 1112912006235 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 1112912006236 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 1112912006237 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 1112912006238 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 1112912006239 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; pfam07943 1112912006240 Thymidylate kinase [Nucleotide transport and metabolism]; Region: Tmk; COG0125 1112912006241 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 1112912006242 TMP-binding site; other site 1112912006243 ATP-binding site [chemical binding]; other site 1112912006244 DNA polymerase III subunit delta'; Validated; Region: PRK09112 1112912006245 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl17189 1112912006246 DNA polymerase III subunit delta'; Validated; Region: PRK08485 1112912006247 methionyl-tRNA synthetase; Reviewed; Region: PRK11893 1112912006248 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 1112912006249 active site 1112912006250 HIGH motif; other site 1112912006251 KMSKS motif; other site 1112912006252 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 1112912006253 tRNA binding surface [nucleotide binding]; other site 1112912006254 anticodon binding site; other site 1112912006255 Predicted metal-dependent hydrolases with the TIM-barrel fold [General function prediction only]; Region: COG1099 1112912006256 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 1112912006257 active site 1112912006258 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 1112912006259 putative hydrolase; Provisional; Region: PRK02113 1112912006260 cyclic beta-1,2-glucan ABC transporter; Provisional; Region: PRK13657 1112912006261 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1112912006262 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1112912006263 Walker A/P-loop; other site 1112912006264 ATP binding site [chemical binding]; other site 1112912006265 Q-loop/lid; other site 1112912006266 ABC transporter signature motif; other site 1112912006267 Walker B; other site 1112912006268 D-loop; other site 1112912006269 H-loop/switch region; other site 1112912006270 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 1112912006271 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1112912006272 active site 1112912006273 EamA-like transporter family; Region: EamA; pfam00892 1112912006274 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 1112912006275 EamA-like transporter family; Region: EamA; pfam00892 1112912006276 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 1112912006277 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; cl17915 1112912006278 motif I; other site 1112912006279 active site 1112912006280 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 1112912006281 motif II; other site 1112912006282 Chaperone required for the assembly of the mitochondrial F1-ATPase [Posttranslational modification, protein turnover, chaperones]; Region: COG5387 1112912006283 glutamine synthetase; Provisional; Region: glnA; PRK09469 1112912006284 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 1112912006285 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 1112912006286 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 1112912006287 Nitrogen regulatory protein P-II; Region: P-II; smart00938 1112912006288 Uncharacterized conserved protein [Function unknown]; Region: COG0062 1112912006289 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 1112912006290 putative substrate binding site [chemical binding]; other site 1112912006291 putative ATP binding site [chemical binding]; other site 1112912006292 phosphoglycolate phosphatase; Provisional; Region: PRK13222 1112912006293 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 1112912006294 motif II; other site 1112912006295 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 1112912006296 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1112912006297 active site 1112912006298 dimer interface [polypeptide binding]; other site 1112912006299 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3184 1112912006300 glutathione reductase; Validated; Region: PRK06116 1112912006301 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1112912006302 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1112912006303 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1112912006304 Class-II DAHP synthetase family; Region: DAHP_synth_2; pfam01474 1112912006305 Diacylglycerol kinase [Cell envelope biogenesis, outer membrane]; Region: DgkA; COG0818 1112912006306 NAD synthetase; Provisional; Region: PRK13981 1112912006307 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 1112912006308 multimer interface [polypeptide binding]; other site 1112912006309 active site 1112912006310 catalytic triad [active] 1112912006311 protein interface 1 [polypeptide binding]; other site 1112912006312 NAD+ synthase is a homodimer, which catalyzes the final step in de novo nicotinamide adenine dinucleotide (NAD+) biosynthesis, an amide transfer from either ammonia or glutamine to nicotinic acid adenine dinucleotide (NaAD). The conversion of NaAD to NAD...; Region: NAD_synthase; cd00553 1112912006313 homodimer interface [polypeptide binding]; other site 1112912006314 NAD binding pocket [chemical binding]; other site 1112912006315 ATP binding pocket [chemical binding]; other site 1112912006316 Mg binding site [ion binding]; other site 1112912006317 active-site loop [active] 1112912006318 glutamyl-tRNA synthetase; Provisional; Region: PRK12558 1112912006319 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1112912006320 active site 1112912006321 HIGH motif; other site 1112912006322 nucleotide binding site [chemical binding]; other site 1112912006323 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 1112912006324 active site 1112912006325 KMSKS motif; other site 1112912006326 malic enzyme; Reviewed; Region: PRK12862 1112912006327 Malic enzyme, N-terminal domain; Region: malic; pfam00390 1112912006328 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 1112912006329 putative NAD(P) binding site [chemical binding]; other site 1112912006330 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 1112912006331 L-Ala-D/L-Glu epimerase; Provisional; Region: PRK15129 1112912006332 L-Ala-D/L-Glu epimerase catalyzes the epimerization of L-Ala-D/L-Glu and other dipeptides. The genomic context and the substrate specificity of characterized members of this family from E.coli and B.subtilis indicates a possible role in the metabolism of...; Region: L-Ala-DL-Glu_epimerase; cd03319 1112912006333 active site 1112912006334 Sulphate Transporter and Anti-Sigma factor antagonist domain of SulP-like sulfate transporters, plays a role in the function and regulation of the transport activity, proposed general NTP binding function; Region: STAS_SulP_like_sulfate_transporter; cd07042 1112912006335 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 1112912006336 Permease; Region: Permease; pfam02405 1112912006337 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 1112912006338 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 1112912006339 Walker A/P-loop; other site 1112912006340 ATP binding site [chemical binding]; other site 1112912006341 Q-loop/lid; other site 1112912006342 ABC transporter signature motif; other site 1112912006343 Walker B; other site 1112912006344 D-loop; other site 1112912006345 H-loop/switch region; other site 1112912006346 virulence factor Mce family protein; Region: Mtu_fam_mce; TIGR00996 1112912006347 mce related protein; Region: MCE; pfam02470 1112912006348 ABC-type uncharacterized transport system, auxiliary component [General function prediction only]; Region: COG3218 1112912006349 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3009 1112912006350 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 1112912006351 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 1112912006352 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 1112912006353 catalytic loop [active] 1112912006354 iron binding site [ion binding]; other site 1112912006355 Predicted secreted Zn-dependent protease [Posttranslational modification, protein turnover, chaperones]; Region: COG5661 1112912006356 DHPS subgroup of Pterin binding enzymes. DHPS (dihydropteroate synthase), a functional homodimer, catalyzes the condensation of p-aminobenzoic acid (pABA) in the de novo biosynthesis of folate, which is an essential cofactor in both nucleic acid and...; Region: DHPS; cd00739 1112912006357 dihydropteroate synthase; Region: DHPS; TIGR01496 1112912006358 substrate binding pocket [chemical binding]; other site 1112912006359 dimer interface [polypeptide binding]; other site 1112912006360 inhibitor binding site; inhibition site 1112912006361 Dihydroneopterin aldolase (DHNA) and 7,8-dihydroneopterin triphosphate epimerase domain (DHNTPE); these enzymes have been designated folB and folX, respectively. Folate derivatives are essential cofactors in the biosynthesis of purines, pyrimidines, and...; Region: DHNA_DHNTPE; cd00534 1112912006362 homooctamer interface [polypeptide binding]; other site 1112912006363 active site 1112912006364 7,8-dihydro-6-hydroxymethylpterin-pyrophosphokinase (HPPK). Folate derivatives are essential cofactors in the biosynthesis of purines, pyrimidines, and amino acids as well as formyl-tRNA. Mammalian cells are able to utilize pre-formed folates after...; Region: HPPK; cd00483 1112912006365 catalytic center binding site [active] 1112912006366 ATP binding site [chemical binding]; other site 1112912006367 Predicted membrane protein [Function unknown]; Region: COG3768 1112912006368 Domain of unknown function (DUF697); Region: DUF697; cl12064 1112912006369 Predicted ATPase [General function prediction only]; Region: COG3106 1112912006370 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 1112912006371 catalytic core [active] 1112912006372 RNA polymerase-binding protein DksA; Region: dksA; TIGR02420 1112912006373 Flagellar biosynthesis protein, FliO; Region: FliO; pfam04347 1112912006374 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 1112912006375 PAS domain; Region: PAS_9; pfam13426 1112912006376 putative active site [active] 1112912006377 heme pocket [chemical binding]; other site 1112912006378 PAS domain; Region: PAS; smart00091 1112912006379 PAS fold; Region: PAS_4; pfam08448 1112912006380 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1112912006381 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 1112912006382 dimer interface [polypeptide binding]; other site 1112912006383 phosphorylation site [posttranslational modification] 1112912006384 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 1112912006385 ATP binding site [chemical binding]; other site 1112912006386 Mg2+ binding site [ion binding]; other site 1112912006387 G-X-G motif; other site 1112912006388 Response regulator receiver domain; Region: Response_reg; pfam00072 1112912006389 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 1112912006390 active site 1112912006391 phosphorylation site [posttranslational modification] 1112912006392 intermolecular recognition site; other site 1112912006393 dimerization interface [polypeptide binding]; other site 1112912006394 Predicted flavoproteins [General function prediction only]; Region: COG2081 1112912006395 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1112912006396 Beta-lactamase; Region: Beta-lactamase; pfam00144 1112912006397 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 1112912006398 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07562 1112912006399 Class II vitamin B12-dependent ribonucleotide reductase; Region: Ribonuc_red_2_N; pfam08471 1112912006400 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 1112912006401 Class II ribonucleotide reductase, dimeric form; Region: RNR_II_dimer; cd02888 1112912006402 active site 1112912006403 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 1112912006404 TSCPD domain; Region: TSCPD; pfam12637 1112912006405 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_9; cd04666 1112912006406 nudix motif; other site 1112912006407 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1112912006408 active site 1112912006409 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 1112912006410 Ligand Binding Site [chemical binding]; other site 1112912006411 Predicted nucleotide-utilizing enzyme related to molybdopterin-biosynthesis enzyme MoeA [General function prediction only]; Region: CinA; COG1058 1112912006412 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 1112912006413 putative MPT binding site; other site 1112912006414 NAD(P)H:quinone oxidoreductase; Provisional; Region: PRK03767 1112912006415 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1112912006416 threonine dehydratase; Validated; Region: PRK08639 1112912006417 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 1112912006418 tetramer interface [polypeptide binding]; other site 1112912006419 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1112912006420 catalytic residue [active] 1112912006421 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 1112912006422 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 1112912006423 DEAD-like helicases superfamily; Region: DEXDc; smart00487 1112912006424 ATP binding site [chemical binding]; other site 1112912006425 Mg++ binding site [ion binding]; other site 1112912006426 motif III; other site 1112912006427 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 1112912006428 nucleotide binding region [chemical binding]; other site 1112912006429 ATP-binding site [chemical binding]; other site 1112912006430 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 1112912006431 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 1112912006432 dimer interface [polypeptide binding]; other site 1112912006433 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1112912006434 catalytic residue [active] 1112912006435 Predicted metal-dependent hydrolases related to alanyl-tRNA synthetase HxxxH domain [General function prediction only]; Region: COG2872 1112912006436 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; pfam07973 1112912006437 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 1112912006438 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 1112912006439 active site residue [active] 1112912006440 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 1112912006441 active site residue [active] 1112912006442 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 1112912006443 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1112912006444 Coenzyme A binding pocket [chemical binding]; other site 1112912006445 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1112912006446 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1112912006447 metal binding site [ion binding]; metal-binding site 1112912006448 active site 1112912006449 I-site; other site 1112912006450 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 1112912006451 succinate CoA transferase; Region: YgfH_subfam; TIGR03458 1112912006452 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 1112912006453 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 1112912006454 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 1112912006455 putative substrate translocation pore; other site 1112912006456 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 1112912006457 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1112912006458 HlyD family secretion protein; Region: HlyD_3; pfam13437 1112912006459 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 1112912006460 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD2; cd08298 1112912006461 putative NAD(P) binding site [chemical binding]; other site 1112912006462 putative substrate binding site [chemical binding]; other site 1112912006463 catalytic Zn binding site [ion binding]; other site 1112912006464 structural Zn binding site [ion binding]; other site 1112912006465 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 1112912006466 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 1112912006467 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 1112912006468 active site 1112912006469 Predicted methyltransferase (contains TPR repeat) [General function prediction only]; Region: COG4976 1112912006470 Tetratricopeptide repeat; Region: TPR_1; pfam00515 1112912006471 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 1112912006472 S-adenosylmethionine binding site [chemical binding]; other site 1112912006473 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 1112912006474 SBF-like CPA transporter family (DUF4137); Region: DUF4137; pfam13593 1112912006475 UDP-glucose 4-epimerase; Region: PLN02240 1112912006476 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 1112912006477 NAD binding site [chemical binding]; other site 1112912006478 homodimer interface [polypeptide binding]; other site 1112912006479 active site 1112912006480 substrate binding site [chemical binding]; other site 1112912006481 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 1112912006482 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 1112912006483 homodimer interface [polypeptide binding]; other site 1112912006484 metal binding site [ion binding]; metal-binding site 1112912006485 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) C-terminal tandem-domain of MazG proteins from Escherichia coli and bacterial homologs' Region: NTP-PPase_MazG_Cterm; cd11529 1112912006486 homodimer interface [polypeptide binding]; other site 1112912006487 active site 1112912006488 putative chemical substrate binding site [chemical binding]; other site 1112912006489 metal binding site [ion binding]; metal-binding site 1112912006490 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 1112912006491 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 1112912006492 putative FMN binding site [chemical binding]; other site 1112912006493 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 1112912006494 TGS _ThrRS_N: ThrRS (threonyl-tRNA Synthetase) is a class II tRNA synthetase that couples threonine to its cognate tRNA. In addition to its catalytic and anticodon-binding domains, ThrRS has an N-terminal TGS domain, named after the ThrRS, GTPase, and...; Region: TGS_ThrRS_N; cd01667 1112912006495 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 1112912006496 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 1112912006497 active site 1112912006498 dimer interface [polypeptide binding]; other site 1112912006499 motif 1; other site 1112912006500 motif 2; other site 1112912006501 motif 3; other site 1112912006502 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 1112912006503 anticodon binding site; other site 1112912006504 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 1112912006505 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 1112912006506 Sporulation related domain; Region: SPOR; pfam05036 1112912006507 hypothetical protein; Validated; Region: PRK00041 1112912006508 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 1112912006509 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 1112912006510 trimerization site [polypeptide binding]; other site 1112912006511 active site 1112912006512 GTP cyclohydrolase I (GTP-CH-I) catalyzes the conversion of GTP into dihydroneopterin triphosphate. The enzyme product is the precursor of tetrahydrofolate in eubacteria, fungi, and plants and of the folate analogs in methanogenic bacteria. In...; Region: GTP_cyclohydro1; cd00642 1112912006513 homodecamer interface [polypeptide binding]; other site 1112912006514 GTP cyclohydrolase I; Provisional; Region: PLN03044 1112912006515 active site 1112912006516 putative catalytic site residues [active] 1112912006517 zinc binding site [ion binding]; other site 1112912006518 GTP-CH-I/GFRP interaction surface; other site 1112912006519 phosphoribosyl-AMP cyclohydrolase; Reviewed; Region: hisI; PRK00051 1112912006520 hypothetical protein; Provisional; Region: PRK10279 1112912006521 Bacterial patatin-like phospholipase domain containing protein 6; Region: Pat_NTE_like_bacteria; cd07228 1112912006522 nucleophile elbow; other site 1112912006523 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 1112912006524 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 1112912006525 active site 1112912006526 DNA binding site [nucleotide binding] 1112912006527 Int/Topo IB signature motif; other site 1112912006528 BRO family, N-terminal domain; Region: Bro-N; cl10591 1112912006529 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 1112912006530 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 1112912006531 catalytic residues [active] 1112912006532 catalytic nucleophile [active] 1112912006533 Presynaptic Site I dimer interface [polypeptide binding]; other site 1112912006534 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 1112912006535 Synaptic Flat tetramer interface [polypeptide binding]; other site 1112912006536 Synaptic Site I dimer interface [polypeptide binding]; other site 1112912006537 DNA binding site [nucleotide binding] 1112912006538 Prophage antirepressor [Transcription]; Region: COG3617 1112912006539 BRO family, N-terminal domain; Region: Bro-N; smart01040 1112912006540 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 1112912006541 CoA-transferase family III; Region: CoA_transf_3; pfam02515 1112912006542 Glutaryl-CoA dehydrogenase; Region: GCD; cd01151 1112912006543 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1112912006544 FAD binding site [chemical binding]; other site 1112912006545 substrate binding pocket [chemical binding]; other site 1112912006546 catalytic base [active] 1112912006547 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 1112912006548 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1112912006549 The C-terminal substrate binding domain of LysR-type transcriptional regulators GcdR-like, contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_like; cd08481 1112912006550 dimerization interface [polypeptide binding]; other site 1112912006551 substrate binding pocket [chemical binding]; other site 1112912006552 luciferase family oxidoreductase, group 1; Region: oxido_grp_1; TIGR03558 1112912006553 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 1112912006554 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cd00347 1112912006555 multidrug efflux protein; Reviewed; Region: PRK09579 1112912006556 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1112912006557 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1112912006558 HlyD family secretion protein; Region: HlyD_3; pfam13437 1112912006559 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1112912006560 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1112912006561 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 1112912006562 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 1112912006563 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 1112912006564 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 1112912006565 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 1112912006566 active site 1112912006567 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 1112912006568 active site 1112912006569 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 1112912006570 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 1112912006571 active site 1112912006572 (T/H)XGH motif; other site 1112912006573 DNA gyrase subunit A; Validated; Region: PRK05560 1112912006574 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 1112912006575 CAP-like domain; other site 1112912006576 active site 1112912006577 primary dimer interface [polypeptide binding]; other site 1112912006578 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1112912006579 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1112912006580 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1112912006581 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1112912006582 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1112912006583 Multiple antibiotic transporter [Intracellular trafficking and secretion]; Region: MarC; COG2095 1112912006584 Uncharacterized component of phosphonate metabolism [Inorganic ion transport and metabolism]; Region: COG3709 1112912006585 phosphonates metabolism transcriptional regulator PhnF; Region: C_P_lyase_phnF; TIGR02325 1112912006586 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1112912006587 DNA-binding site [nucleotide binding]; DNA binding site 1112912006588 UTRA domain; Region: UTRA; pfam07702 1112912006589 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 1112912006590 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 1112912006591 dimer interface [polypeptide binding]; other site 1112912006592 ssDNA binding site [nucleotide binding]; other site 1112912006593 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1112912006594 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 1112912006595 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 1112912006596 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 1112912006597 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 1112912006598 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 1112912006599 IHF dimer interface [polypeptide binding]; other site 1112912006600 IHF - DNA interface [nucleotide binding]; other site 1112912006601 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 1112912006602 Found in ATP-dependent protease La (LON); Region: LON; smart00464 1112912006603 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 1112912006604 Walker A motif; other site 1112912006605 ATP binding site [chemical binding]; other site 1112912006606 Walker B motif; other site 1112912006607 arginine finger; other site 1112912006608 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 1112912006609 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 1112912006610 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 1112912006611 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 1112912006612 Walker A motif; other site 1112912006613 ATP binding site [chemical binding]; other site 1112912006614 Walker B motif; other site 1112912006615 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 1112912006616 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 1112912006617 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 1112912006618 oligomer interface [polypeptide binding]; other site 1112912006619 active site residues [active] 1112912006620 GTPases [General function prediction only]; Region: HflX; COG2262 1112912006621 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 1112912006622 HflX GTPase family; Region: HflX; cd01878 1112912006623 G1 box; other site 1112912006624 GTP/Mg2+ binding site [chemical binding]; other site 1112912006625 Switch I region; other site 1112912006626 G2 box; other site 1112912006627 G3 box; other site 1112912006628 Switch II region; other site 1112912006629 G4 box; other site 1112912006630 G5 box; other site 1112912006631 bacterial Hfq-like; Region: Hfq; cd01716 1112912006632 hexamer interface [polypeptide binding]; other site 1112912006633 Sm1 motif; other site 1112912006634 RNA binding site [nucleotide binding]; other site 1112912006635 Sm2 motif; other site 1112912006636 Capsular polysaccharide synthesis protein; Region: Caps_synth; pfam05704 1112912006637 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 1112912006638 TrkA-N domain; Region: TrkA_N; pfam02254 1112912006639 TrkA-C domain; Region: TrkA_C; pfam02080 1112912006640 TrkA-N domain; Region: TrkA_N; pfam02254 1112912006641 TrkA-C domain; Region: TrkA_C; pfam02080 1112912006642 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 1112912006643 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 1112912006644 active site 1112912006645 phosphorylation site [posttranslational modification] 1112912006646 intermolecular recognition site; other site 1112912006647 dimerization interface [polypeptide binding]; other site 1112912006648 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 1112912006649 Walker A motif; other site 1112912006650 ATP binding site [chemical binding]; other site 1112912006651 Walker B motif; other site 1112912006652 arginine finger; other site 1112912006653 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1112912006654 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 1112912006655 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 1112912006656 dimerization interface [polypeptide binding]; other site 1112912006657 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 1112912006658 dimer interface [polypeptide binding]; other site 1112912006659 phosphorylation site [posttranslational modification] 1112912006660 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 1112912006661 ATP binding site [chemical binding]; other site 1112912006662 Mg2+ binding site [ion binding]; other site 1112912006663 G-X-G motif; other site 1112912006664 nitrogen regulation protein NR(I); Region: ntrC; TIGR01818 1112912006665 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 1112912006666 active site 1112912006667 phosphorylation site [posttranslational modification] 1112912006668 intermolecular recognition site; other site 1112912006669 dimerization interface [polypeptide binding]; other site 1112912006670 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 1112912006671 Walker A motif; other site 1112912006672 ATP binding site [chemical binding]; other site 1112912006673 Walker B motif; other site 1112912006674 arginine finger; other site 1112912006675 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 1112912006676 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 1112912006677 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 1112912006678 dimer interface [polypeptide binding]; other site 1112912006679 phosphorylation site [posttranslational modification] 1112912006680 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 1112912006681 ATP binding site [chemical binding]; other site 1112912006682 Mg2+ binding site [ion binding]; other site 1112912006683 G-X-G motif; other site 1112912006684 tRNA-dihydrouridine synthase [Translation, ribosomal structure and biogenesis]; Region: COG0042 1112912006685 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 1112912006686 FMN binding site [chemical binding]; other site 1112912006687 active site 1112912006688 catalytic residues [active] 1112912006689 substrate binding site [chemical binding]; other site 1112912006690 bifunctional 2-C-methyl-D-erythritol 4-phosphate cytidylyltransferase/2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase protein; Provisional; Region: ispDF; PRK09382 1112912006691 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 1112912006692 substrate binding site; other site 1112912006693 dimer interface; other site 1112912006694 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 1112912006695 homotrimer interaction site [polypeptide binding]; other site 1112912006696 zinc binding site [ion binding]; other site 1112912006697 CDP-binding sites; other site 1112912006698 Uncharacterized protein (competence- and mitomycin-induced) [General function prediction only]; Region: CinA; COG1546 1112912006699 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 1112912006700 classical (c) SDRs; Region: SDR_c; cd05233 1112912006701 NAD(P) binding site [chemical binding]; other site 1112912006702 active site 1112912006703 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 1112912006704 putative coenzyme Q binding site [chemical binding]; other site 1112912006705 lipoyl synthase; Provisional; Region: PRK05481 1112912006706 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 1112912006707 FeS/SAM binding site; other site 1112912006708 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06416 1112912006709 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; cl17730 1112912006710 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1112912006711 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1112912006712 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 1112912006713 pyruvate dehydrogenase complex dihydrolipoamide acetyltransferase, long form; Region: PDHac_trf_mito; TIGR01349 1112912006714 E3 interaction surface; other site 1112912006715 lipoyl attachment site [posttranslational modification]; other site 1112912006716 e3 binding domain; Region: E3_binding; pfam02817 1112912006717 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 1112912006718 pyruvate dehydrogenase subunit beta; Provisional; Region: PRK11892 1112912006719 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 1112912006720 E3 interaction surface; other site 1112912006721 lipoyl attachment site [posttranslational modification]; other site 1112912006722 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 1112912006723 alpha subunit interface [polypeptide binding]; other site 1112912006724 TPP binding site [chemical binding]; other site 1112912006725 heterodimer interface [polypeptide binding]; other site 1112912006726 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1112912006727 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_y; TIGR03182 1112912006728 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 1112912006729 tetramer interface [polypeptide binding]; other site 1112912006730 TPP-binding site [chemical binding]; other site 1112912006731 heterodimer interface [polypeptide binding]; other site 1112912006732 phosphorylation loop region [posttranslational modification] 1112912006733 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 1112912006734 Septum formation initiator; Region: DivIC; pfam04977 1112912006735 Methyltransferase domain; Region: Methyltransf_23; pfam13489 1112912006736 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 1112912006737 S-adenosylmethionine binding site [chemical binding]; other site 1112912006738 enolase; Provisional; Region: eno; PRK00077 1112912006739 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 1112912006740 dimer interface [polypeptide binding]; other site 1112912006741 metal binding site [ion binding]; metal-binding site 1112912006742 substrate binding pocket [chemical binding]; other site 1112912006743 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 1112912006744 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 1112912006745 CTP synthetase; Validated; Region: pyrG; PRK05380 1112912006746 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 1112912006747 Catalytic site [active] 1112912006748 active site 1112912006749 UTP binding site [chemical binding]; other site 1112912006750 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 1112912006751 active site 1112912006752 putative oxyanion hole; other site 1112912006753 catalytic triad [active] 1112912006754 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 1112912006755 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 1112912006756 Preprotein translocase subunit SecG [Intracellular trafficking and secretion]; Region: SecG; COG1314 1112912006757 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 1112912006758 triosephosphate isomerase; Provisional; Region: PRK14565 1112912006759 substrate binding site [chemical binding]; other site 1112912006760 dimer interface [polypeptide binding]; other site 1112912006761 catalytic triad [active] 1112912006762 SurA N-terminal domain; Region: SurA_N_3; cl07813 1112912006763 Parvulin-like peptidyl-prolyl isomerase [Posttranslational modification, protein turnover, chaperones]; Region: SurA; COG0760 1112912006764 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 1112912006765 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 1112912006766 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 1112912006767 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 1112912006768 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 1112912006769 active site 1112912006770 ribulose/triose binding site [chemical binding]; other site 1112912006771 phosphate binding site [ion binding]; other site 1112912006772 substrate (anthranilate) binding pocket [chemical binding]; other site 1112912006773 product (indole) binding pocket [chemical binding]; other site 1112912006774 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 1112912006775 trimer interface [polypeptide binding]; other site 1112912006776 dimer interface [polypeptide binding]; other site 1112912006777 putative active site [active] 1112912006778 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 1112912006779 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 1112912006780 dimer interface [polypeptide binding]; other site 1112912006781 putative functional site; other site 1112912006782 putative MPT binding site; other site 1112912006783 LexA repressor; Validated; Region: PRK00215 1112912006784 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 1112912006785 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 1112912006786 Catalytic site [active] 1112912006787 Predicted membrane metal-binding protein [General function prediction only]; Region: ComEC; COG0658 1112912006788 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 1112912006789 Competence protein; Region: Competence; pfam03772 1112912006790 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 1112912006791 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1112912006792 active site 1112912006793 HIGH motif; other site 1112912006794 nucleotide binding site [chemical binding]; other site 1112912006795 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 1112912006796 active site 1112912006797 KMSKS motif; other site 1112912006798 Escherichia coli (Ec) citrate synthase (CS) GltA_like. CS catalyzes the condensation of acetyl coenzyme A (AcCoA) and oxalacetate (OAA) to form citrate and coenzyme A (CoA), the first step in the citric acid cycle (TCA or Krebs cycle). The overall CS...; Region: EcCS_like; cd06114 1112912006799 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 1112912006800 dimer interface [polypeptide binding]; other site 1112912006801 active site 1112912006802 citrylCoA binding site [chemical binding]; other site 1112912006803 NADH binding [chemical binding]; other site 1112912006804 cationic pore residues; other site 1112912006805 oxalacetate/citrate binding site [chemical binding]; other site 1112912006806 coenzyme A binding site [chemical binding]; other site 1112912006807 catalytic triad [active] 1112912006808 Lipid A disaccharide synthetase [Cell envelope biogenesis, outer membrane]; Region: LpxB; COG0763 1112912006809 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 1112912006810 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3494 1112912006811 Acyl-[acyl carrier protein]; Region: LpxA; COG1043 1112912006812 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 1112912006813 active site 1112912006814 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 1112912006815 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 1112912006816 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 1112912006817 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 1112912006818 trimer interface [polypeptide binding]; other site 1112912006819 active site 1112912006820 UDP-GlcNAc binding site [chemical binding]; other site 1112912006821 lipid binding site [chemical binding]; lipid-binding site 1112912006822 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 1112912006823 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 1112912006824 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1112912006825 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1112912006826 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1112912006827 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1112912006828 Surface antigen; Region: Bac_surface_Ag; pfam01103 1112912006829 Predicted membrane-associated Zn-dependent proteases 1 [Cell envelope biogenesis, outer membrane]; Region: COG0750 1112912006830 RseP-like Site-2 proteases (S2P), zinc metalloproteases (MEROPS family M50A), cleave transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. In Escherichia coli, the S2P homolog...; Region: S2P-M50_PDZ_RseP-like; cd06163 1112912006831 active site 1112912006832 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 1112912006833 protein binding site [polypeptide binding]; other site 1112912006834 RseP-like Site-2 proteases (S2P), zinc metalloproteases (MEROPS family M50A), cleave transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. In Escherichia coli, the S2P homolog...; Region: S2P-M50_PDZ_RseP-like; cd06163 1112912006835 putative substrate binding region [chemical binding]; other site 1112912006836 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 1112912006837 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 1112912006838 undecaprenyl pyrophosphate synthase; Provisional; Region: PRK14834 1112912006839 Cis (Z)-Isoprenyl Diphosphate Synthases (cis-IPPS); homodimers which catalyze the successive 1'-4 condensation of the isopentenyl diphosphate (IPP) molecule to trans,trans-farnesyl diphosphate (FPP) or to cis,trans-FPP to form long-chain polyprenyl...; Region: CIS_IPPS; cl00230 1112912006840 catalytic residue [active] 1112912006841 putative FPP diphosphate binding site; other site 1112912006842 putative FPP binding hydrophobic cleft; other site 1112912006843 dimer interface [polypeptide binding]; other site 1112912006844 putative IPP diphosphate binding site; other site 1112912006845 ribosome recycling factor; Reviewed; Region: frr; PRK00083 1112912006846 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 1112912006847 hinge region; other site 1112912006848 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 1112912006849 putative nucleotide binding site [chemical binding]; other site 1112912006850 uridine monophosphate binding site [chemical binding]; other site 1112912006851 homohexameric interface [polypeptide binding]; other site 1112912006852 elongation factor Ts; Provisional; Region: tsf; PRK09377 1112912006853 UBA/TS-N domain; Region: UBA; pfam00627 1112912006854 Elongation factor TS; Region: EF_TS; pfam00889 1112912006855 Elongation factor TS; Region: EF_TS; pfam00889 1112912006856 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 1112912006857 rRNA interaction site [nucleotide binding]; other site 1112912006858 S8 interaction site; other site 1112912006859 putative laminin-1 binding site; other site 1112912006860 Calcium/calmodulin dependent protein kinase II Association; Region: CaMKII_AD; cl17504 1112912006861 Domain of unknown function (DUF1849); Region: DUF1849; pfam08904 1112912006862 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_1; cd02199 1112912006863 homotrimer interaction site [polypeptide binding]; other site 1112912006864 putative active site [active] 1112912006865 Glycerophosphodiester phosphodiesterase domain of uncharacterized bacterial glycerophosphodiester phosphodiesterases; Region: GDPD_like_3; cd08585 1112912006866 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 1112912006867 putative active site [active] 1112912006868 catalytic site [active] 1112912006869 putative metal binding site [ion binding]; other site 1112912006870 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3146 1112912006871 Protein of unknown function, DUF482; Region: DUF482; pfam04339 1112912006872 HINT (histidine triad nucleotide-binding protein) subgroup: Members of this CD belong to the superfamily of histidine triad hydrolases that act on alpha-phosphate of ribonucleotides. This subgroup includes members from all three forms of cellular life; Region: HINT_subgroup; cd01277 1112912006873 HIT family signature motif; other site 1112912006874 catalytic residue [active] 1112912006875 ATP-dependent Clp protease ATP-binding subunit clpA; Region: ClpA; TIGR02639 1112912006876 Clp amino terminal domain; Region: Clp_N; pfam02861 1112912006877 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 1112912006878 Walker A motif; other site 1112912006879 ATP binding site [chemical binding]; other site 1112912006880 Walker B motif; other site 1112912006881 arginine finger; other site 1112912006882 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 1112912006883 Walker A motif; other site 1112912006884 ATP binding site [chemical binding]; other site 1112912006885 Walker B motif; other site 1112912006886 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 1112912006887 Uncharacterized conserved protein [Function unknown]; Region: COG2127 1112912006888 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 1112912006889 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 1112912006890 Sporulation related domain; Region: SPOR; pfam05036 1112912006891 Uncharacterized conserved protein [Function unknown]; Region: COG5458 1112912006892 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 1112912006893 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 1112912006894 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 1112912006895 Uncharacterized conserved protein [Function unknown]; Region: COG1434 1112912006896 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 1112912006897 putative active site [active] 1112912006898 Predicted membrane protein [Function unknown]; Region: COG3503 1112912006899 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 1112912006900 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 1112912006901 Helix-Turn-Helix DNA binding domain of the regulatory protein GnyR; Region: HTH_GnyR; cd04776 1112912006902 DNA binding residues [nucleotide binding] 1112912006903 putative dimer interface [polypeptide binding]; other site 1112912006904 Bacterial protein of unknown function (DUF883); Region: DUF883; cl01888 1112912006905 7-cyano-7-deazaguanine reductase; Provisional; Region: PRK13258 1112912006906 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3803 1112912006907 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1112912006908 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 1112912006909 non-specific DNA binding site [nucleotide binding]; other site 1112912006910 salt bridge; other site 1112912006911 sequence-specific DNA binding site [nucleotide binding]; other site 1112912006912 Predicted transcriptional regulator [General function prediction only]; Region: COG3800 1112912006913 Domain of unknown function (DUF955); Region: DUF955; pfam06114 1112912006914 Predicted transcriptional regulator (DUF2083); Region: DUF2083; pfam09856 1112912006915 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 1112912006916 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1112912006917 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 1112912006918 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 1112912006919 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 1112912006920 carboxyltransferase (CT) interaction site; other site 1112912006921 biotinylation site [posttranslational modification]; other site 1112912006922 methylmalonyl-CoA mutase; Reviewed; Region: PRK09426 1112912006923 Coenzyme B12-dependent-methylmalonyl coenzyme A (CoA) mutase (MCM) family, Alpha subunit-like subfamily; contains proteins similar to the alpha subunit of Propionbacterium shermanni MCM, as well as human and E. coli MCM. Members of this subfamily contain...; Region: MM_CoA_mutase_alpha_like; cd03679 1112912006924 active site 1112912006925 substrate binding site [chemical binding]; other site 1112912006926 coenzyme B12 binding site [chemical binding]; other site 1112912006927 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 1112912006928 B12 binding site [chemical binding]; other site 1112912006929 cobalt ligand [ion binding]; other site 1112912006930 TRAP transporter, 4TM/12TM fusion protein; Region: TRAP_fused; TIGR02123 1112912006931 DctM-like transporters; Region: DctM; pfam06808 1112912006932 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 1112912006933 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 1112912006934 glutamate racemase; Provisional; Region: PRK00865 1112912006935 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 1112912006936 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 1112912006937 intracellular protease, PfpI family; Region: PfpI; TIGR01382 1112912006938 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_1; cd03169 1112912006939 conserved cys residue [active] 1112912006940 Uncharacterized protein related to arylsulfate sulfotransferase involved in siderophore biosynthesis [General function prediction only]; Region: COG4321 1112912006941 isocitrate dehydrogenase; Validated; Region: PRK08299 1112912006942 alkaline phosphatase; Provisional; Region: PRK10518 1112912006943 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 1112912006944 dimer interface [polypeptide binding]; other site 1112912006945 active site 1112912006946 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 1112912006947 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 1112912006948 motif 1; other site 1112912006949 active site 1112912006950 motif 2; other site 1112912006951 motif 3; other site 1112912006952 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 1112912006953 recombinase A; Provisional; Region: recA; PRK09354 1112912006954 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 1112912006955 hexamer interface [polypeptide binding]; other site 1112912006956 Walker A motif; other site 1112912006957 ATP binding site [chemical binding]; other site 1112912006958 Walker B motif; other site 1112912006959 putative outer membrane lipoprotein; Provisional; Region: PRK10510 1112912006960 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1112912006961 ligand binding site [chemical binding]; other site 1112912006962 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 1112912006963 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1112912006964 catalytic residue [active] 1112912006965 recombination factor protein RarA; Reviewed; Region: PRK13342 1112912006966 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 1112912006967 Walker A motif; other site 1112912006968 ATP binding site [chemical binding]; other site 1112912006969 Walker B motif; other site 1112912006970 arginine finger; other site 1112912006971 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 1112912006972 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 1112912006973 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 1112912006974 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 1112912006975 protein binding site [polypeptide binding]; other site 1112912006976 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 1112912006977 protein binding site [polypeptide binding]; other site 1112912006978 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 1112912006979 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 1112912006980 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 1112912006981 alphaNTD homodimer interface [polypeptide binding]; other site 1112912006982 alphaNTD - beta interaction site [polypeptide binding]; other site 1112912006983 alphaNTD - beta' interaction site [polypeptide binding]; other site 1112912006984 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 1112912006985 30S ribosomal protein S11; Validated; Region: PRK05309 1112912006986 Ribosomal protein S13 [Translation, ribosomal structure and biogenesis]; Region: RpsM; COG0099 1112912006987 30S ribosomal protein S13; Region: bact_S13; TIGR03631 1112912006988 adenylate kinase; Reviewed; Region: adk; PRK00279 1112912006989 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 1112912006990 AMP-binding site [chemical binding]; other site 1112912006991 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 1112912006992 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 1112912006993 SecY translocase; Region: SecY; pfam00344 1112912006994 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 1112912006995 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 1112912006996 23S rRNA binding site [nucleotide binding]; other site 1112912006997 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 1112912006998 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 1112912006999 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 1112912007000 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 1112912007001 5S rRNA interface [nucleotide binding]; other site 1112912007002 23S rRNA interface [nucleotide binding]; other site 1112912007003 L5 interface [polypeptide binding]; other site 1112912007004 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 1112912007005 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 1112912007006 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 1112912007007 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 1112912007008 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 1112912007009 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 1112912007010 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 1112912007011 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 1112912007012 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 1112912007013 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 1112912007014 RNA binding site [nucleotide binding]; other site 1112912007015 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 1112912007016 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 1112912007017 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 1112912007018 23S rRNA interface [nucleotide binding]; other site 1112912007019 putative translocon interaction site; other site 1112912007020 signal recognition particle (SRP54) interaction site; other site 1112912007021 L23 interface [polypeptide binding]; other site 1112912007022 trigger factor interaction site; other site 1112912007023 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 1112912007024 23S rRNA interface [nucleotide binding]; other site 1112912007025 5S rRNA interface [nucleotide binding]; other site 1112912007026 putative antibiotic binding site [chemical binding]; other site 1112912007027 L25 interface [polypeptide binding]; other site 1112912007028 L27 interface [polypeptide binding]; other site 1112912007029 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 1112912007030 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 1112912007031 G-X-X-G motif; other site 1112912007032 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 1112912007033 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 1112912007034 putative translocon binding site; other site 1112912007035 protein-rRNA interface [nucleotide binding]; other site 1112912007036 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 1112912007037 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 1112912007038 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 1112912007039 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 1112912007040 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 1112912007041 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 1112912007042 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 1112912007043 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 1112912007044 elongation factor Tu; Reviewed; Region: PRK00049 1112912007045 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 1112912007046 G1 box; other site 1112912007047 GEF interaction site [polypeptide binding]; other site 1112912007048 GTP/Mg2+ binding site [chemical binding]; other site 1112912007049 Switch I region; other site 1112912007050 G2 box; other site 1112912007051 G3 box; other site 1112912007052 Switch II region; other site 1112912007053 G4 box; other site 1112912007054 G5 box; other site 1112912007055 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 1112912007056 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 1112912007057 Antibiotic Binding Site [chemical binding]; other site 1112912007058 elongation factor G; Reviewed; Region: PRK00007 1112912007059 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 1112912007060 G1 box; other site 1112912007061 putative GEF interaction site [polypeptide binding]; other site 1112912007062 GTP/Mg2+ binding site [chemical binding]; other site 1112912007063 Switch I region; other site 1112912007064 G2 box; other site 1112912007065 G3 box; other site 1112912007066 Switch II region; other site 1112912007067 G4 box; other site 1112912007068 G5 box; other site 1112912007069 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 1112912007070 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 1112912007071 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 1112912007072 30S ribosomal protein S7; Validated; Region: PRK05302 1112912007073 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 1112912007074 S17 interaction site [polypeptide binding]; other site 1112912007075 S8 interaction site; other site 1112912007076 16S rRNA interaction site [nucleotide binding]; other site 1112912007077 streptomycin interaction site [chemical binding]; other site 1112912007078 23S rRNA interaction site [nucleotide binding]; other site 1112912007079 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 1112912007080 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 1112912007081 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 1112912007082 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 1112912007083 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 1112912007084 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 1112912007085 RNA polymerase Rpb1, domain 5; Region: RNA_pol_Rpb1_5; pfam04998 1112912007086 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 1112912007087 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 1112912007088 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 1112912007089 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 1112912007090 DNA binding site [nucleotide binding] 1112912007091 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 1112912007092 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 1112912007093 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 1112912007094 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 1112912007095 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 1112912007096 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 1112912007097 RPB11 interaction site [polypeptide binding]; other site 1112912007098 RPB12 interaction site [polypeptide binding]; other site 1112912007099 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 1112912007100 RPB1 interaction site [polypeptide binding]; other site 1112912007101 RPB11 interaction site [polypeptide binding]; other site 1112912007102 RPB10 interaction site [polypeptide binding]; other site 1112912007103 RPB3 interaction site [polypeptide binding]; other site 1112912007104 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 1112912007105 L11 interface [polypeptide binding]; other site 1112912007106 putative EF-Tu interaction site [polypeptide binding]; other site 1112912007107 putative EF-G interaction site [polypeptide binding]; other site 1112912007108 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 1112912007109 23S rRNA interface [nucleotide binding]; other site 1112912007110 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 1112912007111 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 1112912007112 mRNA/rRNA interface [nucleotide binding]; other site 1112912007113 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 1112912007114 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 1112912007115 23S rRNA interface [nucleotide binding]; other site 1112912007116 L7/L12 interface [polypeptide binding]; other site 1112912007117 putative thiostrepton binding site; other site 1112912007118 L25 interface [polypeptide binding]; other site 1112912007119 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 1112912007120 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 1112912007121 putative homodimer interface [polypeptide binding]; other site 1112912007122 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 1112912007123 heterodimer interface [polypeptide binding]; other site 1112912007124 homodimer interface [polypeptide binding]; other site 1112912007125 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK07597 1112912007126 elongation factor Tu; Reviewed; Region: PRK00049 1112912007127 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 1112912007128 G1 box; other site 1112912007129 GEF interaction site [polypeptide binding]; other site 1112912007130 GTP/Mg2+ binding site [chemical binding]; other site 1112912007131 Switch I region; other site 1112912007132 G2 box; other site 1112912007133 G3 box; other site 1112912007134 Switch II region; other site 1112912007135 G4 box; other site 1112912007136 G5 box; other site 1112912007137 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 1112912007138 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 1112912007139 Antibiotic Binding Site [chemical binding]; other site 1112912007140 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 1112912007141 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 1112912007142 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 1112912007143 Membrane associated serine protease [Amino acid transport and metabolism]; Region: COG0705 1112912007144 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5388 1112912007145 PAS domain; Region: PAS_5; pfam07310 1112912007146 Bacterial transglutaminase-like cysteine proteinase BTLCP; Region: BTLCP; pfam06035 1112912007147 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 1112912007148 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 1112912007149 trimer interface [polypeptide binding]; other site 1112912007150 putative metal binding site [ion binding]; other site 1112912007151 Protein of unknown function (DUF3126); Region: DUF3126; pfam11324 1112912007152 serine acetyltransferase; Provisional; Region: cysE; PRK11132 1112912007153 Serine acetyltransferase, N-terminal; Region: SATase_N; smart00971 1112912007154 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 1112912007155 trimer interface [polypeptide binding]; other site 1112912007156 active site 1112912007157 substrate binding site [chemical binding]; other site 1112912007158 CoA binding site [chemical binding]; other site 1112912007159 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1112912007160 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1112912007161 Uncharacterized conserved protein [Function unknown]; Region: COG1430 1112912007162 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 1112912007163 DNA-binding site [nucleotide binding]; DNA binding site 1112912007164 RNA-binding motif; other site 1112912007165 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 1112912007166 DNA-binding site [nucleotide binding]; DNA binding site 1112912007167 RNA-binding motif; other site 1112912007168 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1112912007169 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 1112912007170 dimer interface [polypeptide binding]; other site 1112912007171 active site 1112912007172 metal binding site [ion binding]; metal-binding site 1112912007173 glutathione binding site [chemical binding]; other site 1112912007174 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4395 1112912007175 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 1112912007176 DHH family; Region: DHH; pfam01368 1112912007177 D-alanyl-alanine synthetase A; Reviewed; Region: ddl; PRK01966 1112912007178 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 1112912007179 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1112912007180 Bacterial fructose-1,6-bisphosphatase, glpX-encoded; Region: FBPase_glpX; pfam03320 1112912007181 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 1112912007182 putative active site [active] 1112912007183 homoserine dehydrogenase; Provisional; Region: PRK06349 1112912007184 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 1112912007185 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 1112912007186 ACT_HSDH_Hom CD includes the C-terminal ACT domain of the NAD(P)H-dependent, homoserine dehydrogenase (HSDH) and related domains; Region: ACT_HSDH-Hom; cd04881 1112912007187 aminotransferase; Validated; Region: PRK09148 1112912007188 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 1112912007189 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1112912007190 homodimer interface [polypeptide binding]; other site 1112912007191 catalytic residue [active] 1112912007192 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3108 1112912007193 Peptidase M15; Region: Peptidase_M15_3; cl01194 1112912007194 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3553 1112912007195 putative DNA-binding transcriptional regulator; Reviewed; Region: PRK00347 1112912007196 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 1112912007197 active site 1112912007198 DNA repair proteins [DNA replication, recombination, and repair]; Region: RadC; COG2003 1112912007199 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 1112912007200 MPN+ (JAMM) motif; other site 1112912007201 Zinc-binding site [ion binding]; other site 1112912007202 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 1112912007203 Precorrin-6Y methyltransferase, the cobalamin biosynthesis enzyme CbiE; Region: Precorrin-6Y-methylase; cd11644 1112912007204 active site 1112912007205 SAM binding site [chemical binding]; other site 1112912007206 putative homodimer interface [polypeptide binding]; other site 1112912007207 Precorrin-6B methylase 2 [Coenzyme metabolism]; Region: CobL; COG2242 1112912007208 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 1112912007209 S-adenosylmethionine binding site [chemical binding]; other site 1112912007210 precorrin-3B synthase; Region: CobG; TIGR02435 1112912007211 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 1112912007212 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 1112912007213 precorrin-8X methylmutase; Reviewed; Region: cobH; PRK08285 1112912007214 Precorrin-8X methylmutase; Region: CbiC; pfam02570 1112912007215 Precorrin-2 C20-methyltransferase, also named CobI or CbiL; Region: Precorrin_2_C20_MT; cd11645 1112912007216 active site 1112912007217 SAM binding site [chemical binding]; other site 1112912007218 homodimer interface [polypeptide binding]; other site 1112912007219 Cobalamin biosynthesis protein CbiG [Coenzyme metabolism]; Region: CbiG; COG2073 1112912007220 Cobalamin synthesis G N-terminal; Region: CbiG_N; pfam11760 1112912007221 Cobalamin biosynthesis central region; Region: CbiG_mid; pfam11761 1112912007222 Cobalamin synthesis G C-terminus; Region: CbiG_C; pfam01890 1112912007223 Precorrin-3B C(17)-methyltransferase (CobJ/CbiH); Region: Precorrin_3B_C17_MT; cd11646 1112912007224 active site 1112912007225 SAM binding site [chemical binding]; other site 1112912007226 homodimer interface [polypeptide binding]; other site 1112912007227 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 1112912007228 Flavin Reductases; Region: FlaRed; cl00801 1112912007229 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 1112912007230 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 1112912007231 ligand binding site [chemical binding]; other site 1112912007232 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 1112912007233 cobalamin biosynthesis protein; Provisional; Region: cobD; PRK01209 1112912007234 L-threonine-O-3-phosphate decarboxylase; Region: L_thr_O3P_dcar; TIGR01140 1112912007235 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 1112912007236 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1112912007237 homodimer interface [polypeptide binding]; other site 1112912007238 catalytic residue [active] 1112912007239 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 1112912007240 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 1112912007241 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 1112912007242 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 1112912007243 active site 1112912007244 SAM binding site [chemical binding]; other site 1112912007245 homodimer interface [polypeptide binding]; other site 1112912007246 cobalt-precorrin-6A synthase; Reviewed; Region: cbiD; PRK00075 1112912007247 cobalt-precorrin-6x reductase; Reviewed; Region: PRK08057 1112912007248 Precorrin-4 C11-methyltransferase (CbiF/CobM); Region: Precorrin-4_C11-MT; cd11641 1112912007249 active site 1112912007250 SAM binding site [chemical binding]; other site 1112912007251 homodimer interface [polypeptide binding]; other site 1112912007252 Cobalamin biosynthesis protein CbiG [Coenzyme metabolism]; Region: CbiG; COG2073 1112912007253 Cobalamin synthesis G C-terminus; Region: CbiG_C; pfam01890 1112912007254 tellurium resistance terB-like protein; Region: terB_like; cd07177 1112912007255 metal binding site [ion binding]; metal-binding site 1112912007256 hypothetical protein; Provisional; Region: PRK10621 1112912007257 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1112912007258 Predicted membrane protein [Function unknown]; Region: COG2510 1112912007259 ATP:corrinoid adenosyltransferase [Coenzyme metabolism]; Region: BtuR; COG2109 1112912007260 ATP:corrinoid adenosyltransferase BtuR/CobO/CobP. This family consists of the BtuR, CobO, CobP proteins all of which are Cob(I)alamin (vitamin B12) adenosyltransferase, which is involved in cobalamin (vitamin B12) biosynthesis. This enzyme is a homodimer; Region: CobA_CobO_BtuR; cd00561 1112912007261 homodimer interface [polypeptide binding]; other site 1112912007262 Walker A motif; other site 1112912007263 ATP binding site [chemical binding]; other site 1112912007264 hydroxycobalamin binding site [chemical binding]; other site 1112912007265 Walker B motif; other site 1112912007266 cobaltochelatase subunit CobN; Reviewed; Region: cobN; PRK05989 1112912007267 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 1112912007268 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 1112912007269 cobalamin biosynthesis protein CobW; Region: CobW; TIGR02475 1112912007270 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 1112912007271 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 1112912007272 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 1112912007273 homotrimer interface [polypeptide binding]; other site 1112912007274 Walker A motif; other site 1112912007275 GTP binding site [chemical binding]; other site 1112912007276 Walker B motif; other site 1112912007277 Predicted integral membrane protein [Function unknown]; Region: COG5446 1112912007278 cobalt transporter subunit CbtB (proposed); Region: CbtB; TIGR02459 1112912007279 cobyric acid synthase; Provisional; Region: PRK00784 1112912007280 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 1112912007281 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 1112912007282 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 1112912007283 catalytic triad [active] 1112912007284 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 1112912007285 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 1112912007286 3-hydroxyisobutyrate dehydrogenase; Region: HIBADH; TIGR01692 1112912007287 Predicted small secreted protein [Function unknown]; Region: COG5510 1112912007288 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 1112912007289 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 1112912007290 conserved cys residue [active] 1112912007291 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1112912007292 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1112912007293 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 1112912007294 bifunctional preprotein translocase subunit SecD/SecF; Reviewed; Region: PRK13024 1112912007295 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 1112912007296 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 1112912007297 Protein export membrane protein; Region: SecD_SecF; pfam02355 1112912007298 putative cation:proton antiport protein; Provisional; Region: PRK10669 1112912007299 Kef-type K+ transport system, predicted NAD-binding component [Inorganic ion transport and metabolism]; Region: RosB; COG4651 1112912007300 TrkA-N domain; Region: TrkA_N; pfam02254 1112912007301 Predicted integral membrane protein [Function unknown]; Region: COG0392 1112912007302 Serine hydrolase; Region: Ser_hydrolase; pfam06821 1112912007303 sulfate transport protein; Provisional; Region: cysT; CHL00187 1112912007304 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 1112912007305 dimer interface [polypeptide binding]; other site 1112912007306 conserved gate region; other site 1112912007307 putative PBP binding loops; other site 1112912007308 ABC-ATPase subunit interface; other site 1112912007309 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 1112912007310 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 1112912007311 dimer interface [polypeptide binding]; other site 1112912007312 conserved gate region; other site 1112912007313 putative PBP binding loops; other site 1112912007314 ABC-ATPase subunit interface; other site 1112912007315 ABC-type sulfate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: CysP; COG4150 1112912007316 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 1112912007317 Bacterial NAD-glutamate dehydrogenase; Region: Bac_GDH; pfam05088 1112912007318 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 1112912007319 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 1112912007320 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 1112912007321 Transporter associated domain; Region: CorC_HlyC; smart01091 1112912007322 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 1112912007323 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 1112912007324 EF-hand domain pair; Region: EF_hand_5; pfam13499 1112912007325 EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to...; Region: EFh; cl17302 1112912007326 Ca2+ binding site [ion binding]; other site 1112912007327 EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to...; Region: EFh; cl17302 1112912007328 Ca2+ binding site [ion binding]; other site 1112912007329 Fucose dissimilation pathway protein FucU [Carbohydrate transport and metabolism]; Region: FucU; COG4154 1112912007330 short chain dehydrogenase; Provisional; Region: PRK06198 1112912007331 classical (c) SDRs; Region: SDR_c; cd05233 1112912007332 NAD(P) binding site [chemical binding]; other site 1112912007333 active site 1112912007334 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1112912007335 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1112912007336 Walker A/P-loop; other site 1112912007337 ATP binding site [chemical binding]; other site 1112912007338 Q-loop/lid; other site 1112912007339 ABC transporter signature motif; other site 1112912007340 Walker B; other site 1112912007341 D-loop; other site 1112912007342 H-loop/switch region; other site 1112912007343 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1112912007344 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 1112912007345 TM-ABC transporter signature motif; other site 1112912007346 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_4; cd06312 1112912007347 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 1112912007348 putative ligand binding site [chemical binding]; other site 1112912007349 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1112912007350 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1112912007351 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 1112912007352 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 1112912007353 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 1112912007354 Walker A/P-loop; other site 1112912007355 ATP binding site [chemical binding]; other site 1112912007356 Q-loop/lid; other site 1112912007357 ABC transporter signature motif; other site 1112912007358 Walker B; other site 1112912007359 D-loop; other site 1112912007360 H-loop/switch region; other site 1112912007361 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 1112912007362 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 1112912007363 ABC-ATPase subunit interface; other site 1112912007364 dimer interface [polypeptide binding]; other site 1112912007365 putative PBP binding regions; other site 1112912007366 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 1112912007367 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 1112912007368 intersubunit interface [polypeptide binding]; other site 1112912007369 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 1112912007370 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 1112912007371 N-terminal plug; other site 1112912007372 ligand-binding site [chemical binding]; other site 1112912007373 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 1112912007374 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 1112912007375 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 1112912007376 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1112912007377 Walker A/P-loop; other site 1112912007378 ATP binding site [chemical binding]; other site 1112912007379 Q-loop/lid; other site 1112912007380 ABC transporter signature motif; other site 1112912007381 Walker B; other site 1112912007382 D-loop; other site 1112912007383 H-loop/switch region; other site 1112912007384 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 1112912007385 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1112912007386 Walker A/P-loop; other site 1112912007387 ATP binding site [chemical binding]; other site 1112912007388 Q-loop/lid; other site 1112912007389 ABC transporter signature motif; other site 1112912007390 Walker B; other site 1112912007391 D-loop; other site 1112912007392 H-loop/switch region; other site 1112912007393 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 1112912007394 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 1112912007395 ABC-2 family transporter protein; Region: ABC2_membrane_2; pfam12679 1112912007396 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1112912007397 HlyD family secretion protein; Region: HlyD_3; pfam13437 1112912007398 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1649 1112912007399 Uncharacterized BCR, COG1649; Region: DUF187; pfam02638 1112912007400 Urease gamma-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, archaea, fungi and plants. Their primary role is to allow the use...; Region: Urease_gamma; cd00390 1112912007401 alpha-gamma subunit interface [polypeptide binding]; other site 1112912007402 beta-gamma subunit interface [polypeptide binding]; other site 1112912007403 Urease beta-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, archaea, fungi and plants. Their primary role is to allow the use of...; Region: Urease_beta; cd00407 1112912007404 alpha-beta subunit interface [polypeptide binding]; other site 1112912007405 urease subunit alpha; Reviewed; Region: ureC; PRK13309 1112912007406 Urease alpha-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, fungi and plants. Their primary role is to allow the use of...; Region: Urease_alpha; cd00375 1112912007407 subunit interactions [polypeptide binding]; other site 1112912007408 active site 1112912007409 flap region; other site 1112912007410 urease accessory protein UreE; Provisional; Region: ureE; PRK14711 1112912007411 UreE urease accessory protein. UreE is a metallochaperone assisting the insertion of a Ni2+ ion in the active site of urease, an important step in the in vivo assembly of urease, an enzyme that hydrolyses urea into ammonia and carbamic acid. The...; Region: UreE; cd00571 1112912007412 dimer interface [polypeptide binding]; other site 1112912007413 catalytic residues [active] 1112912007414 Urease accessory protein UreF [Posttranslational modification, protein turnover, chaperones]; Region: UreF; COG0830 1112912007415 UreF; Region: UreF; pfam01730 1112912007416 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 1112912007417 Urease accessory protein UreH [Posttranslational modification, protein turnover, chaperones]; Region: UreH; COG0829 1112912007418 Urea transporter [Amino acid transport and metabolism]; Region: Utp; COG4413 1112912007419 ABC-type Co2+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: CbiK; COG5266 1112912007420 cobalt transport protein CbiM; Validated; Region: PRK06265 1112912007421 Cobalt uptake substrate-specific transmembrane region; Region: CbiM; pfam01891 1112912007422 cobalt ABC transporter, permease protein CbiQ; Region: CbiQ_TIGR; TIGR02454 1112912007423 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 1112912007424 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 1112912007425 Walker A/P-loop; other site 1112912007426 ATP binding site [chemical binding]; other site 1112912007427 Q-loop/lid; other site 1112912007428 ABC transporter signature motif; other site 1112912007429 Walker B; other site 1112912007430 D-loop; other site 1112912007431 H-loop/switch region; other site 1112912007432 camphor resistance protein CrcB; Provisional; Region: ccrB; PRK01636 1112912007433 Uncharacterized conserved protein [Function unknown]; Region: COG3439 1112912007434 Integral membrane protein possibly involved in chromosome condensation [Cell division and chromosome partitioning]; Region: CrcB; COG0239 1112912007435 Predicted flavin-nucleotide-binding protein [General function prediction only]; Region: COG3467 1112912007436 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 1112912007437 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 1112912007438 nudix motif; other site 1112912007439 BA14K-like protein; Region: BA14K; pfam07886 1112912007440 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 1112912007441 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 1112912007442 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1112912007443 homodimer interface [polypeptide binding]; other site 1112912007444 catalytic residue [active] 1112912007445 ketol-acid reductoisomerase; Provisional; Region: PRK05479 1112912007446 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 1112912007447 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 1112912007448 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1112912007449 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1112912007450 K+ transporter [Inorganic ion transport and metabolism]; Region: Kup; COG3158 1112912007451 potassium uptake protein; Region: kup; TIGR00794 1112912007452 Pyridoxine 5'-phosphate (PNP) synthase domain; pyridoxal 5'-phosphate is the active form of vitamin B6 that acts as an essential, ubiquitous coenzyme in amino acid metabolism. In bacteria, formation of pyridoxine 5'-phosphate is a step in...; Region: PNPsynthase; cl00541 1112912007453 active site 1112912007454 hydrophilic channel; other site 1112912007455 dimerization interface [polypeptide binding]; other site 1112912007456 catalytic residues [active] 1112912007457 active site lid [active] 1112912007458 Protein of unknown function (DUF3478); Region: DUF3478; pfam11964 1112912007459 ATP-dependent exoDNAse (exonuclease V), alpha subunit - helicase superfamily I member [DNA replication, recombination, and repair]; Region: RecD; COG0507 1112912007460 AAA domain; Region: AAA_30; pfam13604 1112912007461 Family description; Region: UvrD_C_2; pfam13538 1112912007462 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 1112912007463 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 1112912007464 putative valine binding site [chemical binding]; other site 1112912007465 dimer interface [polypeptide binding]; other site 1112912007466 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 1112912007467 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK09107 1112912007468 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1112912007469 PYR/PP interface [polypeptide binding]; other site 1112912007470 dimer interface [polypeptide binding]; other site 1112912007471 TPP binding site [chemical binding]; other site 1112912007472 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1112912007473 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 1112912007474 TPP-binding site [chemical binding]; other site 1112912007475 dimer interface [polypeptide binding]; other site 1112912007476 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 1112912007477 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 1112912007478 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 1112912007479 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 1112912007480 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 1112912007481 motif II; other site 1112912007482 Predicted flavoproteins [General function prediction only]; Region: COG2081 1112912007483 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1112912007484 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 1112912007485 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 1112912007486 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 1112912007487 protein binding site [polypeptide binding]; other site 1112912007488 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 1112912007489 protein binding site [polypeptide binding]; other site 1112912007490 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3242 1112912007491 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 1112912007492 Band_7_HflC: The band 7 domain of flotillin (reggie) like proteins. This group includes proteins similar to prokaryotic HlfC (High frequency of lysogenization C). Although many members of the band 7 family are lipid raft associated, prokaryote plasma...; Region: Band_7_HflC; cd03405 1112912007493 Bacterial membrane protein N terminal; Region: HflK_N; pfam12221 1112912007494 Band_7_HflK: The band 7 domain of flotillin (reggie) like proteins. This group includes proteins similar to prokaryotic HlfK (High frequency of lysogenization K). Although many members of the band 7 family are lipid raft associated, prokaryote plasma...; Region: Band_7_HflK; cd03404 1112912007495 HflK protein; Region: hflK; TIGR01933 1112912007496 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 1112912007497 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 1112912007498 folate binding site [chemical binding]; other site 1112912007499 NADP+ binding site [chemical binding]; other site 1112912007500 thymidylate synthase; Reviewed; Region: thyA; PRK01827 1112912007501 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 1112912007502 dimerization interface [polypeptide binding]; other site 1112912007503 active site 1112912007504 Protein of unknown function (DUF2853); Region: DUF2853; pfam11015 1112912007505 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 1112912007506 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 1112912007507 putative substrate translocation pore; other site 1112912007508 pyrimidine utilization regulatory protein R; Region: RutR; TIGR03613 1112912007509 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1112912007510 AefR-like transcriptional repressor, C-terminal region; Region: TetR_C_7; pfam14246 1112912007511 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3814 1112912007512 Domain of unknown function (DUF4169); Region: DUF4169; pfam13770 1112912007513 Uncharacterized protein related to arylsulfate sulfotransferase involved in siderophore biosynthesis [General function prediction only]; Region: COG4321 1112912007514 Uncharacterized protein involved in outer membrane biogenesis [Cell envelope biogenesis, outer membrane]; Region: AsmA; COG2982 1112912007515 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 1112912007516 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 1112912007517 FAD binding domain; Region: FAD_binding_4; pfam01565 1112912007518 Uncharacterized conserved protein [Function unknown]; Region: COG4702 1112912007519 serine/threonine protein kinase; Provisional; Region: PRK09188 1112912007520 serine/threonine protein kinase; Provisional; Region: PRK12274 1112912007521 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 1112912007522 Part of AAA domain; Region: AAA_19; pfam13245 1112912007523 Family description; Region: UvrD_C_2; pfam13538 1112912007524 Uncharacterized protein conserved in bacteria [Function unknown]; Region: CreA; COG3045 1112912007525 CreA protein; Region: CreA; pfam05981 1112912007526 phosphonate metabolim protein, transferase hexapeptide repeat family; Region: phn_thr-fam; TIGR03308 1112912007527 Xenobiotic acyltransferase (XAT): The XAT class of hexapeptide acyltransferases is composed of a large number of microbial enzymes that catalyze the CoA-dependent acetylation of a variety of hydroxyl-bearing acceptors such as chloramphenicol and...; Region: LbH_XAT; cd03349 1112912007528 trimer interface [polypeptide binding]; other site 1112912007529 active site 1112912007530 substrate binding site [chemical binding]; other site 1112912007531 CoA binding site [chemical binding]; other site 1112912007532 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 1112912007533 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 1112912007534 Cu(I) binding site [ion binding]; other site 1112912007535 Ribosomal protein L11 methylase [Translation, ribosomal structure and biogenesis]; Region: PrmA; COG2264 1112912007536 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 1112912007537 S-adenosylmethionine binding site [chemical binding]; other site 1112912007538 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 1112912007539 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 1112912007540 X-Prolyl Aminopeptidase 2. E.C. 3.4.11.9. Also known as X-Pro aminopeptidase, proline aminopeptidase, aminopeptidase P, and aminoacylproline aminopeptidase. Catalyses release of any N-terminal amino acid, including proline, that is linked with proline; Region: APP; cd01085 1112912007541 active site 1112912007542 Uncharacterized conserved protein [Function unknown]; Region: COG5587 1112912007543 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 1112912007544 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 1112912007545 nucleotide binding pocket [chemical binding]; other site 1112912007546 K-X-D-G motif; other site 1112912007547 catalytic site [active] 1112912007548 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 1112912007549 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 1112912007550 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 1112912007551 Dimer interface [polypeptide binding]; other site 1112912007552 BRCT sequence motif; other site 1112912007553 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 1112912007554 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 1112912007555 Walker A/P-loop; other site 1112912007556 ATP binding site [chemical binding]; other site 1112912007557 Q-loop/lid; other site 1112912007558 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 1112912007559 ABC transporter signature motif; other site 1112912007560 Walker B; other site 1112912007561 D-loop; other site 1112912007562 H-loop/switch region; other site 1112912007563 DNA uptake lipoprotein [General function prediction only]; Region: ComL; COG4105 1112912007564 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 1112912007565 binding surface 1112912007566 TPR motif; other site 1112912007567 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 1112912007568 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 1112912007569 cell division protein FtsZ; Validated; Region: PRK09330 1112912007570 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 1112912007571 nucleotide binding site [chemical binding]; other site 1112912007572 SulA interaction site; other site 1112912007573 cell division protein FtsZ, alphaProteobacterial C-terminal extension; Region: FtsZ_alphas_C; TIGR03483 1112912007574 Cell division ATPase FtsA [Cell division and chromosome partitioning]; Region: ftsA; COG0849 1112912007575 Cell division protein FtsA; Region: FtsA; smart00842 1112912007576 Cell division protein FtsA; Region: FtsA; pfam14450 1112912007577 Cell division septal protein [Cell envelope biogenesis, outer membrane]; Region: FtsQ; COG1589 1112912007578 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 1112912007579 Cell division protein FtsQ; Region: FtsQ; pfam03799 1112912007580 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 1112912007581 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 1112912007582 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1112912007583 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 1112912007584 FAD binding domain; Region: FAD_binding_4; pfam01565 1112912007585 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 1112912007586 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 1112912007587 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1112912007588 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1112912007589 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1112912007590 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 1112912007591 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 1112912007592 active site 1112912007593 homodimer interface [polypeptide binding]; other site 1112912007594 cell division protein FtsW; Region: ftsW; TIGR02614 1112912007595 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK01390 1112912007596 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 1112912007597 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1112912007598 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 1112912007599 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 1112912007600 Mg++ binding site [ion binding]; other site 1112912007601 putative catalytic motif [active] 1112912007602 putative substrate binding site [chemical binding]; other site 1112912007603 UDP-N-acetylmuramoylalanyl-D-glutamyl-2, 6-diaminopimelate--D-alanyl-D-alanine ligase; Provisional; Region: PRK14093 1112912007604 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1112912007605 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1112912007606 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1112912007607 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 1112912007608 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1112912007609 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1112912007610 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1112912007611 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 1112912007612 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 1112912007613 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 1112912007614 Predicted secreted (periplasmic) protein [Function unknown]; Region: COG5462 1112912007615 Predicted S-adenosylmethionine-dependent methyltransferase involved in cell envelope biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG0275 1112912007616 MraW methylase family; Region: Methyltransf_5; cl17771 1112912007617 manganese transport protein MntH; Reviewed; Region: PRK00701 1112912007618 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 1112912007619 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 1112912007620 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 1112912007621 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1112912007622 catalytic residue [active] 1112912007623 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 1112912007624 Peptidoglycan recognition proteins (PGRPs) are pattern recognition receptors that bind, and in certain cases, hydrolyze peptidoglycans (PGNs) of bacterial cell walls. PGRPs have been divided into three classes: short PGRPs (PGRP-S), that are small (20...; Region: PGRP; cd06583 1112912007625 amidase catalytic site [active] 1112912007626 Zn binding residues [ion binding]; other site 1112912007627 substrate binding site [chemical binding]; other site 1112912007628 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1112912007629 N-terminal tellurium resistance protein terB-like domain of heat shock DnaJ-like proteins; Region: terB_like_DjlA; cd07316 1112912007630 DnaJ-domain-containing proteins 1 [Posttranslational modification, protein turnover, chaperones]; Region: DjlA; COG1076 1112912007631 putative metal binding site [ion binding]; other site 1112912007632 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 1112912007633 HSP70 interaction site [polypeptide binding]; other site 1112912007634 Lyzozyme M1 (1,4-beta-N-acetylmuramidase) [Cell envelope biogenesis, outer membrane]; Region: Acm; COG3757 1112912007635 Uncharacterized bacterial muramidase containing a glycosyl hydrolase family 25 (GH25) catalytic domain. Endo-N-acetylmuramidases are lysozymes (also referred to as peptidoglycan hydrolases) that degrade bacterial cell walls by catalyzing the hydrolysis...; Region: GH25_muramidase_1; cd06413 1112912007636 active site 1112912007637 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 1112912007638 FAD binding site [chemical binding]; other site 1112912007639 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 1112912007640 dimerization interface [polypeptide binding]; other site 1112912007641 putative DNA binding site [nucleotide binding]; other site 1112912007642 putative Zn2+ binding site [ion binding]; other site 1112912007643 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1112912007644 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 1112912007645 S-adenosylmethionine binding site [chemical binding]; other site 1112912007646 Uncharacterized conserved protein [Function unknown]; Region: COG5586 1112912007647 alpha-ketoglutarate transporter; Provisional; Region: PRK10406 1112912007648 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 1112912007649 putative substrate translocation pore; other site 1112912007650 Trans-aconitate methyltransferase [General function prediction only]; Region: Tam; COG4106 1112912007651 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 1112912007652 S-adenosylmethionine binding site [chemical binding]; other site 1112912007653 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 1112912007654 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1112912007655 Walker A/P-loop; other site 1112912007656 ATP binding site [chemical binding]; other site 1112912007657 Q-loop/lid; other site 1112912007658 ABC transporter signature motif; other site 1112912007659 Walker B; other site 1112912007660 D-loop; other site 1112912007661 H-loop/switch region; other site 1112912007662 ABC transporter; Region: ABC_tran_2; pfam12848 1112912007663 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1112912007664 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 1112912007665 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1112912007666 PGAP1-like protein; Region: PGAP1; pfam07819 1112912007667 Protein of unknown function (DUF1498); Region: DUF1498; pfam07385 1112912007668 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 1112912007669 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 1112912007670 [2Fe-2S] cluster binding site [ion binding]; other site 1112912007671 C-terminal catalytic domain of GbcA (glycine betaine catabolism A) from Pseudomonas aeruginosa PAO1 and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_GbcA-like; cd08884 1112912007672 putative alpha subunit interface [polypeptide binding]; other site 1112912007673 putative active site [active] 1112912007674 putative substrate binding site [chemical binding]; other site 1112912007675 Fe binding site [ion binding]; other site 1112912007676 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 1112912007677 Iron-sulfur binding ferredoxin reductase (FNR) proteins combine the FAD and NAD(P) binding regions of FNR with an iron-sulfur binding cluster domain. Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible electron...; Region: FNR_iron_sulfur_binding_1; cd06215 1112912007678 FAD binding pocket [chemical binding]; other site 1112912007679 FAD binding motif [chemical binding]; other site 1112912007680 phosphate binding motif [ion binding]; other site 1112912007681 beta-alpha-beta structure motif; other site 1112912007682 NAD binding pocket [chemical binding]; other site 1112912007683 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 1112912007684 catalytic loop [active] 1112912007685 iron binding site [ion binding]; other site 1112912007686 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 1112912007687 PhnA protein; Region: PhnA; pfam03831 1112912007688 Isochorismatase family; Region: Isochorismatase; pfam00857 1112912007689 Nicotinamidase/pyrazinamidase (PZase). Nicotinamidase, a ubiquitous enzyme in prokaryotes, converts nicotinamide to nicotinic acid (niacin) and ammonia, which in turn can be recycled to make nicotinamide adenine dinucleotide (NAD). The same enzyme is...; Region: nicotinamidase; cd01011 1112912007690 catalytic triad [active] 1112912007691 metal binding site [ion binding]; metal-binding site 1112912007692 conserved cis-peptide bond; other site 1112912007693 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2899 1112912007694 Penicillin V acylase (PVA), also known as conjugated bile salt acid hydrolase (CBAH), catalyzes the hydrolysis of penicillin V to yield 6-amino penicillanic acid (6-APA), an important key intermediate of semisynthetic penicillins. PVA has an N-terminal...; Region: Ntn_PVA; cd00542 1112912007695 Linear amide C-N hydrolases, choloylglycine hydrolase family; Region: CBAH; pfam02275 1112912007696 active site 1112912007697 outer membrane protein; Region: OMP_w_GlyGly; TIGR04219 1112912007698 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 1112912007699 active site 1112912007700 catalytic residues [active] 1112912007701 DNA binding site [nucleotide binding] 1112912007702 Int/Topo IB signature motif; other site 1112912007703 Uncharacterized conserved protein [Function unknown]; Region: COG2968 1112912007704 Protein of unknown function (DUF541); Region: SIMPL; pfam04402 1112912007705 hypothetical protein; Provisional; Region: PRK05170 1112912007706 Uncharacterized conserved protein [Function unknown]; Region: COG5453 1112912007707 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 1112912007708 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 1112912007709 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 1112912007710 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 1112912007711 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1112912007712 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 1112912007713 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 1112912007714 DNA binding residues [nucleotide binding] 1112912007715 DNA primase; Validated; Region: dnaG; PRK05667 1112912007716 CHC2 zinc finger; Region: zf-CHC2; pfam01807 1112912007717 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 1112912007718 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 1112912007719 active site 1112912007720 metal binding site [ion binding]; metal-binding site 1112912007721 interdomain interaction site; other site 1112912007722 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 1112912007723 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 1112912007724 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 1112912007725 PhoU domain; Region: PhoU; pfam01895 1112912007726 PhoU domain; Region: PhoU; pfam01895 1112912007727 Uncharacterized conserved protein [Function unknown]; Region: COG1610 1112912007728 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 1112912007729 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 1112912007730 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 1112912007731 catalytic site [active] 1112912007732 subunit interface [polypeptide binding]; other site 1112912007733 Predicted metalloprotease [General function prediction only]; Region: COG2321 1112912007734 Putative neutral zinc metallopeptidase; Region: Zn_peptidase; pfam04228 1112912007735 Predicted membrane protein [Function unknown]; Region: COG5395 1112912007736 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 1112912007737 LytTr DNA-binding domain; Region: LytTR; pfam04397 1112912007738 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 1112912007739 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1112912007740 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1112912007741 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 1112912007742 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1112912007743 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1112912007744 Methylglyoxal synthase-like domain from type II glutamine-dependent carbamoyl phosphate synthetase (CSP). CSP, a CarA and CarB heterodimer, catalyzes the production of carbamoyl phosphate which is subsequently employed in the metabolic pathways...; Region: MGS_CPS_II; cd01424 1112912007745 IMP binding site; other site 1112912007746 dimer interface [polypeptide binding]; other site 1112912007747 partial ornithine binding site; other site 1112912007748 ABC-type uncharacterized transport system, permease and ATPase components [General function prediction only]; Region: COG4178 1112912007749 ABC transporter transmembrane region 2; Region: ABC_membrane_2; cl00549 1112912007750 ATP-binding cassette domain of peroxisomal transporter, subfamily D; Region: ABCD_peroxisomal_ALDP; cd03223 1112912007751 NUDIX domain; Region: NUDIX; pfam00293 1112912007752 nudix motif; other site 1112912007753 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 1112912007754 DNA-binding site [nucleotide binding]; DNA binding site 1112912007755 RNA-binding motif; other site 1112912007756 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1112912007757 GST_N family, unknown subfamily 4; composed of uncharacterized bacterial proteins with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of...; Region: GST_N_4; cd03056 1112912007758 putative C-terminal domain interface [polypeptide binding]; other site 1112912007759 putative GSH binding site (G-site) [chemical binding]; other site 1112912007760 putative dimer interface [polypeptide binding]; other site 1112912007761 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 1112912007762 N-terminal domain interface [polypeptide binding]; other site 1112912007763 dimer interface [polypeptide binding]; other site 1112912007764 substrate binding pocket (H-site) [chemical binding]; other site 1112912007765 aspartate aminotransferase; Provisional; Region: PRK05764 1112912007766 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 1112912007767 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1112912007768 homodimer interface [polypeptide binding]; other site 1112912007769 catalytic residue [active] 1112912007770 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1112912007771 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1112912007772 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 1112912007773 putative effector binding pocket; other site 1112912007774 dimerization interface [polypeptide binding]; other site 1112912007775 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 1112912007776 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1112912007777 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 1112912007778 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 1112912007779 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1112912007780 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 1112912007781 putative DNA binding site [nucleotide binding]; other site 1112912007782 putative Zn2+ binding site [ion binding]; other site 1112912007783 AsnC family; Region: AsnC_trans_reg; pfam01037 1112912007784 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 1112912007785 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1112912007786 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 1112912007787 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 1112912007788 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 1112912007789 Protein of unknown function (DUF1176); Region: DUF1176; pfam06674 1112912007790 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1112912007791 EamA-like transporter family; Region: EamA; pfam00892 1112912007792 EamA-like transporter family; Region: EamA; pfam00892 1112912007793 Protein of unknown function, DUF486; Region: DUF486; cl01236 1112912007794 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3921 1112912007795 Extensin-like protein C-terminus; Region: Extensin-like_C; pfam06904 1112912007796 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 1112912007797 Uncharacterized protein with a bacterial SH3 domain homologue [Function unknown]; Region: COG4991 1112912007798 Bacterial SH3 domain; Region: SH3_3; pfam08239 1112912007799 excinuclease ABC subunit B; Provisional; Region: PRK05298 1112912007800 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 1112912007801 ATP binding site [chemical binding]; other site 1112912007802 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 1112912007803 nucleotide binding region [chemical binding]; other site 1112912007804 ATP-binding site [chemical binding]; other site 1112912007805 Ultra-violet resistance protein B; Region: UvrB; pfam12344 1112912007806 UvrB/uvrC motif; Region: UVR; pfam02151 1112912007807 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 1112912007808 DNA-binding site [nucleotide binding]; DNA binding site 1112912007809 RNA-binding motif; other site 1112912007810 BA14K-like protein; Region: BA14K; pfam07886 1112912007811 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 1112912007812 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1112912007813 MarR family; Region: MarR_2; pfam12802 1112912007814 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1112912007815 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 1112912007816 active site 1112912007817 phosphorylation site [posttranslational modification] 1112912007818 intermolecular recognition site; other site 1112912007819 dimerization interface [polypeptide binding]; other site 1112912007820 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 1112912007821 DNA binding site [nucleotide binding] 1112912007822 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 1112912007823 dimer interface [polypeptide binding]; other site 1112912007824 phosphorylation site [posttranslational modification] 1112912007825 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 1112912007826 ATP binding site [chemical binding]; other site 1112912007827 Mg2+ binding site [ion binding]; other site 1112912007828 G-X-G motif; other site 1112912007829 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 1112912007830 dimer interface [polypeptide binding]; other site 1112912007831 putative tRNA-binding site [nucleotide binding]; other site 1112912007832 Uncharacterized conserved protein [Function unknown]; Region: COG5465 1112912007833 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2960 1112912007834 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 1112912007835 Uncharacterized conserved protein [Function unknown]; Region: COG1565 1112912007836 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 1112912007837 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; pfam02578 1112912007838 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 1112912007839 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 1112912007840 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 1112912007841 active site 1112912007842 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 1112912007843 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 1112912007844 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1112912007845 active site 1112912007846 HerA helicase [Replication, recombination, and repair]; Region: COG0433 1112912007847 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 1112912007848 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 1112912007849 5S rRNA interface [nucleotide binding]; other site 1112912007850 CTC domain interface [polypeptide binding]; other site 1112912007851 L16 interface [polypeptide binding]; other site 1112912007852 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 1112912007853 putative active site [active] 1112912007854 catalytic residue [active] 1112912007855 GTP-binding protein YchF; Reviewed; Region: PRK09601 1112912007856 YchF GTPase; Region: YchF; cd01900 1112912007857 G1 box; other site 1112912007858 GTP/Mg2+ binding site [chemical binding]; other site 1112912007859 Switch I region; other site 1112912007860 G2 box; other site 1112912007861 Switch II region; other site 1112912007862 G3 box; other site 1112912007863 G4 box; other site 1112912007864 G5 box; other site 1112912007865 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 1112912007866 YdeM is a Bacillus subtilis protein that belongs to a family of prokaryotic proteins of unkown function. YdeM has sequence similarity to the hot-dog fold of (R)-specific enoyl-CoA hydratase. Other enzymes with this fold include the peroxisomal...; Region: YdeM; cd03454 1112912007867 putative active site [active] 1112912007868 putative catalytic site [active] 1112912007869 YdeM is a Bacillus subtilis protein that belongs to a family of prokaryotic proteins of unkown function. YdeM has sequence similarity to the hot-dog fold of (R)-specific enoyl-CoA hydratase. Other enzymes with this fold include the peroxisomal...; Region: YdeM; cd03454 1112912007870 putative active site [active] 1112912007871 putative catalytic site [active] 1112912007872 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1112912007873 active site 1112912007874 Cytochrome C1 family; Region: Cytochrom_C1; pfam02167 1112912007875 cytochrome b; Provisional; Region: CYTB; MTH00191 1112912007876 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cd00284 1112912007877 Qi binding site; other site 1112912007878 intrachain domain interface; other site 1112912007879 interchain domain interface [polypeptide binding]; other site 1112912007880 heme bH binding site [chemical binding]; other site 1112912007881 heme bL binding site [chemical binding]; other site 1112912007882 Qo binding site; other site 1112912007883 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; cd00290 1112912007884 interchain domain interface [polypeptide binding]; other site 1112912007885 intrachain domain interface; other site 1112912007886 Qi binding site; other site 1112912007887 Qo binding site; other site 1112912007888 Ubiquitinol-cytochrome C reductase Fe-S subunit TAT signal; Region: UCR_Fe-S_N; pfam10399 1112912007889 ubiquinol-cytochrome c reductase, iron-sulfur subunit; Region: Rieske_proteo; TIGR01416 1112912007890 Iron-sulfur protein (ISP) component of the bc(1) complex family, Rieske domain; The Rieske domain is a [2Fe-2S] cluster binding domain involved in electron transfer. The bc(1) complex is a multisubunit enzyme found in many different organisms including...; Region: Rieske_cytochrome_bc1; cd03470 1112912007891 [2Fe-2S] cluster binding site [ion binding]; other site 1112912007892 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 1112912007893 coproporphyrinogen III oxidase; Provisional; Region: PRK05330 1112912007894 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; cl17752 1112912007895 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1112912007896 Coenzyme A binding pocket [chemical binding]; other site 1112912007897 tRNA nucleotidyltransferase/poly(A) polymerase [Translation, ribosomal structure and biogenesis]; Region: PcnB; COG0617 1112912007898 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 1112912007899 active site 1112912007900 NTP binding site [chemical binding]; other site 1112912007901 metal binding triad [ion binding]; metal-binding site 1112912007902 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 1112912007903 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 1112912007904 putative active site [active] 1112912007905 putative CoA binding site [chemical binding]; other site 1112912007906 nudix motif; other site 1112912007907 metal binding site [ion binding]; metal-binding site 1112912007908 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3816 1112912007909 Protein of unknown function (DUF1285); Region: DUF1285; pfam06938 1112912007910 MoxR-like ATPases [General function prediction only]; Region: COG0714 1112912007911 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl17189 1112912007912 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 1112912007913 Protein of unknown function DUF58; Region: DUF58; pfam01882 1112912007914 N-terminal double-transmembrane domain; Region: two_anch; TIGR02226 1112912007915 A4 beta-galactosidase middle domain: a type 1 glutamine amidotransferase (GATase1)-like domain; Region: A4_beta-galactosidase_middle_domain; cd03143 1112912007916 Domain of unknown function (DUF4159); Region: DUF4159; pfam13709 1112912007917 Protein of unknown function (DUF1355); Region: DUF1355; cl17712 1112912007918 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 1112912007919 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1112912007920 Coenzyme A binding pocket [chemical binding]; other site 1112912007921 Predicted glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: ECM4; COG0435 1112912007922 Glutathione S-transferase, N-terminal domain; Region: GST_N_2; pfam13409 1112912007923 C-terminal, alpha helical domain of Class Omega-like Glutathione S-transferases; Region: GST_C_Omega_like; cd03190 1112912007924 putative dimer interface [polypeptide binding]; other site 1112912007925 N-terminal domain interface [polypeptide binding]; other site 1112912007926 putative substrate binding pocket (H-site) [chemical binding]; other site 1112912007927 Outer membrane protein W [Cell envelope biogenesis, outer membrane]; Region: OmpW; COG3047 1112912007928 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_21; cd04680 1112912007929 nudix motif; other site 1112912007930 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 1112912007931 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1112912007932 active site 1112912007933 metal binding site [ion binding]; metal-binding site 1112912007934 2-isopropylmalate synthase; Validated; Region: PRK03739 1112912007935 Mycobacterium tuberculosis LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA; cd07942 1112912007936 active site 1112912007937 catalytic residues [active] 1112912007938 metal binding site [ion binding]; metal-binding site 1112912007939 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 1112912007940 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 1112912007941 Cation efflux family; Region: Cation_efflux; pfam01545 1112912007942 anthranilate synthase; Provisional; Region: PRK13566 1112912007943 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 1112912007944 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 1112912007945 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 1112912007946 glutamine binding [chemical binding]; other site 1112912007947 catalytic triad [active] 1112912007948 leucine-responsive transcriptional regulator; Provisional; Region: PRK11169 1112912007949 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 1112912007950 putative DNA binding site [nucleotide binding]; other site 1112912007951 putative Zn2+ binding site [ion binding]; other site 1112912007952 AsnC family; Region: AsnC_trans_reg; pfam01037 1112912007953 Transcriptional regulators [Transcription]; Region: MarR; COG1846 1112912007954 MarR family; Region: MarR_2; pfam12802 1112912007955 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 1112912007956 putative substrate translocation pore; other site 1112912007957 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1112912007958 Mitochondrial small ribosomal subunit Rsm22; Region: Rsm22; cl17847 1112912007959 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5345 1112912007960 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; COG2113 1112912007961 choline ABC transporter, periplasmic binding protein; Region: ABC_choline_bnd; TIGR03414 1112912007962 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 1112912007963 dimer interface [polypeptide binding]; other site 1112912007964 conserved gate region; other site 1112912007965 putative PBP binding loops; other site 1112912007966 ABC-ATPase subunit interface; other site 1112912007967 choline ABC transporter, ATP-binding protein; Region: ABC_choXWV_ATP; TIGR03415 1112912007968 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1112912007969 Walker A/P-loop; other site 1112912007970 ATP binding site [chemical binding]; other site 1112912007971 Q-loop/lid; other site 1112912007972 ABC transporter signature motif; other site 1112912007973 Walker B; other site 1112912007974 D-loop; other site 1112912007975 H-loop/switch region; other site 1112912007976 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1112912007977 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 1112912007978 Walker A/P-loop; other site 1112912007979 ATP binding site [chemical binding]; other site 1112912007980 Q-loop/lid; other site 1112912007981 ABC transporter signature motif; other site 1112912007982 Walker B; other site 1112912007983 D-loop; other site 1112912007984 H-loop/switch region; other site 1112912007985 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 1112912007986 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 1112912007987 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1112912007988 Walker A/P-loop; other site 1112912007989 ATP binding site [chemical binding]; other site 1112912007990 Q-loop/lid; other site 1112912007991 ABC transporter signature motif; other site 1112912007992 Walker B; other site 1112912007993 D-loop; other site 1112912007994 H-loop/switch region; other site 1112912007995 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 1112912007996 dipeptide transporter; Provisional; Region: PRK10913 1112912007997 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 1112912007998 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 1112912007999 dimer interface [polypeptide binding]; other site 1112912008000 conserved gate region; other site 1112912008001 putative PBP binding loops; other site 1112912008002 ABC-ATPase subunit interface; other site 1112912008003 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1112912008004 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 1112912008005 dimer interface [polypeptide binding]; other site 1112912008006 conserved gate region; other site 1112912008007 putative PBP binding loops; other site 1112912008008 ABC-ATPase subunit interface; other site 1112912008009 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 1112912008010 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 1112912008011 dimerization interface [polypeptide binding]; other site 1112912008012 putative DNA binding site [nucleotide binding]; other site 1112912008013 putative Zn2+ binding site [ion binding]; other site 1112912008014 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 1112912008015 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 1112912008016 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 1112912008017 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 1112912008018 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 1112912008019 Ligand Binding Site [chemical binding]; other site 1112912008020 Protein of unknown function (DUF1153); Region: DUF1153; pfam06627 1112912008021 Predicted acetyltransferase [General function prediction only]; Region: COG2388 1112912008022 chromosome segregation protein SMC, primarily archaeal type; Region: SMC_prok_A; TIGR02169 1112912008023 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5400 1112912008024 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5385 1112912008025 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1112912008026 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 1112912008027 active site 1112912008028 phosphorylation site [posttranslational modification] 1112912008029 intermolecular recognition site; other site 1112912008030 dimerization interface [polypeptide binding]; other site 1112912008031 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 1112912008032 DNA binding site [nucleotide binding] 1112912008033 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 1112912008034 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 1112912008035 inhibitor-cofactor binding pocket; inhibition site 1112912008036 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1112912008037 catalytic residue [active] 1112912008038 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1112912008039 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1112912008040 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 1112912008041 Glycosyltransferase family 25 [lipooligosaccharide (LOS) biosynthesis protein] is a family of glycosyltransferases involved in LOS biosynthesis. The members include the beta(1,4) galactosyltransferases: Lgt2 of Moraxella catarrhalis, LgtB and LgtE of...; Region: Glyco_transf_25; cd06532 1112912008042 PAS domain; Region: PAS_8; pfam13188 1112912008043 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 1112912008044 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 1112912008045 putative active site [active] 1112912008046 heme pocket [chemical binding]; other site 1112912008047 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 1112912008048 dimer interface [polypeptide binding]; other site 1112912008049 phosphorylation site [posttranslational modification] 1112912008050 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 1112912008051 ATP binding site [chemical binding]; other site 1112912008052 Mg2+ binding site [ion binding]; other site 1112912008053 G-X-G motif; other site 1112912008054 Uncharacterized protein involved in outer membrane biogenesis [Cell envelope biogenesis, outer membrane]; Region: AsmA; COG2982 1112912008055 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 1112912008056 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 1112912008057 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 1112912008058 dimer interface [polypeptide binding]; other site 1112912008059 conserved gate region; other site 1112912008060 putative PBP binding loops; other site 1112912008061 ABC-ATPase subunit interface; other site 1112912008062 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 1112912008063 dimer interface [polypeptide binding]; other site 1112912008064 conserved gate region; other site 1112912008065 putative PBP binding loops; other site 1112912008066 ABC-ATPase subunit interface; other site 1112912008067 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 1112912008068 ATP-binding cassette domain of the polyamine transporter; Region: ABC_PotA_N; cd03300 1112912008069 Walker A/P-loop; other site 1112912008070 ATP binding site [chemical binding]; other site 1112912008071 Q-loop/lid; other site 1112912008072 ABC transporter signature motif; other site 1112912008073 Walker B; other site 1112912008074 D-loop; other site 1112912008075 H-loop/switch region; other site 1112912008076 TOBE domain; Region: TOBE_2; pfam08402 1112912008077 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 1112912008078 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 1112912008079 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1112912008080 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 1112912008081 non-specific DNA binding site [nucleotide binding]; other site 1112912008082 salt bridge; other site 1112912008083 sequence-specific DNA binding site [nucleotide binding]; other site 1112912008084 Predicted transcriptional regulator [General function prediction only]; Region: COG3800 1112912008085 Domain of unknown function (DUF955); Region: DUF955; pfam06114 1112912008086 Predicted transcriptional regulator (DUF2083); Region: DUF2083; pfam09856 1112912008087 isocitrate lyase; Provisional; Region: PRK15063 1112912008088 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 1112912008089 tetramer interface [polypeptide binding]; other site 1112912008090 active site 1112912008091 Mg2+/Mn2+ binding site [ion binding]; other site 1112912008092 7-alpha-hydroxysteroid dehydrogenase; Validated; Region: PRK06113 1112912008093 7 alpha-hydroxysteroid dehydrogenase (7 alpha-HSDH), classical (c) SDRs; Region: 7_alpha_HSDH_SDR_c; cd05365 1112912008094 NAD binding site [chemical binding]; other site 1112912008095 substrate binding site [chemical binding]; other site 1112912008096 homotetramer interface [polypeptide binding]; other site 1112912008097 homodimer interface [polypeptide binding]; other site 1112912008098 active site 1112912008099 7-alpha-hydroxysteroid dehydrogenase; Validated; Region: PRK06113 1112912008100 7 alpha-hydroxysteroid dehydrogenase (7 alpha-HSDH), classical (c) SDRs; Region: 7_alpha_HSDH_SDR_c; cd05365 1112912008101 NAD binding site [chemical binding]; other site 1112912008102 substrate binding site [chemical binding]; other site 1112912008103 homotetramer interface [polypeptide binding]; other site 1112912008104 homodimer interface [polypeptide binding]; other site 1112912008105 active site 1112912008106 Domain of unknown function (DUF4104); Region: DUF4104; pfam13372 1112912008107 Multiple antibiotic transporter [Intracellular trafficking and secretion]; Region: MarC; COG2095 1112912008108 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 1112912008109 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 1112912008110 active site 1112912008111 nucleophile elbow; other site 1112912008112 Peptidase propeptide and YPEB domain; Region: PepSY_2; pfam13670 1112912008113 short chain dehydrogenase; Provisional; Region: PRK06841 1112912008114 classical (c) SDRs; Region: SDR_c; cd05233 1112912008115 NAD(P) binding site [chemical binding]; other site 1112912008116 active site 1112912008117 Periplasmic binding proteins specific to rhizopines; Region: PBP1_rhizopine_binding_like; cd06301 1112912008118 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 1112912008119 putative ligand binding site [chemical binding]; other site 1112912008120 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3293 1112912008121 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1112912008122 heme biosynthesis-associated TPR protein; Region: TPR_hemY_coli; TIGR00540 1112912008123 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1112912008124 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 1112912008125 TM-ABC transporter signature motif; other site 1112912008126 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 1112912008127 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 1112912008128 Walker A/P-loop; other site 1112912008129 ATP binding site [chemical binding]; other site 1112912008130 Q-loop/lid; other site 1112912008131 ABC transporter signature motif; other site 1112912008132 Walker B; other site 1112912008133 D-loop; other site 1112912008134 H-loop/switch region; other site 1112912008135 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 1112912008136 Uncharacterized conserved protein [Function unknown]; Region: COG5591 1112912008137 Transcriptional regulator [Transcription]; Region: IclR; COG1414 1112912008138 IclR helix-turn-helix domain; Region: HTH_IclR; pfam09339 1112912008139 Bacterial transcriptional regulator; Region: IclR; pfam01614 1112912008140 succinic semialdehyde dehydrogenase; Region: PLN02278 1112912008141 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 1112912008142 tetramerization interface [polypeptide binding]; other site 1112912008143 NAD(P) binding site [chemical binding]; other site 1112912008144 catalytic residues [active] 1112912008145 Predicted membrane protein [Function unknown]; Region: COG1238 1112912008146 Disulfide bond formation protein DsbB [Posttranslational modification, protein turnover, chaperones]; Region: DsbB; COG1495 1112912008147 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 1112912008148 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 1112912008149 active site 1112912008150 3-methyladenine DNA glycosylase/8-oxoguanine DNA glycosylase [DNA replication, recombination, and repair]; Region: AlkA; COG0122 1112912008151 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 1112912008152 helix-hairpin-helix signature motif; other site 1112912008153 substrate binding pocket [chemical binding]; other site 1112912008154 active site 1112912008155 glutamyl-Q tRNA(Asp) synthetase; Reviewed; Region: PRK05710 1112912008156 Glutamyl- and glutaminyl-tRNA synthetases [Translation, ribosomal structure and biogenesis]; Region: GlnS; COG0008 1112912008157 active site 1112912008158 HIGH motif; other site 1112912008159 nucleotide binding site [chemical binding]; other site 1112912008160 active site 1112912008161 KMSKS motif; other site 1112912008162 Malate synthase G (MSG), monomeric enzyme present in some bacteria. In general, malate synthase catalyzes the Claisen condensation of glyoxylate and acetyl-CoA to malyl-CoA , which hydrolyzes to malate and CoA. This reaction is part of the glyoxylate...; Region: malate_synt_G; cd00728 1112912008163 active site 1112912008164 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 1112912008165 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1112912008166 Coenzyme A binding pocket [chemical binding]; other site 1112912008167 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 1112912008168 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 1112912008169 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1112912008170 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 1112912008171 DNA binding residues [nucleotide binding] 1112912008172 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 1112912008173 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 1112912008174 RNA binding surface [nucleotide binding]; other site 1112912008175 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1112912008176 active site 1112912008177 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 1112912008178 metal binding site 2 [ion binding]; metal-binding site 1112912008179 putative DNA binding helix; other site 1112912008180 metal binding site 1 [ion binding]; metal-binding site 1112912008181 dimer interface [polypeptide binding]; other site 1112912008182 structural Zn2+ binding site [ion binding]; other site 1112912008183 PAS fold; Region: PAS_4; pfam08448 1112912008184 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 1112912008185 HWE histidine kinase; Region: HWE_HK; pfam07536 1112912008186 two-component response regulator; Provisional; Region: PRK09191 1112912008187 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 1112912008188 active site 1112912008189 phosphorylation site [posttranslational modification] 1112912008190 intermolecular recognition site; other site 1112912008191 dimerization interface [polypeptide binding]; other site 1112912008192 RNA polymerase sigma factor; Provisional; Region: PRK12516 1112912008193 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1112912008194 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 1112912008195 DNA binding residues [nucleotide binding] 1112912008196 CHASE3 domain; Region: CHASE3; pfam05227 1112912008197 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 1112912008198 Histidine kinase; Region: HisKA_2; pfam07568 1112912008199 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 1112912008200 ATP binding site [chemical binding]; other site 1112912008201 Mg2+ binding site [ion binding]; other site 1112912008202 G-X-G motif; other site 1112912008203 Bacterial protein of unknown function (DUF883); Region: DUF883; pfam05957 1112912008204 PRC-barrel domain; Region: PRC; pfam05239 1112912008205 PRC-barrel domain; Region: PRC; pfam05239 1112912008206 tonB-system energizer ExbB; Region: exbB; TIGR02797 1112912008207 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 1112912008208 TonB system transport protein ExbD, group 1; Region: ExbD_1; TIGR02803 1112912008209 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 1112912008210 TonB family C-terminal domain; Region: tonB_Cterm; TIGR01352 1112912008211 Predicted periplasmic protein [Function unknown]; Region: COG3698 1112912008212 Predicted periplasmic protein (DUF2233); Region: DUF2233; pfam09992 1112912008213 macrolide transporter subunit MacA; Provisional; Region: PRK11578 1112912008214 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1112912008215 HlyD family secretion protein; Region: HlyD_3; pfam13437 1112912008216 heme biosynthesis-associated TPR protein; Region: TPR_hemY_coli; TIGR00540 1112912008217 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3293 1112912008218 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1112912008219 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 1112912008220 trimer interface [polypeptide binding]; other site 1112912008221 active site 1112912008222 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1112912008223 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 1112912008224 dimerization interface [polypeptide binding]; other site 1112912008225 putative DNA binding site [nucleotide binding]; other site 1112912008226 putative Zn2+ binding site [ion binding]; other site 1112912008227 AsnC family; Region: AsnC_trans_reg; pfam01037 1112912008228 Predicted glutamine amidotransferase [General function prediction only]; Region: COG0121 1112912008229 Glutamine amidotransferases class-II (Gn-AT)_YafJ-type. YafJ is a glutamine amidotransferase-like protein of unknown function found in prokaryotes, eukaryotes and archaea. YafJ has a conserved structural fold similar to those of other class II...; Region: YafJ; cd01908 1112912008230 putative active site [active] 1112912008231 putative dimer interface [polypeptide binding]; other site 1112912008232 Uncharacterized family of ferritin-like proteins found in archaea and bacteria; Region: Ferritin_like_AB; cd01045 1112912008233 diiron binding motif [ion binding]; other site 1112912008234 Uncharacterized conserved protein [Function unknown]; Region: COG1633 1112912008235 CCC1-related protein family; Region: CCC1_like_1; cd02437 1112912008236 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 1112912008237 metabolite-proton symporter; Region: 2A0106; TIGR00883 1112912008238 putative substrate translocation pore; other site 1112912008239 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 1112912008240 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 1112912008241 GDP-binding site [chemical binding]; other site 1112912008242 ACT binding site; other site 1112912008243 IMP binding site; other site 1112912008244 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 1112912008245 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1112912008246 Coenzyme A binding pocket [chemical binding]; other site 1112912008247 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK13581 1112912008248 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_4; cd12173 1112912008249 ligand binding site [chemical binding]; other site 1112912008250 NAD binding site [chemical binding]; other site 1112912008251 dimerization interface [polypeptide binding]; other site 1112912008252 catalytic site [active] 1112912008253 C-terminal ACT (regulatory) domain of D-3-phosphoglycerate dehydrogenase (3PGDH); Region: ACT_3PGDH-xct; cd04902 1112912008254 putative L-serine binding site [chemical binding]; other site 1112912008255 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; cd01494 1112912008256 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1112912008257 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 1112912008258 catalytic residue [active] 1112912008259 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 1112912008260 Sodium Bile acid symporter family; Region: SBF; pfam01758 1112912008261 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 1112912008262 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14315 1112912008263 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 1112912008264 active site 1112912008265 substrate binding site [chemical binding]; other site 1112912008266 metal binding site [ion binding]; metal-binding site 1112912008267 FtsH Extracellular; Region: FtsH_ext; pfam06480 1112912008268 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 1112912008269 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 1112912008270 Walker A motif; other site 1112912008271 ATP binding site [chemical binding]; other site 1112912008272 Walker B motif; other site 1112912008273 arginine finger; other site 1112912008274 Peptidase family M41; Region: Peptidase_M41; pfam01434 1112912008275 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 1112912008276 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 1112912008277 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 1112912008278 Tetratricopeptide repeat; Region: TPR_6; pfam13174 1112912008279 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 1112912008280 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1112912008281 ligand binding site [chemical binding]; other site 1112912008282 translocation protein TolB; Provisional; Region: tolB; PRK05137 1112912008283 TolB amino-terminal domain; Region: TolB_N; pfam04052 1112912008284 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 1112912008285 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 1112912008286 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 1112912008287 TolR protein; Region: tolR; TIGR02801 1112912008288 TolQ protein; Region: tolQ; TIGR02796 1112912008289 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 1112912008290 active site 1112912008291 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 1112912008292 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 1112912008293 Walker A motif; other site 1112912008294 ATP binding site [chemical binding]; other site 1112912008295 Walker B motif; other site 1112912008296 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 1112912008297 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 1112912008298 RuvA N terminal domain; Region: RuvA_N; pfam01330 1112912008299 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 1112912008300 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 1112912008301 active site 1112912008302 putative DNA-binding cleft [nucleotide binding]; other site 1112912008303 dimer interface [polypeptide binding]; other site 1112912008304 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5317 1112912008305 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4645 1112912008306 Acyltransferase family; Region: Acyl_transf_3; pfam01757 1112912008307 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 1112912008308 active site 1112912008309 thiamine phosphate binding site [chemical binding]; other site 1112912008310 pyrophosphate binding site [ion binding]; other site 1112912008311 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 1112912008312 Sel1-like repeats; Region: SEL1; smart00671 1112912008313 Sel1-like repeats; Region: SEL1; smart00671 1112912008314 elongation factor P; Validated; Region: PRK00529 1112912008315 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 1112912008316 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 1112912008317 RNA binding site [nucleotide binding]; other site 1112912008318 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 1112912008319 RNA binding site [nucleotide binding]; other site 1112912008320 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 1112912008321 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 1112912008322 active site 1112912008323 dimerization interface [polypeptide binding]; other site 1112912008324 hypothetical protein; Validated; Region: PRK09039 1112912008325 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1112912008326 ligand binding site [chemical binding]; other site 1112912008327 ABC transporter, permease/ATP-binding protein; Region: MsbA_rel; TIGR02204 1112912008328 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1112912008329 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1112912008330 Walker A/P-loop; other site 1112912008331 ATP binding site [chemical binding]; other site 1112912008332 Q-loop/lid; other site 1112912008333 ABC transporter signature motif; other site 1112912008334 Walker B; other site 1112912008335 D-loop; other site 1112912008336 H-loop/switch region; other site 1112912008337 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00528 1112912008338 hypothetical protein; Validated; Region: PRK00110 1112912008339 Uncharacterized conserved protein [General function prediction only]; Region: BioY; COG1268 1112912008340 Uncharacterized conserved protein [Function unknown]; Region: COG3543 1112912008341 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 1112912008342 Deinococcus radiodurans DR1281 and related proteins, metallophosphatase domain; Region: MPP_DR1281; cd07382 1112912008343 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1112912008344 putative active site [active] 1112912008345 metal binding site [ion binding]; metal-binding site 1112912008346 homodimer binding site [polypeptide binding]; other site 1112912008347 5-formyltetrahydrofolate cyclo-ligase [Coenzyme metabolism]; Region: COG0212 1112912008348 Cell division protein ZapA (stimulator of FtsZ polymerization and Z-ring component) [Cell cycle control, cell division, chromosome partitioning]; Region: zapA; COG3027 1112912008349 Domain of unknown function (DUF4164); Region: DUF4164; pfam13747 1112912008350 Transketolase [Carbohydrate transport and metabolism]; Region: TktA; COG0021 1112912008351 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 1112912008352 TPP-binding site [chemical binding]; other site 1112912008353 dimer interface [polypeptide binding]; other site 1112912008354 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 1112912008355 PYR/PP interface [polypeptide binding]; other site 1112912008356 dimer interface [polypeptide binding]; other site 1112912008357 TPP binding site [chemical binding]; other site 1112912008358 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1112912008359 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 1112912008360 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 1112912008361 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 1112912008362 Phosphoglycerate kinase; Region: PGK; pfam00162 1112912008363 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 1112912008364 substrate binding site [chemical binding]; other site 1112912008365 hinge regions; other site 1112912008366 ADP binding site [chemical binding]; other site 1112912008367 catalytic site [active] 1112912008368 propionyl-CoA synthetase; Provisional; Region: prpE; PRK10524 1112912008369 Propionyl-CoA synthetase (PrpE); Region: PrpE; cd05967 1112912008370 acyl-activating enzyme (AAE) consensus motif; other site 1112912008371 putative AMP binding site [chemical binding]; other site 1112912008372 putative active site [active] 1112912008373 putative CoA binding site [chemical binding]; other site 1112912008374 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1112912008375 Predicted transcriptional regulator [Transcription]; Region: COG2378 1112912008376 HTH domain; Region: HTH_11; pfam08279 1112912008377 WYL domain; Region: WYL; pfam13280 1112912008378 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 1112912008379 CoenzymeA binding site [chemical binding]; other site 1112912008380 subunit interaction site [polypeptide binding]; other site 1112912008381 PHB binding site; other site 1112912008382 Thioesterase-like superfamily; Region: 4HBT_3; pfam13622 1112912008383 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3820 1112912008384 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 1112912008385 PIG3 p53-inducible quinone oxidoreductase; Region: p53_inducible_oxidoreductase; cd05276 1112912008386 NAD(P) binding site [chemical binding]; other site 1112912008387 Uncharacterized small protein containing a coiled-coil domain [Function unknown]; Region: COG5509 1112912008388 putative MFS family transporter protein; Provisional; Region: PRK03633 1112912008389 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 1112912008390 putative substrate translocation pore; other site 1112912008391 Uncharacterized small protein [Function unknown]; Region: COG5570 1112912008392 Uncharacterized conserved small protein containing a coiled-coil domain [Function unknown]; Region: COG5481 1112912008393 Phosphoribosylcarboxyaminoimidazole (NCAIR) mutase [Nucleotide transport and metabolism]; Region: PurE; COG0041 1112912008394 phosphoribosylaminoimidazole carboxylase, PurK protein; Region: purK; TIGR01161 1112912008395 ATP-grasp domain; Region: ATP-grasp; pfam02222 1112912008396 50S ribosomal protein L36; Validated; Region: rpmJ; PRK00831 1112912008397 TPR repeat; Region: TPR_11; pfam13414 1112912008398 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 1112912008399 TPR motif; other site 1112912008400 binding surface 1112912008401 pyruvate kinase; Provisional; Region: PRK06247 1112912008402 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 1112912008403 domain interfaces; other site 1112912008404 active site 1112912008405 Predicted integral membrane protein [Function unknown]; Region: COG5480 1112912008406 Predicted N-formylglutamate amidohydrolase [Amino acid transport and metabolism]; Region: COG3931 1112912008407 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3750 1112912008408 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 1112912008409 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1112912008410 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1112912008411 Thiamine pyrophosphokinase [Coenzyme metabolism]; Region: THI80; COG1564 1112912008412 Thiamine pyrophosphokinase; Region: TPK; cd07995 1112912008413 active site 1112912008414 dimerization interface [polypeptide binding]; other site 1112912008415 thiamine binding site [chemical binding]; other site 1112912008416 ABC-type thiamine transport system, periplasmic component [Coenzyme metabolism]; Region: TbpA; COG4143 1112912008417 thiamine transporter substrate binding subunit; Provisional; Region: tbpA; PRK11205 1112912008418 thiamine transporter membrane protein; Reviewed; Region: thiP; PRK09433 1112912008419 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 1112912008420 dimer interface [polypeptide binding]; other site 1112912008421 conserved gate region; other site 1112912008422 putative PBP binding loops; other site 1112912008423 ABC-ATPase subunit interface; other site 1112912008424 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 1112912008425 dimer interface [polypeptide binding]; other site 1112912008426 conserved gate region; other site 1112912008427 putative PBP binding loops; other site 1112912008428 ABC-ATPase subunit interface; other site 1112912008429 ABC-type thiamine transport system, ATPase component [Coenzyme metabolism]; Region: ThiQ; COG3840 1112912008430 ATP-binding cassette domain of the thiamine transport system; Region: ABC_ThiQ_thiamine_transporter; cd03298 1112912008431 Walker A/P-loop; other site 1112912008432 ATP binding site [chemical binding]; other site 1112912008433 Q-loop/lid; other site 1112912008434 ABC transporter signature motif; other site 1112912008435 Walker B; other site 1112912008436 D-loop; other site 1112912008437 H-loop/switch region; other site 1112912008438 Putative Zn-dependent protease [General function prediction only]; Region: COG4784 1112912008439 Peptidase family M48; Region: Peptidase_M48; pfam01435 1112912008440 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2258 1112912008441 MOSC domain; Region: MOSC; pfam03473 1112912008442 3-alpha domain; Region: 3-alpha; pfam03475 1112912008443 RNA polymerase factor sigma-32; Reviewed; Region: rpoH2; PRK07500 1112912008444 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1112912008445 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 1112912008446 DNA binding residues [nucleotide binding] 1112912008447 Transcriptional regulators, similar to M. xanthus CarD [Transcription]; Region: COG1329 1112912008448 Ferredoxin [Energy production and conversion]; Region: COG1146 1112912008449 4Fe-4S binding domain; Region: Fer4; pfam00037 1112912008450 Domain of unknown function (DUF3470); Region: DUF3470; pfam11953 1112912008451 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 1112912008452 RNA binding surface [nucleotide binding]; other site 1112912008453 putative acyltransferase; Provisional; Region: PRK05790 1112912008454 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 1112912008455 dimer interface [polypeptide binding]; other site 1112912008456 active site 1112912008457 Uncharacterized protein, possibly involved in utilization of glycolate and propanediol [General function prediction only]; Region: GlcG; COG3193 1112912008458 Ribosomal protein L32 [Translation, ribosomal structure and biogenesis]; Region: RpmF; COG0333 1112912008459 monofunctional biosynthetic peptidoglycan transglycosylase; Provisional; Region: mtgA; PRK00056 1112912008460 Transglycosylase; Region: Transgly; pfam00912 1112912008461 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 1112912008462 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 1112912008463 substrate binding pocket [chemical binding]; other site 1112912008464 chain length determination region; other site 1112912008465 substrate-Mg2+ binding site; other site 1112912008466 catalytic residues [active] 1112912008467 aspartate-rich region 1; other site 1112912008468 active site lid residues [active] 1112912008469 aspartate-rich region 2; other site 1112912008470 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 1112912008471 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 1112912008472 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 1112912008473 3-hydroxybutyrate dehydrogenase; Region: PHB_DH; TIGR01963 1112912008474 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1112912008475 NAD(P) binding site [chemical binding]; other site 1112912008476 active site 1112912008477 pyruvate carboxylase; Reviewed; Region: PRK12999 1112912008478 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1112912008479 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1112912008480 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 1112912008481 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 1112912008482 active site 1112912008483 catalytic residues [active] 1112912008484 metal binding site [ion binding]; metal-binding site 1112912008485 homodimer binding site [polypeptide binding]; other site 1112912008486 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 1112912008487 carboxyltransferase (CT) interaction site; other site 1112912008488 biotinylation site [posttranslational modification]; other site 1112912008489 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 1112912008490 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 1112912008491 dimerization interface [polypeptide binding]; other site 1112912008492 ligand binding site [chemical binding]; other site 1112912008493 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 1112912008494 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 1112912008495 dimerization interface [polypeptide binding]; other site 1112912008496 ligand binding site [chemical binding]; other site 1112912008497 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 1112912008498 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 1112912008499 Walker A/P-loop; other site 1112912008500 ATP binding site [chemical binding]; other site 1112912008501 Q-loop/lid; other site 1112912008502 ABC transporter signature motif; other site 1112912008503 Walker B; other site 1112912008504 D-loop; other site 1112912008505 H-loop/switch region; other site 1112912008506 Uncharacterized conserved protein [Function unknown]; Region: COG3743 1112912008507 leucine/isoleucine/valine transporter permease subunit; Provisional; Region: livM; PRK11301 1112912008508 Domain of unknown function (DUF3382); Region: DUF3382; pfam11862 1112912008509 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 1112912008510 TM-ABC transporter signature motif; other site 1112912008511 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1112912008512 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 1112912008513 TM-ABC transporter signature motif; other site 1112912008514 Proline racemase [Amino acid transport and metabolism]; Region: COG3938 1112912008515 hydroxyproline-2-epimerase; Provisional; Region: PRK13971 1112912008516 Transcriptional regulators [Transcription]; Region: FadR; COG2186 1112912008517 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1112912008518 DNA-binding site [nucleotide binding]; DNA binding site 1112912008519 FCD domain; Region: FCD; pfam07729 1112912008520 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1112912008521 MarR family; Region: MarR; pfam01047 1112912008522 F0F1-type ATP synthase, epsilon subunit (mitochondrial delta subunit) [Energy production and conversion]; Region: AtpC; COG0355 1112912008523 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 1112912008524 gamma subunit interface [polypeptide binding]; other site 1112912008525 epsilon subunit interface [polypeptide binding]; other site 1112912008526 LBP interface [polypeptide binding]; other site 1112912008527 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 1112912008528 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 1112912008529 F1 ATP synthase beta subunit, nucleotide-binding domain. The F-ATPase is found in bacterial plasma membranes, mitochondrial inner membranes and in chloroplast thylakoid membranes. It has also been found in the archaea Methanosarcina barkeri. It uses a...; Region: F1-ATPase_beta; cd01133 1112912008530 alpha subunit interaction interface [polypeptide binding]; other site 1112912008531 Walker A motif; other site 1112912008532 ATP binding site [chemical binding]; other site 1112912008533 Walker B motif; other site 1112912008534 inhibitor binding site; inhibition site 1112912008535 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 1112912008536 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 1112912008537 core domain interface [polypeptide binding]; other site 1112912008538 delta subunit interface [polypeptide binding]; other site 1112912008539 epsilon subunit interface [polypeptide binding]; other site 1112912008540 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 1112912008541 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 1112912008542 F1 ATP synthase alpha, central domain. The F-ATPase is found in bacterial plasma membranes, mitochondrial inner membranes and in chloroplast thylakoid membranes. It has also been found in the archaea Methanosarcina barkeri. It uses a proton gradient to...; Region: F1_ATPase_alpha; cd01132 1112912008543 beta subunit interaction interface [polypeptide binding]; other site 1112912008544 Walker A motif; other site 1112912008545 ATP binding site [chemical binding]; other site 1112912008546 Walker B motif; other site 1112912008547 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 1112912008548 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 1112912008549 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 1112912008550 primosome assembly protein PriA; Validated; Region: PRK05580 1112912008551 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 1112912008552 ATP binding site [chemical binding]; other site 1112912008553 putative Mg++ binding site [ion binding]; other site 1112912008554 helicase superfamily c-terminal domain; Region: HELICc; smart00490 1112912008555 nucleotide binding region [chemical binding]; other site 1112912008556 ATP-binding site [chemical binding]; other site 1112912008557 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 1112912008558 active site 1112912008559 intersubunit interactions; other site 1112912008560 catalytic residue [active] 1112912008561 Predicted secreted (periplasmic) protein [Function unknown]; Region: COG5468 1112912008562 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 1112912008563 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 1112912008564 HIGH motif; other site 1112912008565 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 1112912008566 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1112912008567 active site 1112912008568 KMSKS motif; other site 1112912008569 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 1112912008570 tRNA binding surface [nucleotide binding]; other site 1112912008571 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 1112912008572 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1112912008573 catalytic residue [active] 1112912008574 Predicted membrane protein [Function unknown]; Region: COG1289 1112912008575 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 1112912008576 Usg protein, probable subunit of phosphoribosylanthranilate isomerase [Amino acid transport and metabolism]; Region: COG5425 1112912008577 acetyl-CoA synthetase; Provisional; Region: PRK00174 1112912008578 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 1112912008579 active site 1112912008580 CoA binding site [chemical binding]; other site 1112912008581 acyl-activating enzyme (AAE) consensus motif; other site 1112912008582 AMP binding site [chemical binding]; other site 1112912008583 acetate binding site [chemical binding]; other site 1112912008584 Uncharacterized conserved small protein [Function unknown]; Region: COG5508 1112912008585 Protein of unknown function (DUF1674); Region: DUF1674; pfam07896 1112912008586 heat shock protein HtpX; Provisional; Region: PRK01345 1112912008587 NusB family; Region: NusB; pfam01029 1112912008588 tRNA and rRNA cytosine-C5-methylases [Translation, ribosomal structure and biogenesis]; Region: Sun; COG0144 1112912008589 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 1112912008590 S-adenosylmethionine binding site [chemical binding]; other site 1112912008591 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5360 1112912008592 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 1112912008593 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 1112912008594 purine monophosphate binding site [chemical binding]; other site 1112912008595 dimer interface [polypeptide binding]; other site 1112912008596 putative catalytic residues [active] 1112912008597 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 1112912008598 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 1112912008599 Permeases of the major facilitator superfamily [General function prediction only]; Region: COG2270 1112912008600 Bacterial NAD-glutamate dehydrogenase; Region: Bac_GDH; pfam05088 1112912008601 Predicted membrane protein [Function unknown]; Region: COG3762 1112912008602 Beta-propeller domains of methanol dehydrogenase type [General function prediction only]; Region: COG1512 1112912008603 Repair protein; Region: Repair_PSII; pfam04536 1112912008604 Uncharacterized conserved protein [Function unknown]; Region: LemA; COG1704 1112912008605 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 1112912008606 chorismate mutase; Provisional; Region: PRK09239 1112912008607 signal recognition particle protein; Provisional; Region: PRK10867 1112912008608 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 1112912008609 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 1112912008610 P loop; other site 1112912008611 GTP binding site [chemical binding]; other site 1112912008612 Signal peptide binding domain; Region: SRP_SPB; pfam02978 1112912008613 lytic murein transglycosylase; Region: MltB_2; TIGR02283 1112912008614 murein hydrolase B; Provisional; Region: PRK10760; cl17906 1112912008615 Carbonic anhydrases (CA) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism in which the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide is followed by the regeneration of an...; Region: beta_CA_cladeB; cd00884 1112912008616 active site clefts [active] 1112912008617 zinc binding site [ion binding]; other site 1112912008618 dimer interface [polypeptide binding]; other site 1112912008619 pyridoxamine kinase; Validated; Region: PRK05756 1112912008620 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 1112912008621 dimer interface [polypeptide binding]; other site 1112912008622 pyridoxal binding site [chemical binding]; other site 1112912008623 ATP binding site [chemical binding]; other site 1112912008624 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 1112912008625 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 1112912008626 tetrameric interface [polypeptide binding]; other site 1112912008627 NAD binding site [chemical binding]; other site 1112912008628 catalytic residues [active] 1112912008629 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1112912008630 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1112912008631 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 1112912008632 putative effector binding pocket; other site 1112912008633 dimerization interface [polypeptide binding]; other site 1112912008634 Predicted membrane protein [Function unknown]; Region: COG3619 1112912008635 Diadenosine tetraphosphate (Ap4A) hydrolase is a member of the Nudix hydrolase superfamily. Members of this family are well represented in a variety of prokaryotic and eukaryotic organisms. Phylogenetic analysis reveals two distinct subgroups where plant...; Region: Ap4A_hydrolase_plant_like; cd03671 1112912008636 putative active site [active] 1112912008637 Ap4A binding site [chemical binding]; other site 1112912008638 nudix motif; other site 1112912008639 putative metal binding site [ion binding]; other site 1112912008640 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 1112912008641 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 1112912008642 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 1112912008643 protein binding site [polypeptide binding]; other site 1112912008644 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 1112912008645 Catalytic dyad [active] 1112912008646 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 1112912008647 Peptidase family M23; Region: Peptidase_M23; pfam01551 1112912008648 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 1112912008649 Uncharacterized homolog of plant Iojap protein [Function unknown]; Region: COG0799 1112912008650 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 1112912008651 Cytidylyltransferase; Region: CTP_transf_2; pfam01467 1112912008652 active site 1112912008653 (T/H)XGH motif; other site 1112912008654 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 1112912008655 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 1112912008656 putative catalytic cysteine [active] 1112912008657 gamma-glutamyl kinase; Provisional; Region: PRK05429 1112912008658 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 1112912008659 nucleotide binding site [chemical binding]; other site 1112912008660 homotetrameric interface [polypeptide binding]; other site 1112912008661 putative phosphate binding site [ion binding]; other site 1112912008662 putative allosteric binding site; other site 1112912008663 PUA domain; Region: PUA; pfam01472 1112912008664 GTPase CgtA; Reviewed; Region: obgE; PRK12299 1112912008665 GTP1/OBG; Region: GTP1_OBG; pfam01018 1112912008666 Obg GTPase; Region: Obg; cd01898 1112912008667 G1 box; other site 1112912008668 GTP/Mg2+ binding site [chemical binding]; other site 1112912008669 Switch I region; other site 1112912008670 G2 box; other site 1112912008671 G3 box; other site 1112912008672 Switch II region; other site 1112912008673 G4 box; other site 1112912008674 G5 box; other site 1112912008675 YadA-like C-terminal region; Region: YadA; pfam03895 1112912008676 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 1112912008677 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 1112912008678 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 1112912008679 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 1112912008680 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 1112912008681 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 1112912008682 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 1112912008683 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3316 1112912008684 Integrase core domain; Region: rve; pfam00665 1112912008685 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 1112912008686 non-specific DNA binding site [nucleotide binding]; other site 1112912008687 salt bridge; other site 1112912008688 sequence-specific DNA binding site [nucleotide binding]; other site 1112912008689 Cupin domain; Region: Cupin_2; cl17218 1112912008690 Methyltransferase domain; Region: Methyltransf_31; pfam13847 1112912008691 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 1112912008692 S-adenosylmethionine binding site [chemical binding]; other site 1112912008693 AzlC protein; Region: AzlC; pfam03591 1112912008694 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3316 1112912008695 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3316 1112912008696 Integrase core domain; Region: rve; pfam00665 1112912008697 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 1112912008698 Peptidase family M23; Region: Peptidase_M23; pfam01551 1112912008699 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 1112912008700 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 1112912008701 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 1112912008702 Clp amino terminal domain; Region: Clp_N; pfam02861 1112912008703 Clp amino terminal domain; Region: Clp_N; pfam02861 1112912008704 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 1112912008705 Walker A motif; other site 1112912008706 ATP binding site [chemical binding]; other site 1112912008707 Walker B motif; other site 1112912008708 arginine finger; other site 1112912008709 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 1112912008710 Walker A motif; other site 1112912008711 ATP binding site [chemical binding]; other site 1112912008712 Walker B motif; other site 1112912008713 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 1112912008714 Domain of unknown function (DUF4167); Region: DUF4167; pfam13763 1112912008715 protein-(glutamine-N5) methyltransferase, release factor-specific; Region: RF_mod_PrmC; TIGR03534 1112912008716 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 1112912008717 S-adenosylmethionine binding site [chemical binding]; other site 1112912008718 peptide chain release factor 1; Validated; Region: prfA; PRK00591 1112912008719 This domain is found in peptide chain release factors; Region: PCRF; smart00937 1112912008720 RF-1 domain; Region: RF-1; pfam00472 1112912008721 Signal transduction protein containing GAF and PtsI domains [Signal transduction mechanisms]; Region: PtsP; COG3605 1112912008722 GAF domain; Region: GAF; pfam01590 1112912008723 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 1112912008724 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 1112912008725 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 1112912008726 aspartate kinase; Reviewed; Region: PRK06635 1112912008727 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 1112912008728 putative nucleotide binding site [chemical binding]; other site 1112912008729 putative catalytic residues [active] 1112912008730 putative Mg ion binding site [ion binding]; other site 1112912008731 putative aspartate binding site [chemical binding]; other site 1112912008732 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 1112912008733 putative allosteric regulatory site; other site 1112912008734 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 1112912008735 putative allosteric regulatory residue; other site 1112912008736 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 1112912008737 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 1112912008738 S-adenosylmethionine binding site [chemical binding]; other site 1112912008739 EamA-like transporter family; Region: EamA; pfam00892 1112912008740 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5319 1112912008741 Predicted amidohydrolase [General function prediction only]; Region: COG0388 1112912008742 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 1112912008743 putative active site [active] 1112912008744 catalytic triad [active] 1112912008745 dimer interface [polypeptide binding]; other site 1112912008746 Glutaredoxin (GRX) family, GRX bacterial class 1 and 3 (b_1_3)-like subfamily; composed of bacterial GRXs, approximately 10 kDa in size, and proteins containing a GRX or GRX-like domain. GRX is a glutathione (GSH) dependent reductase, catalyzing the...; Region: GRX_GRXb_1_3_like; cd03418 1112912008747 GSH binding site [chemical binding]; other site 1112912008748 catalytic residues [active] 1112912008749 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 1112912008750 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1112912008751 active site 1112912008752 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 1112912008753 Methyltransferase domain; Region: Methyltransf_11; pfam08241 1112912008754 tellurium resistance terB-like protein, subgroup 2; Region: terB_like_2; cd07313 1112912008755 putative metal binding site [ion binding]; other site 1112912008756 Uncharacterized membrane-bound protein [Function unknown]; Region: COG3898 1112912008757 HemY protein N-terminus; Region: HemY_N; pfam07219 1112912008758 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4223 1112912008759 Uroporphyrinogen-III synthase [Coenzyme metabolism]; Region: HemD; COG1587 1112912008760 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 1112912008761 active site 1112912008762 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 1112912008763 Hydroxymethylbilane synthase (HMBS), also known as porphobilinogen deaminase (PBGD), is an intermediate enzyme in the biosynthetic pathway of tetrapyrrolic ring systems, such as heme, chlorophylls, and vitamin B12. HMBS catalyzes the conversion of...; Region: HMBS; cd00494 1112912008764 domain interfaces; other site 1112912008765 active site 1112912008766 UGMP family protein; Validated; Region: PRK09604 1112912008767 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl17884 1112912008768 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 1112912008769 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 1112912008770 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 1112912008771 YCII-related domain; Region: YCII; cl00999 1112912008772 Uncharacterized conserved protein [Function unknown]; Region: COG2947 1112912008773 Predicted methyltransferase [General function prediction only]; Region: COG3897 1112912008774 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 1112912008775 S-adenosylmethionine binding site [chemical binding]; other site 1112912008776 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1112912008777 EamA-like transporter family; Region: EamA; pfam00892 1112912008778 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 1112912008779 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 1112912008780 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 1112912008781 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 1112912008782 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 1112912008783 Acyl-CoA thioesterase [Lipid metabolism]; Region: TesB; COG1946 1112912008784 Thioesterase II (TEII) is thought to regenerate misprimed nonribosomal peptide synthetases (NRPSs) as well as modular polyketide synthases (PKSs) by hydrolyzing acetyl groups bound to the peptidyl carrier protein (PCP) and acyl carrier protein (ACP)...; Region: Thioesterase_II_repeat2; cd03445 1112912008785 active site 1112912008786 Thioesterase II (TEII) is thought to regenerate misprimed nonribosomal peptide synthetases (NRPSs) as well as modular polyketide synthases (PKSs) by hydrolyzing acetyl groups bound to the peptidyl carrier protein (PCP) and acyl carrier protein (ACP)...; Region: Thioesterase_II_repeat1; cd03444 1112912008787 catalytic triad [active] 1112912008788 dimer interface [polypeptide binding]; other site 1112912008789 2-octaprenyl-6-methoxyphenyl hydroxylase; Provisional; Region: PRK07333 1112912008790 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 1112912008791 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_19; cd07262 1112912008792 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1112912008793 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 1112912008794 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 1112912008795 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK09078 1112912008796 L-aspartate oxidase; Provisional; Region: PRK06175 1112912008797 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 1112912008798 Succinate:quinone oxidoreductase (SQR) Type C subfamily, Succinate dehydrogenase D (SdhD) subunit-like; composed of predominantly uncharacterized bacterial proteins with similarity to the E. coli SdhD subunit. One characterized protein is the respiratory...; Region: SQR_TypeC_SdhD_like; cd03495 1112912008799 putative SdhC subunit interface [polypeptide binding]; other site 1112912008800 putative proximal heme binding site [chemical binding]; other site 1112912008801 putative Iron-sulfur protein interface [polypeptide binding]; other site 1112912008802 putative proximal quinone binding site; other site 1112912008803 Succinate:quinone oxidoreductase (SQR) Type C subfamily, Succinate dehydrogenase C (SdhC) subunit; composed of bacterial SdhC and eukaryotic large cytochrome b binding (CybL) proteins. SQR catalyzes the oxidation of succinate to fumarate coupled to the...; Region: SQR_TypeC_SdhC; cd03499 1112912008804 Iron-sulfur protein interface; other site 1112912008805 proximal quinone binding site [chemical binding]; other site 1112912008806 SdhD (CybS) interface [polypeptide binding]; other site 1112912008807 proximal heme binding site [chemical binding]; other site 1112912008808 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 1112912008809 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1112912008810 Coenzyme A binding pocket [chemical binding]; other site 1112912008811 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 1112912008812 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 1112912008813 substrate binding site [chemical binding]; other site 1112912008814 ligand binding site [chemical binding]; other site 1112912008815 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 1112912008816 Cytosine/uracil/thiamine/allantoin permeases [Nucleotide transport and metabolism / Coenzyme metabolism]; Region: FUI1; COG1953 1112912008817 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 1112912008818 Na binding site [ion binding]; other site 1112912008819 Uncharacterized enzyme involved in biosynthesis of extracellular polysaccharides [General function prediction only]; Region: COG2329 1112912008820 NIPSNAP; Region: NIPSNAP; pfam07978 1112912008821 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 1112912008822 dimerization interface [polypeptide binding]; other site 1112912008823 putative DNA binding site [nucleotide binding]; other site 1112912008824 putative Zn2+ binding site [ion binding]; other site 1112912008825 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 1112912008826 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 1112912008827 RimM N-terminal domain; Region: RimM; pfam01782 1112912008828 PRC-barrel domain; Region: PRC; pfam05239 1112912008829 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 1112912008830 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 1112912008831 active site 1112912008832 DNA binding site [nucleotide binding] 1112912008833 Int/Topo IB signature motif; other site 1112912008834 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3735 1112912008835 dihydrolipoamide dehydrogenase; Validated; Region: PRK06327 1112912008836 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1112912008837 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1112912008838 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1112912008839 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 1112912008840 Predicted membrane protein [Function unknown]; Region: COG3686 1112912008841 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 1112912008842 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 1112912008843 E3 interaction surface; other site 1112912008844 lipoyl attachment site [posttranslational modification]; other site 1112912008845 e3 binding domain; Region: E3_binding; pfam02817 1112912008846 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 1112912008847 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 1112912008848 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 1112912008849 TPP-binding site [chemical binding]; other site 1112912008850 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 1112912008851 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 1112912008852 CoA binding domain; Region: CoA_binding; smart00881 1112912008853 CoA-ligase; Region: Ligase_CoA; pfam00549 1112912008854 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 1112912008855 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 1112912008856 CoA-ligase; Region: Ligase_CoA; pfam00549 1112912008857 malate dehydrogenase; Reviewed; Region: PRK06223 1112912008858 L-lactate dehydrogenase-like malate dehydrogenase proteins; Region: LDH-like_MDH; cd01339 1112912008859 NAD(P) binding site [chemical binding]; other site 1112912008860 dimer interface [polypeptide binding]; other site 1112912008861 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1112912008862 substrate binding site [chemical binding]; other site 1112912008863 Predicted ATPase [General function prediction only]; Region: COG1485 1112912008864 Protease inhibitor Inh; Region: Inh; pfam02974 1112912008865 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 1112912008866 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 1112912008867 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 1112912008868 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 1112912008869 MiaB-like tRNA modifying enzyme; Region: MiaB-like-C; TIGR01579 1112912008870 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 1112912008871 FeS/SAM binding site; other site 1112912008872 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 1112912008873 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 1112912008874 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 1112912008875 intracellular septation protein A; Reviewed; Region: PRK00259 1112912008876 hydroxyacylglutathione hydrolase; Region: GSH_gloB; TIGR03413 1112912008877 The MutT pyrophosphohydrolase is a prototypical Nudix hydrolase that catalyzes the hydrolysis of nucleoside and deoxynucleoside triphosphates (NTPs and dNTPs) by substitution at a beta-phosphorus to yield a nucleotide monophosphate (NMP) and inorganic...; Region: MutT_pyrophosphohydrolase; cd03425 1112912008878 active site 1112912008879 8-oxo-dGMP binding site [chemical binding]; other site 1112912008880 nudix motif; other site 1112912008881 metal binding site [ion binding]; metal-binding site 1112912008882 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1112912008883 Coenzyme A binding pocket [chemical binding]; other site 1112912008884 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 1112912008885 heterotetramer interface [polypeptide binding]; other site 1112912008886 active site pocket [active] 1112912008887 cleavage site 1112912008888 peptidylprolyl isomerase; Reviewed; Region: prsA; PRK03002 1112912008889 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 1112912008890 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 1112912008891 DEAD/DEAH box helicase; Region: DEAD; pfam00270 1112912008892 ATP binding site [chemical binding]; other site 1112912008893 putative Mg++ binding site [ion binding]; other site 1112912008894 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 1112912008895 SEC-C motif; Region: SEC-C; pfam02810 1112912008896 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; pfam13480 1112912008897 Predicted membrane-associated, metal-dependent hydrolase [General function prediction only]; Region: COG2194 1112912008898 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 1112912008899 Sulfatase; Region: Sulfatase; pfam00884 1112912008900 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1112912008901 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1112912008902 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 1112912008903 dimerization interface [polypeptide binding]; other site 1112912008904 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1112912008905 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 1112912008906 substrate binding pocket [chemical binding]; other site 1112912008907 membrane-bound complex binding site; other site 1112912008908 hinge residues; other site 1112912008909 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 1112912008910 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 1112912008911 dimer interface [polypeptide binding]; other site 1112912008912 conserved gate region; other site 1112912008913 putative PBP binding loops; other site 1112912008914 ABC-ATPase subunit interface; other site 1112912008915 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1112912008916 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1112912008917 Walker A/P-loop; other site 1112912008918 ATP binding site [chemical binding]; other site 1112912008919 Q-loop/lid; other site 1112912008920 ABC transporter signature motif; other site 1112912008921 Walker B; other site 1112912008922 D-loop; other site 1112912008923 H-loop/switch region; other site 1112912008924 agmatinase; Region: agmatinase; TIGR01230 1112912008925 Agmatinase and related proteins; Region: Agmatinase_like_1; cd11589 1112912008926 oligomer interface [polypeptide binding]; other site 1112912008927 active site 1112912008928 Mn binding site [ion binding]; other site 1112912008929 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 1112912008930 Aspartase; Region: Aspartase; cd01357 1112912008931 active sites [active] 1112912008932 tetramer interface [polypeptide binding]; other site 1112912008933 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 1112912008934 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 1112912008935 Walker A/P-loop; other site 1112912008936 ATP binding site [chemical binding]; other site 1112912008937 Q-loop/lid; other site 1112912008938 ABC transporter signature motif; other site 1112912008939 Walker B; other site 1112912008940 D-loop; other site 1112912008941 H-loop/switch region; other site 1112912008942 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 1112912008943 active site 1112912008944 homotetramer interface [polypeptide binding]; other site 1112912008945 homodimer interface [polypeptide binding]; other site 1112912008946 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1112912008947 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1112912008948 DNA-binding site [nucleotide binding]; DNA binding site 1112912008949 FCD domain; Region: FCD; pfam07729 1112912008950 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 1112912008951 active site 1112912008952 homotetramer interface [polypeptide binding]; other site 1112912008953 homodimer interface [polypeptide binding]; other site 1112912008954 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 1112912008955 D-galactonate transporter; Region: 2A0114; TIGR00893 1112912008956 putative substrate translocation pore; other site 1112912008957 methionine gamma-lyase; Validated; Region: PRK07049 1112912008958 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 1112912008959 homodimer interface [polypeptide binding]; other site 1112912008960 substrate-cofactor binding pocket; other site 1112912008961 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1112912008962 catalytic residue [active] 1112912008963 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 1112912008964 Ligand Binding Site [chemical binding]; other site 1112912008965 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK07530 1112912008966 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 1112912008967 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1112912008968 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 1112912008969 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_alpha; cd01715 1112912008970 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 1112912008971 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 1112912008972 Ligand binding site [chemical binding]; other site 1112912008973 Electron transfer flavoprotein domain; Region: ETF; pfam01012 1112912008974 ExsB is a transcription regulator related protein. It is a subfamily of a Adenosine nucleotide binding superfamily of proteins. This protein family is represented by a single member in nearly every completed large (> 1000 genes) prokaryotic genome. In...; Region: ExsB; cd01995 1112912008975 Ligand Binding Site [chemical binding]; other site 1112912008976 6-pyruvoyl-tetrahydropterin synthase [Coenzyme metabolism]; Region: COG0720 1112912008977 active site 1112912008978 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE; Region: Bsubt_queE; TIGR03365 1112912008979 putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE; Region: rSAM_QueE_Ecoli; TIGR04322 1112912008980 cob(I)alamin adenosyltransferase [Coenzyme transport and metabolism]; Region: COG2096 1112912008981 Hypoxia induced protein conserved region; Region: HIG_1_N; pfam04588 1112912008982 short chain dehydrogenase; Provisional; Region: PRK05993 1112912008983 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 1112912008984 NADP binding site [chemical binding]; other site 1112912008985 active site 1112912008986 steroid binding site; other site 1112912008987 Ribonuclease BN family enzyme [Replication, recombination, and repair]; Region: Rbn; COG1295 1112912008988 hypothetical protein; Validated; Region: PRK00124 1112912008989 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 1112912008990 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1112912008991 catalytic residues [active] 1112912008992 argininosuccinate lyase; Provisional; Region: PRK00855 1112912008993 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 1112912008994 active sites [active] 1112912008995 tetramer interface [polypeptide binding]; other site 1112912008996 Predicted small periplasmic lipoprotein [Cell motility and secretion]; Region: COG5567 1112912008997 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 1112912008998 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 1112912008999 active site 1112912009000 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1112912009001 substrate binding site [chemical binding]; other site 1112912009002 catalytic residues [active] 1112912009003 dimer interface [polypeptide binding]; other site 1112912009004 TIGR02302 family protein; Region: aProt_lowcomp 1112912009005 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1112912009006 active site 1112912009007 Methyltransferase domain; Region: Methyltransf_23; pfam13489 1112912009008 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 1112912009009 histidinol-phosphate aminotransferase; Validated; Region: PRK02731 1112912009010 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 1112912009011 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1112912009012 homodimer interface [polypeptide binding]; other site 1112912009013 catalytic residue [active] 1112912009014 cyclohexadienyl dehydrogenase; Validated; Region: PRK07502 1112912009015 prephenate dehydrogenase; Validated; Region: PRK08507 1112912009016 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4093 1112912009017 Uncharacterized protein conserved in bacteria (DUF2125); Region: DUF2125; pfam09898 1112912009018 Uncharacterized protein involved in cation transport [Inorganic ion transport and metabolism]; Region: ChaC; COG3703 1112912009019 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 1112912009020 putative active site pocket [active] 1112912009021 dimerization interface [polypeptide binding]; other site 1112912009022 putative catalytic residue [active] 1112912009023 YGGT family; Region: YGGT; pfam02325 1112912009024 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 1112912009025 dimer interface [polypeptide binding]; other site 1112912009026 substrate binding site [chemical binding]; other site 1112912009027 metal binding sites [ion binding]; metal-binding site 1112912009028 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 1112912009029 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 1112912009030 putative acyl-acceptor binding pocket; other site 1112912009031 Uncharacterized conserved protein [Function unknown]; Region: COG1434 1112912009032 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 1112912009033 putative active site [active] 1112912009034 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 1112912009035 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 1112912009036 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1112912009037 Walker A/P-loop; other site 1112912009038 ATP binding site [chemical binding]; other site 1112912009039 Q-loop/lid; other site 1112912009040 ABC transporter signature motif; other site 1112912009041 Walker B; other site 1112912009042 D-loop; other site 1112912009043 H-loop/switch region; other site 1112912009044 Major intrinsic protein (MIP) superfamily. Members of the MIP superfamily function as membrane channels that selectively transport water, small neutral molecules, and ions out of and between cells. The channel proteins share a common fold: the N-terminal...; Region: MIP; cd00333 1112912009045 amphipathic channel; other site 1112912009046 Asn-Pro-Ala signature motifs; other site 1112912009047 Outer membrane lipoprotein-sorting protein [Cell envelope biogenesis, outer membrane]; Region: LolA; COG2834 1112912009048 Outer membrane lipoprotein carrier protein LolA; Region: LolA; pfam03548 1112912009049 Escherichia coli exonuclease III (ExoIII) and Neisseria meningitides NExo-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: ExoIII-like_AP-endo; cd09086 1112912009050 putative catalytic site [active] 1112912009051 putative phosphate binding site [ion binding]; other site 1112912009052 active site 1112912009053 metal binding site A [ion binding]; metal-binding site 1112912009054 DNA binding site [nucleotide binding] 1112912009055 putative AP binding site [nucleotide binding]; other site 1112912009056 putative metal binding site B [ion binding]; other site 1112912009057 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1112912009058 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 1112912009059 ligand binding site [chemical binding]; other site 1112912009060 flexible hinge region; other site 1112912009061 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1112912009062 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 1112912009063 active site 1112912009064 phosphorylation site [posttranslational modification] 1112912009065 intermolecular recognition site; other site 1112912009066 dimerization interface [polypeptide binding]; other site 1112912009067 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 1112912009068 DNA binding site [nucleotide binding] 1112912009069 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3786 1112912009070 Bacterial Ig-like domain (group 1); Region: Big_1; cl17740 1112912009071 putative lipoprotein/autotransporter domain-containing protein; Provisional; Region: PRK14849 1112912009072 Uncharacterized member of the PurR regulon [General function prediction only]; Region: yhhQ; COG1738 1112912009073 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 1112912009074 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 1112912009075 Helix-Turn-Helix DNA binding domain of the CadR- and PbrR-like transcription regulators; Region: HTH_CadR-PbrR-like; cd04785 1112912009076 DNA binding residues [nucleotide binding] 1112912009077 zinc-responsive transcriptional regulator; Provisional; Region: zntR; PRK09514 1112912009078 dimer interface [polypeptide binding]; other site 1112912009079 putative metal binding site [ion binding]; other site 1112912009080 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 1112912009081 metal-binding site [ion binding] 1112912009082 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 1112912009083 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 1112912009084 metal-binding site [ion binding] 1112912009085 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1112912009086 Soluble P-type ATPase [General function prediction only]; Region: COG4087 1112912009087 Cobalamin biosynthesis protein CobT (nicotinate-mononucleotide:5, 6-dimethylbenzimidazole phosphoribosyltransferase) [Coenzyme metabolism]; Region: CobT; COG4547 1112912009088 Cobalamin biosynthesis protein CobT; Region: CobT; pfam06213 1112912009089 norD type: Denitrifying bacteria contain both membrane bound and periplasmic nitrate reductases. Denitrification plays a major role in completing the nitrogen cycle by converting nitrate or nitrite to nitrogen gas. The pathway for microbial...; Region: vWA_norD_type; cd01454 1112912009090 metal ion-dependent adhesion site (MIDAS); other site 1112912009091 cobaltochelatase, CobS subunit; Region: PD_CobS; TIGR01650 1112912009092 Cobaltochelatase CobS subunit N terminal; Region: CobS_N; pfam12556 1112912009093 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl17189 1112912009094 DnaJ-class molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: CbpA; COG2214 1112912009095 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 1112912009096 HSP70 interaction site [polypeptide binding]; other site 1112912009097 Stress-induced morphogen (activity unknown) [Signal transduction mechanisms]; Region: BolA; COG0271 1112912009098 Putative Mg2+ and Co2+ transporter CorB [Inorganic ion transport and metabolism]; Region: CorB; COG4536 1112912009099 Domain of unknown function DUF21; Region: DUF21; pfam01595 1112912009100 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 1112912009101 Transporter associated domain; Region: CorC_HlyC; smart01091 1112912009102 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 1112912009103 Iron-containing alcohol dehydrogenase; Region: Fe-ADH; pfam00465 1112912009104 active site 1112912009105 dimer interface [polypeptide binding]; other site 1112912009106 metal binding site [ion binding]; metal-binding site 1112912009107 Shikimate kinase [Amino acid transport and metabolism]; Region: AroK; COG0703 1112912009108 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 1112912009109 ADP binding site [chemical binding]; other site 1112912009110 magnesium binding site [ion binding]; other site 1112912009111 putative shikimate binding site; other site 1112912009112 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 1112912009113 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 1112912009114 active site 1112912009115 DNA binding site [nucleotide binding] 1112912009116 Int/Topo IB signature motif; other site 1112912009117 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 1112912009118 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 1112912009119 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3034 1112912009120 SirA, YedF, and YeeD. Two-layered alpha/beta sandwich domain. SirA (also known as UvrY, and YhhP) belongs to a family of bacterial two-component response regulators that controls secondary metabolism and virulence. The other member of this...; Region: SirA_YedF_YeeD; cd00291 1112912009121 CPxP motif; other site 1112912009122 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 1112912009123 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 1112912009124 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 1112912009125 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 1112912009126 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 1112912009127 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 1112912009128 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 1112912009129 metal binding site [ion binding]; metal-binding site 1112912009130 putative dimer interface [polypeptide binding]; other site 1112912009131 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 1112912009132 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1112912009133 NAD(P) binding site [chemical binding]; other site 1112912009134 active site 1112912009135 Uncharacterized conserved protein [Function unknown]; Region: COG3791 1112912009136 Domain of unknown function (DUF4354); Region: DUF4354; pfam14263 1112912009137 choline dehydrogenase; Validated; Region: PRK02106 1112912009138 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 1112912009139 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: PRK12745 1112912009140 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1112912009141 NAD(P) binding site [chemical binding]; other site 1112912009142 active site 1112912009143 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 1112912009144 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 1112912009145 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 1112912009146 Gluconobacter oxydans L-sorbosone dehydrogenase-like; Region: ALDH_SNDH; cd07118 1112912009147 NAD(P) binding site [chemical binding]; other site 1112912009148 catalytic residues [active] 1112912009149 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 1112912009150 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 1112912009151 substrate binding site [chemical binding]; other site 1112912009152 oxyanion hole (OAH) forming residues; other site 1112912009153 trimer interface [polypeptide binding]; other site 1112912009154 Acyl CoA:acetate/3-ketoacid CoA transferase [Lipid metabolism]; Region: COG4670 1112912009155 Coenzyme A transferase; Region: CoA_trans; smart00882 1112912009156 Coenzyme A transferase; Region: CoA_trans; cl17247 1112912009157 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1112912009158 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1112912009159 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 1112912009160 Transcriptional regulators [Transcription]; Region: PurR; COG1609 1112912009161 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 1112912009162 DNA binding site [nucleotide binding] 1112912009163 domain linker motif; other site 1112912009164 Ligand-binding domain of MalI, a transcription regulator of the maltose system of Escherichia coli and its close homologs from other bacteria; Region: PBP1_MalI_like; cd06289 1112912009165 putative dimerization interface [polypeptide binding]; other site 1112912009166 putative ligand binding site [chemical binding]; other site 1112912009167 Protein of unknown function (DUF993); Region: DUF993; pfam06187 1112912009168 probable oxidoreductase, LLM family; Region: LLM_2I7G; TIGR03858 1112912009169 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 1112912009170 Type I periplasmic ligand-binding domain of uncharacterized ABC-type transport systems that are predicted to be involved in the uptake of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_uncharacterized_transporter; cd06325 1112912009171 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 1112912009172 zinc binding site [ion binding]; other site 1112912009173 putative ligand binding site [chemical binding]; other site 1112912009174 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 1112912009175 Transmembrane subunit (TM) of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which are involved in the uptake of branched-chain amino acids (AAs), as well as TMs of transporters involved in the uptake of...; Region: TM_PBP1_branched-chain-AA_like; cd06574 1112912009176 TM-ABC transporter signature motif; other site 1112912009177 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: PhnK; COG1101 1112912009178 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 1112912009179 Walker A/P-loop; other site 1112912009180 ATP binding site [chemical binding]; other site 1112912009181 Q-loop/lid; other site 1112912009182 ABC transporter signature motif; other site 1112912009183 Walker B; other site 1112912009184 D-loop; other site 1112912009185 H-loop/switch region; other site 1112912009186 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK06585 1112912009187 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 1112912009188 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 1112912009189 ParB-like nuclease domain; Region: ParB; smart00470 1112912009190 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 1112912009191 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 1112912009192 P-loop; other site 1112912009193 Magnesium ion binding site [ion binding]; other site 1112912009194 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 1112912009195 Magnesium ion binding site [ion binding]; other site 1112912009196 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 1112912009197 16S rRNA methyltransferase GidB; Reviewed; Region: gidB; PRK00107 1112912009198 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 1112912009199 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1112912009200 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 1112912009201 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 1112912009202 Predicted GTPase [General function prediction only]; Region: ThdF; COG0486 1112912009203 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 1112912009204 Circularly permuted YlqF-related GTPases; Region: YlqF_related_GTPase; cl17249 1112912009205 trmE is a tRNA modification GTPase; Region: trmE; cd04164 1112912009206 G1 box; other site 1112912009207 G1 box; other site 1112912009208 GTP/Mg2+ binding site [chemical binding]; other site 1112912009209 GTP/Mg2+ binding site [chemical binding]; other site 1112912009210 Switch I region; other site 1112912009211 Switch I region; other site 1112912009212 G2 box; other site 1112912009213 G2 box; other site 1112912009214 Switch II region; other site 1112912009215 G3 box; other site 1112912009216 G4 box; other site 1112912009217 G5 box; other site 1112912009218 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 1112912009219 Highly conserved protein containing a thioredoxin domain [Posttranslational modification, protein turnover, chaperones]; Region: COG1331 1112912009220 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 1112912009221 catalytic residues [active] 1112912009222 This group contains class II terpene cyclases, protein prenyltransferases beta subunit, two broadly specific proteinase inhibitors alpha2-macroglobulin (alpha (2)-M) and pregnancy zone protein (PZP) and, the C3 C4 and C5 components of vertebrate...; Region: ISOPREN_C2_like; cl08267 1112912009223 transcription termination factor Rho; Provisional; Region: rho; PRK09376 1112912009224 Rho termination factor, N-terminal domain; Region: Rho_N; smart00959 1112912009225 Rho_CSD: Rho protein cold-shock domain (CSD). Rho protein is a transcription termination factor in most bacteria. In bacteria, there are two distinct mechanisms for mRNA transcription termination. In intrinsic termination, RNA polymerase and nascent mRNA...; Region: Rho_CSD; cd04459 1112912009226 RNA binding site [nucleotide binding]; other site 1112912009227 Transcription termination factor rho is a bacterial ATP-dependent RNA/DNA helicase. It is a homohexamer. Each monomer consists of an N-terminal domain of the OB fold, which is responsible for binding to cysteine rich nucleotides. This alignment is of the...; Region: rho_factor; cd01128 1112912009228 multimer interface [polypeptide binding]; other site 1112912009229 Walker A motif; other site 1112912009230 ATP binding site [chemical binding]; other site 1112912009231 Walker B motif; other site 1112912009232 Predicted membrane protein [Function unknown]; Region: COG1981 1112912009233 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 1112912009234 substrate binding site [chemical binding]; other site 1112912009235 active site 1112912009236 PEP synthetase regulatory protein; Provisional; Region: PRK05339 1112912009237 Maf-like protein; Reviewed; Region: PRK00078 1112912009238 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 1112912009239 active site 1112912009240 dimer interface [polypeptide binding]; other site 1112912009241 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 1112912009242 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 1112912009243 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 1112912009244 shikimate binding site; other site 1112912009245 NAD(P) binding site [chemical binding]; other site 1112912009246 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 1112912009247 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 1112912009248 CoA-binding site [chemical binding]; other site 1112912009249 ATP-binding [chemical binding]; other site 1112912009250 DNA polymerase III, epsilon subunit, Proteobacterial; Region: dnaQ_proteo; TIGR01406 1112912009251 DEDDh 3'-5' exonuclease domain of the epsilon subunit of Escherichia coli DNA polymerase III and similar proteins; Region: DNA_pol_III_epsilon_Ecoli_like; cd06131 1112912009252 active site 1112912009253 catalytic site [active] 1112912009254 substrate binding site [chemical binding]; other site 1112912009255 preprotein translocase subunit SecB; Validated; Region: PRK05751 1112912009256 SecA binding site; other site 1112912009257 Preprotein binding site; other site 1112912009258 Protein affecting phage T7 exclusion by the F plasmid [General function prediction only]; Region: FxsA; COG3030 1112912009259 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4395 1112912009260 Membrane-bound lytic murein transglycosylase [Cell envelope biogenesis, outer membrane]; Region: MltA; COG2821 1112912009261 MltA specific insert domain; Region: MltA; pfam03562 1112912009262 3D domain; Region: 3D; pfam06725 1112912009263 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2840 1112912009264 Smr domain; Region: Smr; pfam01713 1112912009265 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1112912009266 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 1112912009267 sequence-specific DNA binding site [nucleotide binding]; other site 1112912009268 salt bridge; other site 1112912009269 Protein of unknown function (DUF1402); Region: DUF1402; pfam07182 1112912009270 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 1112912009271 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 1112912009272 Walker A motif; other site 1112912009273 ATP binding site [chemical binding]; other site 1112912009274 AAA domain (Cdc48 subfamily); Region: AAA_2; pfam07724 1112912009275 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 1112912009276 Protease HslV and the ATPase/chaperone HslU are part of an ATP-dependent proteolytic system that is the prokaryotic homolog of the proteasome. HslV is a dimer of hexamers (a dodecamer) that forms a central proteolytic chamber with active sites on the...; Region: protease_HslV; cd01913 1112912009277 active site 1112912009278 HslU subunit interaction site [polypeptide binding]; other site 1112912009279 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 1112912009280 putative active site pocket [active] 1112912009281 4-fold oligomerization interface [polypeptide binding]; other site 1112912009282 metal binding residues [ion binding]; metal-binding site 1112912009283 3-fold/trimer interface [polypeptide binding]; other site 1112912009284 Protein of unknown function (DUF2628); Region: DUF2628; pfam10947 1112912009285 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13146 1112912009286 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 1112912009287 putative active site [active] 1112912009288 oxyanion strand; other site 1112912009289 catalytic triad [active] 1112912009290 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 1112912009291 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 1112912009292 catalytic residues [active] 1112912009293 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 1112912009294 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 1112912009295 substrate binding site [chemical binding]; other site 1112912009296 glutamase interaction surface [polypeptide binding]; other site 1112912009297 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 1112912009298 metal binding site [ion binding]; metal-binding site 1112912009299 pantothenate kinase; Provisional; Region: PRK05439 1112912009300 Pantothenate kinase (PanK) catalyzes the phosphorylation of pantothenic acid to form 4'-phosphopantothenic, which is the first of five steps in coenzyme A (CoA) biosynthetic pathway. The reaction carried out by this enzyme is a key regulatory point...; Region: PanK; cd02025 1112912009301 ATP-binding site [chemical binding]; other site 1112912009302 CoA-binding site [chemical binding]; other site 1112912009303 Mg2+-binding site [ion binding]; other site 1112912009304 hypothetical protein; Provisional; Region: PRK09256 1112912009305 Protein chain release factor B [Translation, ribosomal structure and biogenesis]; Region: PrfB; COG1186 1112912009306 Phosphoenolpyruvate carboxykinase; Region: PEPCK_ATP; pfam01293 1112912009307 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_ATP; cd00484 1112912009308 active site 1112912009309 substrate-binding site [chemical binding]; other site 1112912009310 metal-binding site [ion binding] 1112912009311 ATP binding site [chemical binding]; other site 1112912009312 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1112912009313 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 1112912009314 active site 1112912009315 phosphorylation site [posttranslational modification] 1112912009316 intermolecular recognition site; other site 1112912009317 dimerization interface [polypeptide binding]; other site 1112912009318 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 1112912009319 DNA binding site [nucleotide binding] 1112912009320 Sensor N-terminal transmembrane domain; Region: Sensor_TM1; pfam13755 1112912009321 Stimulus-sensing domain; Region: Stimulus_sens_1; pfam13756 1112912009322 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1112912009323 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 1112912009324 dimerization interface [polypeptide binding]; other site 1112912009325 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 1112912009326 dimer interface [polypeptide binding]; other site 1112912009327 phosphorylation site [posttranslational modification] 1112912009328 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 1112912009329 ATP binding site [chemical binding]; other site 1112912009330 Mg2+ binding site [ion binding]; other site 1112912009331 G-X-G motif; other site 1112912009332 Serine kinase of the HPr protein, regulates carbohydrate metabolism [Signal transduction mechanisms]; Region: HprK; COG1493 1112912009333 HprK/P, the bifunctional histidine-containing protein kinase/phosphatase, controls the phosphorylation state of the phosphocarrier protein HPr and regulates the utilization of carbon sources by gram-positive bacteria. It catalyzes both the ATP-dependent...; Region: HprK_C; cd01918 1112912009334 Hpr binding site; other site 1112912009335 active site 1112912009336 homohexamer subunit interaction site [polypeptide binding]; other site 1112912009337 PTS_IIA, PTS system, mannose/sorbose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_man; cd00006 1112912009338 active pocket/dimerization site; other site 1112912009339 active site 1112912009340 phosphorylation site [posttranslational modification] 1112912009341 Histidine-containing phosphocarrier protein (HPr)-like proteins. HPr is a central component of the bacterial phosphoenolpyruvate sugar phosphotransferase system (PTS). The PTS catalyses the phosphorylation of sugar substrates during their translocation...; Region: PTS-HPr_like; cd00367 1112912009342 dimerization domain swap beta strand [polypeptide binding]; other site 1112912009343 regulatory protein interface [polypeptide binding]; other site 1112912009344 active site 1112912009345 regulatory phosphorylation site [posttranslational modification]; other site 1112912009346 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 1112912009347 S-Adenosylhomocysteine Hydrolase, NAD-binding and catalytic domains; Region: SAHH; cd00401 1112912009348 homotetramer interface [polypeptide binding]; other site 1112912009349 ligand binding site [chemical binding]; other site 1112912009350 catalytic site [active] 1112912009351 NAD binding site [chemical binding]; other site 1112912009352 PAS fold; Region: PAS_7; pfam12860 1112912009353 PAS fold; Region: PAS_7; pfam12860 1112912009354 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1112912009355 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 1112912009356 dimer interface [polypeptide binding]; other site 1112912009357 phosphorylation site [posttranslational modification] 1112912009358 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 1112912009359 ATP binding site [chemical binding]; other site 1112912009360 Mg2+ binding site [ion binding]; other site 1112912009361 G-X-G motif; other site 1112912009362 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 1112912009363 Predicted phosphotransferase related to Ser/Thr protein kinases [General function prediction only]; Region: COG3178 1112912009364 Phosphotransferase enzyme family; Region: APH; pfam01636 1112912009365 Nucleoside-diphosphate-sugar pyrophosphorylase involved in lipopolysaccharide biosynthesis/translation initiation factor 2B, gamma/epsilon subunits (eIF-2Bgamma/eIF-2Bepsilon) [Cell envelope biogenesis, outer membrane / Translation, ribosomal structure...; Region: GCD1; COG1208 1112912009366 NTP_transferase_like_1 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_1; cd06422 1112912009367 Substrate binding site; other site 1112912009368 metal-binding site 1112912009369 double-strand break repair protein AddB, alphaproteobacterial type; Region: addB_alphas; TIGR02786 1112912009370 RecB family exonuclease [DNA replication, recombination, and repair]; Region: COG2887 1112912009371 double-strand break repair helicase AddA, alphaproteobacterial type; Region: addA_alphas; TIGR02784 1112912009372 Part of AAA domain; Region: AAA_19; pfam13245 1112912009373 Family description; Region: UvrD_C_2; pfam13538 1112912009374 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 1112912009375 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 1112912009376 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1112912009377 catalytic residues [active] 1112912009378 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 1112912009379 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1112912009380 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 1112912009381 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 1112912009382 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 1112912009383 substrate binding site [chemical binding]; other site 1112912009384 active site 1112912009385 catalytic residues [active] 1112912009386 heterodimer interface [polypeptide binding]; other site 1112912009387 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 1112912009388 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 1112912009389 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1112912009390 catalytic residue [active] 1112912009391 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 1112912009392 active site 1112912009393 Uncharacterized conserved protein [Function unknown]; Region: COG1434 1112912009394 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 1112912009395 putative active site [active] 1112912009396 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG1451 1112912009397 Protein of unknown function (DUF2852); Region: DUF2852; pfam11014 1112912009398 Uncharacterized protein involved in benzoate metabolism [Secondary metabolites biosynthesis, transport, and catabolism]; Region: BenE; COG3135 1112912009399 benzoate transporter; Region: benE; TIGR00843 1112912009400 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1112912009401 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 1112912009402 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 1112912009403 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 1112912009404 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 1112912009405 Putative protein-S-isoprenylcysteine methyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: STE14; COG2020 1112912009406 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 1112912009407 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 1112912009408 23S rRNA binding site [nucleotide binding]; other site 1112912009409 L21 binding site [polypeptide binding]; other site 1112912009410 L13 binding site [polypeptide binding]; other site 1112912009411 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 1112912009412 active site 1112912009413 ATP binding site [chemical binding]; other site 1112912009414 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 1112912009415 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 1112912009416 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 1112912009417 dimer interface [polypeptide binding]; other site 1112912009418 motif 1; other site 1112912009419 active site 1112912009420 motif 2; other site 1112912009421 motif 3; other site 1112912009422 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 1112912009423 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 1112912009424 putative tRNA-binding site [nucleotide binding]; other site 1112912009425 B3/4 domain; Region: B3_4; pfam03483 1112912009426 tRNA synthetase B5 domain; Region: B5; smart00874 1112912009427 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 1112912009428 dimer interface [polypeptide binding]; other site 1112912009429 motif 1; other site 1112912009430 motif 3; other site 1112912009431 motif 2; other site 1112912009432 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; smart00896 1112912009433 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 1112912009434 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 1112912009435 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 1112912009436 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 1112912009437 Nucleotide-binding domain of human HSPA9, Escherichia coli DnaK, and similar proteins; Region: HSPA9-like_NBD; cd11733 1112912009438 nucleotide binding site [chemical binding]; other site 1112912009439 NEF interaction site [polypeptide binding]; other site 1112912009440 SBD interface [polypeptide binding]; other site 1112912009441 chaperone protein DnaJ; Provisional; Region: PRK10767 1112912009442 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 1112912009443 HSP70 interaction site [polypeptide binding]; other site 1112912009444 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 1112912009445 substrate binding site [polypeptide binding]; other site 1112912009446 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 1112912009447 Zn binding sites [ion binding]; other site 1112912009448 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 1112912009449 dimer interface [polypeptide binding]; other site 1112912009450 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 1112912009451 S-adenosylmethionine binding site [chemical binding]; other site 1112912009452 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 1112912009453 active site 1112912009454 dimer interface [polypeptide binding]; other site 1112912009455 Uncharacterized conserved protein [Function unknown]; Region: COG5470 1112912009456 Gluconolactonase [Carbohydrate transport and metabolism]; Region: COG3386 1112912009457 glutathione synthetase; Provisional; Region: PRK05246 1112912009458 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 1112912009459 Prokaryotic glutathione synthetase, ATP-grasp domain; Region: GSH-S_ATP; pfam02955 1112912009460 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 1112912009461 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 1112912009462 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 1112912009463 Walker A motif; other site 1112912009464 ATP binding site [chemical binding]; other site 1112912009465 Walker B motif; other site 1112912009466 arginine finger; other site 1112912009467 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 1112912009468 Bacterial transglutaminase-like cysteine proteinase BTLCP; Region: BTLCP; pfam06035 1112912009469 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 1112912009470 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 1112912009471 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2832 1112912009472 PBP superfamily domain; Region: PBP_like_2; pfam12849 1112912009473 Phosphate ATP-binding cassette transporter; Region: DUF3708; pfam12501 1112912009474 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstC; COG0573 1112912009475 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 1112912009476 dimer interface [polypeptide binding]; other site 1112912009477 conserved gate region; other site 1112912009478 putative PBP binding loops; other site 1112912009479 ABC-ATPase subunit interface; other site 1112912009480 Domain of unknown function (DUF3333); Region: DUF3333; pfam11812 1112912009481 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 1112912009482 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 1112912009483 dimer interface [polypeptide binding]; other site 1112912009484 conserved gate region; other site 1112912009485 putative PBP binding loops; other site 1112912009486 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 1112912009487 ABC-ATPase subunit interface; other site 1112912009488 phosphate transporter ATP-binding protein; Provisional; Region: PRK14235 1112912009489 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 1112912009490 Walker A/P-loop; other site 1112912009491 ATP binding site [chemical binding]; other site 1112912009492 Q-loop/lid; other site 1112912009493 ABC transporter signature motif; other site 1112912009494 Walker B; other site 1112912009495 D-loop; other site 1112912009496 H-loop/switch region; other site 1112912009497 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 1112912009498 PhoU domain; Region: PhoU; pfam01895 1112912009499 PhoU domain; Region: PhoU; pfam01895 1112912009500 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 1112912009501 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 1112912009502 active site 1112912009503 phosphorylation site [posttranslational modification] 1112912009504 intermolecular recognition site; other site 1112912009505 dimerization interface [polypeptide binding]; other site 1112912009506 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 1112912009507 DNA binding site [nucleotide binding] 1112912009508 Cell wall hydrolyses involved in spore germination [Cell envelope biogenesis, outer membrane]; Region: SleB; COG3773 1112912009509 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 1112912009510 Leucyl aminopeptidase (aminopeptidase T) [Amino acid transport and metabolism]; Region: AmpS; COG2309 1112912009511 Thermophilic metalloprotease (M29); Region: Peptidase_M29; pfam02073 1112912009512 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 1112912009513 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 1112912009514 dimerization interface [polypeptide binding]; other site 1112912009515 DPS ferroxidase diiron center [ion binding]; other site 1112912009516 ion pore; other site 1112912009517 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214 1112912009518 Glycoprotease family; Region: Peptidase_M22; pfam00814 1112912009519 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 1112912009520 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1112912009521 Coenzyme A binding pocket [chemical binding]; other site 1112912009522 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 1112912009523 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 1112912009524 putative acyl-acceptor binding pocket; other site 1112912009525 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 1112912009526 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 1112912009527 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 1112912009528 FeS/SAM binding site; other site 1112912009529 TRAM domain; Region: TRAM; cl01282 1112912009530 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 1112912009531 PhoH-like protein; Region: PhoH; pfam02562 1112912009532 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG0319 1112912009533 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 1112912009534 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 1112912009535 Transporter associated domain; Region: CorC_HlyC; smart01091 1112912009536 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 1112912009537 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 1112912009538 putative active site [active] 1112912009539 catalytic triad [active] 1112912009540 putative dimer interface [polypeptide binding]; other site 1112912009541 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1112912009542 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 1112912009543 non-specific DNA binding site [nucleotide binding]; other site 1112912009544 salt bridge; other site 1112912009545 sequence-specific DNA binding site [nucleotide binding]; other site 1112912009546 S-adenosylmethionine synthetase; Validated; Region: PRK05250 1112912009547 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 1112912009548 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 1112912009549 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 1112912009550 Predicted S-adenosylmethionine-dependent methyltransferase [General function prediction only]; Region: COG0220 1112912009551 ribosome maturation protein RimP; Reviewed; Region: PRK00092 1112912009552 Sm and related proteins; Region: Sm_like; cl00259 1112912009553 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 1112912009554 putative oligomer interface [polypeptide binding]; other site 1112912009555 putative RNA binding site [nucleotide binding]; other site 1112912009556 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 1112912009557 NusA N-terminal domain; Region: NusA_N; pfam08529 1112912009558 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 1112912009559 RNA binding site [nucleotide binding]; other site 1112912009560 homodimer interface [polypeptide binding]; other site 1112912009561 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 1112912009562 G-X-X-G motif; other site 1112912009563 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 1112912009564 G-X-X-G motif; other site 1112912009565 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 1112912009566 hypothetical protein; Provisional; Region: PRK09190 1112912009567 Ylxr homologs; group of conserved hypothetical bacterial proteins of unknown function; structure revealed putative RNA binding cleft; proteins are encoded by an operon that includes other proteins involved in transcription and/or translation; Region: YlxR; cd00279 1112912009568 putative RNA binding cleft [nucleotide binding]; other site 1112912009569 Ribosomal protein L7Ae/L30e/S12e/Gadd45 family; Region: Ribosomal_L7Ae; cl00600 1112912009570 Bacterial translation initiation factor IF-2 associated region; Region: IF2_assoc; pfam08364 1112912009571 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 1112912009572 Translation initiation factor 2 (IF-2; GTPase) [Translation, ribosomal structure and biogenesis]; Region: InfB; COG0532 1112912009573 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 1112912009574 G1 box; other site 1112912009575 putative GEF interaction site [polypeptide binding]; other site 1112912009576 GTP/Mg2+ binding site [chemical binding]; other site 1112912009577 Switch I region; other site 1112912009578 G2 box; other site 1112912009579 G3 box; other site 1112912009580 Switch II region; other site 1112912009581 G4 box; other site 1112912009582 G5 box; other site 1112912009583 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 1112912009584 Translation-initiation factor 2; Region: IF-2; pfam11987 1112912009585 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 1112912009586 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 1112912009587 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK05389 1112912009588 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 1112912009589 RNA binding site [nucleotide binding]; other site 1112912009590 active site 1112912009591 Pseudouridine synthase II TruB, C-terminal; Region: TruB-C_2; pfam09157 1112912009592 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 1112912009593 16S/18S rRNA binding site [nucleotide binding]; other site 1112912009594 S13e-L30e interaction site [polypeptide binding]; other site 1112912009595 25S rRNA binding site [nucleotide binding]; other site 1112912009596 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 1112912009597 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 1112912009598 RNase E interface [polypeptide binding]; other site 1112912009599 trimer interface [polypeptide binding]; other site 1112912009600 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 1112912009601 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 1112912009602 RNase E interface [polypeptide binding]; other site 1112912009603 trimer interface [polypeptide binding]; other site 1112912009604 active site 1112912009605 Polynucleotide phosphorylase (PNPase) K homology RNA-binding domain (KH). PNPase is a polyribonucleotide nucleotidyl transferase that degrades mRNA in prokaryotes and plant chloroplasts. The C-terminal region of PNPase contains domains homologous to...; Region: PNPase_KH; cd02393 1112912009606 putative nucleic acid binding region [nucleotide binding]; other site 1112912009607 G-X-X-G motif; other site 1112912009608 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 1112912009609 RNA binding site [nucleotide binding]; other site 1112912009610 domain interface; other site 1112912009611 16S RNA G1207 methylase RsmC [Translation, ribosomal structure and biogenesis]; Region: RsmC; COG2813 1112912009612 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 1112912009613 S-adenosylmethionine binding site [chemical binding]; other site 1112912009614 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK06505 1112912009615 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 1112912009616 NAD binding site [chemical binding]; other site 1112912009617 homotetramer interface [polypeptide binding]; other site 1112912009618 homodimer interface [polypeptide binding]; other site 1112912009619 substrate binding site [chemical binding]; other site 1112912009620 active site 1112912009621 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK07967 1112912009622 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 1112912009623 dimer interface [polypeptide binding]; other site 1112912009624 active site 1112912009625 FabA, beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase: Bacterial protein of the type II, fatty acid synthase system that binds ACP and catalyzes both dehydration and isomerization reactions, apparently in the same active site. The FabA...; Region: FabA; cd01287 1112912009626 active site 1 [active] 1112912009627 dimer interface [polypeptide binding]; other site 1112912009628 active site 2 [active] 1112912009629 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 1112912009630 metal binding site 2 [ion binding]; metal-binding site 1112912009631 putative DNA binding helix; other site 1112912009632 metal binding site 1 [ion binding]; metal-binding site 1112912009633 dimer interface [polypeptide binding]; other site 1112912009634 structural Zn2+ binding site [ion binding]; other site 1112912009635 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 1112912009636 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 1112912009637 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3807 1112912009638 Bacterial SH3 domain; Region: SH3_4; pfam06347 1112912009639 Bacterial SH3 domain; Region: SH3_4; pfam06347 1112912009640 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 1112912009641 D-glycerate dehydrogenase/hydroxypyruvate reductase (GDH); Region: GDH; cd05301 1112912009642 dimerization interface [polypeptide binding]; other site 1112912009643 ligand binding site [chemical binding]; other site 1112912009644 NADP binding site [chemical binding]; other site 1112912009645 catalytic site [active] 1112912009646 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1112912009647 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 1112912009648 NlpC/P60 family; Region: NLPC_P60; cl17555 1112912009649 Transcriptional regulators [Transcription]; Region: MarR; COG1846 1112912009650 MarR family; Region: MarR; pfam01047 1112912009651 multifunctional aminopeptidase A; Provisional; Region: PRK00913 1112912009652 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 1112912009653 interface (dimer of trimers) [polypeptide binding]; other site 1112912009654 Substrate-binding/catalytic site; other site 1112912009655 Zn-binding sites [ion binding]; other site 1112912009656 Flp/Fap pilin component; Region: Flp_Fap; cl01585 1112912009657 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 1112912009658 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 1112912009659 DNA binding site [nucleotide binding] 1112912009660 catalytic residue [active] 1112912009661 H2TH interface [polypeptide binding]; other site 1112912009662 putative catalytic residues [active] 1112912009663 turnover-facilitating residue; other site 1112912009664 intercalation triad [nucleotide binding]; other site 1112912009665 8OG recognition residue [nucleotide binding]; other site 1112912009666 putative reading head residues; other site 1112912009667 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 1112912009668 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 1112912009669 enoyl-CoA hydratase; Provisional; Region: PRK05862 1112912009670 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 1112912009671 substrate binding site [chemical binding]; other site 1112912009672 oxyanion hole (OAH) forming residues; other site 1112912009673 trimer interface [polypeptide binding]; other site 1112912009674 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239