-- dump date 20140620_035536 -- class Genbank::misc_feature -- table misc_feature_note -- id note 313596000001 Membrane protein of unknown function; Region: DUF360; pfam04020 313596000002 trigger factor; Region: tig; TIGR00115 313596000003 Clp protease; Region: CLP_protease; pfam00574 313596000004 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 313596000005 oligomer interface [polypeptide binding]; other site 313596000006 active site residues [active] 313596000007 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 313596000008 ClpX C4-type zinc finger; Region: zf-C4_ClpX; smart00994 313596000009 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 313596000010 Walker A motif; other site 313596000011 ATP binding site [chemical binding]; other site 313596000012 Walker B motif; other site 313596000013 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 313596000014 Helix-turn-helix domain; Region: HTH_18; pfam12833 313596000015 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 313596000016 GH3 auxin-responsive promoter; Region: GH3; pfam03321 313596000017 Protein of unknown function (DUF2797); Region: DUF2797; pfam10977 313596000018 Uncharacterized conserved protein [Function unknown]; Region: COG0398 313596000019 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 313596000020 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 313596000021 Uncharacterized ACR, YhhQ family COG1738; Region: DUF165; pfam02592 313596000022 signal peptide peptidase SppA, 67K type; Region: SppA_67K; TIGR00705 313596000023 Signal peptide peptidase A (SppA) 67K type, a serine protease, has catalytic Ser-Lys dyad; Region: S49_SppA_67K_type; cd07018 313596000024 tandem repeat interface [polypeptide binding]; other site 313596000025 oligomer interface [polypeptide binding]; other site 313596000026 active site residues [active] 313596000027 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 313596000028 tandem repeat interface [polypeptide binding]; other site 313596000029 oligomer interface [polypeptide binding]; other site 313596000030 active site residues [active] 313596000031 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 313596000032 catalytic center binding site [active] 313596000033 ATP binding site [chemical binding]; other site 313596000034 Deoxynucleoside kinases [Nucleotide transport and metabolism]; Region: COG1428 313596000035 Deoxyribonucleoside kinase (dNK) catalyzes the phosphorylation of deoxyribonucleosides to yield corresponding monophosphates (dNMPs). This family consists of various deoxynucleoside kinases including deoxyribo- cytidine (EC 2.7.1.74), guanosine (EC 2.7.1; Region: dNK; cd01673 313596000036 Substrate-binding site [chemical binding]; other site 313596000037 Substrate specificity [chemical binding]; other site 313596000038 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 313596000039 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 313596000040 MutS domain I; Region: MutS_I; pfam01624 313596000041 MutS domain II; Region: MutS_II; pfam05188 313596000042 MutS domain III; Region: MutS_III; pfam05192 313596000043 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 313596000044 Walker A/P-loop; other site 313596000045 ATP binding site [chemical binding]; other site 313596000046 Q-loop/lid; other site 313596000047 ABC transporter signature motif; other site 313596000048 Walker B; other site 313596000049 D-loop; other site 313596000050 H-loop/switch region; other site 313596000051 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 313596000052 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 313596000053 Bacterial protein of unknown function (DUF885); Region: DUF885; pfam05960 313596000054 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 313596000055 putative active site [active] 313596000056 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; COG1914 313596000057 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 313596000058 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 313596000059 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 313596000060 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 313596000061 ligand binding site [chemical binding]; other site 313596000062 Protein of unknown function (DUF3308); Region: DUF3308; pfam11751 313596000063 Calx-beta domain; Region: Calx-beta; cl02522 313596000064 Calx-beta domain; Region: Calx-beta; cl02522 313596000065 Calx-beta domain; Region: Calx-beta; cl02522 313596000066 conserved repeat domain; Region: B_ant_repeat; TIGR01451 313596000067 C-terminal domain of CHU protein family; Region: CHU_C; pfam13585 313596000068 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 313596000069 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 313596000070 Cupin domain; Region: Cupin_2; pfam07883 313596000071 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 313596000072 Helix-turn-helix domain; Region: HTH_18; pfam12833 313596000073 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 313596000074 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 313596000075 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 313596000076 trimer interface [polypeptide binding]; other site 313596000077 putative metal binding site [ion binding]; other site 313596000078 Response regulator receiver domain; Region: Response_reg; pfam00072 313596000079 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 313596000080 active site 313596000081 phosphorylation site [posttranslational modification] 313596000082 intermolecular recognition site; other site 313596000083 dimerization interface [polypeptide binding]; other site 313596000084 LytTr DNA-binding domain; Region: LytTR; smart00850 313596000085 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 313596000086 binding surface 313596000087 TPR motif; other site 313596000088 Tetratricopeptide repeat; Region: TPR_12; pfam13424 313596000089 Histidine kinase; Region: His_kinase; pfam06580 313596000090 Histidine kinase-like ATPases; Region: HATPase_c; smart00387 313596000091 ATP binding site [chemical binding]; other site 313596000092 Mg2+ binding site [ion binding]; other site 313596000093 G-X-G motif; other site 313596000094 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cd00198 313596000095 metal ion-dependent adhesion site (MIDAS); other site 313596000096 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 313596000097 cyclase homology domain; Region: CHD; cd07302 313596000098 nucleotidyl binding site; other site 313596000099 metal binding site [ion binding]; metal-binding site 313596000100 dimer interface [polypeptide binding]; other site 313596000101 similar to hypothetical protein 313596000102 similar to hypothetical protein 313596000103 Protein of unknown function (DUF3308); Region: DUF3308; pfam11751 313596000104 Scaffold protein Nfu/NifU N terminal; Region: Nfu_N; pfam08712 313596000105 Scaffold protein Nfu/NifU N terminal; Region: Nfu_N; pfam08712 313596000106 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 313596000107 Dodecin; Region: Dodecin; pfam07311 313596000108 Highly conserved protein containing a thioredoxin domain [Posttranslational modification, protein turnover, chaperones]; Region: COG1331 313596000109 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 313596000110 catalytic residues [active] 313596000111 Conserved TM helix; Region: TM_helix; pfam05552 313596000112 Mechanosensitive ion channel; Region: MS_channel; pfam00924 313596000113 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 313596000114 Glycoprotease family; Region: Peptidase_M22; pfam00814 313596000115 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 313596000116 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 313596000117 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 313596000118 HlyD family secretion protein; Region: HlyD_3; pfam13437 313596000119 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 313596000120 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 313596000121 FtsX-like permease family; Region: FtsX; pfam02687 313596000122 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 313596000123 FtsX-like permease family; Region: FtsX; pfam02687 313596000124 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 313596000125 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 313596000126 Walker A/P-loop; other site 313596000127 ATP binding site [chemical binding]; other site 313596000128 Q-loop/lid; other site 313596000129 ABC transporter signature motif; other site 313596000130 Walker B; other site 313596000131 D-loop; other site 313596000132 H-loop/switch region; other site 313596000133 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 313596000134 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 313596000135 HlyD family secretion protein; Region: HlyD_3; pfam13437 313596000136 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 313596000137 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 313596000138 FtsX-like permease family; Region: FtsX; pfam02687 313596000139 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 313596000140 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 313596000141 FtsX-like permease family; Region: FtsX; pfam02687 313596000142 Protein of unknown function (DUF420); Region: DUF420; pfam04238 313596000143 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 313596000144 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 313596000145 Cu(I) binding site [ion binding]; other site 313596000146 Prokaryotic Cytochrome C oxidase subunit IV; Region: COX4_pro; pfam03626 313596000147 Heme-copper oxidase subunit III. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which couple the reduction of molecular oxygen to water to, proton pumping across the membrane. The...; Region: Heme_Cu_Oxidase_III_like; cl00211 313596000148 Subunit I/III interface [polypeptide binding]; other site 313596000149 Heme-copper oxidase subunit III. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which couple the reduction of molecular oxygen to water to, proton pumping across the membrane. The...; Region: Heme_Cu_Oxidase_III_like; cl00211 313596000150 Heme-copper oxidase subunit III. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which couple the reduction of molecular oxygen to water to, proton pumping across the membrane. The...; Region: Heme_Cu_Oxidase_III_like; cd00386 313596000151 Subunit I/III interface [polypeptide binding]; other site 313596000152 protoheme IX farnesyltransferase; Region: cyoE_ctaB; TIGR01473 313596000153 UbiA prenyltransferase family; Region: UbiA; pfam01040 313596000154 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 313596000155 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 313596000156 Predicted integral membrane protein [Function unknown]; Region: COG5652 313596000157 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 313596000158 lipoyl attachment site [posttranslational modification]; other site 313596000159 cell surface protein SprA; Region: surface_SprA; TIGR04189 313596000160 Motility related/secretion protein; Region: SprA_N; pfam14349 313596000161 Motility related/secretion protein; Region: SprA_N; pfam14349 313596000162 Bacterial L-asparaginases and related enzymes; Region: L-asparaginase_like; cl00216 313596000163 Motility related/secretion protein; Region: SprA_N; pfam14349 313596000164 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 313596000165 RuvA N terminal domain; Region: RuvA_N; pfam01330 313596000166 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 313596000167 bifunctional malic enzyme oxidoreductase/phosphotransacetylase; Reviewed; Region: PRK07232 313596000168 Malic enzyme, N-terminal domain; Region: malic; pfam00390 313596000169 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 313596000170 putative NAD(P) binding site [chemical binding]; other site 313596000171 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 313596000172 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 313596000173 putative substrate translocation pore; other site 313596000174 Major Facilitator Superfamily; Region: MFS_1; pfam07690 313596000175 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 313596000176 4Fe-4S double cluster binding domain; Region: Fer4_16; pfam13484 313596000177 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 313596000178 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 313596000179 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 313596000180 dimer interface [polypeptide binding]; other site 313596000181 phosphorylation site [posttranslational modification] 313596000182 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 313596000183 ATP binding site [chemical binding]; other site 313596000184 Mg2+ binding site [ion binding]; other site 313596000185 G-X-G motif; other site 313596000186 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 313596000187 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 313596000188 active site 313596000189 phosphorylation site [posttranslational modification] 313596000190 intermolecular recognition site; other site 313596000191 dimerization interface [polypeptide binding]; other site 313596000192 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 313596000193 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 313596000194 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 313596000195 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 313596000196 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 313596000197 Walker A motif; other site 313596000198 ATP binding site [chemical binding]; other site 313596000199 Walker B motif; other site 313596000200 arginine finger; other site 313596000201 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 313596000202 Phosphoenolpyruvate carboxykinase; Region: PEPCK_ATP; pfam01293 313596000203 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 313596000204 active site 313596000205 substrate-binding site [chemical binding]; other site 313596000206 metal-binding site [ion binding] 313596000207 ATP binding site [chemical binding]; other site 313596000208 acyl-coenzyme A oxidase; Region: PLN02636 313596000209 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 313596000210 active site 313596000211 Protein of unknown function (DUF2807); Region: DUF2807; pfam10988 313596000212 cytochrome c oxidase, subunit I; Region: CtaD_CoxA; TIGR02891 313596000213 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 313596000214 cytochrome c oxidase, subunit II; Region: CoxB; TIGR02866 313596000215 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 313596000216 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 313596000217 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 313596000218 Protein of unknown function (DUF3341); Region: DUF3341; pfam11821 313596000219 Polysulphide reductase [Energy production and conversion]; Region: COG5557; cl17901 313596000220 Uncharacterized conserved protein [Function unknown]; Region: COG3743 313596000221 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 313596000222 molybdopterin cofactor binding site; other site 313596000223 The MopB_CT_PHLH CD includes a group of related uncharacterized putative hydrogenase-like homologs (PHLH) of molybdopterin binding proteins. This CD is of the PHLH region homologous to the conserved molybdopterin-binding C-terminal (MopB_CT) region...; Region: MopB_CT_PHLH; cd02784 313596000224 4Fe-4S binding domain; Region: Fer4_2; pfam12797 313596000225 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 313596000226 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 313596000227 Cytochrome c; Region: Cytochrom_C; pfam00034 313596000228 Major Facilitator Superfamily; Region: MFS_1; pfam07690 313596000229 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 313596000230 heme-binding residues [chemical binding]; other site 313596000231 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 313596000232 heme-binding residues [chemical binding]; other site 313596000233 Sporulation related domain; Region: SPOR; pfam05036 313596000234 translation initiation factor IF-2; Region: IF-2; TIGR00487 313596000235 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 313596000236 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 313596000237 G1 box; other site 313596000238 putative GEF interaction site [polypeptide binding]; other site 313596000239 GTP/Mg2+ binding site [chemical binding]; other site 313596000240 Switch I region; other site 313596000241 G2 box; other site 313596000242 G3 box; other site 313596000243 Switch II region; other site 313596000244 G4 box; other site 313596000245 G5 box; other site 313596000246 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 313596000247 Translation-initiation factor 2; Region: IF-2; pfam11987 313596000248 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 313596000249 transcription termination factor NusA; Region: NusA; TIGR01953 313596000250 NusA N-terminal domain; Region: NusA_N; pfam08529 313596000251 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 313596000252 RNA binding site [nucleotide binding]; other site 313596000253 homodimer interface [polypeptide binding]; other site 313596000254 NusA-like KH domain; Region: KH_5; pfam13184 313596000255 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 313596000256 G-X-X-G motif; other site 313596000257 hypothetical protein; Validated; Region: PRK02001 313596000258 ribosome maturation protein RimP; Reviewed; Region: PRK00092 313596000259 heptamer interface [polypeptide binding]; other site 313596000260 Sm1 motif; other site 313596000261 hexamer interface [polypeptide binding]; other site 313596000262 RNA binding site [nucleotide binding]; other site 313596000263 Sm2 motif; other site 313596000264 CCC1-related family of proteins; Region: CCC1_like; cl00278 313596000265 Protein of unknown function (DUF2723); Region: DUF2723; pfam11028 313596000266 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 313596000267 catalytic residues [active] 313596000268 phosphodiesterase YaeI; Provisional; Region: PRK11340 313596000269 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 313596000270 putative active site [active] 313596000271 putative metal binding site [ion binding]; other site 313596000272 Uncharacterized protein involved in copper resistance [Inorganic ion transport and metabolism]; Region: CutC; COG3142 313596000273 Glycosylasparaginase catalyzes the hydrolysis of the glycosylamide bond of asparagine-linked glycoproteins. This enzyme is an amidase located inside lysosomes. Mutation of this gene in humans causes a genetic disorder known as aspartylglycosaminuria (AGU)...; Region: Glycosylasparaginase; cd04513 313596000274 active site 313596000275 dimer interface [polypeptide binding]; other site 313596000276 catalytic nucleophile [active] 313596000277 DNA polymerase I; Provisional; Region: PRK05755 313596000278 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 313596000279 active site 313596000280 metal binding site 1 [ion binding]; metal-binding site 313596000281 putative 5' ssDNA interaction site; other site 313596000282 metal binding site 3; metal-binding site 313596000283 metal binding site 2 [ion binding]; metal-binding site 313596000284 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 313596000285 putative DNA binding site [nucleotide binding]; other site 313596000286 putative metal binding site [ion binding]; other site 313596000287 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 313596000288 active site 313596000289 catalytic site [active] 313596000290 substrate binding site [chemical binding]; other site 313596000291 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 313596000292 active site 313596000293 DNA binding site [nucleotide binding] 313596000294 catalytic site [active] 313596000295 Cna protein B-type domain; Region: Cna_B_2; pfam13715 313596000296 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 313596000297 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 313596000298 Domain of unknown function (DUF4249); Region: DUF4249; pfam14054 313596000299 DOMON-like type 9 carbohydrate binding module; Region: CBM9_like_2; cd09618 313596000300 putative ligand binding site [chemical binding]; other site 313596000301 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 313596000302 23S rRNA interface [nucleotide binding]; other site 313596000303 L3 interface [polypeptide binding]; other site 313596000304 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 313596000305 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 313596000306 rRNA interaction site [nucleotide binding]; other site 313596000307 S8 interaction site; other site 313596000308 putative laminin-1 binding site; other site 313596000309 Uncharacterized conserved protein [Function unknown]; Region: COG3743 313596000310 elongation factor Ts; Provisional; Region: tsf; PRK09377 313596000311 Ubiquitin Associated domain. The UBA domain is a commonly occurring sequence motif in some members of the ubiquitination pathway, UV excision repair proteins, and certain protein kinases. Although its specific role is so far unknown, it has been...; Region: UBA; cl00153 313596000312 Elongation factor TS; Region: EF_TS; pfam00889 313596000313 Elongation factor TS; Region: EF_TS; pfam00889 313596000314 Predicted protease with the C-terminal PDZ domain [General function prediction only]; Region: COG3975 313596000315 M61 glycyl aminopeptidase; Region: Peptidase_M61; pfam05299 313596000316 PDZ domain, also called DHR (Dlg homologous region) or GLGF (after a conserved sequence motif). Many PDZ domains bind C-terminal polypeptides, though binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated; Region: PDZ; cl00117 313596000317 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 313596000318 putative nucleotide binding site [chemical binding]; other site 313596000319 uridine monophosphate binding site [chemical binding]; other site 313596000320 homohexameric interface [polypeptide binding]; other site 313596000321 ribosome recycling factor; Reviewed; Region: frr; PRK00083 313596000322 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 313596000323 hinge region; other site 313596000324 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 313596000325 Protein export membrane protein; Region: SecD_SecF; cl14618 313596000326 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 313596000327 EcAsnRS_like_N: N-terminal, anticodon recognition domain of the type found in Escherichia coli asparaginyl-tRNA synthetase (AsnRS) and, in Arabidopsis thaliana and Saccharomyces cerevisiae mitochondrial (mt) AsnRS. This domain is a beta-barrel domain (OB...; Region: EcAsnRS_like_N; cd04318 313596000328 putative dimer interface [polypeptide binding]; other site 313596000329 putative anticodon binding site; other site 313596000330 Asx tRNA synthetase (AspRS/AsnRS) class II core domain. Assignment to class II aminoacyl-tRNA synthetases (aaRS) based upon its structure and the presence of three characteristic sequence motifs in the core domain. This family includes AsnRS as well as...; Region: AsxRS_core; cd00776 313596000331 homodimer interface [polypeptide binding]; other site 313596000332 motif 1; other site 313596000333 motif 2; other site 313596000334 active site 313596000335 motif 3; other site 313596000336 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 313596000337 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 313596000338 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 313596000339 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 313596000340 Outer membrane protein beta-barrel domain; Region: OMP_b-brl_2; pfam13568 313596000341 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 313596000342 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 313596000343 Type I (cytosolic) bacterial L-asparaginase; Region: L-asparaginase_I; cd08963 313596000344 homodimer interface [polypeptide binding]; other site 313596000345 active site 313596000346 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 313596000347 active site 313596000348 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 313596000349 catalytic motif [active] 313596000350 Catalytic residue [active] 313596000351 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 313596000352 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 313596000353 E3 interaction surface; other site 313596000354 lipoyl attachment site [posttranslational modification]; other site 313596000355 e3 binding domain; Region: E3_binding; pfam02817 313596000356 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 313596000357 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 313596000358 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 313596000359 TPP-binding site [chemical binding]; other site 313596000360 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 313596000361 dimer interface [polypeptide binding]; other site 313596000362 PYR/PP interface [polypeptide binding]; other site 313596000363 TPP binding site [chemical binding]; other site 313596000364 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 313596000365 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 313596000366 NAD binding site [chemical binding]; other site 313596000367 homodimer interface [polypeptide binding]; other site 313596000368 active site 313596000369 substrate binding site [chemical binding]; other site 313596000370 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 313596000371 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 313596000372 inhibitor-cofactor binding pocket; inhibition site 313596000373 pyridoxal 5'-phosphate binding site [chemical binding]; other site 313596000374 catalytic residue [active] 313596000375 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 313596000376 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 313596000377 D-xylose transporter XylE; Provisional; Region: xylE; PRK10077 313596000378 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 313596000379 putative substrate translocation pore; other site 313596000380 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 313596000381 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 313596000382 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 313596000383 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 313596000384 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 313596000385 Domain of Unknown Function (DUF1080); Region: DUF1080; pfam06439 313596000386 Domain of Unknown Function (DUF1080); Region: DUF1080; pfam06439 313596000387 DctM-like transporters; Region: DctM; pfam06808 313596000388 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 313596000389 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 313596000390 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 313596000391 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 313596000392 Glucuronate isomerase; Region: UxaC; pfam02614 313596000393 Glucuronate isomerase [Carbohydrate transport and metabolism]; Region: UxaC; COG1904 313596000394 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 313596000395 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 313596000396 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 313596000397 Bestrophin, RFP-TM, chloride channel; Region: Bestrophin; cl01544 313596000398 Uncharacterized flavoproteins [Energy production and conversion]; Region: FpaA; COG0426 313596000399 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 313596000400 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 313596000401 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 313596000402 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 313596000403 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 313596000404 GAF domain; Region: GAF_3; pfam13492 313596000405 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 313596000406 cyclase homology domain; Region: CHD; cd07302 313596000407 nucleotidyl binding site; other site 313596000408 metal binding site [ion binding]; metal-binding site 313596000409 dimer interface [polypeptide binding]; other site 313596000410 Response regulator receiver domain; Region: Response_reg; pfam00072 313596000411 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 313596000412 active site 313596000413 phosphorylation site [posttranslational modification] 313596000414 intermolecular recognition site; other site 313596000415 dimerization interface [polypeptide binding]; other site 313596000416 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 313596000417 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 313596000418 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 313596000419 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 313596000420 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 313596000421 dimer interface [polypeptide binding]; other site 313596000422 phosphorylation site [posttranslational modification] 313596000423 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 313596000424 ATP binding site [chemical binding]; other site 313596000425 Mg2+ binding site [ion binding]; other site 313596000426 G-X-G motif; other site 313596000427 Response regulator receiver domain; Region: Response_reg; pfam00072 313596000428 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 313596000429 active site 313596000430 phosphorylation site [posttranslational modification] 313596000431 intermolecular recognition site; other site 313596000432 dimerization interface [polypeptide binding]; other site 313596000433 cheY-homologous receiver domain; Region: REC; smart00448 313596000434 hypothetical protein; Provisional; Region: PRK08201 313596000435 Uncharacterized M20 Dipeptidases; Region: M20_dipept_like_3; cd05680 313596000436 metal binding site [ion binding]; metal-binding site 313596000437 putative dimer interface [polypeptide binding]; other site 313596000438 Penicillinase repressor; Region: Pencillinase_R; pfam03965 313596000439 BlaR1 peptidase M56; Region: Peptidase_M56; pfam05569 313596000440 Domain of unknown function (DUF4407); Region: DUF4407; pfam14362 313596000441 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 313596000442 Walker A/P-loop; other site 313596000443 ATP binding site [chemical binding]; other site 313596000444 Q-loop/lid; other site 313596000445 ABC transporter signature motif; other site 313596000446 Walker B; other site 313596000447 D-loop; other site 313596000448 H-loop/switch region; other site 313596000449 Uncharacterized protein conserved in bacteria [Function unknown]; Region: MmcQ; COG2315 313596000450 Stress responsive A/B Barrel Domain; Region: Dabb; smart00886 313596000451 Protein of unknown function (DUF4230); Region: DUF4230; pfam14014 313596000452 Domain of unknown function (DUF4260); Region: DUF4260; pfam14079 313596000453 Putative cyclase; Region: Cyclase; pfam04199 313596000454 coproporphyrinogen III oxidase; Validated; Region: PRK05628 313596000455 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 313596000456 FeS/SAM binding site; other site 313596000457 HemN C-terminal domain; Region: HemN_C; pfam06969 313596000458 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 313596000459 active site 313596000460 putative DNA-binding cleft [nucleotide binding]; other site 313596000461 dimer interface [polypeptide binding]; other site 313596000462 Protein of unknown function (DUF456); Region: DUF456; pfam04306 313596000463 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 313596000464 putative FMN binding site [chemical binding]; other site 313596000465 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 313596000466 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 313596000467 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator similar to regulators involved in the catabolism of aromatic compounds, contains type 2 periplasmic binding fold; Region: PBP2_LTTR_aromatics_like_2; cd08448 313596000468 putative dimerization interface [polypeptide binding]; other site 313596000469 putative substrate binding pocket [chemical binding]; other site 313596000470 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 313596000471 active sites [active] 313596000472 tetramer interface [polypeptide binding]; other site 313596000473 imidazolonepropionase; Validated; Region: PRK09356 313596000474 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 313596000475 active site 313596000476 urocanate hydratase; Provisional; Region: PRK05414 313596000477 Formimidoylglutamase or HutE; Region: Formimidoylglutamase; cd09988 313596000478 putative active site [active] 313596000479 putative metal binding site [ion binding]; other site 313596000480 homogentisate 1,2-dioxygenase; Region: HgmA; cl17306 313596000481 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 313596000482 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 313596000483 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 313596000484 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 313596000485 ligand binding site [chemical binding]; other site 313596000486 flexible hinge region; other site 313596000487 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 313596000488 putative switch regulator; other site 313596000489 non-specific DNA interactions [nucleotide binding]; other site 313596000490 DNA binding site [nucleotide binding] 313596000491 sequence specific DNA binding site [nucleotide binding]; other site 313596000492 putative cAMP binding site [chemical binding]; other site 313596000493 Putative metal-binding domain of cation transport ATPase; Region: ATPase-cat_bd; pfam12156 313596000494 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 313596000495 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 313596000496 metal-binding site [ion binding] 313596000497 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 313596000498 Cytochrome oxidase maturation protein cbb3-type; Region: CcoS; pfam03597 313596000499 putative bifunctional cbb3-type cytochrome c oxidase subunit I/II; Provisional; Region: PRK14485 313596000500 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 313596000501 Low-spin heme binding site [chemical binding]; other site 313596000502 Putative water exit pathway; other site 313596000503 Binuclear center (active site) [active] 313596000504 Putative proton exit pathway; other site 313596000505 Cytochrome C oxidase, mono-heme subunit/FixO; Region: FixO; pfam02433 313596000506 Cytochrome c; Region: Cytochrom_C; cl11414 313596000507 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 313596000508 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 313596000509 4Fe-4S binding domain; Region: Fer4_5; pfam12801 313596000510 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 313596000511 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 313596000512 FixH; Region: FixH; pfam05751 313596000513 Family description; Region: DsbD_2; pfam13386 313596000514 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 313596000515 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 313596000516 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 313596000517 Ligand Binding Site [chemical binding]; other site 313596000518 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 313596000519 Ligand Binding Site [chemical binding]; other site 313596000520 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 313596000521 HemN C-terminal domain; Region: HemN_C; pfam06969 313596000522 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 313596000523 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 313596000524 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 313596000525 active site 313596000526 Phosphotransferase enzyme family; Region: APH; pfam01636 313596000527 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 313596000528 active site 313596000529 substrate binding site [chemical binding]; other site 313596000530 ATP binding site [chemical binding]; other site 313596000531 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 313596000532 substrate binding site [chemical binding]; other site 313596000533 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 313596000534 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 313596000535 active site 313596000536 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 313596000537 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 313596000538 S-adenosylmethionine binding site [chemical binding]; other site 313596000539 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 313596000540 Sulfatase; Region: Sulfatase; pfam00884 313596000541 putative membrane-bound dehydrogenase domain; Region: Piru_Ver_Nterm; TIGR02604 313596000542 Cytochrome c; Region: Cytochrom_C; cl11414 313596000543 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 313596000544 F5/8 type C domain; Region: F5_F8_type_C; pfam00754 313596000545 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 313596000546 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 313596000547 RimM N-terminal domain; Region: RimM; pfam01782 313596000548 Ribosomal protein S16; Region: Ribosomal_S16; cl00368 313596000549 Domain of unknown function (DUF2383); Region: DUF2383; pfam09537 313596000550 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 313596000551 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 313596000552 active site 313596000553 catalytic site [active] 313596000554 substrate binding site [chemical binding]; other site 313596000555 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 313596000556 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 313596000557 active site 313596000558 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 313596000559 generic binding surface I; other site 313596000560 generic binding surface II; other site 313596000561 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 313596000562 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 313596000563 Protein of unknown function DUF58; Region: DUF58; pfam01882 313596000564 Microscilla MS158 and related proteins, metallophosphatase domain; Region: MPP_MS158; cd07404 313596000565 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 313596000566 putative active site [active] 313596000567 putative metal binding site [ion binding]; other site 313596000568 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dam; COG0338 313596000569 Relaxase/Mobilisation nuclease domain; Region: Relaxase; pfam03432 313596000570 Bacterial mobilisation protein (MobC); Region: MobC; pfam05713 313596000571 Helix-turn-helix domain; Region: HTH_17; pfam12728 313596000572 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypF; COG0068 313596000573 Telomere recombination; Region: Sua5_yciO_yrdC; pfam01300 313596000574 hydrogenase isoenzymes formation protein HypD; Provisional; Region: PRK15062 313596000575 hydrogenase expression/formation protein HypD; Region: hypD; TIGR00075 313596000576 HypE (Hydrogenase expression/formation protein). HypE is involved in Ni-Fe hydrogenase biosynthesis. HypE dehydrates its own carbamoyl moiety in an ATP-dependent process to yield the enzyme thiocyanate. The N-terminal domain of HypE is related to the...; Region: HypE; cd02197 313596000577 dimerization interface [polypeptide binding]; other site 313596000578 hydrogenase expression/formation protein HypE; Region: hypE; TIGR02124 313596000579 ATP binding site [chemical binding]; other site 313596000580 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 313596000581 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 313596000582 N-terminal plug; other site 313596000583 ligand-binding site [chemical binding]; other site 313596000584 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 313596000585 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 313596000586 Bacterial transcriptional repressor; Region: TetR; pfam13972 313596000587 HupF/HypC family; Region: HupF_HypC; pfam01455 313596000588 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 313596000589 CO dehydrogenase maturation factor [Cell division and chromosome partitioning]; Region: CooC; COG3640 313596000590 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 313596000591 coenzyme F420-reducing hydrogenase delta subunit (putative coenzyme F420 hydrogenase processing subunit); Region: frhD; TIGR00130 313596000592 Putative [NiFe] hydrogenase-specific C-terminal protease. Sequence comparison shows similarity to hydrogenase specific C-terminal endopeptidases, also called Hydrogen Maturation Proteases (H2MP). Maturation of [FeNi] hydrogenases includes formation of...; Region: H2MP_like-1; cd06068 313596000593 nickel binding site [ion binding]; other site 313596000594 Ni,Fe-hydrogenase I large subunit [Energy production and conversion]; Region: HyaB; COG0374 313596000595 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; pfam00374 313596000596 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 313596000597 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1373 313596000598 Walker A motif; other site 313596000599 ATP binding site [chemical binding]; other site 313596000600 Walker B motif; other site 313596000601 arginine finger; other site 313596000602 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 313596000603 active site 313596000604 DNA binding site [nucleotide binding] 313596000605 Int/Topo IB signature motif; other site 313596000606 proline-specific peptidase, Bacillus coagulans-type subfamily; Region: pro_imino_pep_2; TIGR01250 313596000607 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 313596000608 Dipeptidyl peptidase IV (DPP IV) N-terminal region; Region: DPPIV_N; pfam00930 313596000609 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 313596000610 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 313596000611 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 313596000612 SnoaL-like domain; Region: SnoaL_2; pfam12680 313596000613 Uncharacterized protein conserved in bacteria (DUF2237); Region: DUF2237; pfam09996 313596000614 Predicted integral membrane protein [Function unknown]; Region: COG5616 313596000615 type III secretion low calcium response chaperone LcrH/SycD; Region: LcrH_SycD; TIGR02552 313596000616 Caspase domain; Region: Peptidase_C14; pfam00656 313596000617 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 313596000618 PGDYG protein; Region: PGDYG; pfam14083 313596000619 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 313596000620 Walker A/P-loop; other site 313596000621 ATP binding site [chemical binding]; other site 313596000622 TIR domain; Region: TIR_2; pfam13676 313596000623 Protein of unknown function (DUF4231); Region: DUF4231; pfam14015 313596000624 mannonate dehydratase; Provisional; Region: PRK03906 313596000625 mannonate dehydratase; Region: uxuA; TIGR00695 313596000626 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 313596000627 classical (c) SDRs; Region: SDR_c; cd05233 313596000628 NAD(P) binding site [chemical binding]; other site 313596000629 active site 313596000630 Alpha-glucuronidase [Carbohydrate transport and metabolism]; Region: AguA; COG3661 313596000631 Glycosyl hydrolase family 67 N-terminus; Region: Glyco_hydro_67N; pfam03648 313596000632 Glycosyl hydrolase family 67 C-terminus; Region: Glyco_hydro_67C; pfam07477 313596000633 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 313596000634 nucleotide binding site [chemical binding]; other site 313596000635 xylose isomerase; Provisional; Region: PRK05474 313596000636 xylose isomerase; Region: xylose_isom_A; TIGR02630 313596000637 Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]; Region: HisC; COG0079 313596000638 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 313596000639 pyridoxal 5'-phosphate binding site [chemical binding]; other site 313596000640 homodimer interface [polypeptide binding]; other site 313596000641 catalytic residue [active] 313596000642 DNA polymerase III, alpha subunit [DNA replication, recombination, and repair]; Region: DnaE; COG0587 313596000643 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III; Region: PHP_PolIIIA; cd07431 313596000644 active site 313596000645 PHP Thumb interface [polypeptide binding]; other site 313596000646 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 313596000647 generic binding surface I; other site 313596000648 generic binding surface II; other site 313596000649 Nucleotidyltransferase/DNA polymerase involved in DNA repair [DNA replication, recombination, and repair]; Region: DinP; COG0389 313596000650 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 313596000651 active site 313596000652 DNA binding site [nucleotide binding] 313596000653 Domain of unknown function (DUF4113); Region: DUF4113; pfam13438 313596000654 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 313596000655 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 313596000656 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 313596000657 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 313596000658 DNA binding residues [nucleotide binding] 313596000659 Ferredoxin reductase-like proteins catalyze electron transfer between an NAD(P)-binding domain of the alpha/beta class and a discrete (usually N-terminal) domain which varies in orientation with respect to the NAD(P) binding domain. The N-terminal region...; Region: FNR_like_1; cd06196 313596000660 FAD binding pocket [chemical binding]; other site 313596000661 FAD binding motif [chemical binding]; other site 313596000662 phosphate binding motif [ion binding]; other site 313596000663 beta-alpha-beta structure motif; other site 313596000664 NAD binding pocket [chemical binding]; other site 313596000665 GTP cyclohydrolase I; Provisional; Region: folE; PRK09347 313596000666 GTP cyclohydrolase I; Provisional; Region: PLN03044 313596000667 active site 313596000668 Domain of unknown function (DUF4142); Region: DUF4142; pfam13628 313596000669 Plastocyanin [Energy production and conversion]; Region: PetE; COG3794 313596000670 Cupredoxin-like domain; Region: Cupredoxin_1; cl17234 313596000671 RNase PH-like 3'-5' exoribonucleases; Region: RNase_PH; cl03114 313596000672 tryptophan tryptophylquinone biosynthesis enzyme MauG; Region: TTQ_mauG; TIGR03791 313596000673 CAAX protease self-immunity; Region: Abi; pfam02517 313596000674 cytochrome c-type biogenesis protein CcsB; Region: cytochr_II_ccsB; TIGR03144 313596000675 Ferredoxin reductase-like proteins catalyze electron transfer between an NAD(P)-binding domain of the alpha/beta class and a discrete (usually N-terminal) domain which varies in orientation with respect to the NAD(P) binding domain. The N-terminal region...; Region: FNR_like_1; cd06196 313596000676 FAD binding pocket [chemical binding]; other site 313596000677 FAD binding motif [chemical binding]; other site 313596000678 phosphate binding motif [ion binding]; other site 313596000679 beta-alpha-beta structure motif; other site 313596000680 NAD binding pocket [chemical binding]; other site 313596000681 Domain of unknown function (DUF4382); Region: DUF4382; pfam14321 313596000682 CsbD-like; Region: CsbD; pfam05532 313596000683 Protein of unknown function (DUF3946); Region: DUF3946; pfam13102 313596000684 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 313596000685 active site 313596000686 DNA binding site [nucleotide binding] 313596000687 Int/Topo IB signature motif; other site 313596000688 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 313596000689 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 313596000690 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 313596000691 Protein of unknown function (DUF3347); Region: DUF3347; pfam11827 313596000692 Domain of unknown function (DUF305); Region: DUF305; cl17794 313596000693 PepSY-associated TM helix; Region: PepSY_TM_3; pfam13706 313596000694 Protein of unknown function (DUF2911); Region: DUF2911; pfam11138 313596000695 Protein of unknown function (DUF2911); Region: DUF2911; pfam11138 313596000696 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 313596000697 metal-binding site [ion binding] 313596000698 Predicted permease; Region: DUF318; cl17795 313596000699 Ion channel; Region: Ion_trans_2; pfam07885 313596000700 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 313596000701 active site 313596000702 FMN binding site [chemical binding]; other site 313596000703 substrate binding site [chemical binding]; other site 313596000704 3Fe-4S cluster binding site [ion binding]; other site 313596000705 Protein of unknown function (DUF3347); Region: DUF3347; pfam11827 313596000706 Haem-binding domain; Region: Haem_bd; pfam14376 313596000707 Protein of unknown function (DUF3347); Region: DUF3347; pfam11827 313596000708 Domain of unknown function DUF302; Region: DUF302; cl01364 313596000709 Domain of unknown function DUF302; Region: DUF302; cl01364 313596000710 Short C-terminal domain; Region: SHOCT; pfam09851 313596000711 Amino acid permease; Region: AA_permease_2; pfam13520 313596000712 Tryptophan/tyrosine permease family; Region: Trp_Tyr_perm; cl17316 313596000713 copper-resistance protein, CopA family; Region: copper_res_A; TIGR01480 313596000714 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 313596000715 Multicopper oxidase; Region: Cu-oxidase; pfam00394 313596000716 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 313596000717 Outer membrane efflux protein; Region: OEP; pfam02321 313596000718 Outer membrane efflux protein; Region: OEP; pfam02321 313596000719 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 313596000720 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 313596000721 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 313596000722 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 313596000723 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 313596000724 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 313596000725 trimethylamine N-oxide reductase cytochrome c-type subunit; Provisional; Region: PRK15032 313596000726 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 313596000727 metal-binding site [ion binding] 313596000728 fructose-bisphosphate aldolase; Provisional; Region: PRK09250 313596000729 Class I fructose-1,6-bisphosphate (FBP) aldolases of the archaeal type (DhnA homologs); Region: DhnA; cd00958 313596000730 putative active site; other site 313596000731 catalytic residue [active] 313596000732 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 313596000733 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 313596000734 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 313596000735 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 313596000736 Ligand Binding Site [chemical binding]; other site 313596000737 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 313596000738 Ligand Binding Site [chemical binding]; other site 313596000739 ATP cone domain; Region: ATP-cone; pfam03477 313596000740 Superfamily of nucleases including Short Patch Repair (Vsr) Endonucleases, archaeal Holliday junction resolvases, MutH methy-directed DNA mismatch-repair endonucleases, and catalytic domains of many restriction endonucleases, such as EcoRI, BamHI, and...; Region: Restriction_endonuclease_like; cl00277 313596000741 putative active site [active] 313596000742 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 313596000743 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 313596000744 Beta-Casp domain; Region: Beta-Casp; pfam10996 313596000745 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 313596000746 thymidine phosphorylase; Provisional; Region: PRK04350 313596000747 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 313596000748 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 313596000749 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; smart00941 313596000750 phosphoribosylpyrophosphate synthetase; Provisional; Region: PRK07199 313596000751 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 313596000752 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 313596000753 active site 313596000754 Late embryogenesis abundant protein; Region: LEA_4; pfam02987 313596000755 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 313596000756 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 313596000757 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 313596000758 motif II; other site 313596000759 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 313596000760 Major Facilitator Superfamily; Region: MFS_1; pfam07690 313596000761 putative substrate translocation pore; other site 313596000762 Uncharacterized conserved protein [Function unknown]; Region: COG3391 313596000763 NHL repeat; Region: NHL; pfam01436 313596000764 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 313596000765 metal-binding site [ion binding] 313596000766 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 313596000767 Metal-sensitive transcriptional repressor; Region: Trns_repr_metal; pfam02583 313596000768 putative homotetramer interface [polypeptide binding]; other site 313596000769 putative homodimer interface [polypeptide binding]; other site 313596000770 Pyruvate/2-oxoglutarate dehydrogenase complex, dihydrolipoamide dehydrogenase (E3) component, and related enzymes [Energy production and conversion]; Region: Lpd; COG1249 313596000771 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 313596000772 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 313596000773 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 313596000774 MerT mercuric transport protein; Region: MerT; cl03578 313596000775 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 313596000776 metal-binding site [ion binding] 313596000777 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 313596000778 dimerization interface [polypeptide binding]; other site 313596000779 putative DNA binding site [nucleotide binding]; other site 313596000780 putative Zn2+ binding site [ion binding]; other site 313596000781 heavy metal-(Cd/Co/Hg/Pb/Zn)-translocating P-type ATPase; Region: ATPase-IB2_Cd; TIGR01512 313596000782 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 313596000783 Soluble P-type ATPase [General function prediction only]; Region: COG4087 313596000784 Fe2+/Zn2+ uptake regulation proteins [Inorganic ion transport and metabolism]; Region: Fur; COG0735 313596000785 metal binding site 2 [ion binding]; metal-binding site 313596000786 putative DNA binding helix; other site 313596000787 metal binding site 1 [ion binding]; metal-binding site 313596000788 dimer interface [polypeptide binding]; other site 313596000789 structural Zn2+ binding site [ion binding]; other site 313596000790 Cation efflux family; Region: Cation_efflux; cl00316 313596000791 HlyD family secretion protein; Region: HlyD_2; pfam12700 313596000792 HlyD family secretion protein; Region: HlyD_3; pfam13437 313596000793 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 313596000794 Outer membrane efflux protein; Region: OEP; pfam02321 313596000795 Outer membrane efflux protein; Region: OEP; pfam02321 313596000796 Relaxase/Mobilisation nuclease domain; Region: Relaxase; pfam03432 313596000797 Helix-turn-helix domain; Region: HTH_17; pfam12728 313596000798 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 313596000799 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 313596000800 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 313596000801 active site 313596000802 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 313596000803 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 313596000804 CTC domain interface [polypeptide binding]; other site 313596000805 L16 interface [polypeptide binding]; other site 313596000806 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 313596000807 putative active site [active] 313596000808 catalytic residue [active] 313596000809 Metallo-peptidase family M12B Reprolysin-like; Region: Reprolysin_2; pfam13574 313596000810 active site 313596000811 Ser-Thr-rich glycosyl-phosphatidyl-inositol-anchored membrane family; Region: GPI-anchored; pfam10342 313596000812 Proprotein convertase P-domain; Region: P_proprotein; pfam01483 313596000813 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 313596000814 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 313596000815 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 313596000816 Riboflavin kinase; Region: Flavokinase; pfam01687 313596000817 Vitamin K-dependent gamma-carboxylase; Region: VKG_Carbox; cl02773 313596000818 seryl-tRNA synthetase; Provisional; Region: PRK05431 313596000819 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 313596000820 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 313596000821 dimer interface [polypeptide binding]; other site 313596000822 active site 313596000823 motif 1; other site 313596000824 motif 2; other site 313596000825 motif 3; other site 313596000826 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 313596000827 TPR motif; other site 313596000828 binding surface 313596000829 Tetratricopeptide repeat; Region: TPR_12; pfam13424 313596000830 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 313596000831 binding surface 313596000832 TPR motif; other site 313596000833 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 313596000834 Domain of unknown function (DUF4286); Region: DUF4286; pfam14114 313596000835 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 313596000836 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 313596000837 S-adenosylmethionine binding site [chemical binding]; other site 313596000838 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 313596000839 MgtE intracellular N domain; Region: MgtE_N; pfam03448 313596000840 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 313596000841 Divalent cation transporter; Region: MgtE; pfam01769 313596000842 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 313596000843 Putative D-isomer specific 2-hydroxyacid dehydrogenases, NAD-binding and catalytic domains; Region: 2-Hacid_dh_14; cd12179 313596000844 putative ligand binding site [chemical binding]; other site 313596000845 putative NAD binding site [chemical binding]; other site 313596000846 catalytic site [active] 313596000847 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 313596000848 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 313596000849 DNA binding residues [nucleotide binding] 313596000850 dimerization interface [polypeptide binding]; other site 313596000851 Protein of unknown function (DUF4199); Region: DUF4199; pfam13858 313596000852 Domain of unknown function (DU1801); Region: DUF1801; pfam08818 313596000853 Glyoxalase-like domain; Region: Glyoxalase_2; pfam12681 313596000854 Predicted membrane protein [Function unknown]; Region: XynA; COG2314 313596000855 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 313596000856 dimerization interface [polypeptide binding]; other site 313596000857 putative DNA binding site [nucleotide binding]; other site 313596000858 putative Zn2+ binding site [ion binding]; other site 313596000859 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 313596000860 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 313596000861 Coenzyme A binding pocket [chemical binding]; other site 313596000862 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 313596000863 Low molecular weight phosphatase family; Region: LMWPc; cd00115 313596000864 active site 313596000865 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: Unknown ACT14924; Region: LPLAT_ACT14924-like; cd07986 313596000866 putative acyl-acceptor binding pocket; other site 313596000867 Acetyltransferase (GNAT) domain; Region: Acetyltransf_5; pfam13444 313596000868 Aspartokinases [Amino acid transport and metabolism]; Region: LysC; COG0527 313596000869 Amino Acid Kinases (AAK) superfamily, catalytic domain; present in such enzymes like N-acetylglutamate kinase (NAGK), carbamate kinase (CK), aspartokinase (AK), glutamate-5-kinase (G5K) and UMP kinase (UMPK). The AAK superfamily includes kinases that...; Region: AAK; cl00452 313596000870 nucleotide binding site [chemical binding]; other site 313596000871 substrate binding site [chemical binding]; other site 313596000872 Acetyltransferase (GNAT) domain; Region: Acetyltransf_8; pfam13523 313596000873 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 313596000874 Coenzyme A binding pocket [chemical binding]; other site 313596000875 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 313596000876 AMP binding site [chemical binding]; other site 313596000877 metal binding site [ion binding]; metal-binding site 313596000878 active site 313596000879 Tellurite resistance protein TerB; Region: TerB; cl17311 313596000880 putative exonuclease, DNA ligase-associated; Region: Xnuc_lig_assoc; TIGR04122 313596000881 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 313596000882 ATP-dependent DNA ligase; Validated; Region: PRK09247 313596000883 Adenylation domain of putative bacterial ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_Bac1; cd07897 313596000884 active site 313596000885 DNA binding site [nucleotide binding] 313596000886 The Oligonucleotide/oligosaccharide binding (OB)-fold domain of archaeal and bacterial ATP-dependent DNA ligases is a DNA-binding module that is part of the catalytic core unit; Region: OBF_DNA_ligase_Arch_LigB; cd07972 313596000887 DNA binding site [nucleotide binding] 313596000888 DEXH box helicase, DNA ligase-associated; Region: DEXH_lig_assoc; TIGR04121 313596000889 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 313596000890 ATP binding site [chemical binding]; other site 313596000891 putative Mg++ binding site [ion binding]; other site 313596000892 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 313596000893 nucleotide binding region [chemical binding]; other site 313596000894 ATP-binding site [chemical binding]; other site 313596000895 DEAD/H associated; Region: DEAD_assoc; pfam08494 313596000896 Pyrococcus furiosus PF1019 and related proteins, metallophosphatase domain; Region: MPP_PF1019; cd07391 313596000897 putative active site [active] 313596000898 putative metal binding site [ion binding]; other site 313596000899 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 313596000900 CarD-like/TRCF domain; Region: CarD_CdnL_TRCF; pfam02559 313596000901 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 313596000902 ATP binding site [chemical binding]; other site 313596000903 putative Mg++ binding site [ion binding]; other site 313596000904 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 313596000905 nucleotide binding region [chemical binding]; other site 313596000906 ATP-binding site [chemical binding]; other site 313596000907 TRCF domain; Region: TRCF; pfam03461 313596000908 Predicted acyl esterases [General function prediction only]; Region: COG2936 313596000909 X-Pro dipeptidyl-peptidase C-terminal non-catalytic domain; Region: PepX_C; smart00939 313596000910 Family description; Region: ACT_7; pfam13840 313596000911 Uncharacterized protein family UPF0102; Region: UPF0102; cl00516 313596000912 Protein of unknown function (DUF1800); Region: DUF1800; pfam08811 313596000913 Protein of unknown function (DUF1501); Region: DUF1501; pfam07394 313596000914 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 313596000915 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 313596000916 active site 313596000917 HIGH motif; other site 313596000918 KMSKS motif; other site 313596000919 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 313596000920 tRNA binding surface [nucleotide binding]; other site 313596000921 anticodon binding site; other site 313596000922 tRNA-binding-domain-containing Escherichia coli methionyl-tRNA synthetase (EcMetRS)-like proteins. This family includes EcMetRS and Aquifex aeolicus Trbp111 (AaTrbp111). This domain has general tRNA binding properties. MetRS aminoacylates methionine...; Region: tRNA_bind_EcMetRS_like; cd02800 313596000923 dimer interface [polypeptide binding]; other site 313596000924 putative tRNA-binding site [nucleotide binding]; other site 313596000925 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 313596000926 Histone deacetylase class IV also known as histone deacetylase 11; Region: HDAC_classIV; cd09993 313596000927 putative active site [active] 313596000928 Zn binding site [ion binding]; other site 313596000929 PAP2_like_5 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which is specific to bacteria, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_5; cd03394 313596000930 active site 313596000931 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 313596000932 nonheme-containing ferritins; Region: Nonheme_Ferritin; cd01055 313596000933 Ferritin-like domain; Region: Ferritin; pfam00210 313596000934 ferroxidase diiron center [ion binding]; other site 313596000935 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 313596000936 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 313596000937 dimer interface [polypeptide binding]; other site 313596000938 ssDNA binding site [nucleotide binding]; other site 313596000939 tetramer (dimer of dimers) interface [polypeptide binding]; other site 313596000940 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 313596000941 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 313596000942 Peptidase family M28; Region: Peptidase_M28; pfam04389 313596000943 metal binding site [ion binding]; metal-binding site 313596000944 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 313596000945 Beta-lactamase; Region: Beta-lactamase; pfam00144 313596000946 Uncharacterized protein related to plant photosystem II stability/assembly factor [General function prediction only]; Region: COG4447 313596000947 BNR repeat-like domain; Region: BNR_2; pfam13088 313596000948 FOG: CBS domain [General function prediction only]; Region: COG0517 313596000949 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_16; cd04629 313596000950 M28 Zn-peptidase Endoplasmic reticulum metallopeptidase 1; Region: M28_Fxna_like; cd03875 313596000951 Peptidase family M28; Region: Peptidase_M28; pfam04389 313596000952 metal binding site [ion binding]; metal-binding site 313596000953 atypical (a) SDRs, subgroup 4; Region: SDR_a4; cd05266 313596000954 NADH(P)-binding; Region: NAD_binding_10; pfam13460 313596000955 putative NAD(P) binding site [chemical binding]; other site 313596000956 SnoaL-like domain; Region: SnoaL_3; pfam13474 313596000957 Calcium/calmodulin dependent protein kinase II Association; Region: CaMKII_AD; cl17504 313596000958 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 313596000959 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 313596000960 NAD(P) binding site [chemical binding]; other site 313596000961 active site 313596000962 Putative ATP-dependant zinc protease; Region: Zn_protease; cl01682 313596000963 ribosomal protein S6 modification protein; Provisional; Region: PRK10446 313596000964 ATP-grasp domain; Region: ATP-grasp_4; cl17255 313596000965 Deoxyhypusine synthase; Region: DS; cl00826 313596000966 deoxyhypusine synthase; Region: dhys; TIGR00321 313596000967 Deoxyhypusine synthase; Region: DS; cl00826 313596000968 agmatinase; Region: agmatinase; TIGR01230 313596000969 Agmatinase and related proteins; Region: Agmatinase-like_2; cd11593 313596000970 putative active site [active] 313596000971 Mn binding site [ion binding]; other site 313596000972 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 313596000973 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Arginine Decarboxylase; Region: PLPDE_III_ADC; cd06830 313596000974 dimer interface [polypeptide binding]; other site 313596000975 active site 313596000976 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 313596000977 catalytic residues [active] 313596000978 substrate binding site [chemical binding]; other site 313596000979 MoaC family. 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 derivative to the precursor...; Region: MoaC; cl00242 313596000980 trimer interface [polypeptide binding]; other site 313596000981 dimer interface [polypeptide binding]; other site 313596000982 putative active site [active] 313596000983 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 313596000984 MoaE homodimer interface [polypeptide binding]; other site 313596000985 MoaD interaction [polypeptide binding]; other site 313596000986 active site residues [active] 313596000987 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 313596000988 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 313596000989 Walker A/P-loop; other site 313596000990 ATP binding site [chemical binding]; other site 313596000991 Q-loop/lid; other site 313596000992 ABC transporter signature motif; other site 313596000993 Walker B; other site 313596000994 D-loop; other site 313596000995 H-loop/switch region; other site 313596000996 Domain of unknown function (DUF4352); Region: DUF4352; pfam11611 313596000997 Domain of unknown function (DUF1508); Region: DUF1508; pfam07411 313596000998 Domain of unknown function (DUF1508); Region: DUF1508; pfam07411 313596000999 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 313596001000 Beta-lactamase; Region: Beta-lactamase; pfam00144 313596001001 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 313596001002 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 313596001003 Predicted integral membrane protein [Function unknown]; Region: COG5616 313596001004 TPR repeat; Region: TPR_11; pfam13414 313596001005 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 313596001006 TPR motif; other site 313596001007 TPR repeat; Region: TPR_11; pfam13414 313596001008 binding surface 313596001009 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 313596001010 binding surface 313596001011 TPR motif; other site 313596001012 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 313596001013 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 313596001014 Acyltransferase family; Region: Acyl_transf_3; pfam01757 313596001015 glucans biosynthesis protein; Provisional; Region: opgC; PRK03854 313596001016 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 313596001017 homotrimer interaction site [polypeptide binding]; other site 313596001018 putative active site [active] 313596001019 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 313596001020 non-specific DNA binding site [nucleotide binding]; other site 313596001021 salt bridge; other site 313596001022 sequence-specific DNA binding site [nucleotide binding]; other site 313596001023 Sialidases or neuraminidases function to bind and hydrolyze terminal sialic acid residues from various glycoconjugates as well as playing roles in pathogenesis, bacterial nutrition and cellular interactions. They have a six-bladed, beta-propeller fold...; Region: Sialidase; cl17698 313596001024 Uncharacterized protein related to plant photosystem II stability/assembly factor [General function prediction only]; Region: COG4447 313596001025 Asp-box motif; other site 313596001026 Domain of Unknown Function (DUF1080); Region: DUF1080; pfam06439 313596001027 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 313596001028 Coenzyme A binding pocket [chemical binding]; other site 313596001029 Sulfatase; Region: Sulfatase; cl17466 313596001030 Type I phosphodiesterase / nucleotide pyrophosphatase; Region: Phosphodiest; pfam01663 313596001031 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 313596001032 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 313596001033 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 313596001034 Outer membrane efflux protein; Region: OEP; pfam02321 313596001035 Outer membrane efflux protein; Region: OEP; pfam02321 313596001036 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 313596001037 HlyD family secretion protein; Region: HlyD_3; pfam13437 313596001038 Protein related to penicillin acylase [General function prediction only]; Region: COG2366 313596001039 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 313596001040 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 313596001041 active site 313596001042 Penicillin amidase; Region: Penicil_amidase; pfam01804 313596001043 Cephalosporin acylase (CA) belongs to a family of beta-lactam acylases that includes penicillin G acylase (PGA) and aculeacin A acylase. PGA and CA are crucial for the production of backbone chemicals like 6-aminopenicillanic acid and...; Region: Ntn_CA; cd01936 313596001044 active site 313596001045 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 313596001046 PepSY-associated TM helix; Region: PepSY_TM_1; pfam13172 313596001047 BNR repeat-like domain; Region: BNR_2; pfam13088 313596001048 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 313596001049 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 313596001050 Walker A/P-loop; other site 313596001051 ATP binding site [chemical binding]; other site 313596001052 Q-loop/lid; other site 313596001053 ABC transporter signature motif; other site 313596001054 Walker B; other site 313596001055 D-loop; other site 313596001056 H-loop/switch region; other site 313596001057 nitrous oxide reductase family maturation protein NosD; Region: NosD_copper_fam; TIGR04247 313596001058 NosL; Region: NosL; cl01769 313596001059 nitrous-oxide reductase, Sec-dependent; Region: nitrous_NosZ_Gp; TIGR04246 313596001060 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 313596001061 Secreted and surface protein containing fasciclin-like repeats [Cell envelope biogenesis, outer membrane]; Region: COG2335 313596001062 Fasciclin domain; Region: Fasciclin; pfam02469 313596001063 Cytochrome c; Region: Cytochrom_C; pfam00034 313596001064 Rrf2 family protein; Region: rrf2_super; TIGR00738 313596001065 Transcriptional regulator; Region: Rrf2; pfam02082 313596001066 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 313596001067 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 313596001068 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 313596001069 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 313596001070 Coenzyme A binding pocket [chemical binding]; other site 313596001071 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 313596001072 active site 313596001073 PDZ domain, also called DHR (Dlg homologous region) or GLGF (after a conserved sequence motif). Many PDZ domains bind C-terminal polypeptides, though binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated; Region: PDZ; cl00117 313596001074 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 313596001075 Site-2 protease (S2P) class of zinc metalloproteases (MEROPS family M50) cleaves transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of this family use proteolytic...; Region: S2P-M50; cl10020 313596001076 putative substrate binding region [chemical binding]; other site 313596001077 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 313596001078 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 313596001079 Cu(I) binding site [ion binding]; other site 313596001080 FeoA domain; Region: FeoA; pfam04023 313596001081 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 313596001082 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 313596001083 G1 box; other site 313596001084 GTP/Mg2+ binding site [chemical binding]; other site 313596001085 Switch I region; other site 313596001086 G2 box; other site 313596001087 G3 box; other site 313596001088 Switch II region; other site 313596001089 G4 box; other site 313596001090 G5 box; other site 313596001091 Nucleoside recognition; Region: Gate; pfam07670 313596001092 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 313596001093 Nucleoside recognition; Region: Gate; pfam07670 313596001094 TonB-dependent outer membrane receptor, SusC/RagA subfamily, signature region; Region: SusC_RagA_signa; TIGR04057 313596001095 Uncharacterized protein conserved in bacteria (DUF2141); Region: DUF2141; pfam09912 313596001096 DinB superfamily; Region: DinB_2; pfam12867 313596001097 DinB family; Region: DinB; cl17821 313596001098 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428 313596001099 Iron dependent repressor, N-terminal DNA binding domain; Region: Fe_dep_repress; pfam01325 313596001100 Helix-turn-helix diphteria tox regulatory element; Region: HTH_DTXR; smart00529 313596001101 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 313596001102 FeoA domain; Region: FeoA; pfam04023 313596001103 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 313596001104 Outer membrane receptor for ferrienterochelin and colicins [Inorganic ion transport and metabolism]; Region: FepA; COG4771 313596001105 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 313596001106 N-terminal plug; other site 313596001107 ligand-binding site [chemical binding]; other site 313596001108 lycopene cyclase; Region: lycopene_cycl; TIGR01789 313596001109 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 313596001110 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 313596001111 substrate binding pocket [chemical binding]; other site 313596001112 chain length determination region; other site 313596001113 substrate-Mg2+ binding site; other site 313596001114 catalytic residues [active] 313596001115 aspartate-rich region 1; other site 313596001116 active site lid residues [active] 313596001117 aspartate-rich region 2; other site 313596001118 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 313596001119 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 313596001120 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 313596001121 DNA binding residues [nucleotide binding] 313596001122 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 313596001123 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 313596001124 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 313596001125 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 313596001126 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 313596001127 HlyD family secretion protein; Region: HlyD_3; pfam13437 313596001128 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 313596001129 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 313596001130 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 313596001131 dimer interface [polypeptide binding]; other site 313596001132 anticodon binding site; other site 313596001133 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 313596001134 homodimer interface [polypeptide binding]; other site 313596001135 motif 1; other site 313596001136 active site 313596001137 motif 2; other site 313596001138 GAD domain; Region: GAD; pfam02938 313596001139 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 313596001140 active site 313596001141 motif 3; other site 313596001142 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 313596001143 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 313596001144 Cl- selectivity filter; other site 313596001145 Cl- binding residues [ion binding]; other site 313596001146 pore gating glutamate residue; other site 313596001147 dimer interface [polypeptide binding]; other site 313596001148 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with either the SpoIVFB domain (sporulation protein, stage IV cell wall formation, F locus, promoter-distal B) or the chloride channel protein EriC; Region: CBS_pair_SpoIVFB_EriC_assoc2; cd04613 313596001149 FOG: CBS domain [General function prediction only]; Region: COG0517 313596001150 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 313596001151 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 313596001152 DNA-binding site [nucleotide binding]; DNA binding site 313596001153 RNA-binding motif; other site 313596001154 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 313596001155 nucleoside/Zn binding site; other site 313596001156 dimer interface [polypeptide binding]; other site 313596001157 catalytic motif [active] 313596001158 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 313596001159 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 313596001160 TPP-binding site; other site 313596001161 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 313596001162 PYR/PP interface [polypeptide binding]; other site 313596001163 dimer interface [polypeptide binding]; other site 313596001164 TPP binding site [chemical binding]; other site 313596001165 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 313596001166 Protein of unknown function (DUF3078); Region: DUF3078; pfam11276 313596001167 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01096 313596001168 Cna protein B-type domain; Region: Cna_B_2; pfam13715 313596001169 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 313596001170 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 313596001171 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 313596001172 Phosphate transporter family; Region: PHO4; pfam01384 313596001173 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 313596001174 adenylate kinase; Provisional; Region: PRK14529 313596001175 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 313596001176 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 313596001177 active site 313596001178 (T/H)XGH motif; other site 313596001179 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 313596001180 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 313596001181 catalytic site [active] 313596001182 G-X2-G-X-G-K; other site 313596001183 hypothetical protein; Provisional; Region: PRK11820 313596001184 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 313596001185 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 313596001186 Domain of Unknown Function (DUF1080); Region: DUF1080; pfam06439 313596001187 Domain of Unknown Function (DUF1080); Region: DUF1080; pfam06439 313596001188 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 313596001189 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 313596001190 Metal-binding active site; metal-binding site 313596001191 AP endonuclease family 2 C terminus; Region: AP_endonuc_2_N; pfam07582 313596001192 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 313596001193 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 313596001194 ASC-1 homology domain, subfamily similar to Enterococcus faecalis Ef3133. The ASCH domain, a small beta-barrel domain found in all three kingdoms of life, resembles the RNA-binding PUA domain and may also interact with RNA. ASCH has been proposed to...; Region: ASCH_Ef3133_like; cd06553 313596001195 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 313596001196 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 313596001197 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 313596001198 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 313596001199 Major Facilitator Superfamily; Region: MFS_1; pfam07690 313596001200 putative substrate translocation pore; other site 313596001201 Nucleoside H+ symporter; Region: Nuc_H_symport; pfam03825 313596001202 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 313596001203 DinB family; Region: DinB; cl17821 313596001204 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 313596001205 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 313596001206 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 313596001207 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 313596001208 Gluconate 2-dehydrogenase subunit 3; Region: Gluconate_2-dh3; pfam13618 313596001209 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 313596001210 ribonucleoside--diphosphate reductase large subunit; Region: PLN02437 313596001211 ATP cone domain; Region: ATP-cone; pfam03477 313596001212 Class I ribonucleotide reductase; Region: RNR_I; cd01679 313596001213 active site 313596001214 dimer interface [polypeptide binding]; other site 313596001215 catalytic residues [active] 313596001216 effector binding site; other site 313596001217 R2 peptide binding site; other site 313596001218 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 313596001219 dimer interface [polypeptide binding]; other site 313596001220 putative radical transfer pathway; other site 313596001221 diiron center [ion binding]; other site 313596001222 tyrosyl radical; other site 313596001223 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 313596001224 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 313596001225 active site 313596001226 phosphorylation site [posttranslational modification] 313596001227 intermolecular recognition site; other site 313596001228 dimerization interface [polypeptide binding]; other site 313596001229 LytTr DNA-binding domain; Region: LytTR; smart00850 313596001230 Tetratricopeptide repeat; Region: TPR_12; pfam13424 313596001231 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 313596001232 binding surface 313596001233 Tetratricopeptide repeat; Region: TPR_12; pfam13424 313596001234 TPR motif; other site 313596001235 Tetratricopeptide repeat; Region: TPR_12; pfam13424 313596001236 Tetratricopeptide repeat; Region: TPR_12; pfam13424 313596001237 Histidine kinase; Region: His_kinase; pfam06580 313596001238 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 313596001239 ATP binding site [chemical binding]; other site 313596001240 Mg2+ binding site [ion binding]; other site 313596001241 G-X-G motif; other site 313596001242 Protein of unknown function (DUF3109); Region: DUF3109; pfam11307 313596001243 Multiple antibiotic transporter [Intracellular trafficking and secretion]; Region: MarC; COG2095 313596001244 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 313596001245 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 313596001246 protein binding site [polypeptide binding]; other site 313596001247 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 313596001248 Catalytic dyad [active] 313596001249 Deoxycytidylate deaminase domain. Deoxycytidylate deaminase catalyzes the deamination of dCMP to dUMP, providing the nucleotide substrate for thymidylate synthase. The enzyme binds Zn++, which is required for catalytic activity. The activity of the...; Region: deoxycytidylate_deaminase; cd01286 313596001250 catalytic motif [active] 313596001251 Zn binding site [ion binding]; other site 313596001252 HupE / UreJ protein; Region: HupE_UreJ_2; pfam13795 313596001253 Dna-J like membrane chaperone protein; Provisional; Region: djlA; PRK09430 313596001254 N-terminal tellurium resistance protein terB-like domain of heat shock DnaJ-like proteins; Region: terB_like_DjlA; cd07316 313596001255 putative metal binding site [ion binding]; other site 313596001256 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 313596001257 HSP70 interaction site [polypeptide binding]; other site 313596001258 Disulphide isomerase; Region: Disulph_isomer; pfam06491 313596001259 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 313596001260 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 313596001261 putative acyl-acceptor binding pocket; other site 313596001262 Predicted HD superfamily hydrolase [General function prediction only]; Region: COG1418 313596001263 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 313596001264 Zn2+ binding site [ion binding]; other site 313596001265 Mg2+ binding site [ion binding]; other site 313596001266 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 313596001267 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 313596001268 DNA repair photolyase [DNA replication, recombination, and repair]; Region: SplB; COG1533 313596001269 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 313596001270 FeS/SAM binding site; other site 313596001271 3-hydroxybutyryl-CoA dehydratase; Validated; Region: PRK05809 313596001272 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 313596001273 substrate binding site [chemical binding]; other site 313596001274 oxyanion hole (OAH) forming residues; other site 313596001275 trimer interface [polypeptide binding]; other site 313596001276 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 313596001277 HAMP domain; Region: HAMP; pfam00672 313596001278 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 313596001279 dimer interface [polypeptide binding]; other site 313596001280 phosphorylation site [posttranslational modification] 313596001281 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 313596001282 ATP binding site [chemical binding]; other site 313596001283 Mg2+ binding site [ion binding]; other site 313596001284 G-X-G motif; other site 313596001285 Uncharacterized protein family (UPF0093); Region: UPF0093; pfam03653 313596001286 Branched-chain amino acid transport protein; Region: Branch_AA_trans; cl00547 313596001287 thiamine-monophosphate kinase; Region: thiL; TIGR01379 313596001288 ThiL (Thiamine-monophosphate kinase) plays a dual role in de novo biosynthesis and in salvage of exogenous thiamine. Thiamine salvage occurs in two steps, with thiamine kinase catalyzing the formation of thiamine phosphate, and ThiL catalyzing the...; Region: ThiL; cd02194 313596001289 ATP binding site [chemical binding]; other site 313596001290 dimerization interface [polypeptide binding]; other site 313596001291 choice-of-anchor B domain; Region: choice_anch_B; TIGR04312 313596001292 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 313596001293 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814 313596001294 putative ABC transporter; Region: ycf24; CHL00085 313596001295 FeS assembly ATPase SufC; Region: sufC; TIGR01978 313596001296 ABC-type transport system involved in Fe-S cluster assembly, ATPase component; Region: ABC_FeS_Assembly; cd03217 313596001297 Walker A/P-loop; other site 313596001298 ATP binding site [chemical binding]; other site 313596001299 Q-loop/lid; other site 313596001300 ABC transporter signature motif; other site 313596001301 Walker B; other site 313596001302 D-loop; other site 313596001303 H-loop/switch region; other site 313596001304 FeS assembly protein SufD; Region: sufD; TIGR01981 313596001305 Uncharacterized protein family (UPF0051); Region: UPF0051; pfam01458 313596001306 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 313596001307 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 313596001308 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 313596001309 catalytic residue [active] 313596001310 Cysteine desulfurase SufE subunit [Posttranslational modification, protein turnover, chaperones]; Region: sufE; COG2166 313596001311 FeS assembly SUF system protein; Region: SUF_assoc; TIGR02945 313596001312 Protein of unknown function (DUF2480); Region: DUF2480; pfam10652 313596001313 Protein of unknown function (DUF3078); Region: DUF3078; pfam11276 313596001314 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 313596001315 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 313596001316 HflX GTPase family; Region: HflX; cd01878 313596001317 G1 box; other site 313596001318 GTP/Mg2+ binding site [chemical binding]; other site 313596001319 Switch I region; other site 313596001320 G2 box; other site 313596001321 G3 box; other site 313596001322 Switch II region; other site 313596001323 G4 box; other site 313596001324 G5 box; other site 313596001325 Domain of unknown function (DUF4386); Region: DUF4386; pfam14329 313596001326 Uncharacterized bacterial subgroup of the DEDDy 3'-5' exonuclease domain of family-B DNA polymerases; Region: DNA_polB_like1_exo; cd05782 313596001327 active site 313596001328 catalytic site [active] 313596001329 substrate binding site [chemical binding]; other site 313596001330 methylated-DNA--protein-cysteine methyltransferase; Provisional; Region: PRK00901 313596001331 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 313596001332 DNA binding site [nucleotide binding] 313596001333 active site 313596001334 Domain of unknown function DUF21; Region: DUF21; pfam01595 313596001335 FOG: CBS domain [General function prediction only]; Region: COG0517 313596001336 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 313596001337 Beta-lactamase; Region: Beta-lactamase; cl17358 313596001338 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 313596001339 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 313596001340 dimer interface [polypeptide binding]; other site 313596001341 active site 313596001342 aspartate-rich active site metal binding site; other site 313596001343 allosteric magnesium binding site [ion binding]; other site 313596001344 Schiff base residues; other site 313596001345 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 313596001346 coproporphyrinogen III oxidase; Provisional; Region: PRK05330 313596001347 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; pfam01218 313596001348 methylcobalamin:coenzyme M methyltransferase; Validated; Region: PRK06252 313596001349 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 313596001350 substrate binding site [chemical binding]; other site 313596001351 active site 313596001352 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 313596001353 active site 313596001354 Uroporphyrinogen-III synthase [Coenzyme metabolism]; Region: HemD; COG1587 313596001355 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 313596001356 Hydroxymethylbilane synthase (HMBS), also known as porphobilinogen deaminase (PBGD), is an intermediate enzyme in the biosynthetic pathway of tetrapyrrolic ring systems, such as heme, chlorophylls, and vitamin B12. HMBS catalyzes the conversion of...; Region: HMBS; cl17708 313596001357 domain interfaces; other site 313596001358 active site 313596001359 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 313596001360 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 313596001361 tRNA; other site 313596001362 putative tRNA binding site [nucleotide binding]; other site 313596001363 putative NADP binding site [chemical binding]; other site 313596001364 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 313596001365 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 313596001366 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 313596001367 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 313596001368 Protein of unknown function (DUF1460); Region: DUF1460; pfam07313 313596001369 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 313596001370 Mechanosensitive ion channel; Region: MS_channel; pfam00924 313596001371 ferrochelatase; Reviewed; Region: hemH; PRK00035 313596001372 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 313596001373 C-terminal domain interface [polypeptide binding]; other site 313596001374 active site 313596001375 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 313596001376 active site 313596001377 N-terminal domain interface [polypeptide binding]; other site 313596001378 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA; Region: MATE_MepA_like; cd13143 313596001379 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 313596001380 Glycosyl transferases, related to UDP-glucuronosyltransferase [Carbohydrate transport and metabolism / Signal transduction mechanisms]; Region: COG1819 313596001381 This family includes the Gtfs, a group of homologous glycosyltransferases involved in the final stages of the biosynthesis of antibiotics vancomycin and related chloroeremomycin. Gtfs transfer sugar moieties from an activated NDP-sugar donor to the...; Region: GT1_Gtf_like; cd03784 313596001382 homodimer interface [polypeptide binding]; other site 313596001383 active site 313596001384 TDP-binding site; other site 313596001385 acceptor substrate-binding pocket; other site 313596001386 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 313596001387 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 313596001388 HlyD family secretion protein; Region: HlyD_3; pfam13437 313596001389 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 313596001390 Protein export membrane protein; Region: SecD_SecF; cl14618 313596001391 Predicted membrane protein [Function unknown]; Region: COG3817 313596001392 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 313596001393 Beta-lactamase; Region: Beta-lactamase; pfam00144 313596001394 Domain of unknown function (DUF3471); Region: DUF3471; pfam11954 313596001395 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl17499 313596001396 Myosin and Kinesin motor domain. These ATPases belong to the P-loop NTPase family and provide the driving force in myosin and kinesin mediated processes; Region: Motor_domain; cl00286 313596001397 Peptidase family M23; Region: Peptidase_M23; pfam01551 313596001398 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 313596001399 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 313596001400 dimer interface [polypeptide binding]; other site 313596001401 active site 313596001402 CoA binding pocket [chemical binding]; other site 313596001403 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 313596001404 Peptidase family M23; Region: Peptidase_M23; pfam01551 313596001405 TPR repeat; Region: TPR_11; pfam13414 313596001406 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 313596001407 binding surface 313596001408 TPR motif; other site 313596001409 TPR repeat; Region: TPR_11; pfam13414 313596001410 Homeodomain-like domain; Region: HTH_23; cl17451 313596001411 HTH-like domain; Region: HTH_21; pfam13276 313596001412 Integrase core domain; Region: rve; pfam00665 313596001413 Integrase core domain; Region: rve_3; cl15866 313596001414 RecB family nuclease, putative, TM0106 family; Region: TIGR03491 313596001415 RNase_H superfamily; Region: RNase_H_2; pfam13482 313596001416 Superfamily I DNA and RNA helicases and helicase subunits [DNA replication, recombination, and repair]; Region: COG1112 313596001417 Part of AAA domain; Region: AAA_19; pfam13245 313596001418 AAA domain; Region: AAA_12; pfam13087 313596001419 Domain of unknown function (DUF4407); Region: DUF4407; pfam14362 313596001420 Uncharacterized protein conserved in Bacteroidetes; Region: Bacuni_01323_like; cd12871 313596001421 Staphylococcal nuclease homologues; Region: SNc; smart00318 313596001422 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cd00175 313596001423 Catalytic site; other site 313596001424 Tetratricopeptide repeat; Region: TPR_12; pfam13424 313596001425 Tetratricopeptide repeat; Region: TPR_12; pfam13424 313596001426 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 313596001427 binding surface 313596001428 TPR motif; other site 313596001429 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 313596001430 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 313596001431 ATP binding site [chemical binding]; other site 313596001432 Mg2+ binding site [ion binding]; other site 313596001433 G-X-G motif; other site 313596001434 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 313596001435 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 313596001436 active site 313596001437 phosphorylation site [posttranslational modification] 313596001438 intermolecular recognition site; other site 313596001439 dimerization interface [polypeptide binding]; other site 313596001440 Protein of unknown function (DUF4007); Region: DUF4007; pfam13182 313596001441 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 313596001442 Protein of unknown function DUF262; Region: DUF262; pfam03235 313596001443 Uncharacterized conserved protein [Function unknown]; Region: COG1479 313596001444 Protein of unknown function (DUF1524); Region: DUF1524; pfam07510 313596001445 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 313596001446 cysteine desulfurase DndA; Region: DNA_S_dndA; TIGR03235 313596001447 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 313596001448 catalytic residue [active] 313596001449 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 313596001450 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 313596001451 Domain of Unknown Function (DUF1080); Region: DUF1080; pfam06439 313596001452 Ion transport protein; Region: Ion_trans; pfam00520 313596001453 Ion channel; Region: Ion_trans_2; pfam07885 313596001454 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 313596001455 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 313596001456 active site 313596001457 catalytic residues [active] 313596001458 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 313596001459 homodimer interface [polypeptide binding]; other site 313596001460 homotetramer interface [polypeptide binding]; other site 313596001461 active site pocket [active] 313596001462 cleavage site 313596001463 Protein of unknown function (DUF4242); Region: DUF4242; pfam14026 313596001464 PAP2, haloperoxidase_like subfamily. Haloperoxidases catalyze the oxidation of halides such as bromide or chloride by hydrogen peroxide, which results in subsequent halogenation of organic substrates, or halide-assisted disproportionation of hydrogen...; Region: PAP2_haloperoxidase; cd03398 313596001465 active site 313596001466 EcsC protein family; Region: EcsC; pfam12787 313596001467 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 313596001468 Beta-lactamase; Region: Beta-lactamase; pfam00144 313596001469 Outer membrane protein beta-barrel domain; Region: OMP_b-brl_2; pfam13568 313596001470 Sialidases or neuraminidases function to bind and hydrolyze terminal sialic acid residues from various glycoconjugates as well as playing roles in pathogenesis, bacterial nutrition and cellular interactions. They have a six-bladed, beta-propeller fold...; Region: Sialidase; cl17698 313596001471 Asp-box motif; other site 313596001472 catalytic site [active] 313596001473 VPS10 domain; Region: VPS10; smart00602 313596001474 Snf7; Region: Snf7; pfam03357 313596001475 Aminopeptidase P, N-terminal domain; Region: AMP_N; smart01011 313596001476 proline aminopeptidase P II; Provisional; Region: PRK10879 313596001477 Prolidase. E.C. 3.4.13.9. Also known as Xaa-Pro dipeptidase, X-Pro dipeptidase, proline dipeptidase., imidodipeptidase, peptidase D, gamma-peptidase. Catalyses hydrolysis of Xaa-Pro dipeptides; also acts on aminoacyl-hydroxyproline analogs. No action on...; Region: Prolidase; cd01087 313596001478 active site 313596001479 VPS10 domain; Region: VPS10; smart00602 313596001480 VPS10 domain; Region: VPS10; smart00602 313596001481 Protein of unknown function (DUF2721); Region: DUF2721; pfam11026 313596001482 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3295 313596001483 PepSY-associated TM helix; Region: PepSY_TM_1; pfam13172 313596001484 succinate dehydrogenase (or fumarate reductase) cytochrome b subunit, b558 family; Region: sdhC_b558_fam; TIGR02046 313596001485 Succinate:quinone oxidoreductase (SQR)-like Type B subfamily 2, transmembrane subunit; composed of proteins with similarity to the SQRs of Geobacter metallireducens and Corynebacterium glutamicum. SQR catalyzes the oxidation of succinate to fumarate...; Region: SQR_TypeB_2_TM; cd03498 313596001486 putative Iron-sulfur protein interface [polypeptide binding]; other site 313596001487 proximal heme binding site [chemical binding]; other site 313596001488 distal heme binding site [chemical binding]; other site 313596001489 putative dimer interface [polypeptide binding]; other site 313596001490 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK07573 313596001491 L-aspartate oxidase; Provisional; Region: PRK06175 313596001492 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 313596001493 succinate dehydrogenase/fumarate reductase iron-sulfur subunit; Validated; Region: PRK07570 313596001494 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 313596001495 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 313596001496 A type 1 glutamine amidotransferase (GATase1)-like domain found in PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_like; cd03134 313596001497 intracellular protease, PfpI family; Region: PfpI; TIGR01382 313596001498 proposed catalytic triad [active] 313596001499 conserved cys residue [active] 313596001500 methionine aminotransferase; Validated; Region: PRK09082 313596001501 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 313596001502 pyridoxal 5'-phosphate binding site [chemical binding]; other site 313596001503 homodimer interface [polypeptide binding]; other site 313596001504 catalytic residue [active] 313596001505 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 313596001506 Beta-lactamase; Region: Beta-lactamase; pfam00144 313596001507 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 313596001508 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 313596001509 Coenzyme A binding pocket [chemical binding]; other site 313596001510 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 313596001511 S23 ribosomal protein; Region: Ribosomal_S23p; cl05287 313596001512 four helix bundle protein; Region: TIGR02436 313596001513 Acyl CoA:acetate/3-ketoacid CoA transferase, alpha subunit [Lipid metabolism]; Region: AtoD; COG1788 313596001514 monofunctional biosynthetic peptidoglycan transglycosylase; Provisional; Region: mtgA; PRK00056 313596001515 Transglycosylase; Region: Transgly; pfam00912 313596001516 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 313596001517 GldH lipoprotein; Region: GldH_lipo; pfam14109 313596001518 PSP1 C-terminal conserved region; Region: PSP1; cl00770 313596001519 putative rhodanese-related sulfurtransferase; Provisional; Region: PRK00142 313596001520 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 313596001521 active site residue [active] 313596001522 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 313596001523 RecA/RadA recombinase [DNA replication, recombination, and repair]; Region: RecA; COG0468 313596001524 hexamer interface [polypeptide binding]; other site 313596001525 Walker A motif; other site 313596001526 ATP binding site [chemical binding]; other site 313596001527 Walker B motif; other site 313596001528 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 313596001529 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 313596001530 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 313596001531 DNA binding residues [nucleotide binding] 313596001532 Outer membrane protein beta-barrel domain; Region: OMP_b-brl_2; pfam13568 313596001533 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 313596001534 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 313596001535 putative acyl-acceptor binding pocket; other site 313596001536 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 313596001537 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 313596001538 active site 313596001539 HIGH motif; other site 313596001540 dimer interface [polypeptide binding]; other site 313596001541 KMSKS motif; other site 313596001542 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 313596001543 DNA protecting protein DprA; Region: dprA; TIGR00732 313596001544 Sporulation related domain; Region: SPOR; pfam05036 313596001545 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 313596001546 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 313596001547 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 313596001548 active site 313596001549 catalytic tetrad [active] 313596001550 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 313596001551 Peptidase family M23; Region: Peptidase_M23; pfam01551 313596001552 Domain of unknown function (DUF4292); Region: DUF4292; pfam14125 313596001553 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 313596001554 trimer interface [polypeptide binding]; other site 313596001555 active site 313596001556 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 313596001557 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 313596001558 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 313596001559 core domain interface [polypeptide binding]; other site 313596001560 delta subunit interface [polypeptide binding]; other site 313596001561 epsilon subunit interface [polypeptide binding]; other site 313596001562 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 313596001563 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 313596001564 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 313596001565 beta subunit interaction interface [polypeptide binding]; other site 313596001566 Walker A motif; other site 313596001567 ATP binding site [chemical binding]; other site 313596001568 Walker B motif; other site 313596001569 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 313596001570 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 313596001571 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 313596001572 F0F1 ATP synthase subunit B; Provisional; Region: PRK14471 313596001573 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 313596001574 ATP synthase A chain; Region: ATP-synt_A; cl00413 313596001575 Putative F0F1-ATPase subunit (ATPase_gene1); Region: ATPase_gene1; cl09754 313596001576 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 313596001577 type IV pilus biogenesis/stability protein PilW; Region: type_IV_pilW; TIGR02521 313596001578 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 313596001579 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 313596001580 Walker A/P-loop; other site 313596001581 ATP binding site [chemical binding]; other site 313596001582 Q-loop/lid; other site 313596001583 ABC transporter signature motif; other site 313596001584 Walker B; other site 313596001585 D-loop; other site 313596001586 H-loop/switch region; other site 313596001587 phenylacetate-CoA oxygenase/reductase, PaaK subunit; Region: PA_CoA_Oxy5; TIGR02160 313596001588 NAD(P) binding domain of ferredoxin reductase like phenylacetic acid (PA) degradation oxidoreductase. PA oxidoreductases of E. coli hydroxylate PA-CoA in the second step of PA degradation. Members of this group typically fuse a ferredoxin reductase-like...; Region: PA_degradation_oxidoreductase_like; cd06214 313596001589 FAD binding pocket [chemical binding]; other site 313596001590 FAD binding motif [chemical binding]; other site 313596001591 phosphate binding motif [ion binding]; other site 313596001592 beta-alpha-beta structure motif; other site 313596001593 NAD(p) ribose binding residues [chemical binding]; other site 313596001594 NAD binding pocket [chemical binding]; other site 313596001595 NAD(P)-pyrophosphate-nicotinamide binding residues [chemical binding]; other site 313596001596 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 313596001597 catalytic loop [active] 313596001598 iron binding site [ion binding]; other site 313596001599 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 313596001600 Patatin-like phospholipase domain containing protein 6, protein 7, and fungal NTE1; Region: Pat_PNPLA6_PNPLA7_NTE1_like; cd07205 313596001601 active site 313596001602 nucleophile elbow; other site 313596001603 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 313596001604 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 313596001605 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 313596001606 protein binding site [polypeptide binding]; other site 313596001607 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 313596001608 protein binding site [polypeptide binding]; other site 313596001609 alkylhydroperoxidase/carboxymuconolactone decarboxylase family protein; Region: perox_w_seleSAM; TIGR04169 313596001610 radical SAM/Cys-rich domain protein; Region: rSAM_SeCys; TIGR04167 313596001611 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 313596001612 FeS/SAM binding site; other site 313596001613 Protein of unknown function (DUF3641); Region: DUF3641; pfam12345 313596001614 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 313596001615 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 313596001616 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 313596001617 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 313596001618 putative active site [active] 313596001619 Protein of unknown function (DUF4254); Region: DUF4254; pfam14063 313596001620 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 313596001621 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 313596001622 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 313596001623 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 313596001624 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 313596001625 UDP-glucuronate decarboxylase (UGD) and related proteins, extended (e) SDRs; Region: UGD_SDR_e; cd05230 313596001626 NAD binding site [chemical binding]; other site 313596001627 putative substrate binding site 2 [chemical binding]; other site 313596001628 putative substrate binding site 1 [chemical binding]; other site 313596001629 active site 313596001630 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 313596001631 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 313596001632 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 313596001633 UDP-glucose/GDP-mannose dehydrogenase family, UDP binding domain; Region: UDPG_MGDP_dh_C; pfam03720 313596001634 Undecaprenyl-phosphate glucose phosphotransferase; Region: WcaJ_sugtrans; TIGR03023 313596001635 Bacterial sugar transferase; Region: Bac_transf; pfam02397 313596001636 Teichoic acid biosynthesis proteins [Cell envelope biogenesis, outer membrane]; Region: WecG; COG1922 313596001637 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 313596001638 This family is most closely related to the GT1 family of glycosyltransferases. ExpE7 in Sinorhizobium meliloti has been shown to be involved in the biosynthesis of galactoglucans (exopolysaccharide II); Region: GT1_ExpE7_like; cd03823 313596001639 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 313596001640 O-Antigen ligase; Region: Wzy_C; pfam04932 313596001641 Sulfotransferase domain; Region: Sulfotransfer_1; pfam00685 313596001642 sulfotransferase; Region: PLN02164 313596001643 Sulfotransferase domain; Region: Sulfotransfer_1; pfam00685 313596001644 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 313596001645 Wzx, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_Wzx_like; cd13128 313596001646 GDP-fucose synthetase, extended (e) SDRs; Region: GDP_FS_SDR_e; cd05239 313596001647 GDP-4-keto-6-deoxymannose-3, 5-epimerase-4-reductase; Region: PLN02725 313596001648 NADP binding site [chemical binding]; other site 313596001649 active site 313596001650 putative substrate binding site [chemical binding]; other site 313596001651 GDP-D-mannose dehydratase [Cell envelope biogenesis, outer membrane]; Region: Gmd; COG1089 313596001652 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 313596001653 NADP-binding site; other site 313596001654 homotetramer interface [polypeptide binding]; other site 313596001655 substrate binding site [chemical binding]; other site 313596001656 homodimer interface [polypeptide binding]; other site 313596001657 active site 313596001658 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 313596001659 NADP binding site [chemical binding]; other site 313596001660 active site 313596001661 putative substrate binding site [chemical binding]; other site 313596001662 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: dTDP_sugar_isom; cl17405 313596001663 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 313596001664 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 313596001665 substrate binding site; other site 313596001666 tetramer interface; other site 313596001667 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 313596001668 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 313596001669 NAD binding site [chemical binding]; other site 313596001670 substrate binding site [chemical binding]; other site 313596001671 homodimer interface [polypeptide binding]; other site 313596001672 active site 313596001673 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 313596001674 GH3 auxin-responsive promoter; Region: GH3; pfam03321 313596001675 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 313596001676 Peptidase family M23; Region: Peptidase_M23; pfam01551 313596001677 mttA/Hcf106 family; Region: MttA_Hcf106; pfam02416 313596001678 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 313596001679 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 313596001680 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 313596001681 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 313596001682 ligand binding site [chemical binding]; other site 313596001683 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 313596001684 N-acetyl-D-glucosamine binding site [chemical binding]; other site 313596001685 catalytic residue [active] 313596001686 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 313596001687 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 313596001688 Phosphoglycerate kinase; Region: PGK; pfam00162 313596001689 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 313596001690 substrate binding site [chemical binding]; other site 313596001691 hinge regions; other site 313596001692 ADP binding site [chemical binding]; other site 313596001693 catalytic site [active] 313596001694 DNA polymerase III, delta' subunit; Region: holB; TIGR00678 313596001695 DNA polymerase III subunit delta'; Validated; Region: PRK08485 313596001696 Outer membrane protein (OmpH-like); Region: OmpH; pfam03938 313596001697 Methyltransferase domain; Region: Methyltransf_23; pfam13489 313596001698 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 313596001699 S-adenosylmethionine binding site [chemical binding]; other site 313596001700 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 313596001701 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 313596001702 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 313596001703 Uncharacterized protein family UPF0054; Region: UPF0054; pfam02130 313596001704 chromosome segregation protein SMC, primarily archaeal type; Region: SMC_prok_A; TIGR02169 313596001705 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 313596001706 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 313596001707 HIGH motif; other site 313596001708 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 313596001709 active site 313596001710 KMSKS motif; other site 313596001711 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 313596001712 A subgroup of the band 7 domain of flotillin (reggie) like proteins. This subgroup contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. Many of these band 7 domain-containing proteins are lipid raft-associated. Individual...; Region: Band_7_4; cd03407 313596001713 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 313596001714 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 313596001715 active site 313596001716 HIGH motif; other site 313596001717 nucleotide binding site [chemical binding]; other site 313596001718 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 313596001719 active site 313596001720 KMSKS motif; other site 313596001721 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 313596001722 Immunoglobulin I-set domain; Region: I-set; pfam07679 313596001723 Immunoglobulin domain; Region: Ig; cl11960 313596001724 C-terminal domain of CHU protein family; Region: CHU_C; pfam13585 313596001725 Protein of unknown function (DUF3308); Region: DUF3308; pfam11751 313596001726 Parallel beta-helix repeat of pectate lyase; Region: PbH1; pfam13573 313596001727 Parallel beta-helix repeat of pectate lyase; Region: PbH1; pfam13573 313596001728 Parallel beta-helix repeat of pectate lyase; Region: PbH1; pfam13573 313596001729 gliding motility-associated C-terminal domain; Region: Bac_Flav_CTERM; TIGR04131 313596001730 Protein of unknown function (DUF3308); Region: DUF3308; pfam11751 313596001731 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 313596001732 active site 313596001733 LysE type translocator; Region: LysE; cl00565 313596001734 Protein of unknown function (DUF2807); Region: DUF2807; pfam10988 313596001735 ribonuclease R; Region: RNase_R; TIGR02063 313596001736 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 313596001737 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 313596001738 RNB domain; Region: RNB; pfam00773 313596001739 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 313596001740 RNA binding site [nucleotide binding]; other site 313596001741 Ribose/Galactose Isomerase; Region: LacAB_rpiB; pfam02502 313596001742 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 313596001743 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 313596001744 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 313596001745 Coenzyme A binding pocket [chemical binding]; other site 313596001746 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 313596001747 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 313596001748 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 313596001749 Membrane-bound PQQ-dependent glucose dehydrogenase; Region: PQQ_mGDH; cd10280 313596001750 Trp docking motif [polypeptide binding]; other site 313596001751 putative active site [active] 313596001752 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 313596001753 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 313596001754 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 313596001755 Fructosamine kinase; Region: Fructosamin_kin; cl17579 313596001756 Phosphotransferase enzyme family; Region: APH; pfam01636 313596001757 coenzyme PQQ biosynthesis protein B; Region: PQQ_syn_pqqB; TIGR02108 313596001758 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 313596001759 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 313596001760 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 313596001761 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 313596001762 protein binding site [polypeptide binding]; other site 313596001763 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 313596001764 Catalytic dyad [active] 313596001765 ribonuclease P; Reviewed; Region: rnpA; PRK01903 313596001766 Glutamate-cysteine ligase family 2(GCS2); Region: GCS2; cl00954 313596001767 FOG: CBS domain [General function prediction only]; Region: COG0517 313596001768 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cd02205 313596001769 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 313596001770 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA) subfamily; Region: M14_ASTE_ASPA_like; cd06230 313596001771 active site 313596001772 Zn binding site [ion binding]; other site 313596001773 Peptidase M1 family containing bacterial Aminopeptidase N; Region: M1_APN_5; cd09604 313596001774 Zn binding site [ion binding]; other site 313596001775 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 313596001776 Peptidase S8 family domain in Subtilisin_Novo-like proteins; Region: Peptidases_S8_Subtilisin_Novo-like; cd07483 313596001777 active site 313596001778 catalytic triad [active] 313596001779 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 313596001780 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 313596001781 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 313596001782 TrkA-N domain; Region: TrkA_N; pfam02254 313596001783 GTP-binding protein LepA; Provisional; Region: PRK05433 313596001784 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 313596001785 G1 box; other site 313596001786 putative GEF interaction site [polypeptide binding]; other site 313596001787 GTP/Mg2+ binding site [chemical binding]; other site 313596001788 Switch I region; other site 313596001789 G2 box; other site 313596001790 G3 box; other site 313596001791 Switch II region; other site 313596001792 G4 box; other site 313596001793 G5 box; other site 313596001794 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 313596001795 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 313596001796 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 313596001797 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 313596001798 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 313596001799 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 313596001800 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 313596001801 M28 Zn-Peptidases containing a PA domain insert and associated with a PDZ domain; Region: M28_like_PA_PDZ_associated; cd05663 313596001802 Peptidase family M28; Region: Peptidase_M28; pfam04389 313596001803 metal binding site [ion binding]; metal-binding site 313596001804 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 313596001805 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 313596001806 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 313596001807 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 313596001808 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 313596001809 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 313596001810 FMN binding site [chemical binding]; other site 313596001811 active site 313596001812 catalytic residues [active] 313596001813 substrate binding site [chemical binding]; other site 313596001814 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 313596001815 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 313596001816 FtsX-like permease family; Region: FtsX; pfam02687 313596001817 Ribosome-binding factor A; Region: RBFA; pfam02033 313596001818 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 313596001819 Methylmalonyl-CoA epimerase (MMCE); Region: MMCE; cd07249 313596001820 dimer interface [polypeptide binding]; other site 313596001821 substrate binding site [chemical binding]; other site 313596001822 metal binding site [ion binding]; metal-binding site 313596001823 Predicted membrane protein [Function unknown]; Region: COG2259 313596001824 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 313596001825 DNA binding site [nucleotide binding] 313596001826 active site 313596001827 Int/Topo IB signature motif; other site 313596001828 undecaprenyldiphospho-muramoylpentapeptide beta-N-acetylglucosaminyltransferase; Reviewed; Region: PRK12446 313596001829 AAA domain; Region: AAA_30; pfam13604 313596001830 AAA domain; Region: AAA_11; pfam13086 313596001831 Family description; Region: UvrD_C_2; pfam13538 313596001832 Protein of unknown function (DUF3696); Region: DUF3696; pfam12476 313596001833 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 313596001834 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 313596001835 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 313596001836 ATP binding site [chemical binding]; other site 313596001837 putative Mg++ binding site [ion binding]; other site 313596001838 Domain of unknown function (DUF3387); Region: DUF3387; pfam11867 313596001839 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 313596001840 active site 313596001841 8-oxo-dGMP binding site [chemical binding]; other site 313596001842 nudix motif; other site 313596001843 metal binding site [ion binding]; metal-binding site 313596001844 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 313596001845 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 313596001846 HsdM N-terminal domain; Region: HsdM_N; pfam12161 313596001847 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 313596001848 Methyltransferase domain; Region: Methyltransf_26; pfam13659 313596001849 S-adenosylmethionine binding site [chemical binding]; other site 313596001850 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 313596001851 Methyltransferase domain; Region: Methyltransf_26; pfam13659 313596001852 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 313596001853 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 313596001854 WYL domain; Region: WYL; pfam13280 313596001855 Uncharacterized protein conserved in bacteria (DUF2188); Region: DUF2188; pfam09954 313596001856 SnoaL-like domain; Region: SnoaL_2; pfam12680 313596001857 SnoaL-like domain; Region: SnoaL_2; pfam12680 313596001858 Protease II [Amino acid transport and metabolism]; Region: PtrB; COG1770 313596001859 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 313596001860 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 313596001861 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 313596001862 active site 313596001863 phosphorylation site [posttranslational modification] 313596001864 intermolecular recognition site; other site 313596001865 dimerization interface [polypeptide binding]; other site 313596001866 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 313596001867 Response regulator receiver domain; Region: Response_reg; pfam00072 313596001868 active site 313596001869 phosphorylation site [posttranslational modification] 313596001870 intermolecular recognition site; other site 313596001871 dimerization interface [polypeptide binding]; other site 313596001872 PAS domain; Region: PAS_9; pfam13426 313596001873 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 313596001874 PAS fold; Region: PAS_3; pfam08447 313596001875 putative active site [active] 313596001876 heme pocket [chemical binding]; other site 313596001877 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 313596001878 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 313596001879 ATP binding site [chemical binding]; other site 313596001880 Mg2+ binding site [ion binding]; other site 313596001881 G-X-G motif; other site 313596001882 Peptidase family M54, also called archaemetzincins or archaelysins; Region: Peptidase_M54; cl17349 313596001883 active site 313596001884 membrane-bound lytic transglycosylase F; Provisional; Region: PRK10859 313596001885 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 313596001886 substrate binding pocket [chemical binding]; other site 313596001887 membrane-bound complex binding site; other site 313596001888 hinge residues; other site 313596001889 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 313596001890 N-acetyl-D-glucosamine binding site [chemical binding]; other site 313596001891 catalytic residue [active] 313596001892 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 313596001893 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 313596001894 putative switch regulator; other site 313596001895 non-specific DNA interactions [nucleotide binding]; other site 313596001896 DNA binding site [nucleotide binding] 313596001897 sequence specific DNA binding site [nucleotide binding]; other site 313596001898 putative cAMP binding site [chemical binding]; other site 313596001899 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 313596001900 high affinity sulphate transporter 1; Region: sulP; TIGR00815 313596001901 Sulfate transporter family; Region: Sulfate_transp; pfam00916 313596001902 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 313596001903 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 313596001904 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 313596001905 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cd00158 313596001906 active site residue [active] 313596001907 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cd00158 313596001908 active site residue [active] 313596001909 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cd00158 313596001910 active site residue [active] 313596001911 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 313596001912 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 313596001913 quinohemoprotein amine dehydrogenase, alpha subunit; Region: QH_alpha; TIGR03908 313596001914 sulfite oxidase; Provisional; Region: PLN00177 313596001915 Subgroup of sulfite oxidase (SO) family molybdopterin binding domains that contains conserved dimerization domain. This molybdopterin cofactor (Moco) binding domain is found in a variety of oxidoreductases, main members of this family are nitrate...; Region: SO_family_Moco_dimer; cd02110 313596001916 Moco binding site; other site 313596001917 metal coordination site [ion binding]; other site 313596001918 dimerization interface [polypeptide binding]; other site 313596001919 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 313596001920 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 313596001921 Domain of unknown function (DUF4341); Region: DUF4341; pfam14241 313596001922 Predicted transporter component [General function prediction only]; Region: COG2391 313596001923 Sulphur transport; Region: Sulf_transp; pfam04143 313596001924 DNA-binding HTH domain-containing proteins [Transcription]; Region: CsgD; COG2771 313596001925 DNA binding residues [nucleotide binding] 313596001926 dimerization interface [polypeptide binding]; other site 313596001927 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 313596001928 Cna protein B-type domain; Region: Cna_B_2; pfam13715 313596001929 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 313596001930 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 313596001931 starch binding outer membrane protein SusD; Region: SusD; cl17845 313596001932 SusD family; Region: SusD; pfam07980 313596001933 Concanavalin A-like lectin/glucanases superfamily; Region: Laminin_G_3; pfam13385 313596001934 Concanavalin A-like lectin/glucanases superfamily; Region: Laminin_G_3; pfam13385 313596001935 Concanavalin A-like lectin/glucanases superfamily; Region: Laminin_G_3; pfam13385 313596001936 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5368 313596001937 Putative glucoamylase; Region: Glycoamylase; pfam10091 313596001938 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5368 313596001939 Putative glucoamylase; Region: Glycoamylase; pfam10091 313596001940 Hydrolases of the alpha/beta superfamily [General function prediction only]; Region: COG1073 313596001941 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 313596001942 Exonuclease-Endonuclease-Phosphatase domain; uncharacterized family 1; Region: EEP-1; cd09083 313596001943 putative catalytic site [active] 313596001944 putative metal binding site [ion binding]; other site 313596001945 putative phosphate binding site [ion binding]; other site 313596001946 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 313596001947 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u1; cd11477 313596001948 Na binding site [ion binding]; other site 313596001949 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4299 313596001950 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 313596001951 Lumazine binding domain; Region: Lum_binding; pfam00677 313596001952 Lumazine binding domain; Region: Lum_binding; pfam00677 313596001953 4-hydroxythreonine-4-phosphate dehydrogenase; Region: pdxA; TIGR00557 313596001954 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 313596001955 Uncharacterized ACR, COG1399; Region: DUF177; pfam02620 313596001956 50S ribosomal protein L32; Validated; Region: rpmF; PRK01110 313596001957 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 313596001958 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 313596001959 dimer interface [polypeptide binding]; other site 313596001960 active site 313596001961 CoA binding pocket [chemical binding]; other site 313596001962 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 313596001963 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 313596001964 carboxyltransferase (CT) interaction site; other site 313596001965 biotinylation site [posttranslational modification]; other site 313596001966 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 313596001967 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 313596001968 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 313596001969 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 313596001970 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 313596001971 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 313596001972 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 313596001973 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 313596001974 Walker A/P-loop; other site 313596001975 ATP binding site [chemical binding]; other site 313596001976 Q-loop/lid; other site 313596001977 ABC transporter signature motif; other site 313596001978 Walker B; other site 313596001979 D-loop; other site 313596001980 H-loop/switch region; other site 313596001981 Serine proteases of the peptidase family S9A [Amino acid transport and metabolism]; Region: COG1505 313596001982 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 313596001983 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 313596001984 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 313596001985 large-conductance mechanosensitive channel; Provisional; Region: mscL; PRK13952 313596001986 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 313596001987 Alanine racemase [Cell envelope biogenesis, outer membrane]; Region: Alr; COG0787 313596001988 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 313596001989 active site 313596001990 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 313596001991 dimer interface [polypeptide binding]; other site 313596001992 substrate binding site [chemical binding]; other site 313596001993 catalytic residues [active] 313596001994 thymidine kinase; Provisional; Region: PRK04296 313596001995 Predicted methyltransferases [General function prediction only]; Region: COG0313 313596001996 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 313596001997 putative SAM binding site [chemical binding]; other site 313596001998 putative homodimer interface [polypeptide binding]; other site 313596001999 AAA domain; Region: AAA_21; pfam13304 313596002000 uncharacterized peroxidase-related enzyme; Region: peroxid_rel; TIGR01926 313596002001 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 313596002002 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 313596002003 Predicted redox protein, regulator of disulfide bond formation [Posttranslational modification, protein turnover, chaperones]; Region: COG1765 313596002004 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 313596002005 DHH family; Region: DHH; pfam01368 313596002006 DHHA1 domain; Region: DHHA1; pfam02272 313596002007 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 313596002008 putative active site [active] 313596002009 putative metal binding site [ion binding]; other site 313596002010 6-pyruvoyl tetrahydropterin synthase; Region: PTPS; pfam01242 313596002011 active site 313596002012 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 313596002013 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 313596002014 Walker A/P-loop; other site 313596002015 ATP binding site [chemical binding]; other site 313596002016 Q-loop/lid; other site 313596002017 ABC transporter signature motif; other site 313596002018 Walker B; other site 313596002019 D-loop; other site 313596002020 H-loop/switch region; other site 313596002021 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 313596002022 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 313596002023 substrate binding site [chemical binding]; other site 313596002024 oxyanion hole (OAH) forming residues; other site 313596002025 trimer interface [polypeptide binding]; other site 313596002026 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 313596002027 DinF and similar proteins, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_DinF_like; cd13136 313596002028 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 313596002029 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 313596002030 Coenzyme A binding pocket [chemical binding]; other site 313596002031 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 313596002032 Ligand Binding Site [chemical binding]; other site 313596002033 short chain dehydrogenase; Provisional; Region: PRK07326 313596002034 classical (c) SDR, subgroup 4; Region: SDR_c4; cd08929 313596002035 putative NAD(P) binding site [chemical binding]; other site 313596002036 homodimer interface [polypeptide binding]; other site 313596002037 active site 313596002038 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 313596002039 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 313596002040 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 313596002041 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 313596002042 ligand binding site [chemical binding]; other site 313596002043 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 313596002044 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 313596002045 substrate-cofactor binding pocket; other site 313596002046 pyridoxal 5'-phosphate binding site [chemical binding]; other site 313596002047 catalytic residue [active] 313596002048 ATP-dependent exoDNAse (exonuclease V) beta subunit (contains helicase and exonuclease domains) [DNA replication, recombination, and repair]; Region: RecB; COG1074 313596002049 Family description; Region: UvrD_C_2; pfam13538 313596002050 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 313596002051 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 313596002052 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 313596002053 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 313596002054 Glutamine phosphoribosylpyrophosphate amidotransferase [Nucleotide transport and metabolism]; Region: PurF; COG0034 313596002055 Glutamine amidotransferases class-II (GATase). The glutaminase domain catalyzes an amide nitrogen transfer from glutamine to the appropriate substrate. In this process, glutamine is hydrolyzed to glutamic acid and ammonia. This domain is related to...; Region: Gn_AT_II; cl00319 313596002056 active site 313596002057 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 313596002058 active site 313596002059 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 313596002060 ribokinase/pfkB superfamily: Kinases that accept a wide variety of substrates, including carbohydrates and aromatic small molecules, all are phosphorylated at a hydroxyl group. The superfamily includes ribokinase, fructokinase, ketohexokinase; Region: ribokinase_pfkB_like; cl00192 313596002061 substrate binding site [chemical binding]; other site 313596002062 ATP binding site [chemical binding]; other site 313596002063 Predicted double-stranded RNA/RNA-DNA hybrid binding protein [General function prediction only]; Region: COG3341 313596002064 Caulimovirus viroplasmin; Region: Cauli_VI; pfam01693 313596002065 RNase H is an endonuclease that cleaves the RNA strand of an RNA/DNA hybrid in a sequence non-specific manner; Region: RNase_H; cd06222 313596002066 active site 313596002067 RNA/DNA hybrid binding site [nucleotide binding]; other site 313596002068 Folate-dependent phosphoribosylglycinamide formyltransferase PurN [Nucleotide transport and metabolism]; Region: PurN; COG0299 313596002069 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 313596002070 active site 313596002071 substrate binding site [chemical binding]; other site 313596002072 cosubstrate binding site; other site 313596002073 catalytic site [active] 313596002074 acyl carrier protein; Provisional; Region: acpP; PRK00982 313596002075 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 313596002076 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 313596002077 dimer interface [polypeptide binding]; other site 313596002078 active site 313596002079 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 313596002080 dimerization interface [polypeptide binding]; other site 313596002081 active site 313596002082 metal binding site [ion binding]; metal-binding site 313596002083 Double-stranded RNA binding motif; Region: DSRM; smart00358 313596002084 Pyruvate kinase [Carbohydrate transport and metabolism]; Region: PykF; COG0469 313596002085 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 313596002086 active site 313596002087 domain interfaces; other site 313596002088 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 313596002089 active site 313596002090 DNA polymerase IV; Validated; Region: PRK02406 313596002091 DNA binding site [nucleotide binding] 313596002092 CYTH-like Clostridium thermocellum TTM-like subgroup 1; Region: CYTH-like_CthTTM-like_1; cd07891 313596002093 putative active site [active] 313596002094 putative metal binding residues [ion binding]; other site 313596002095 signature motif; other site 313596002096 putative dimer interface [polypeptide binding]; other site 313596002097 putative phosphate binding site [ion binding]; other site 313596002098 YCII-related domain; Region: YCII; cl00999 313596002099 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 313596002100 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 313596002101 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 313596002102 dimer interface [polypeptide binding]; other site 313596002103 motif 1; other site 313596002104 active site 313596002105 motif 2; other site 313596002106 motif 3; other site 313596002107 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 313596002108 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 313596002109 Sulfate transporter family; Region: Sulfate_transp; pfam00916 313596002110 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 313596002111 Sulfate transporter family; Region: Sulfate_transp; pfam00916 313596002112 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 313596002113 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_cladeC; cd03378 313596002114 active site clefts [active] 313596002115 zinc binding site [ion binding]; other site 313596002116 dimer interface [polypeptide binding]; other site 313596002117 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 313596002118 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 313596002119 Sulfate transporter family; Region: Sulfate_transp; pfam00916 313596002120 Bacterial SH3 domain; Region: SH3_3; pfam08239 313596002121 Oxygen tolerance; Region: BatD; pfam13584 313596002122 TPR repeat; Region: TPR_11; pfam13414 313596002123 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 313596002124 binding surface 313596002125 TPR motif; other site 313596002126 Tetratricopeptide repeat; Region: TPR_12; pfam13424 313596002127 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cl00057 313596002128 metal ion-dependent adhesion site (MIDAS); other site 313596002129 VWA BatA type: Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b...; Region: vWA_BatA_type; cd01467 313596002130 metal ion-dependent adhesion site (MIDAS); other site 313596002131 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 313596002132 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cd00198 313596002133 metal ion-dependent adhesion site (MIDAS); other site 313596002134 MoxR-like ATPases [General function prediction only]; Region: COG0714 313596002135 ATPase family associated with various cellular activities (AAA); Region: AAA_3; pfam07726 313596002136 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 313596002137 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 313596002138 active site 313596002139 catalytic tetrad [active] 313596002140 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 313596002141 classical (c) SDR, subgroup 5; Region: SDR_c5; cd05346 313596002142 putative NAD(P) binding site [chemical binding]; other site 313596002143 homotetramer interface [polypeptide binding]; other site 313596002144 homodimer interface [polypeptide binding]; other site 313596002145 active site 313596002146 Divergent AAA domain; Region: AAA_4; pfam04326 313596002147 Alpha amylase catalytic domain found in Amylosucrase; Region: AmyAc_Amylosucrase; cd11324 313596002148 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 313596002149 active site 313596002150 catalytic site [active] 313596002151 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 313596002152 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 313596002153 putative substrate binding site [chemical binding]; other site 313596002154 putative ATP binding site [chemical binding]; other site 313596002155 A subgroup of the band 7 domain of flotillin (reggie) like proteins. This subgroup contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. Many of these band 7 domain-containing proteins are lipid raft-associated. Individual...; Region: Band_7_5; cd03408 313596002156 Domain of unknown function (DUF4339); Region: DUF4339; pfam14237 313596002157 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 313596002158 phosphoprotein phosphatases of the metallophosphatase superfamily, metallophosphatase domain; Region: MPP_PPP_family; cd00144 313596002159 active site 313596002160 metal binding site [ion binding]; metal-binding site 313596002161 NADH dehydrogenase subunit E; Provisional; Region: PRK12373 313596002162 aldehyde dehydrogenase family 7 member; Region: PLN02315 313596002163 NAD+-dependent alpha-aminoadipic semialdehyde dehydrogenase, ALDH family members 7A1 and 7B; Region: ALDH_F7_AASADH; cd07130 313596002164 tetrameric interface [polypeptide binding]; other site 313596002165 NAD binding site [chemical binding]; other site 313596002166 catalytic residues [active] 313596002167 3-hydroxyanthranilate 3,4-dioxygenase; Provisional; Region: PRK13264 313596002168 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 313596002169 Colicin V production protein; Region: Colicin_V; cl00567 313596002170 Uncharacterized enzyme involved in biosynthesis of extracellular polysaccharides [General function prediction only]; Region: COG2329 313596002171 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GlpA; COG0578 313596002172 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GpsA; COG0240 313596002173 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 313596002174 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 313596002175 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 313596002176 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 313596002177 Sulfate transporter family; Region: Sulfate_transp; pfam00916 313596002178 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 313596002179 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 313596002180 Cytochrome c; Region: Cytochrom_C; pfam00034 313596002181 putative hydrolase; Provisional; Region: PRK10985 313596002182 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 313596002183 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 313596002184 FMN binding site [chemical binding]; other site 313596002185 substrate binding site [chemical binding]; other site 313596002186 putative catalytic residue [active] 313596002187 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 313596002188 active site 313596002189 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 313596002190 EamA-like transporter family; Region: EamA; pfam00892 313596002191 EamA-like transporter family; Region: EamA; pfam00892 313596002192 Arsenate Reductase (ArsC) family; composed of TRX-fold arsenic reductases and similar proteins including the transcriptional regulator, Spx. ArsC catalyzes the reduction of arsenate [As(V)] to arsenite [As(III)], using reducing equivalents derived from...; Region: ArsC_family; cd02977 313596002193 ArsC family; Region: ArsC; pfam03960 313596002194 catalytic residue [active] 313596002195 Protein of unknown function (DUF3298); Region: DUF3298; pfam11738 313596002196 Cys/Met metabolism PLP-dependent enzyme; Region: Cys_Met_Meta_PP; pfam01053 313596002197 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 313596002198 homodimer interface [polypeptide binding]; other site 313596002199 substrate-cofactor binding pocket; other site 313596002200 pyridoxal 5'-phosphate binding site [chemical binding]; other site 313596002201 catalytic residue [active] 313596002202 glutamate dehydrogenase; Provisional; Region: PRK09414 313596002203 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 313596002204 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 313596002205 NAD(P) binding site [chemical binding]; other site 313596002206 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 313596002207 Recombination protein O N terminal; Region: RecO_N; pfam11967 313596002208 Recombination protein O C terminal; Region: RecO_C; pfam02565 313596002209 Cna protein B-type domain; Region: Cna_B_2; pfam13715 313596002210 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 313596002211 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 313596002212 N-terminal plug; other site 313596002213 ligand-binding site [chemical binding]; other site 313596002214 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK06039 313596002215 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 313596002216 HIGH motif; other site 313596002217 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 313596002218 active site 313596002219 KMSKS motif; other site 313596002220 Anticodon-binding domain of archaeal, bacterial, and eukaryotic cytoplasmic isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_ABEc; cd07961 313596002221 tRNA binding surface [nucleotide binding]; other site 313596002222 anticodon binding site; other site 313596002223 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 313596002224 lipoprotein signal peptidase; Provisional; Region: PRK14787 313596002225 lipoprotein signal peptidase; Provisional; Region: PRK14788 313596002226 5-formyltetrahydrofolate cyclo-ligase [Coenzyme metabolism]; Region: COG0212; cl00360 313596002227 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 313596002228 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 313596002229 GIY-YIG motif/motif A; other site 313596002230 active site 313596002231 catalytic site [active] 313596002232 putative DNA binding site [nucleotide binding]; other site 313596002233 metal binding site [ion binding]; metal-binding site 313596002234 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 313596002235 H3TH domains of structure-specific 5' nucleases (or flap endonuclease-1-like) involved in DNA replication, repair, and recombination; Region: H3TH_StructSpec-5'-nucleases; cl14815 313596002236 DNA binding site [nucleotide binding] 313596002237 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 313596002238 Patatin-like phospholipase domain containing protein 6, protein 7, and fungal NTE1; Region: Pat_PNPLA6_PNPLA7_NTE1_like; cd07205 313596002239 active site 313596002240 nucleophile elbow; other site 313596002241 Surface antigen; Region: Bac_surface_Ag; pfam01103 313596002242 4-hydroxyphenylpyruvate dioxygenase; Region: 4HPPD; TIGR01263 313596002243 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 313596002244 dimer interface [polypeptide binding]; other site 313596002245 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 313596002246 active site 313596002247 Fe binding site [ion binding]; other site 313596002248 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 313596002249 Tryptophan 2,3-dioxygenase; Region: Trp_dioxygenase; cl03994 313596002250 Peptidase family M23; Region: Peptidase_M23; pfam01551 313596002251 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 313596002252 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 313596002253 active site 313596002254 dimer interface [polypeptide binding]; other site 313596002255 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 313596002256 dimer interface [polypeptide binding]; other site 313596002257 active site 313596002258 Cna protein B-type domain; Region: Cna_B_2; pfam13715 313596002259 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 313596002260 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 313596002261 Domain of Unknown Function (DUF1080); Region: DUF1080; pfam06439 313596002262 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 313596002263 putative catalytic site [active] 313596002264 putative metal binding site [ion binding]; other site 313596002265 putative phosphate binding site [ion binding]; other site 313596002266 Cna protein B-type domain; Region: Cna_B_2; pfam13715 313596002267 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 313596002268 Lamin Tail Domain; Region: LTD; pfam00932 313596002269 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 313596002270 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 313596002271 Xanthomonas campestris XC1258 and related proteins, members of the nitrilase superfamily (putative class 13 nitrilases); Region: Xc-1258_like; cd07575 313596002272 putative active site [active] 313596002273 catalytic triad [active] 313596002274 dimer interface [polypeptide binding]; other site 313596002275 multimer interface [polypeptide binding]; other site 313596002276 Bacterial Ig-like domain; Region: Big_5; pfam13205 313596002277 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 313596002278 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 313596002279 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 313596002280 active site 313596002281 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 313596002282 glycyl-tRNA synthetase; Provisional; Region: PRK04173 313596002283 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 313596002284 motif 1; other site 313596002285 Glycyl-tRNA synthetase (GlyRS)-like class II core catalytic domain. GlyRS functions as a homodimer in eukaryotes, archaea and some bacteria and as a heterotetramer in the remainder of prokaryotes. It is responsible for the attachment of glycine to the 3...; Region: GlyRS-like_core; cd00774 313596002286 active site 313596002287 motif 2; other site 313596002288 motif 3; other site 313596002289 GlyRS Glycyl-anticodon binding domain. GlyRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding, so that the activated amino acid is...; Region: GlyRS_anticodon; cd00858 313596002290 anticodon binding site; other site 313596002291 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 313596002292 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 313596002293 Neisseria meningitides Nape-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Nape_like_AP-endo; cd10281 313596002294 putative active site [active] 313596002295 putative catalytic site [active] 313596002296 putative DNA binding site [nucleotide binding]; other site 313596002297 putative phosphate binding site [ion binding]; other site 313596002298 metal binding site A [ion binding]; metal-binding site 313596002299 putative AP binding site [nucleotide binding]; other site 313596002300 putative metal binding site B [ion binding]; other site 313596002301 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 313596002302 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 313596002303 active site 313596002304 catalytic tetrad [active] 313596002305 DNA repair protein RadA; Provisional; Region: PRK11823 313596002306 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 313596002307 Walker A motif/ATP binding site; other site 313596002308 ATP binding site [chemical binding]; other site 313596002309 Walker B motif; other site 313596002310 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 313596002311 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 313596002312 Uncharacterized protein family (UPF0104); Region: UPF0104; pfam03706 313596002313 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 313596002314 tetramerization interface [polypeptide binding]; other site 313596002315 active site 313596002316 pantoate--beta-alanine ligase; Region: panC; TIGR00018 313596002317 Pantoate-beta-alanine ligase; Region: PanC; cd00560 313596002318 active site 313596002319 ATP-binding site [chemical binding]; other site 313596002320 pantoate-binding site; other site 313596002321 HXXH motif; other site 313596002322 Starch synthase catalytic domain; Region: Glyco_transf_5; pfam08323 313596002323 Domain of unknown function (DUF4270); Region: DUF4270; pfam14092 313596002324 Domain of unknown function (DUF4270); Region: DUF4270; pfam14092 313596002325 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 313596002326 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 313596002327 glutaminase active site [active] 313596002328 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 313596002329 dimer interface [polypeptide binding]; other site 313596002330 active site 313596002331 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 313596002332 dimer interface [polypeptide binding]; other site 313596002333 active site 313596002334 Cna protein B-type domain; Region: Cna_B_2; pfam13715 313596002335 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 313596002336 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 313596002337 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 313596002338 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 313596002339 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 313596002340 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 313596002341 alpha subunit interaction interface [polypeptide binding]; other site 313596002342 Walker A motif; other site 313596002343 ATP binding site [chemical binding]; other site 313596002344 Walker B motif; other site 313596002345 inhibitor binding site; inhibition site 313596002346 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 313596002347 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 313596002348 gamma subunit interface [polypeptide binding]; other site 313596002349 LBP interface [polypeptide binding]; other site 313596002350 8-amino-7-oxononanoate synthase; Reviewed; Region: PRK05958 313596002351 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 313596002352 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 313596002353 catalytic residue [active] 313596002354 Domain of unknown function (DUF2007); Region: DUF2007; pfam09413 313596002355 Dethiobiotin synthetase [Coenzyme metabolism]; Region: BioD; COG0132 313596002356 AAA domain; Region: AAA_26; pfam13500 313596002357 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 313596002358 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 313596002359 adenosylmethionine-8-amino-7-oxononanoate transaminase; Region: bioA; TIGR00508 313596002360 inhibitor-cofactor binding pocket; inhibition site 313596002361 pyridoxal 5'-phosphate binding site [chemical binding]; other site 313596002362 catalytic residue [active] 313596002363 3-oxoacyl-(acyl-carrier-protein) synthase [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: FabB; COG0304 313596002364 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 313596002365 active site 313596002366 biotin synthase; Region: bioB; TIGR00433 313596002367 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 313596002368 FeS/SAM binding site; other site 313596002369 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 313596002370 Cupin-like domain; Region: Cupin_8; pfam13621 313596002371 RecX family; Region: RecX; pfam02631 313596002372 Glycogen debranching enzyme [Carbohydrate transport and metabolism]; Region: GDB1; COG3408 313596002373 Protein of unknown function, DUF608; Region: DUF608; pfam04685 313596002374 ribonuclease, Rne/Rng family; Region: RNaseEG; TIGR00757 313596002375 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 313596002376 homodimer interface [polypeptide binding]; other site 313596002377 oligonucleotide binding site [chemical binding]; other site 313596002378 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 313596002379 IHF - DNA interface [nucleotide binding]; other site 313596002380 IHF dimer interface [polypeptide binding]; other site 313596002381 A/G-specific adenine glycosylase; Region: mutY; TIGR01084 313596002382 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 313596002383 minor groove reading motif; other site 313596002384 helix-hairpin-helix signature motif; other site 313596002385 substrate binding pocket [chemical binding]; other site 313596002386 active site 313596002387 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 313596002388 DNA binding and oxoG recognition site [nucleotide binding] 313596002389 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 313596002390 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 313596002391 dimer interface [polypeptide binding]; other site 313596002392 ssDNA binding site [nucleotide binding]; other site 313596002393 tetramer (dimer of dimers) interface [polypeptide binding]; other site 313596002394 gliding motility-associated protein GldE; Region: GldE; TIGR03520 313596002395 Domain of unknown function DUF21; Region: DUF21; pfam01595 313596002396 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 313596002397 Transporter associated domain; Region: CorC_HlyC; smart01091 313596002398 gliding motility-associated lipoprotein GldD; Region: GldD_lipo; TIGR03512 313596002399 serine racemase; Region: PLN02970 313596002400 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 313596002401 tetramer interface [polypeptide binding]; other site 313596002402 pyridoxal 5'-phosphate binding site [chemical binding]; other site 313596002403 catalytic residue [active] 313596002404 putative DMT superfamily transporter inner membrane protein; Provisional; Region: PRK11272 313596002405 EamA-like transporter family; Region: EamA; pfam00892 313596002406 EamA-like transporter family; Region: EamA; pfam00892 313596002407 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 313596002408 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 313596002409 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 313596002410 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 313596002411 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 313596002412 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 313596002413 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 313596002414 Protein of unknown function (DUF4199); Region: DUF4199; pfam13858 313596002415 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 313596002416 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 313596002417 Rho termination factor, N-terminal domain; Region: Rho_N; smart00959 313596002418 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 313596002419 Domain of unknown function (DUF3332); Region: DUF3332; pfam11810 313596002420 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 313596002421 S-Adenosylhomocysteine Hydrolase, NAD-binding and catalytic domains; Region: SAHH; cd00401 313596002422 homotetramer interface [polypeptide binding]; other site 313596002423 ligand binding site [chemical binding]; other site 313596002424 catalytic site [active] 313596002425 NAD binding site [chemical binding]; other site 313596002426 Phosphopantetheinyl transferase [Coenzyme metabolism]; Region: Sfp; COG2091 313596002427 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 313596002428 Domain of unknown function DUF77; Region: DUF77; pfam01910 313596002429 Nicotinamide mononucleotide transporter; Region: NMN_transporter; pfam04973 313596002430 Predicted ATPase/kinase involved in NAD metabolism [Coenzyme metabolism]; Region: NadR; COG3172 313596002431 AAA domain; Region: AAA_28; pfam13521 313596002432 Domain of unknown function (DUF4301); Region: DUF4301; pfam14134 313596002433 Protein of unknown function (DUF2874); Region: DUF2874; pfam11396 313596002434 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 313596002435 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 313596002436 active site 313596002437 phosphorylation site [posttranslational modification] 313596002438 intermolecular recognition site; other site 313596002439 dimerization interface [polypeptide binding]; other site 313596002440 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 313596002441 Walker A motif; other site 313596002442 ATP binding site [chemical binding]; other site 313596002443 Walker B motif; other site 313596002444 arginine finger; other site 313596002445 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 313596002446 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 313596002447 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 313596002448 dimer interface [polypeptide binding]; other site 313596002449 phosphorylation site [posttranslational modification] 313596002450 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 313596002451 ATP binding site [chemical binding]; other site 313596002452 Mg2+ binding site [ion binding]; other site 313596002453 G-X-G motif; other site 313596002454 Response regulator receiver domain; Region: Response_reg; pfam00072 313596002455 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 313596002456 active site 313596002457 phosphorylation site [posttranslational modification] 313596002458 intermolecular recognition site; other site 313596002459 dimerization interface [polypeptide binding]; other site 313596002460 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cl00086 313596002461 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 313596002462 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 313596002463 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 313596002464 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cl00938 313596002465 iron-sulfur cluster [ion binding]; other site 313596002466 [2Fe-2S] cluster binding site [ion binding]; other site 313596002467 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 313596002468 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 313596002469 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 313596002470 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 313596002471 dimerization interface [polypeptide binding]; other site 313596002472 putative DNA binding site [nucleotide binding]; other site 313596002473 putative Zn2+ binding site [ion binding]; other site 313596002474 Protein of unknown function (DUF1648); Region: DUF1648; pfam07853 313596002475 SdpI/YhfL protein family; Region: SdpI; pfam13630 313596002476 Diadenosine tetraphosphate (Ap4A) hydrolase and other HIT family hydrolases [Nucleotide transport and metabolism / Carbohydrate transport and metabolism / General function prediction only]; Region: Hit; COG0537 313596002477 nucleotide binding site/active site [active] 313596002478 HIT family signature motif; other site 313596002479 catalytic residue [active] 313596002480 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 313596002481 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 313596002482 phosphorylation site [posttranslational modification] 313596002483 dimer interface [polypeptide binding]; other site 313596002484 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 313596002485 ATP binding site [chemical binding]; other site 313596002486 Mg2+ binding site [ion binding]; other site 313596002487 G-X-G motif; other site 313596002488 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 313596002489 Domain of unknown function (DUF3127); Region: DUF3127; pfam11325 313596002490 Short chain fatty acids transporter [Lipid metabolism]; Region: AtoE; COG2031 313596002491 leucyl/phenylalanyl-tRNA--protein transferase; Reviewed; Region: aat; PRK00301 313596002492 Protein of unknown function (DUF2490); Region: DUF2490; pfam10677 313596002493 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 313596002494 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 313596002495 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 313596002496 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 313596002497 Walker A/P-loop; other site 313596002498 ATP binding site [chemical binding]; other site 313596002499 Q-loop/lid; other site 313596002500 ABC transporter signature motif; other site 313596002501 Walker B; other site 313596002502 HlyD family secretion protein; Region: HlyD; pfam00529 313596002503 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 313596002504 HlyD family secretion protein; Region: HlyD_3; pfam13437 313596002505 Outer membrane efflux protein; Region: OEP; pfam02321 313596002506 Outer membrane efflux protein; Region: OEP; pfam02321 313596002507 Uncharacterized conserved protein [Function unknown]; Region: COG1284 313596002508 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 313596002509 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; pfam10035 313596002510 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 313596002511 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 313596002512 tRNA pseudouridine(55) synthase; Region: TruB; TIGR00431 313596002513 RNA binding site [nucleotide binding]; other site 313596002514 active site 313596002515 Bacitracin resistance protein BacA; Region: BacA; pfam02673 313596002516 Protein of unknown function (DUF3098); Region: DUF3098; pfam11297 313596002517 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 313596002518 leucyl-tRNA synthetase, eubacterial and mitochondrial family; Region: leuS_bact; TIGR00396 313596002519 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 313596002520 active site 313596002521 HIGH motif; other site 313596002522 nucleotide binding site [chemical binding]; other site 313596002523 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 313596002524 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 313596002525 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 313596002526 active site 313596002527 KMSKS motif; other site 313596002528 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 313596002529 active site 313596002530 KMSKS motif; other site 313596002531 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 313596002532 tRNA binding surface [nucleotide binding]; other site 313596002533 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 313596002534 Alanine dehydrogenase NAD-binding and catalytic domains; Region: L-AlaDH; cd05305 313596002535 hexamer interface [polypeptide binding]; other site 313596002536 ligand binding site [chemical binding]; other site 313596002537 putative active site [active] 313596002538 NAD(P) binding site [chemical binding]; other site 313596002539 Putative neutral zinc metallopeptidase; Region: Zn_peptidase_2; pfam04298 313596002540 DNA-binding transcriptional regulator AsnC; Provisional; Region: PRK11179 313596002541 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 313596002542 putative DNA binding site [nucleotide binding]; other site 313596002543 putative Zn2+ binding site [ion binding]; other site 313596002544 AsnC family; Region: AsnC_trans_reg; pfam01037 313596002545 Saccharopine dehydrogenase; Region: Saccharop_dh; pfam03435 313596002546 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 313596002547 Protein of unknown function (DUF423); Region: DUF423; pfam04241 313596002548 Phosphoenolpyruvate carboxykinase; Region: PEPCK_ATP; pfam01293 313596002549 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 313596002550 active site 313596002551 substrate-binding site [chemical binding]; other site 313596002552 metal-binding site [ion binding] 313596002553 ATP binding site [chemical binding]; other site 313596002554 Uroporphyrinogen-III synthase [Coenzyme metabolism]; Region: HemD; COG1587 313596002555 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 313596002556 active site 313596002557 Domain of unknown function (DUF4271); Region: DUF4271; pfam14093 313596002558 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 313596002559 DPM1_like represents putative enzymes similar to eukaryotic DPM1; Region: DPM1_like; cd06442 313596002560 Ligand binding site; other site 313596002561 Putative Catalytic site; other site 313596002562 DXD motif; other site 313596002563 dihydroorotase; Reviewed; Region: PRK09236 313596002564 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 313596002565 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 313596002566 active site 313596002567 Domain of unknown function (DUF4296); Region: DUF4296; pfam14129 313596002568 hopanoid-associated sugar epimerase; Region: HpnA; TIGR03466 313596002569 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 313596002570 NAD(P) binding site [chemical binding]; other site 313596002571 active site 313596002572 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 313596002573 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 313596002574 active site 313596002575 HIGH motif; other site 313596002576 dimer interface [polypeptide binding]; other site 313596002577 KMSKS motif; other site 313596002578 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 313596002579 RNA binding surface [nucleotide binding]; other site 313596002580 Acyl-protein synthetase, LuxE; Region: LuxE; pfam04443 313596002581 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 313596002582 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 313596002583 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 313596002584 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 313596002585 active site 313596002586 phosphorylation site [posttranslational modification] 313596002587 intermolecular recognition site; other site 313596002588 dimerization interface [polypeptide binding]; other site 313596002589 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 313596002590 DNA binding site [nucleotide binding] 313596002591 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 313596002592 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 313596002593 dimer interface [polypeptide binding]; other site 313596002594 phosphorylation site [posttranslational modification] 313596002595 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 313596002596 ATP binding site [chemical binding]; other site 313596002597 Mg2+ binding site [ion binding]; other site 313596002598 G-X-G motif; other site 313596002599 Methyltransferase domain; Region: Methyltransf_31; pfam13847 313596002600 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 313596002601 S-adenosylmethionine binding site [chemical binding]; other site 313596002602 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 313596002603 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 313596002604 DNA binding site [nucleotide binding] 313596002605 active site 313596002606 Domain of unknown function DUF59; Region: DUF59; pfam01883 313596002607 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 313596002608 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 313596002609 Walker A motif; other site 313596002610 NifU-like domain; Region: NifU; cl00484 313596002611 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 313596002612 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 313596002613 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 313596002614 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; cl00159 313596002615 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 313596002616 Penicillin amidase; Region: Penicil_amidase; pfam01804 313596002617 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 313596002618 Cephalosporin acylase (CA) belongs to a family of beta-lactam acylases that includes penicillin G acylase (PGA) and aculeacin A acylase. PGA and CA are crucial for the production of backbone chemicals like 6-aminopenicillanic acid and...; Region: Ntn_CA; cd01936 313596002619 active site 313596002620 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 313596002621 Zn-dependent dipeptidase, microsomal dipeptidase homolog [Amino acid transport and metabolism]; Region: COG2355 313596002622 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 313596002623 active site 313596002624 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme D-Threonine Aldolase; Region: PLPDE_III_D-TA; cd06821 313596002625 Predicted amino acid aldolase or racemase [Amino acid transport and metabolism]; Region: COG3616 313596002626 dimer interface [polypeptide binding]; other site 313596002627 active site 313596002628 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 313596002629 substrate binding site [chemical binding]; other site 313596002630 catalytic residue [active] 313596002631 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 313596002632 homotrimer interaction site [polypeptide binding]; other site 313596002633 putative active site [active] 313596002634 GntP family permease; Region: GntP_permease; pfam02447 313596002635 fructuronate transporter; Provisional; Region: PRK10034; cl15264 313596002636 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 313596002637 putative catalytic site [active] 313596002638 putative metal binding site [ion binding]; other site 313596002639 putative phosphate binding site [ion binding]; other site 313596002640 Surface antigen; Region: Bac_surface_Ag; pfam01103 313596002641 Hemerythrin-like domain; Region: Hr-like; cd12108 313596002642 Fe binding site [ion binding]; other site 313596002643 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 313596002644 Mechanosensitive ion channel; Region: MS_channel; pfam00924 313596002645 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 313596002646 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 313596002647 Uncharacterized ACR, COG2135; Region: DUF159; pfam02586 313596002648 glucans biosynthesis protein; Provisional; Region: opgC; PRK03854 313596002649 Acyltransferase family; Region: Acyl_transf_3; pfam01757 313596002650 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl17200 313596002651 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 313596002652 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 313596002653 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 313596002654 putative active site [active] 313596002655 putative metal binding site [ion binding]; other site 313596002656 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 313596002657 Zn2+ binding site [ion binding]; other site 313596002658 Mg2+ binding site [ion binding]; other site 313596002659 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 313596002660 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 313596002661 active site 313596002662 metal binding site [ion binding]; metal-binding site 313596002663 Surface antigen; Region: Bac_surface_Ag; pfam01103 313596002664 putative transporter; Provisional; Region: PRK10484 313596002665 uncharacterized SLC5 subfamily, Escherichia coli YidK-like; solute binding domain; Region: SLC5sbd_YidK; cd10328 313596002666 Na binding site [ion binding]; other site 313596002667 PAP2, haloperoxidase_like subfamily. Haloperoxidases catalyze the oxidation of halides such as bromide or chloride by hydrogen peroxide, which results in subsequent halogenation of organic substrates, or halide-assisted disproportionation of hydrogen...; Region: PAP2_haloperoxidase; cd03398 313596002668 active site 313596002669 Family description; Region: VCBS; pfam13517 313596002670 Family description; Region: VCBS; pfam13517 313596002671 Family description; Region: VCBS; pfam13517 313596002672 ASPIC and UnbV; Region: UnbV_ASPIC; pfam07593 313596002673 Family description; Region: VCBS; pfam13517 313596002674 Family description; Region: VCBS; pfam13517 313596002675 Family description; Region: VCBS; pfam13517 313596002676 Family description; Region: VCBS; pfam13517 313596002677 Family description; Region: VCBS; pfam13517 313596002678 Family description; Region: VCBS; pfam13517 313596002679 ASPIC and UnbV; Region: UnbV_ASPIC; pfam07593 313596002680 Family description; Region: VCBS; pfam13517 313596002681 Family description; Region: VCBS; pfam13517 313596002682 Family description; Region: VCBS; pfam13517 313596002683 Family description; Region: VCBS; pfam13517 313596002684 Family description; Region: VCBS; pfam13517 313596002685 ASPIC and UnbV; Region: UnbV_ASPIC; pfam07593 313596002686 Family description; Region: VCBS; pfam13517 313596002687 Family description; Region: VCBS; pfam13517 313596002688 Family description; Region: VCBS; pfam13517 313596002689 Family description; Region: VCBS; pfam13517 313596002690 starch binding outer membrane protein SusD; Region: SusD; cl17845 313596002691 SusD family; Region: SusD; pfam07980 313596002692 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 313596002693 Cna protein B-type domain; Region: Cna_B_2; pfam13715 313596002694 TonB-dependent outer membrane receptor, SusC/RagA subfamily, signature region; Region: SusC_RagA_signa; TIGR04057 313596002695 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 313596002696 Transcriptional regulators [Transcription]; Region: PurR; COG1609 313596002697 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 313596002698 DNA binding site [nucleotide binding] 313596002699 domain linker motif; other site 313596002700 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 313596002701 dimerization interface [polypeptide binding]; other site 313596002702 ligand binding site [chemical binding]; other site 313596002703 beta-phosphoglucomutase; Region: bPGM; TIGR01990 313596002704 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 313596002705 maltose phosphorylase; Provisional; Region: PRK13807 313596002706 Glycosyl hydrolase family 65, N-terminal domain; Region: Glyco_hydro_65N; pfam03636 313596002707 Glycosyl hydrolase family 65 central catalytic domain; Region: Glyco_hydro_65m; pfam03632 313596002708 Glycosyl hydrolase family 65, C-terminal domain; Region: Glyco_hydro_65C; pfam03633 313596002709 Cyclomaltodextrinase, N-terminal; Region: Cyc-maltodext_N; pfam09087 313596002710 Alpha amylase catalytic domain found in bacterial cyclomaltodextrinases and related proteins; Region: AmyAc_bac_CMD_like_3; cd11340 313596002711 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 313596002712 Ca binding site [ion binding]; other site 313596002713 active site 313596002714 homodimer interface [polypeptide binding]; other site 313596002715 catalytic site [active] 313596002716 Cyclo-malto-dextrinase C-terminal domain; Region: Cyc-maltodext_C; pfam10438 313596002717 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 313596002718 Alpha amylase catalytic domain found in an uncharacterized protein family; Region: AmyAc_3; cd11349 313596002719 active site 313596002720 catalytic site [active] 313596002721 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 313596002722 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 313596002723 active site 313596002724 catalytic site [active] 313596002725 flavoprotein, HI0933 family; Region: TIGR00275 313596002726 Glycerol uptake facilitator and related permeases (Major Intrinsic Protein Family) [Carbohydrate transport and metabolism]; Region: GlpF; COG0580 313596002727 amphipathic channel; other site 313596002728 Asn-Pro-Ala signature motifs; other site 313596002729 glycerol kinase; Provisional; Region: glpK; PRK00047 313596002730 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 313596002731 N- and C-terminal domain interface [polypeptide binding]; other site 313596002732 active site 313596002733 MgATP binding site [chemical binding]; other site 313596002734 catalytic site [active] 313596002735 metal binding site [ion binding]; metal-binding site 313596002736 glycerol binding site [chemical binding]; other site 313596002737 homotetramer interface [polypeptide binding]; other site 313596002738 homodimer interface [polypeptide binding]; other site 313596002739 FBP binding site [chemical binding]; other site 313596002740 protein IIAGlc interface [polypeptide binding]; other site 313596002741 TspO/MBR family; Region: TspO_MBR; pfam03073 313596002742 diphosphomevalonate decarboxylase; Region: PLN02407 313596002743 Mevalonate pyrophosphate decarboxylase [Lipid metabolism]; Region: MVD1; COG3407 313596002744 Mevalonate kinase [Lipid metabolism]; Region: ERG12; COG1577 313596002745 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 313596002746 4-hydroxybenzoate polyprenyltransferase and related prenyltransferases [Coenzyme metabolism]; Region: UbiA; cl00337 313596002747 UbiA prenyltransferase family; Region: UbiA; pfam01040 313596002748 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 313596002749 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 313596002750 RNA binding surface [nucleotide binding]; other site 313596002751 Pseudouridine synthases, RsuA subfamily; Region: PseudoU_synth_RsuA_like; cd02870 313596002752 active site 313596002753 argininosuccinate lyase; Provisional; Region: PRK00855 313596002754 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 313596002755 active sites [active] 313596002756 tetramer interface [polypeptide binding]; other site 313596002757 Acetylornithine deacetylase/Succinyl-diaminopimelate desuccinylase and related deacylases [Amino acid transport and metabolism]; Region: ArgE; COG0624 313596002758 M20 Peptidases with similarity to acetylornithine deacetylases and succinyl-diaminopimelate desuccinylases; Region: M20_ArgE_DapE_like5; cd05651 313596002759 metal binding site [ion binding]; metal-binding site 313596002760 dimer interface [polypeptide binding]; other site 313596002761 AAK_NAGK-like: N-Acetyl-L-glutamate kinase (NAGK)-like . Included in this CD are the Escherichia coli and Pseudomonas aeruginosa type NAGKs which catalyze the phosphorylation of N-acetyl-L-glutamate (NAG) by ATP in the second step of arginine...; Region: AAK_NAGK-like; cd04238 313596002762 nucleotide binding site [chemical binding]; other site 313596002763 N-acetyl-L-glutamate binding site [chemical binding]; other site 313596002764 N-acetylornithine carbamoyltransferase; Reviewed; Region: PRK04523 313596002765 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 313596002766 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 313596002767 Ornithine/acetylornithine aminotransferase [Amino acid transport and metabolism]; Region: ArgD; COG4992 313596002768 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 313596002769 inhibitor-cofactor binding pocket; inhibition site 313596002770 pyridoxal 5'-phosphate binding site [chemical binding]; other site 313596002771 catalytic residue [active] 313596002772 Pyrroline-5-carboxylate reductase [Amino acid transport and metabolism]; Region: ProC; COG0345 313596002773 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 313596002774 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 313596002775 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 313596002776 argininosuccinate synthase; Provisional; Region: PRK13820 313596002777 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases, ATP sulphurylases Universal Stress Response protein and electron transfer flavoprotein (ETF). The domain forms a apha/beta/apha fold which binds to Adenosine nucleotide; Region: AANH_like; cl00292 313596002778 Ligand Binding Site [chemical binding]; other site 313596002779 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 313596002780 Coenzyme A binding pocket [chemical binding]; other site 313596002781 Glycosyltransferases, probably involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG1215 313596002782 Cellulose synthase catalytic subunit A2 (CESA2) is a catalytic subunit or a catalytic subunit substitute of the cellulose synthase complex; Region: CESA_CaSu_A2; cd06437 313596002783 DXD motif; other site 313596002784 dolichyl-phosphate beta-D-mannosyltransferase; Region: PLN02726 313596002785 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 313596002786 Ligand binding site; other site 313596002787 Putative Catalytic site; other site 313596002788 DXD motif; other site 313596002789 4Fe-4S binding domain; Region: Fer4_5; pfam12801 313596002790 4Fe-4S dicluster domain; Region: Fer4_8; pfam13183 313596002791 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 313596002792 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 313596002793 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 313596002794 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 313596002795 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 313596002796 GTA TIM-barrel-like domain; Region: GTA_TIM; pfam13547 313596002797 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 313596002798 active site 313596002799 metal binding site [ion binding]; metal-binding site 313596002800 Protein of unknown function, DUF547; Region: DUF547; pfam04784 313596002801 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 313596002802 S-adenosylmethionine binding site [chemical binding]; other site 313596002803 purine nucleoside phosphorylase; Provisional; Region: PRK08202 313596002804 transferase 1, rSAM/selenodomain-associated; Region: glyco_like_cofC; TIGR04282 313596002805 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 313596002806 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 313596002807 putative active site [active] 313596002808 putative metal binding site [ion binding]; other site 313596002809 Glycosyl transferase family 1; Region: Glyco_trans_1_3; pfam13528 313596002810 ADP-ribosylglycohydrolase; Region: ADP_ribosyl_GH; pfam03747 313596002811 Predicted kinase [General function prediction only]; Region: COG4857; cl17281 313596002812 Phosphotransferase enzyme family; Region: APH; pfam01636 313596002813 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 313596002814 Interdomain contacts; other site 313596002815 Cytokine receptor motif; other site 313596002816 Mycoplasma protein of unknown function, DUF285; Region: DUF285; pfam03382 313596002817 pantothenate kinase; Reviewed; Region: PRK13320 313596002818 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 313596002819 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 313596002820 Domain of unknown function DUF21; Region: DUF21; pfam01595 313596002821 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 313596002822 Transporter associated domain; Region: CorC_HlyC; smart01091 313596002823 SurA N-terminal domain; Region: SurA_N_3; cl07813 313596002824 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 313596002825 PPIC-type PPIASE domain; Region: Rotamase_3; pfam13616 313596002826 Mevalonate kinase [Lipid metabolism]; Region: ERG12; COG1577 313596002827 Class II hydroxymethylglutaryl-coenzyme A (HMG-CoA) reductase (HMGR); Region: HMG-CoA_reductase_classII; cd00644 313596002828 homodimer interface [polypeptide binding]; other site 313596002829 catalytic residues [active] 313596002830 NAD binding site [chemical binding]; other site 313596002831 substrate binding pocket [chemical binding]; other site 313596002832 flexible flap; other site 313596002833 Dipeptidyl peptidase IV (DPP IV) N-terminal region; Region: DPPIV_N; pfam00930 313596002834 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 313596002835 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 313596002836 Dipeptide/tripeptide permease [Amino acid transport and metabolism]; Region: PTR2; COG3104 313596002837 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 313596002838 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 313596002839 Predicted membrane metal-binding protein [General function prediction only]; Region: ComEC; COG0658 313596002840 Competence protein; Region: Competence; pfam03772 313596002841 NlpC/P60 family; Region: NLPC_P60; pfam00877 313596002842 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 313596002843 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 313596002844 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 313596002845 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 313596002846 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 313596002847 protein binding site [polypeptide binding]; other site 313596002848 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 313596002849 Catalytic dyad [active] 313596002850 C-terminal domain of tail specific protease (DUF3340); Region: DUF3340; pfam11818 313596002851 methionine sulfoxide reductase A; Provisional; Region: PRK14054 313596002852 methionine sulfoxide reductase B; Provisional; Region: PRK00222 313596002853 SelR domain; Region: SelR; pfam01641 313596002854 DNA/RNA non-specific endonuclease; prokaryotic and eukaryotic double- and single-stranded DNA and RNA endonucleases also present in phosphodiesterases. They exists as monomers and homodimers; Region: NUC; cd00091 313596002855 DNA/RNA non-specific endonuclease; Region: Endonuclease_NS; smart00892 313596002856 active site 313596002857 substrate binding site [chemical binding]; other site 313596002858 Mg2+ binding site [ion binding]; other site 313596002859 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 313596002860 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 313596002861 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 313596002862 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 313596002863 rod shape-determining protein MreC; Provisional; Region: PRK13922 313596002864 rod shape-determining protein MreC; Region: MreC; pfam04085 313596002865 rod shape-determining protein MreB; Provisional; Region: PRK13927 313596002866 MreB and similar proteins; Region: MreB_like; cd10225 313596002867 nucleotide binding site [chemical binding]; other site 313596002868 Mg binding site [ion binding]; other site 313596002869 putative protofilament interaction site [polypeptide binding]; other site 313596002870 RodZ interaction site [polypeptide binding]; other site 313596002871 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 313596002872 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 313596002873 purine monophosphate binding site [chemical binding]; other site 313596002874 dimer interface [polypeptide binding]; other site 313596002875 putative catalytic residues [active] 313596002876 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 313596002877 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 313596002878 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 313596002879 GAF domain-containing protein [Signal transduction mechanisms]; Region: COG1956 313596002880 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 313596002881 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 313596002882 ring oligomerisation interface [polypeptide binding]; other site 313596002883 ATP/Mg binding site [chemical binding]; other site 313596002884 stacking interactions; other site 313596002885 hinge regions; other site 313596002886 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 313596002887 oligomerisation interface [polypeptide binding]; other site 313596002888 mobile loop; other site 313596002889 roof hairpin; other site 313596002890 Lipopolysaccharide-assembly; Region: LptE; pfam04390 313596002891 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 313596002892 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 313596002893 Walker A motif; other site 313596002894 ATP binding site [chemical binding]; other site 313596002895 Walker B motif; other site 313596002896 arginine finger; other site 313596002897 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 313596002898 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14329 313596002899 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 313596002900 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 313596002901 FeS/SAM binding site; other site 313596002902 TRAM domain; Region: TRAM; pfam01938 313596002903 Uncharacterized conserved protein [Function unknown]; Region: COG5276 313596002904 DNA topoisomerase I subunit omega; Validated; Region: PRK07561 313596002905 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 313596002906 active site 313596002907 interdomain interaction site; other site 313596002908 putative metal-binding site [ion binding]; other site 313596002909 nucleotide binding site [chemical binding]; other site 313596002910 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 313596002911 domain I; other site 313596002912 DNA binding groove [nucleotide binding] 313596002913 phosphate binding site [ion binding]; other site 313596002914 domain II; other site 313596002915 domain III; other site 313596002916 nucleotide binding site [chemical binding]; other site 313596002917 catalytic site [active] 313596002918 domain IV; other site 313596002919 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 313596002920 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 313596002921 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 313596002922 Formimidoylglutamase or HutE; Region: Formimidoylglutamase; cd09988 313596002923 putative active site [active] 313596002924 putative metal binding site [ion binding]; other site 313596002925 gliding motility-associated lipoprotein GldK; Region: GldK; TIGR03525 313596002926 gliding motility-associated lipoprotein GldJ; Region: GldJ; TIGR03524 313596002927 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 313596002928 gliding motility-associated protein GldL; Region: GldL_gliding; TIGR03513 313596002929 gliding motility-associated protein GldM; Region: GldM_gliding; TIGR03517 313596002930 GldM N-terminal domain; Region: GldM_N; pfam12081 313596002931 GldM C-terminal domain; Region: GldM_C; pfam12080 313596002932 gliding motility associated protien GldN; Region: GldN; TIGR03523 313596002933 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 313596002934 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 313596002935 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 313596002936 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 313596002937 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 313596002938 ABC transporter; Region: ABC_tran_2; pfam12848 313596002939 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 313596002940 Leucine rich repeat; Region: LRR_8; pfam13855 313596002941 Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily. LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs correspond...; Region: LRR_RI; cl15309 313596002942 Leucine rich repeat; Region: LRR_8; pfam13855 313596002943 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 313596002944 HlyD family secretion protein; Region: HlyD_3; pfam13437 313596002945 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 313596002946 Protein export membrane protein; Region: SecD_SecF; cl14618 313596002947 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 313596002948 Uncharacterized conserved protein [Function unknown]; Region: COG1262 313596002949 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 313596002950 Domain of unknown function (DUF202); Region: DUF202; cl09954 313596002951 Malonate/sodium symporter MadM subunit; Region: MadM; cl04274 313596002952 Malonate transporter MadL subunit; Region: MadL; cl04273 313596002953 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 313596002954 Malonyl-CoA synthetase (MCS); Region: MCS; cd05941 313596002955 acyl-activating enzyme (AAE) consensus motif; other site 313596002956 active site 313596002957 AMP binding site [chemical binding]; other site 313596002958 CoA binding site [chemical binding]; other site 313596002959 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 313596002960 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 313596002961 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; pfam05721 313596002962 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 313596002963 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 313596002964 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 313596002965 catalytic residue [active] 313596002966 N-terminal Early set domain associated with the catalytic domain of putative esterases; Region: E_set_Esterase_like_N; cd11294 313596002967 Enterochelin esterase and related enzymes [Inorganic ion transport and metabolism]; Region: Fes; COG2382 313596002968 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 313596002969 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 313596002970 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 313596002971 S-adenosylmethionine binding site [chemical binding]; other site 313596002972 Predicted amidohydrolase [General function prediction only]; Region: COG0388 313596002973 Uncharacterized subgroup of the nitrilase superfamily (putative class 13 nitrilases); Region: nitrilase_7; cd07585 313596002974 putative active site [active] 313596002975 catalytic triad [active] 313596002976 putative dimer interface [polypeptide binding]; other site 313596002977 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 313596002978 aspartate racemase; Region: asp_race; TIGR00035 313596002979 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 313596002980 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cd00158 313596002981 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cd00158 313596002982 active site residue [active] 313596002983 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 313596002984 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 313596002985 GTPase Era; Reviewed; Region: era; PRK00089 313596002986 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 313596002987 G1 box; other site 313596002988 GTP/Mg2+ binding site [chemical binding]; other site 313596002989 Switch I region; other site 313596002990 G2 box; other site 313596002991 Switch II region; other site 313596002992 G3 box; other site 313596002993 G4 box; other site 313596002994 G5 box; other site 313596002995 KH domain; Region: KH_2; pfam07650 313596002996 Putative Acyltransferase (AT), Left-handed parallel beta-Helix (LbH) domain; This group is composed of mostly uncharacterized proteins containing an N-terminal helical subdomain followed by a LbH domain. The alignment contains 6 turns, each containing...; Region: LbH_AT_putative; cd03360 313596002997 sugar O-acyltransferase, sialic acid O-acetyltransferase NeuD family; Region: NeuD_NnaD; TIGR03570 313596002998 putative trimer interface [polypeptide binding]; other site 313596002999 putative CoA binding site [chemical binding]; other site 313596003000 GTP-binding protein Der; Reviewed; Region: PRK00093 313596003001 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 313596003002 Switch I region; other site 313596003003 G2 box; other site 313596003004 Switch II region; other site 313596003005 G3 box; other site 313596003006 GTP/Mg2+ binding site [chemical binding]; other site 313596003007 G4 box; other site 313596003008 G5 box; other site 313596003009 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 313596003010 G1 box; other site 313596003011 GTP/Mg2+ binding site [chemical binding]; other site 313596003012 Switch I region; other site 313596003013 G2 box; other site 313596003014 G3 box; other site 313596003015 Switch II region; other site 313596003016 G4 box; other site 313596003017 G5 box; other site 313596003018 Repair protein; Region: Repair_PSII; pfam04536 313596003019 Repair protein; Region: Repair_PSII; pfam04536 313596003020 LemA family; Region: LemA; cl00742 313596003021 Helix-Turn-Helix DNA binding domain of putative MlrA-like transcription regulators; Region: HTH_MlrA-like_sg2; cd04765 313596003022 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 313596003023 DNA binding residues [nucleotide binding] 313596003024 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 313596003025 Peptidase family M23; Region: Peptidase_M23; pfam01551 313596003026 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 313596003027 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 313596003028 motif 1; other site 313596003029 active site 313596003030 motif 2; other site 313596003031 motif 3; other site 313596003032 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 313596003033 Protein of unknown function (DUF4230); Region: DUF4230; pfam14014 313596003034 Peptidase MA superfamily; Region: Peptidase_MA_2; pfam13485 313596003035 Zn binding site [ion binding]; other site 313596003036 Domain present in PSD-95, Dlg, and ZO-1/2; Region: PDZ; smart00228 313596003037 protein binding site [polypeptide binding]; other site 313596003038 phenylalanine 4-monooxygenase; Provisional; Region: PRK14056 313596003039 Biopterin-dependent aromatic amino acid hydroxylase; a family of non-heme, iron(II)-dependent enzymes that includes prokaryotic and eukaryotic phenylalanine-4-hydroxylase (PheOH), eukaryotic tyrosine hydroxylase (TyrOH) and eukaryotic tryptophan...; Region: arom_aa_hydroxylase; cd00361 313596003040 cofactor binding site; other site 313596003041 metal binding site [ion binding]; metal-binding site 313596003042 Domain of unknown function (DUF4136); Region: DUF4136; pfam13590 313596003043 1-aminocyclopropane-1-carboxylate deaminase [Amino acid transport and metabolism]; Region: Acd; COG2515 313596003044 Tryptophan synthase beta superfamily (fold type II); this family of pyridoxal phosphate (PLP)-dependent enzymes catalyzes beta-replacement and beta-elimination reactions. This CD corresponds to aminocyclopropane-1-carboxylate deaminase (ACCD), tryptophan...; Region: Trp-synth-beta_II; cl00342 313596003045 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 313596003046 catalytic residue [active] 313596003047 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; pfam01832 313596003048 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 313596003049 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 313596003050 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 313596003051 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 313596003052 inhibitor-cofactor binding pocket; inhibition site 313596003053 pyridoxal 5'-phosphate binding site [chemical binding]; other site 313596003054 catalytic residue [active] 313596003055 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 313596003056 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 313596003057 transmembrane helices; other site 313596003058 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 313596003059 LysRS_N: N-terminal, anticodon recognition domain of lysyl-tRNA synthetases (LysRS). These enzymes are homodimeric class 2b aminoacyl-tRNA synthetases (aaRSs). This domain is a beta-barrel domain (OB fold) involved in binding the tRNA anticodon stem-loop; Region: LysRS_N; cd04322 313596003060 dimer interface [polypeptide binding]; other site 313596003061 putative anticodon binding site; other site 313596003062 Lys_tRNA synthetase (LysRS) class II core domain. Class II LysRS is a dimer which attaches a lysine to the 3' OH group of ribose of the appropriate tRNA. Its assignment to class II aaRS is based upon its structure and the presence of three...; Region: LysRS_core; cd00775 313596003063 motif 1; other site 313596003064 active site 313596003065 motif 2; other site 313596003066 motif 3; other site 313596003067 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 313596003068 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 313596003069 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 313596003070 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 313596003071 ligand binding site [chemical binding]; other site 313596003072 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 313596003073 RNA/DNA hybrid binding site [nucleotide binding]; other site 313596003074 active site 313596003075 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 313596003076 Domain of unknown function (DUF4289); Region: DUF4289; pfam14121 313596003077 glutamate synthase subunit beta; Reviewed; Region: gltD; PRK12810 313596003078 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 313596003079 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 313596003080 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 313596003081 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 313596003082 active site 313596003083 dimer interface [polypeptide binding]; other site 313596003084 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 313596003085 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 313596003086 active site 313596003087 FMN binding site [chemical binding]; other site 313596003088 substrate binding site [chemical binding]; other site 313596003089 3Fe-4S cluster binding site [ion binding]; other site 313596003090 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 313596003091 domain interface; other site 313596003092 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 313596003093 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 313596003094 active site 313596003095 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 313596003096 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 313596003097 NAD(P) binding domain of amino acid dehydrogenase-like proteins; Region: NAD_bind_amino_acid_DH; cl17226 313596003098 Glutamate/Leucine/Phenylalanine/Valine dehydrogenase; Region: ELFV_dehydrog; smart00839 313596003099 NHAD transporter family protein; Provisional; Region: PLN00137; cl17324 313596003100 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 313596003101 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 313596003102 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 313596003103 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 313596003104 folylpolyglutamate synthase/dihydrofolate synthase; Region: folC; TIGR01499 313596003105 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 313596003106 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 313596003107 Sulfatase; Region: Sulfatase; pfam00884 313596003108 active site 313596003109 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 313596003110 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 313596003111 binding surface 313596003112 FOG: TPR repeat [General function prediction only]; Region: NrfG; COG0457 313596003113 TPR motif; other site 313596003114 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 313596003115 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 313596003116 DNA binding residues [nucleotide binding] 313596003117 dimerization interface [polypeptide binding]; other site 313596003118 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 313596003119 Bacterial proteins similar to Porphyromonas gingivalis HmuY; Region: HmuY; cd12105 313596003120 Outer membrane receptor for ferrienterochelin and colicins [Inorganic ion transport and metabolism]; Region: FepA; COG4771 313596003121 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 313596003122 N-terminal plug; other site 313596003123 ligand-binding site [chemical binding]; other site 313596003124 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 313596003125 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 313596003126 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 313596003127 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 313596003128 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 313596003129 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 313596003130 Predicted periplasmic protein (DUF2271); Region: DUF2271; pfam10029 313596003131 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 313596003132 PepSY-associated TM helix; Region: PepSY_TM_1; pfam13172 313596003133 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 313596003134 Flavodoxin; Region: Flavodoxin_1; pfam00258 313596003135 Ferredoxin reductase (FNR), an FAD and NAD(P) binding protein, was intially identified as a chloroplast reductase activity, catalyzing the electron transfer from reduced iron-sulfur protein ferredoxin to NADP+ as the final step in the electron transport...; Region: FNR_like; cl06868 313596003136 FAD binding pocket [chemical binding]; other site 313596003137 conserved FAD binding motif [chemical binding]; other site 313596003138 phosphate binding motif [ion binding]; other site 313596003139 beta-alpha-beta structure motif; other site 313596003140 NAD binding pocket [chemical binding]; other site 313596003141 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; COG0312 313596003142 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; COG0312 313596003143 Domain of unknown function (DUF4159); Region: DUF4159; pfam13709 313596003144 MoxR-like ATPases [General function prediction only]; Region: COG0714 313596003145 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 313596003146 Walker A motif; other site 313596003147 ATP binding site [chemical binding]; other site 313596003148 Walker B motif; other site 313596003149 arginine finger; other site 313596003150 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 313596003151 Protein of unknown function DUF58; Region: DUF58; pfam01882 313596003152 Aerotolerance regulator N-terminal; Region: BatA; pfam07584 313596003153 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 313596003154 Sulfatase; Region: Sulfatase; cl17466 313596003155 Sulfatase; Region: Sulfatase; cl17466 313596003156 catalase/hydroperoxidase HPI(I); Provisional; Region: PRK15061 313596003157 N-terminal catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_1; cd00649 313596003158 dimer interface [polypeptide binding]; other site 313596003159 active site 313596003160 heme binding site [chemical binding]; other site 313596003161 C-terminal non-catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_2; cd08200 313596003162 Ribose/Galactose Isomerase; Region: LacAB_rpiB; cl00485 313596003163 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 313596003164 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 313596003165 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 313596003166 Gluconate 2-dehydrogenase subunit 3; Region: Gluconate_2-dh3; pfam13618 313596003167 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 313596003168 putative transporter; Provisional; Region: PRK10484 313596003169 Na binding site [ion binding]; other site 313596003170 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 313596003171 active site 313596003172 catalytic residues [active] 313596003173 L-arabinose isomerase; Provisional; Region: PRK02929 313596003174 L-Arabinose isomerase (AI) catalyzes the isomerization of L-arabinose to L-ribulose, the first reaction in its conversion into D-xylulose-5-phosphate, an intermediate in the pentose phosphate pathway, which allows L-arabinose to be used as a carbon...; Region: L-arabinose_isomerase; cd03557 313596003175 putative hexamer (dimer of trimers) interface [polypeptide binding]; other site 313596003176 trimer interface [polypeptide binding]; other site 313596003177 putative substrate binding site [chemical binding]; other site 313596003178 putative metal binding site [ion binding]; other site 313596003179 L-ribulose-5-phosphate 4-epimerase; Reviewed; Region: araD; PRK08193 313596003180 Class II Aldolase and Adducin head (N-terminal) domain. Aldolases are ubiquitous enzymes catalyzing central steps of carbohydrate metabolism. Based on enzymatic mechanisms, this superfamily has been divided into two distinct classes (Class I and II); Region: Aldolase_II; cl00214 313596003181 intersubunit interface [polypeptide binding]; other site 313596003182 active site 313596003183 Zn2+ binding site [ion binding]; other site 313596003184 ribulokinase; Provisional; Region: PRK04123 313596003185 Ribulokinases; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_RBK; cd07781 313596003186 N- and C-terminal domain interface [polypeptide binding]; other site 313596003187 active site 313596003188 MgATP binding site [chemical binding]; other site 313596003189 catalytic site [active] 313596003190 metal binding site [ion binding]; metal-binding site 313596003191 carbohydrate binding site [chemical binding]; other site 313596003192 homodimer interface [polypeptide binding]; other site 313596003193 Alpha-L-arabinofuranosidase [Carbohydrate transport and metabolism]; Region: AbfA; COG3534 313596003194 Alpha-L-arabinofuranosidase C-terminus; Region: Alpha-L-AF_C; pfam06964 313596003195 ADP-ribose pyrophosphatase [Nucleotide transport and metabolism]; Region: COG1051 313596003196 nudix motif; other site 313596003197 Uncharacterized conserved protein [General function prediction only]; Region: COG4111 313596003198 Amidohydrolase; Region: Amidohydro_2; pfam04909 313596003199 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 313596003200 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 313596003201 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 313596003202 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 313596003203 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 313596003204 Zn2+ binding site [ion binding]; other site 313596003205 Mg2+ binding site [ion binding]; other site 313596003206 Beta-fructosidases (levanase/invertase) [Carbohydrate transport and metabolism]; Region: SacC; COG1621 313596003207 Glycosyl hydrolase family 32, beta-fructosidases; Region: GH32_B_Fructosidase; cd08996 313596003208 substrate binding [chemical binding]; other site 313596003209 active site 313596003210 Glycosyl hydrolases family 32 C terminal; Region: Glyco_hydro_32C; pfam08244 313596003211 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 313596003212 Ligand Binding Site [chemical binding]; other site 313596003213 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 313596003214 Ligand Binding Site [chemical binding]; other site 313596003215 phosphate acetyltransferase; Reviewed; Region: PRK05632 313596003216 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 313596003217 DRTGG domain; Region: DRTGG; pfam07085 313596003218 phosphotransacetylase; Reviewed; Region: eutD; PRK09653 313596003219 propionate/acetate kinase; Provisional; Region: PRK12379 313596003220 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 313596003221 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 313596003222 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 313596003223 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 313596003224 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 313596003225 gliding motility-associated lipoprotein GldJ; Region: GldJ; TIGR03524 313596003226 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; cl17479 313596003227 Cytidine deaminase zinc-binding domain. These enzymes are Zn dependent. The zinc ion in the active site plays a central role in the proposed catalytic mechanism, activating a water molecule to form a hydroxide ion that performs a nucleophilic attack on...; Region: cytidine_deaminase; cd01283 313596003228 active site 313596003229 catalytic motif [active] 313596003230 Zn binding site [ion binding]; other site 313596003231 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_y; TIGR03182 313596003232 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 313596003233 tetramer interface [polypeptide binding]; other site 313596003234 TPP-binding site [chemical binding]; other site 313596003235 heterodimer interface [polypeptide binding]; other site 313596003236 phosphorylation loop region [posttranslational modification] 313596003237 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 313596003238 E3 interaction surface; other site 313596003239 lipoyl attachment site [posttranslational modification]; other site 313596003240 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 313596003241 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 313596003242 E3 interaction surface; other site 313596003243 lipoyl attachment site [posttranslational modification]; other site 313596003244 e3 binding domain; Region: E3_binding; pfam02817 313596003245 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 313596003246 M28 Zn-Peptidase IAP aminopeptidase may contain PA domain insert; Region: M28_like_5; cd08021 313596003247 Peptidase family M28; Region: Peptidase_M28; pfam04389 313596003248 metal binding site [ion binding]; metal-binding site 313596003249 short chain dehydrogenase; Provisional; Region: PRK12828 313596003250 classical (c) SDRs; Region: SDR_c; cd05233 313596003251 NAD(P) binding site [chemical binding]; other site 313596003252 active site 313596003253 Lipocalin-like domain; Region: Lipocalin_4; pfam13648 313596003254 SprT homologues; Region: SprT; cl01182 313596003255 Mannose-1-phosphate guanylyltransferase [Cell envelope biogenesis, outer membrane]; Region: {ManC}; COG0836 313596003256 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 313596003257 Substrate binding site; other site 313596003258 Domain of unknown function (DUF389); Region: DUF389; pfam04087 313596003259 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 313596003260 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 313596003261 Walker A/P-loop; other site 313596003262 ATP binding site [chemical binding]; other site 313596003263 Q-loop/lid; other site 313596003264 ABC transporter signature motif; other site 313596003265 Walker B; other site 313596003266 D-loop; other site 313596003267 H-loop/switch region; other site 313596003268 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 313596003269 Permease; Region: Permease; pfam02405 313596003270 Sulfatase; Region: Sulfatase; cl17466 313596003271 phosphonoacetate hydrolase; Region: hydr_PhnA; TIGR02335 313596003272 Type I phosphodiesterase / nucleotide pyrophosphatase; Region: Phosphodiest; pfam01663 313596003273 Phosphopentomutase [Carbohydrate transport and metabolism]; Region: DeoB; cl17415 313596003274 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 313596003275 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 313596003276 DXD motif; other site 313596003277 Methyltransferase domain; Region: Methyltransf_23; pfam13489 313596003278 glycine dehydrogenase; Provisional; Region: PRK05367 313596003279 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 313596003280 tetramer interface [polypeptide binding]; other site 313596003281 pyridoxal 5'-phosphate binding site [chemical binding]; other site 313596003282 catalytic residue [active] 313596003283 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 313596003284 tetramer interface [polypeptide binding]; other site 313596003285 pyridoxal 5'-phosphate binding site [chemical binding]; other site 313596003286 catalytic residue [active] 313596003287 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 313596003288 RNA polymerase sigma-70 factor, TIGR02943 family; Region: Sig70_famx1 313596003289 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 313596003290 DNA binding residues [nucleotide binding] 313596003291 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cd00158 313596003292 active site residue [active] 313596003293 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 313596003294 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 313596003295 active site 313596003296 Zn binding site [ion binding]; other site 313596003297 AIR carboxylase; Region: AIRC; pfam00731 313596003298 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 313596003299 ATP-grasp domain; Region: ATP-grasp; pfam02222 313596003300 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 313596003301 active site 313596003302 adenylate kinase; Reviewed; Region: adk; PRK00279 313596003303 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 313596003304 AMP-binding site [chemical binding]; other site 313596003305 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 313596003306 GTPase CgtA; Reviewed; Region: obgE; PRK12299 313596003307 GTP1/OBG; Region: GTP1_OBG; pfam01018 313596003308 Obg GTPase; Region: Obg; cd01898 313596003309 G1 box; other site 313596003310 GTP/Mg2+ binding site [chemical binding]; other site 313596003311 Switch I region; other site 313596003312 G2 box; other site 313596003313 G3 box; other site 313596003314 Switch II region; other site 313596003315 G4 box; other site 313596003316 G5 box; other site 313596003317 Domain of unknown function (DUF4136); Region: DUF4136; pfam13590 313596003318 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 313596003319 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR)-like, SDR; Region: BKR_like_SDR_like; cd05344 313596003320 putative NAD(P) binding site [chemical binding]; other site 313596003321 putative active site [active] 313596003322 Cupin domain; Region: Cupin_2; pfam07883 313596003323 UDP-N-acetylmuramate-alanine ligase [Cell envelope biogenesis, outer membrane]; Region: MurC; COG0773 313596003324 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 313596003325 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 313596003326 Protein of unknown function (DUF1569); Region: DUF1569; pfam07606 313596003327 hypothetical protein; Reviewed; Region: PRK00024 313596003328 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 313596003329 MPN+ (JAMM) motif; other site 313596003330 Zinc-binding site [ion binding]; other site 313596003331 Putative catalytic domain of uncharacterized bacterial proteins from the carbohydrate esterase 4 superfamily; Region: CE4_u7; cd10931 313596003332 putative active site [active] 313596003333 HAD superfamily (subfamily IA) hydrolase, TIGR02254; Region: YjjG/YfnB 313596003334 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 313596003335 motif II; other site 313596003336 recombination factor protein RarA; Reviewed; Region: PRK13342 313596003337 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 313596003338 Walker A motif; other site 313596003339 ATP binding site [chemical binding]; other site 313596003340 Walker B motif; other site 313596003341 arginine finger; other site 313596003342 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 313596003343 Rhomboid family; Region: Rhomboid; cl11446 313596003344 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 313596003345 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 313596003346 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 313596003347 starch binding outer membrane protein SusD; Region: SusD; cl17845 313596003348 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 313596003349 Cna protein B-type domain; Region: Cna_B_2; pfam13715 313596003350 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 313596003351 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 313596003352 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 313596003353 S17 interaction site [polypeptide binding]; other site 313596003354 S8 interaction site; other site 313596003355 16S rRNA interaction site [nucleotide binding]; other site 313596003356 streptomycin interaction site [chemical binding]; other site 313596003357 23S rRNA interaction site [nucleotide binding]; other site 313596003358 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 313596003359 Ribosomal protein S7p/S5e; Region: Ribosomal_S7; cl00313 313596003360 elongation factor G; Reviewed; Region: PRK12739 313596003361 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 313596003362 G1 box; other site 313596003363 putative GEF interaction site [polypeptide binding]; other site 313596003364 GTP/Mg2+ binding site [chemical binding]; other site 313596003365 Switch I region; other site 313596003366 G2 box; other site 313596003367 G3 box; other site 313596003368 Switch II region; other site 313596003369 G4 box; other site 313596003370 G5 box; other site 313596003371 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 313596003372 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 313596003373 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 313596003374 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 313596003375 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 313596003376 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 313596003377 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 313596003378 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 313596003379 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 313596003380 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 313596003381 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 313596003382 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 313596003383 putative translocon binding site; other site 313596003384 protein-rRNA interface [nucleotide binding]; other site 313596003385 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 313596003386 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 313596003387 G-X-X-G motif; other site 313596003388 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 313596003389 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 313596003390 23S rRNA interface [nucleotide binding]; other site 313596003391 5S rRNA interface [nucleotide binding]; other site 313596003392 putative antibiotic binding site [chemical binding]; other site 313596003393 L25 interface [polypeptide binding]; other site 313596003394 L27 interface [polypeptide binding]; other site 313596003395 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 313596003396 23S rRNA interface [nucleotide binding]; other site 313596003397 putative translocon interaction site; other site 313596003398 signal recognition particle (SRP54) interaction site; other site 313596003399 L23 interface [polypeptide binding]; other site 313596003400 trigger factor interaction site; other site 313596003401 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 313596003402 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 313596003403 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 313596003404 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 313596003405 RNA binding site [nucleotide binding]; other site 313596003406 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 313596003407 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 313596003408 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 313596003409 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 313596003410 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 313596003411 ribosomal protein L6, bacterial type; Region: L6_bact; TIGR03654 313596003412 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 313596003413 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 313596003414 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 313596003415 5S rRNA interface [nucleotide binding]; other site 313596003416 L27 interface [polypeptide binding]; other site 313596003417 23S rRNA interface [nucleotide binding]; other site 313596003418 L5 interface [polypeptide binding]; other site 313596003419 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 313596003420 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 313596003421 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 313596003422 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 313596003423 23S rRNA binding site [nucleotide binding]; other site 313596003424 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 313596003425 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 313596003426 SecY translocase; Region: SecY; pfam00344 313596003427 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 313596003428 rRNA binding site [nucleotide binding]; other site 313596003429 predicted 30S ribosome binding site; other site 313596003430 Ribosomal protein L36; Region: Ribosomal_L36; pfam00444 313596003431 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 313596003432 30S ribosomal protein S13; Region: bact_S13; TIGR03631 313596003433 30S ribosomal protein S11; Validated; Region: PRK05309 313596003434 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 313596003435 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 313596003436 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 313596003437 RNA binding surface [nucleotide binding]; other site 313596003438 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 313596003439 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 313596003440 alphaNTD - beta interaction site [polypeptide binding]; other site 313596003441 alphaNTD homodimer interface [polypeptide binding]; other site 313596003442 alphaNTD - beta' interaction site [polypeptide binding]; other site 313596003443 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 313596003444 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 313596003445 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 313596003446 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; pfam00988 313596003447 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 313596003448 catalytic site [active] 313596003449 subunit interface [polypeptide binding]; other site 313596003450 enolase; Provisional; Region: eno; PRK00077 313596003451 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 313596003452 dimer interface [polypeptide binding]; other site 313596003453 metal binding site [ion binding]; metal-binding site 313596003454 substrate binding pocket [chemical binding]; other site 313596003455 This family is most closely related to the GT1 family of glycosyltransferases. Glycogen synthase catalyzes the formation and elongation of the alpha-1,4-glucose backbone using ADP-glucose, the second and key step of glycogen biosynthesis. This family...; Region: GT1_Glycogen_synthase_DULL1_like; cd03791 313596003456 glycogen synthase; Provisional; Region: glgA; PRK00654 313596003457 ADP-binding pocket [chemical binding]; other site 313596003458 homodimer interface [polypeptide binding]; other site 313596003459 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 313596003460 dimer interface [polypeptide binding]; other site 313596003461 Citrate synthase; Region: Citrate_synt; pfam00285 313596003462 active site 313596003463 citrylCoA binding site [chemical binding]; other site 313596003464 NADH binding [chemical binding]; other site 313596003465 cationic pore residues; other site 313596003466 oxalacetate/citrate binding site [chemical binding]; other site 313596003467 coenzyme A binding site [chemical binding]; other site 313596003468 catalytic triad [active] 313596003469 N-Dimethylarginine dimethylaminohydrolase [Amino acid transport and metabolism]; Region: COG1834 313596003470 Amidinotransferase; Region: Amidinotransf; cl12043 313596003471 Uncharacterized protein conserved in bacteria containing a pentein-type domain [Function unknown]; Region: COG4874 313596003472 Amidinotransferase; Region: Amidinotransf; pfam02274 313596003473 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 313596003474 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 313596003475 NAD(P) binding site [chemical binding]; other site 313596003476 active site 313596003477 Protein of unknown function (DUF2867); Region: DUF2867; pfam11066 313596003478 Arginyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: ArgS; COG0018 313596003479 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 313596003480 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 313596003481 KMSK motif region; other site 313596003482 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 313596003483 tRNA binding surface [nucleotide binding]; other site 313596003484 anticodon binding site; other site 313596003485 Cna protein B-type domain; Region: Cna_B_2; pfam13715 313596003486 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 313596003487 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 313596003488 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 313596003489 FecR protein; Region: FecR; pfam04773 313596003490 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 313596003491 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 313596003492 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 313596003493 DNA binding residues [nucleotide binding] 313596003494 signal recognition particle protein; Provisional; Region: PRK10867 313596003495 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 313596003496 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 313596003497 P loop; other site 313596003498 GTP binding site [chemical binding]; other site 313596003499 Signal peptide binding domain; Region: SRP_SPB; pfam02978 313596003500 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 313596003501 5,10-methylene-tetrahydrofolate dehydrogenase/Methenyl tetrahydrofolate cyclohydrolase [Coenzyme metabolism]; Region: FolD; COG0190 313596003502 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 313596003503 homodimer interface [polypeptide binding]; other site 313596003504 NADP binding site [chemical binding]; other site 313596003505 substrate binding site [chemical binding]; other site 313596003506 Putative esterase; Region: Esterase; pfam00756 313596003507 Predicted membrane protein (DUF2306); Region: DUF2306; pfam10067 313596003508 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 313596003509 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 313596003510 Coenzyme A binding pocket [chemical binding]; other site 313596003511 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 313596003512 active site 313596003513 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 313596003514 catalytic tetrad [active] 313596003515 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_18; cd08357 313596003516 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 313596003517 putative metal binding site [ion binding]; other site 313596003518 PGAP1-like protein; Region: PGAP1; pfam07819 313596003519 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 313596003520 TAP-like protein; Region: Abhydrolase_4; pfam08386 313596003521 Periplasmic component of the Tol biopolymer transport system [Intracellular trafficking and secretion]; Region: TolB; COG0823 313596003522 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 313596003523 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 313596003524 Bacterial protein of unknown function (DUF853); Region: DUF853; pfam05872 313596003525 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 313596003526 Zonular occludens toxin (Zot); Region: Zot; cl17485 313596003527 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 313596003528 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 313596003529 FeS/SAM binding site; other site 313596003530 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 313596003531 S-adenosylmethionine binding site [chemical binding]; other site 313596003532 Flagellin N-methylase; Region: FliB; pfam03692 313596003533 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 313596003534 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 313596003535 Protein of unknown function (DUF1343); Region: DUF1343; pfam07075 313596003536 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 313596003537 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 313596003538 FtsX-like permease family; Region: FtsX; pfam02687 313596003539 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 313596003540 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 313596003541 dimer interface [polypeptide binding]; other site 313596003542 pyridoxal 5'-phosphate binding site [chemical binding]; other site 313596003543 catalytic residue [active] 313596003544 Sulfotransferase domain; Region: Sulfotransfer_1; pfam00685 313596003545 aldose 1-epimerase superfamily; Region: Aldose_epim; cd01081 313596003546 active site 313596003547 catalytic residues [active] 313596003548 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 313596003549 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cd00158 313596003550 active site residue [active] 313596003551 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cd00158 313596003552 active site residue [active] 313596003553 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 313596003554 active site 313596003555 catalytic site [active] 313596003556 substrate binding site [chemical binding]; other site 313596003557 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 313596003558 GIY-YIG motif/motif A; other site 313596003559 active site 313596003560 catalytic site [active] 313596003561 putative DNA binding site [nucleotide binding]; other site 313596003562 metal binding site [ion binding]; metal-binding site 313596003563 ATP-grasp domain; Region: ATP-grasp_4; cl17255 313596003564 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 313596003565 Acetyltransferase (GNAT) domain; Region: Acetyltransf_7; pfam13508 313596003566 Parallel beta-helix repeat of pectate lyase; Region: PbH1; pfam13573 313596003567 GLPGLI family protein; Region: GLPGLI; TIGR01200 313596003568 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 313596003569 Uracil-DNA glycosylases (UDG) and related enzymes; Region: UDG_like; cl00483 313596003570 ligand binding site [chemical binding]; other site 313596003571 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 313596003572 active site 313596003573 Secreted and surface protein containing fasciclin-like repeats [Cell envelope biogenesis, outer membrane]; Region: COG2335 313596003574 Fasciclin domain; Region: Fasciclin; pfam02469 313596003575 TIGR02594 family protein; Region: TIGR02594 313596003576 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 313596003577 CARDB; Region: CARDB; pfam07705 313596003578 type II restriction m6 adenine DNA methyltransferase, Alw26I/Eco31I/Esp3I family; Region: met_A_Alw26; TIGR02987 313596003579 Methyltransferase domain; Region: Methyltransf_26; pfam13659 313596003580 Eco57I restriction-modification methylase; Region: Eco57I; pfam07669 313596003581 TaqI-like C-terminal specificity domain; Region: TaqI_C; pfam12950 313596003582 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; pfam08843 313596003583 Predicted P-loop ATPase [General function prediction only]; Region: COG4928 313596003584 KAP family P-loop domain; Region: KAP_NTPase; pfam07693 313596003585 Tn4399 and related integrases, DNA breaking-rejoining enzymes, integrase/recombinases, N- and C-terminal domains. This CD includes various bacterial integrases, including cLV25, a Bacteroides fragilis chromosomal transfer factor integrase similar to the...; Region: INT_Tn4399; cd01185 313596003586 Int/Topo IB signature motif; other site 313596003587 Saccharopine Dehydrogenase like proteins; Region: SDH_like; cd05199 313596003588 active site 313596003589 ligand binding site [chemical binding]; other site 313596003590 NAD(P) binding site [chemical binding]; other site 313596003591 Polymerase and Histidinol Phosphatase domain of Chlorobi like; Region: PHP_HisPPase_Chlorobi_like; cd12112 313596003592 DNA polymerase alpha chain like domain; Region: POLIIIAc; smart00481 313596003593 active site 313596003594 dimer interface [polypeptide binding]; other site 313596003595 Domain of unknown function (DU1801); Region: DUF1801; pfam08818 313596003596 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 313596003597 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 313596003598 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 313596003599 GTP-binding protein TypA/BipA; Region: TypA_BipA; TIGR01394 313596003600 G1 box; other site 313596003601 putative GEF interaction site [polypeptide binding]; other site 313596003602 GTP/Mg2+ binding site [chemical binding]; other site 313596003603 Switch I region; other site 313596003604 G2 box; other site 313596003605 G3 box; other site 313596003606 Switch II region; other site 313596003607 G4 box; other site 313596003608 G5 box; other site 313596003609 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 313596003610 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 313596003611 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 313596003612 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 313596003613 nucleotide binding site [chemical binding]; other site 313596003614 Major Facilitator Superfamily; Region: MFS_1; pfam07690 313596003615 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 313596003616 putative substrate translocation pore; other site 313596003617 Arylsulfotransferase (ASST); Region: Arylsulfotran_2; pfam14269 313596003618 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 313596003619 cell division ATP-binding protein FtsE; Region: FtsE; TIGR02673 313596003620 Walker A/P-loop; other site 313596003621 ATP binding site [chemical binding]; other site 313596003622 Q-loop/lid; other site 313596003623 ABC transporter signature motif; other site 313596003624 Walker B; other site 313596003625 D-loop; other site 313596003626 H-loop/switch region; other site 313596003627 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 313596003628 binding surface 313596003629 TPR motif; other site 313596003630 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 313596003631 TPR motif; other site 313596003632 binding surface 313596003633 Anaphase-promoting complex, cyclosome, subunit 3; Region: Apc3; pfam12895 313596003634 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 313596003635 binding surface 313596003636 TPR motif; other site 313596003637 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 313596003638 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4649 313596003639 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 313596003640 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 313596003641 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 313596003642 ligand binding site [chemical binding]; other site 313596003643 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 313596003644 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 313596003645 active site 313596003646 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 313596003647 Protein of unknown function (DUF2911); Region: DUF2911; pfam11138 313596003648 asparagine synthetase B; Provisional; Region: asnB; PRK09431 313596003649 Glutamine amidotransferases class-II (GATase) asparagine synthase_B type. Asparagine synthetase B catalyses the ATP-dependent conversion of aspartate to asparagine. This enzyme is a homodimer, with each monomer composed of a glutaminase domain and a...; Region: AsnB; cd00712 313596003650 active site 313596003651 dimer interface [polypeptide binding]; other site 313596003652 The C-terminal domain of Asparagine Synthase B. This domain is always found associated n-terminal amidotransferase domain. Family members that contain this domain catalyse the conversion of aspartate to asparagine. Asparagine synthetase B catalyzes the...; Region: Asn_Synthase_B_C; cd01991 313596003653 Ligand Binding Site [chemical binding]; other site 313596003654 Molecular Tunnel; other site 313596003655 DNA gyrase subunit B; Validated; Region: gyrB; PRK05644 313596003656 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 313596003657 Mg2+ binding site [ion binding]; other site 313596003658 G-X-G motif; other site 313596003659 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 313596003660 anchoring element; other site 313596003661 dimer interface [polypeptide binding]; other site 313596003662 ATP binding site [chemical binding]; other site 313596003663 TOPRIM_TopoIIA_GyrB: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in proteins of the type IIA family of DNA topoisomerases similar to the Escherichia coli GyrB subunit. TopoIIA enzymes cut both strands of the...; Region: TOPRIM_TopoIIA_GyrB; cd03366 313596003664 active site 313596003665 putative metal-binding site [ion binding]; other site 313596003666 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 313596003667 malate dehydrogenase; Reviewed; Region: PRK06223 313596003668 L-lactate dehydrogenase-like malate dehydrogenase proteins; Region: LDH-like_MDH; cd01339 313596003669 NAD(P) binding site [chemical binding]; other site 313596003670 dimer interface [polypeptide binding]; other site 313596003671 tetramer (dimer of dimers) interface [polypeptide binding]; other site 313596003672 substrate binding site [chemical binding]; other site 313596003673 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 313596003674 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 313596003675 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 313596003676 Protein export membrane protein; Region: SecD_SecF; pfam02355 313596003677 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 313596003678 ABC transporter signature motif; other site 313596003679 Walker B; other site 313596003680 D-loop; other site 313596003681 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 313596003682 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 313596003683 Walker A/P-loop; other site 313596003684 ATP binding site [chemical binding]; other site 313596003685 Q-loop/lid; other site 313596003686 ABC transporter signature motif; other site 313596003687 Walker B; other site 313596003688 D-loop; other site 313596003689 H-loop/switch region; other site 313596003690 Uncharacterized ACR, COG1430; Region: DUF192; pfam02643 313596003691 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 313596003692 Haemolytic domain; Region: Haemolytic; pfam01809 313596003693 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 313596003694 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 313596003695 active site 313596003696 HIGH motif; other site 313596003697 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 313596003698 active site 313596003699 KMSKS motif; other site 313596003700 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 313596003701 anticodon binding site; other site 313596003702 tRNA binding surface [nucleotide binding]; other site 313596003703 GTP cyclohydrolase I; Provisional; Region: folE; PRK09347 313596003704 GTP cyclohydrolase I; Provisional; Region: PLN03044 313596003705 active site 313596003706 gliding motility-associated C-terminal domain; Region: Bac_Flav_CTERM; TIGR04131 313596003707 gliding motility-associated C-terminal domain; Region: Bac_Flav_CTERM; TIGR04131 313596003708 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; cl17479 313596003709 prolyl-tRNA synthetase; Provisional; Region: PRK08661 313596003710 Prolyl-tRNA synthetase (ProRS) class II core catalytic domain. ProRS is a homodimer. It is responsible for the attachment of proline to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: ProRS_core_arch_euk; cd00778 313596003711 dimer interface [polypeptide binding]; other site 313596003712 motif 1; other site 313596003713 active site 313596003714 motif 2; other site 313596003715 motif 3; other site 313596003716 ProRS Prolyl-anticodon binding domain, long version found predominantly in eukaryotes and archaea. ProRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in...; Region: ProRS_anticodon_zinc; cd00862 313596003717 anticodon binding site; other site 313596003718 zinc-binding site [ion binding]; other site 313596003719 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 313596003720 melibiose:sodium symporter; Provisional; Region: PRK10429; cl15392 313596003721 Rho termination factor, N-terminal domain; Region: Rho_N; pfam07498 313596003722 transcription termination factor Rho; Provisional; Region: PRK12608 313596003723 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 313596003724 RNA binding site [nucleotide binding]; other site 313596003725 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 313596003726 multimer interface [polypeptide binding]; other site 313596003727 Walker A motif; other site 313596003728 ATP binding site [chemical binding]; other site 313596003729 Walker B motif; other site 313596003730 Domain of unknown function (DUF4293); Region: DUF4293; pfam14126 313596003731 Domain of unknown function (DUF1508); Region: DUF1508; pfam07411 313596003732 Domain of unknown function (DUF1508); Region: DUF1508; pfam07411 313596003733 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 313596003734 active site 313596003735 metal binding site [ion binding]; metal-binding site 313596003736 homotetramer interface [polypeptide binding]; other site 313596003737 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 313596003738 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 313596003739 dimerization interface 3.5A [polypeptide binding]; other site 313596003740 active site 313596003741 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 313596003742 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 313596003743 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 313596003744 Walker A/P-loop; other site 313596003745 ATP binding site [chemical binding]; other site 313596003746 Q-loop/lid; other site 313596003747 ABC transporter signature motif; other site 313596003748 Walker B; other site 313596003749 D-loop; other site 313596003750 H-loop/switch region; other site 313596003751 zinc-ribbon domain; Region: zf-ribbon_3; pfam13248 313596003752 Protein of unknown function (DUF3667); Region: DUF3667; pfam12412 313596003753 Uncharacterized conserved protein [Function unknown]; Region: COG1624 313596003754 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 313596003755 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 313596003756 dihydropteroate synthase; Region: DHPS; TIGR01496 313596003757 substrate binding pocket [chemical binding]; other site 313596003758 dimer interface [polypeptide binding]; other site 313596003759 inhibitor binding site; inhibition site 313596003760 Domain of Unknown Function (DUF1599); Region: DUF1599; pfam07659 313596003761 Domain of Unknown Function (DUF1599); Region: DUF1599; pfam07659 313596003762 Predicted membrane protein [Function unknown]; Region: COG2259 313596003763 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 313596003764 triosephosphate isomerase; Provisional; Region: PRK14565 313596003765 dimer interface [polypeptide binding]; other site 313596003766 substrate binding site [chemical binding]; other site 313596003767 catalytic triad [active] 313596003768 ribosomal protein L11 methyltransferase; Reviewed; Region: prmA; PRK00517 313596003769 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 313596003770 S-adenosylmethionine binding site [chemical binding]; other site 313596003771 ATP-dependent Clp protease adaptor protein ClpS; Region: ClpS; pfam02617 313596003772 beta-D-glucoside glucohydrolase; Provisional; Region: PRK15098 313596003773 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 313596003774 Fibronectin type III-like domain; Region: Fn3-like; pfam14310 313596003775 5' nucleotidase, deoxy (Pyrimidine), cytosolic type C protein (NT5C); Region: NT5C; pfam06941 313596003776 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 313596003777 TAP-like protein; Region: Abhydrolase_4; pfam08386 313596003778 Predicted membrane protein [Function unknown]; Region: COG1288 313596003779 C4-dicarboxylate anaerobic carrier; Region: DcuC; pfam03606 313596003780 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 313596003781 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 313596003782 non-specific DNA binding site [nucleotide binding]; other site 313596003783 salt bridge; other site 313596003784 sequence-specific DNA binding site [nucleotide binding]; other site 313596003785 Tic20-like protein; Region: Tic20; pfam09685 313596003786 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 313596003787 Beta-lactamase; Region: Beta-lactamase; pfam00144 313596003788 Protein of unknown function (DUF1697); Region: DUF1697; pfam08002 313596003789 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 313596003790 putative substrate translocation pore; other site 313596003791 Major Facilitator Superfamily; Region: MFS_1; pfam07690 313596003792 hypothetical protein; Provisional; Region: PRK08262 313596003793 M20 Peptidase, carboxypeptidase yscS; Region: M20_yscS; cd05674 313596003794 metal binding site [ion binding]; metal-binding site 313596003795 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 313596003796 X-Pro dipeptidyl-peptidase (S15 family); Region: Peptidase_S15; pfam02129 313596003797 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 313596003798 X-Pro dipeptidyl-peptidase C-terminal non-catalytic domain; Region: PepX_C; pfam08530 313596003799 Putative hydrophobic ligand-binding SRPBCC domain of Micromonospora echinospora CalC, human Aha1, and related proteins; Region: SRPBCC_CalC_Aha1-like; cd07814 313596003800 putative hydrophobic ligand binding site [chemical binding]; other site 313596003801 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 313596003802 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 313596003803 homodimer interface [polypeptide binding]; other site 313596003804 substrate-cofactor binding pocket; other site 313596003805 pyridoxal 5'-phosphate binding site [chemical binding]; other site 313596003806 catalytic residue [active] 313596003807 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 313596003808 putative substrate translocation pore; other site 313596003809 Major Facilitator Superfamily; Region: MFS_1; pfam07690 313596003810 Rho termination factor, N-terminal domain; Region: Rho_N; cl06505 313596003811 Trehalose utilisation; Region: ThuA; pfam06283 313596003812 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 313596003813 FOG: PKD repeat [General function prediction only]; Region: COG3291 313596003814 polycystic kidney disease I (PKD) domain; similar to other cell-surface modules, with an IG-like fold; domain probably functions as a ligand binding site in protein-protein or protein-carbohydrate interactions; a single instance of the repeat is...; Region: PKD; cd00146 313596003815 Cytochrome c; Region: Cytochrom_C; cl11414 313596003816 Carbohydrate Binding Module 6 (CBM6); many are appended to glycoside hydrolase (GH) family 11 and GH43 xylanase domains; Region: CBM6_xylanase-like; cd04084 313596003817 ligand binding site [chemical binding]; other site 313596003818 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 313596003819 Sulfatase; Region: Sulfatase; cl17466 313596003820 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 313596003821 Sulfatase; Region: Sulfatase; pfam00884 313596003822 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 313596003823 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 313596003824 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 313596003825 DNA binding residues [nucleotide binding] 313596003826 FecR protein; Region: FecR; pfam04773 313596003827 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 313596003828 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 313596003829 Cna protein B-type domain; Region: Cna_B_2; pfam13715 313596003830 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 313596003831 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 313596003832 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 313596003833 starch binding outer membrane protein SusD; Region: SusD; cd08977 313596003834 SusD family; Region: SusD; pfam07980 313596003835 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 313596003836 Sulfatase; Region: Sulfatase; pfam00884 313596003837 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 313596003838 Sulfatase; Region: Sulfatase; pfam00884 313596003839 superfamily containing globins and truncated hemoglobins; Region: globin_like; cl00280 313596003840 heme-binding site [chemical binding]; other site 313596003841 Domain of Unknown function (DUF542); Region: ScdA_N; pfam04405 313596003842 iron-sulfur cluster repair di-iron protein; Region: FeS_repair_RIC; TIGR03652 313596003843 Hemerythrin-like domain; Region: Hr-like; cd12108 313596003844 Rrf2 family protein; Region: rrf2_super; TIGR00738 313596003845 Transcriptional regulator; Region: Rrf2; pfam02082 313596003846 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 313596003847 Ligand Binding Site [chemical binding]; other site 313596003848 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 313596003849 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 313596003850 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 313596003851 NAD(P) binding domain of glutamate dehydrogenase, subgroup 1; Region: NAD_bind_1_Glu_DH; cd01076 313596003852 NAD(P) binding site [chemical binding]; other site 313596003853 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 313596003854 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 313596003855 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 313596003856 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 313596003857 active site 313596003858 phosphorylation site [posttranslational modification] 313596003859 intermolecular recognition site; other site 313596003860 dimerization interface [polypeptide binding]; other site 313596003861 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 313596003862 Walker A motif; other site 313596003863 ATP binding site [chemical binding]; other site 313596003864 Walker B motif; other site 313596003865 arginine finger; other site 313596003866 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 313596003867 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 313596003868 dimer interface [polypeptide binding]; other site 313596003869 phosphorylation site [posttranslational modification] 313596003870 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 313596003871 ATP binding site [chemical binding]; other site 313596003872 Mg2+ binding site [ion binding]; other site 313596003873 G-X-G motif; other site 313596003874 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 313596003875 Mechanosensitive ion channel; Region: MS_channel; pfam00924 313596003876 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 313596003877 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 313596003878 NAD(P) binding site [chemical binding]; other site 313596003879 active site 313596003880 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 313596003881 Beta-lactamase; Region: Beta-lactamase; pfam00144 313596003882 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 313596003883 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 313596003884 Amidohydrolase; Region: Amidohydro_4; pfam13147 313596003885 active site 313596003886 Beta-lactamase; Region: Beta-lactamase; pfam00144 313596003887 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 313596003888 Domain of unknown function (DUF4386); Region: DUF4386; pfam14329 313596003889 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 313596003890 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 313596003891 ligand binding site [chemical binding]; other site 313596003892 Putative cyclase; Region: Cyclase; pfam04199 313596003893 Protein of unknown function, DUF606; Region: DUF606; pfam04657 313596003894 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 313596003895 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 313596003896 Coenzyme A binding pocket [chemical binding]; other site 313596003897 NAD(P)H:FMN oxidoreductase family. This domain catalyzes the reduction of flavin, nitrocompound, quinones and azo compounds using NADH or NADPH as an electron donor. The enzyme is a homodimer, and each monomer binds a FMN as co-factor. This family...; Region: NfsB_like_nitroreductase; cd02149 313596003898 dimer interface [polypeptide binding]; other site 313596003899 FMN binding site [chemical binding]; other site 313596003900 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 313596003901 Glyoxalase-like domain; Region: Glyoxalase_2; pfam12681 313596003902 active site 313596003903 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 313596003904 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 313596003905 Zn binding site [ion binding]; other site 313596003906 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 313596003907 ABC-type multidrug transport system, ATPase component; Region: ABC_drug_resistance_like; cd03264 313596003908 Walker A/P-loop; other site 313596003909 ATP binding site [chemical binding]; other site 313596003910 Q-loop/lid; other site 313596003911 ABC transporter signature motif; other site 313596003912 Walker B; other site 313596003913 D-loop; other site 313596003914 H-loop/switch region; other site 313596003915 Alpha/beta hydrolase; Region: Abhydrolase_8; pfam06259 313596003916 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 313596003917 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Escherichia coli Hsp31 protein; Region: GATase1_Hsp31_like; cd03141 313596003918 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 313596003919 potential catalytic triad [active] 313596003920 conserved cys residue [active] 313596003921 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 313596003922 Putative esterase; Region: Esterase; pfam00756 313596003923 TPR repeat; Region: TPR_11; pfam13414 313596003924 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 313596003925 binding surface 313596003926 TPR motif; other site 313596003927 Domain of unknown function (DUF4386); Region: DUF4386; pfam14329 313596003928 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 313596003929 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 313596003930 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 313596003931 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Escherichia coli Hsp31 protein; Region: GATase1_Hsp31_like; cd03141 313596003932 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 313596003933 potential catalytic triad [active] 313596003934 conserved cys residue [active] 313596003935 Predicted flavoprotein [General function prediction only]; Region: COG0431 313596003936 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 313596003937 Predicted membrane protein [Function unknown]; Region: COG2259 313596003938 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 313596003939 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 313596003940 ligand binding site [chemical binding]; other site 313596003941 flexible hinge region; other site 313596003942 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 313596003943 Helix-turn-helix domain; Region: HTH_18; pfam12833 313596003944 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 313596003945 Domain of unknown function (DUF1772); Region: DUF1772; pfam08592 313596003946 NmrA-like family; Region: NmrA; pfam05368 313596003947 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 313596003948 NAD(P) binding site [chemical binding]; other site 313596003949 active site 313596003950 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 313596003951 Beta-lactamase; Region: Beta-lactamase; pfam00144 313596003952 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 313596003953 active site 313596003954 BlaR1 peptidase M56; Region: Peptidase_M56; pfam05569 313596003955 TonB-dependent outer membrane receptor, SusC/RagA subfamily, signature region; Region: SusC_RagA_signa; TIGR04057 313596003956 Penicillinase repressor; Region: Pencillinase_R; pfam03965 313596003957 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 313596003958 Beta-lactamase; Region: Beta-lactamase; pfam00144 313596003959 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 313596003960 TPR repeat; Region: TPR_11; pfam13414 313596003961 binding surface 313596003962 TPR motif; other site 313596003963 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 313596003964 K+-dependent Na+/Ca+ exchanger related-protein; Region: TIGR00367 313596003965 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 313596003966 glutamine synthetase; Region: PLN02284 313596003967 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 313596003968 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 313596003969 Uncharacterized protein related to glutamine synthetase [General function prediction only]; Region: COG3968 313596003970 Glutamine synthetase type III N terminal; Region: GSIII_N; pfam12437 313596003971 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 313596003972 Phosphoribosylaminoimidazole (AIR) synthetase [Nucleotide transport and metabolism]; Region: PurM; COG0150 313596003973 AIR (aminoimidazole ribonucleotide) synthase related protein. This family includes Hydrogen expression/formation protein HypE, AIR synthases, FGAM (formylglycinamidine ribonucleotide) synthase and Selenophosphate synthetase (SelD). The N-terminal domain...; Region: PurM-like; cl10019 313596003974 dimerization interface [polypeptide binding]; other site 313596003975 ATP binding site [chemical binding]; other site 313596003976 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cl00938 313596003977 iron-sulfur cluster [ion binding]; other site 313596003978 [2Fe-2S] cluster binding site [ion binding]; other site 313596003979 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 313596003980 ApbE family; Region: ApbE; pfam02424 313596003981 peptide chain release factor 1; Validated; Region: prfA; PRK00591 313596003982 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 313596003983 This domain is found in peptide chain release factors; Region: PCRF; smart00937 313596003984 RF-1 domain; Region: RF-1; pfam00472 313596003985 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 313596003986 active site 313596003987 dimer interface [polypeptide binding]; other site 313596003988 starch binding outer membrane protein SusD; Region: SusD; cd08977 313596003989 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 313596003990 Cna protein B-type domain; Region: Cna_B_2; pfam13715 313596003991 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 313596003992 TonB dependent receptor; Region: TonB_dep_Rec; pfam00593 313596003993 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 313596003994 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 313596003995 Protein of unknown function (DUF4197); Region: DUF4197; pfam13852 313596003996 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 313596003997 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 313596003998 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 313596003999 putative active site [active] 313596004000 putative substrate binding site [chemical binding]; other site 313596004001 putative cosubstrate binding site; other site 313596004002 catalytic site [active] 313596004003 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 313596004004 B12 binding site [chemical binding]; other site 313596004005 cobalt ligand [ion binding]; other site 313596004006 The function of this protein family is unkown. The protein sequences are similar to the ArgK protein in E. coli. ArgK protein is a membrane ATPase which is required for transporting arginine, ornithine and lysine into the cells by the arginine and...; Region: ArgK-like; cd03114 313596004007 Walker A; other site 313596004008 Coenzyme B12-dependent-methylmalonyl coenzyme A (CoA) mutase (MCM) family, unknown subfamily 1; composed of uncharacterized bacterial proteins containing a C-terminal MCM domain. MCM catalyzes the isomerization of methylmalonyl-CoA to succinyl-CoA. The...; Region: MM_CoA_mutase_1; cd03678 313596004009 putative active site [active] 313596004010 putative substrate binding site [chemical binding]; other site 313596004011 putative coenzyme B12 binding site [chemical binding]; other site 313596004012 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 313596004013 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 313596004014 dimerization interface [polypeptide binding]; other site 313596004015 putative Zn2+ binding site [ion binding]; other site 313596004016 putative DNA binding site [nucleotide binding]; other site 313596004017 AsnC family; Region: AsnC_trans_reg; pfam01037 313596004018 Protein of unknown function (DUF1684); Region: DUF1684; pfam07920 313596004019 Outer membrane protein family (DUF1597); Region: DUF1597; pfam07642 313596004020 Ammonium Transporter Family; Region: Ammonium_transp; cl03012 313596004021 Nitrogen regulatory protein P-II; Region: P-II; pfam00543 313596004022 Nitrogen regulatory protein P-II; Region: P-II; smart00938 313596004023 CrcB-like protein; Region: CRCB; cl09114 313596004024 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in Deinococcus radiodurans DR2231 protein and its bacterial homologs; Region: NTP-PPase_DR2231_like; cd11530 313596004025 metal binding site [ion binding]; metal-binding site 313596004026 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 313596004027 BCAT_beta_family: Branched-chain aminotransferase catalyses the transamination of the branched-chain amino acids leusine, isoleucine and valine to their respective alpha-keto acids, alpha-ketoisocaproate, alpha-keto-beta-methylvalerate and...; Region: BCAT_beta_family; cd01557 313596004028 homodimer interface [polypeptide binding]; other site 313596004029 substrate-cofactor binding pocket; other site 313596004030 catalytic residue [active] 313596004031 S-adenosyl-L-methionine-dependent methyltransferase; Region: Methyltransf_30; cl17711 313596004032 Predicted nucleoside-diphosphate sugar epimerase [General function prediction only]; Region: COG1090 313596004033 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 313596004034 NAD(P) binding site [chemical binding]; other site 313596004035 active site 313596004036 GrpE; Region: GrpE; pfam01025 313596004037 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 313596004038 dimer interface [polypeptide binding]; other site 313596004039 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 313596004040 chaperone protein DnaJ; Provisional; Region: PRK14289 313596004041 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 313596004042 HSP70 interaction site [polypeptide binding]; other site 313596004043 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 313596004044 substrate binding site [polypeptide binding]; other site 313596004045 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 313596004046 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 313596004047 dimer interface [polypeptide binding]; other site 313596004048 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4152 313596004049 ATP-binding cassette domain of an uncharacterized transporter; Region: ABC_putative_ATPase; cd03269 313596004050 Walker A/P-loop; other site 313596004051 ATP binding site [chemical binding]; other site 313596004052 Q-loop/lid; other site 313596004053 ABC transporter signature motif; other site 313596004054 Walker B; other site 313596004055 D-loop; other site 313596004056 H-loop/switch region; other site 313596004057 Domain of unknown function (DUF4162); Region: DUF4162; pfam13732 313596004058 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 313596004059 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 313596004060 Mechanosensitive ion channel; Region: MS_channel; pfam00924 313596004061 Response regulator receiver domain; Region: Response_reg; pfam00072 313596004062 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 313596004063 active site 313596004064 phosphorylation site [posttranslational modification] 313596004065 intermolecular recognition site; other site 313596004066 dimerization interface [polypeptide binding]; other site 313596004067 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 313596004068 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 313596004069 Walker A motif; other site 313596004070 ATP binding site [chemical binding]; other site 313596004071 Walker B motif; other site 313596004072 arginine finger; other site 313596004073 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 313596004074 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 313596004075 Predicted aminopeptidases [General function prediction only]; Region: Iap; COG2234 313596004076 PA_M28_2: Protease-associated (PA) domain, peptidase family M28, subfamily-2. A subfamily of PA-domain containing proteins belonging to the peptidase family M28. Family M28 contains aminopeptidases and carboxypeptidases, and has co-catalytic zinc ions; Region: PA_M28_2; cd04815 313596004077 PA/protease or protease-like domain interface [polypeptide binding]; other site 313596004078 M28 Zn-Peptidase Plasma glutamate carboxypeptidase; Region: M28_Pgcp_like; cd03883 313596004079 Peptidase family M28; Region: Peptidase_M28; pfam04389 313596004080 metal binding site [ion binding]; metal-binding site 313596004081 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 313596004082 active site 313596004083 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 313596004084 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 313596004085 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 313596004086 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 313596004087 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 313596004088 metal-dependent hydrolase; Provisional; Region: PRK13291 313596004089 DinB superfamily; Region: DinB_2; pfam12867 313596004090 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 313596004091 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 313596004092 Coenzyme A binding pocket [chemical binding]; other site 313596004093 Peroxiredoxin (PRX)-like 1 family; hypothetical proteins that show sequence similarity to PRXs. Members of this group contain a conserved cysteine that aligns to the first cysteine in the CXXC motif of TRX. This does not correspond to the peroxidatic...; Region: PRX_like1; cd02969 313596004094 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 313596004095 putative catalytic residue [active] 313596004096 Sodium Bile acid symporter family; Region: SBF; cl17470 313596004097 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 313596004098 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: Unknown AAK14816-like; Region: LPLAT_AAK14816-like; cd07992 313596004099 putative acyl-acceptor binding pocket; other site 313596004100 Peptidase M14-like domain; uncharacterized subgroup; Region: M14-like_1_1; cd06238 313596004101 putative active site [active] 313596004102 Zn binding site [ion binding]; other site 313596004103 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 313596004104 conserved cys residue [active] 313596004105 Protein of unknown function (DUF3276); Region: DUF3276; pfam11680 313596004106 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 313596004107 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 313596004108 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 313596004109 Walker A/P-loop; other site 313596004110 ATP binding site [chemical binding]; other site 313596004111 Q-loop/lid; other site 313596004112 ABC transporter signature motif; other site 313596004113 Walker B; other site 313596004114 D-loop; other site 313596004115 H-loop/switch region; other site 313596004116 NusB family; Region: NusB; pfam01029 313596004117 Protein of unknown function (DUF1573); Region: DUF1573; pfam07610 313596004118 Preprotein translocase subunit; Region: YajC; pfam02699 313596004119 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 313596004120 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 313596004121 Domain of unknown function (DU1801); Region: DUF1801; pfam08818 313596004122 Bacteriocin-protection, YdeI or OmpD-Associated; Region: OmdA; pfam13376 313596004123 peptidase T; Region: peptidase-T; TIGR01882 313596004124 M20 Peptidase T specifically cleaves tripeptides; Region: M20_peptT; cd03892 313596004125 metal binding site [ion binding]; metal-binding site 313596004126 dimer interface [polypeptide binding]; other site 313596004127 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 313596004128 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 313596004129 quinone interaction residues [chemical binding]; other site 313596004130 active site 313596004131 catalytic residues [active] 313596004132 FMN binding site [chemical binding]; other site 313596004133 substrate binding site [chemical binding]; other site 313596004134 Cyclin box fold. Protein binding domain functioning in cell-cycle and transcription control. Present in cyclins, TFIIB and Retinoblastoma (RB).The cyclins consist of 8 classes of cell cycle regulators that regulate cyclin dependent kinases (CDKs). TFIIB...; Region: CYCLIN; cl00050 313596004135 binding site 1 313596004136 Prokaryotic protein of unknown function (DUF849); Region: DUF849; pfam05853 313596004137 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 313596004138 active site 313596004139 metal binding site [ion binding]; metal-binding site 313596004140 Outer membrane receptor for Fe3+-dicitrate [Inorganic ion transport and metabolism]; Region: FecA; COG4772 313596004141 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 313596004142 N-terminal plug; other site 313596004143 ligand-binding site [chemical binding]; other site 313596004144 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 313596004145 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 313596004146 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 313596004147 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 313596004148 active site 313596004149 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 313596004150 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 313596004151 diaminopimelate decarboxylase; Region: lysA; TIGR01048 313596004152 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 313596004153 active site 313596004154 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 313596004155 substrate binding site [chemical binding]; other site 313596004156 catalytic residues [active] 313596004157 dimer interface [polypeptide binding]; other site 313596004158 ATP-dependent protease La (LON) domain; Region: LON; pfam02190 313596004159 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 313596004160 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 313596004161 CoA-ligase; Region: Ligase_CoA; pfam00549 313596004162 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 313596004163 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are generally...; Region: ACD_sHsps-like; cd06464 313596004164 putative dimer interface [polypeptide binding]; other site 313596004165 excinuclease ABC subunit B; Provisional; Region: PRK05298 313596004166 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 313596004167 ATP binding site [chemical binding]; other site 313596004168 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 313596004169 nucleotide binding region [chemical binding]; other site 313596004170 ATP-binding site [chemical binding]; other site 313596004171 Ultra-violet resistance protein B; Region: UvrB; pfam12344 313596004172 UvrB/uvrC motif; Region: UVR; pfam02151 313596004173 gliding motility-associated C-terminal domain; Region: Bac_Flav_CTERM; TIGR04131 313596004174 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 313596004175 Interdomain contacts; other site 313596004176 gliding motility-associated C-terminal domain; Region: Bac_Flav_CTERM; TIGR04131 313596004177 ABC-2 family transporter protein; Region: ABC2_membrane_2; cl17866 313596004178 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 313596004179 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 313596004180 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 313596004181 Walker A/P-loop; other site 313596004182 ATP binding site [chemical binding]; other site 313596004183 Q-loop/lid; other site 313596004184 ABC transporter signature motif; other site 313596004185 Walker B; other site 313596004186 D-loop; other site 313596004187 H-loop/switch region; other site 313596004188 37-kD nucleoid-associated bacterial protein; Region: NA37; pfam04245 313596004189 Plasmid pRiA4b ORF-3-like protein; Region: PRiA4_ORF3; pfam07929 313596004190 Cytochrome oxidase assembly protein; Region: COX15-CtaA; pfam02628 313596004191 Uncharacterized protein required for cytochrome oxidase assembly [Posttranslational modification, protein turnover, chaperones]; Region: CtaA; COG1612 313596004192 tRNA adenylyltransferase; Region: tRNA_CCA_actino; TIGR02692 313596004193 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 313596004194 active site 313596004195 NTP binding site [chemical binding]; other site 313596004196 metal binding triad [ion binding]; metal-binding site 313596004197 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 313596004198 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 313596004199 Zn2+ binding site [ion binding]; other site 313596004200 Mg2+ binding site [ion binding]; other site 313596004201 tRNA nucleotidyltransferase domain 2 putative; Region: tRNA_NucTran2_2; pfam13735 313596004202 Telomere recombination; Region: Sua5_yciO_yrdC; pfam01300 313596004203 active site 313596004204 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 313596004205 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 313596004206 N-terminal domain of Chondroitin polymerase functions as a GalNAc transferase; Region: GT2_Chondriotin_Pol_N; cd06420 313596004207 Substrate binding site; other site 313596004208 metal-binding site 313596004209 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 313596004210 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 313596004211 putative metal binding site; other site 313596004212 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 313596004213 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 313596004214 putative metal binding site; other site 313596004215 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 313596004216 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 313596004217 trimer interface [polypeptide binding]; other site 313596004218 active site 313596004219 substrate binding site [chemical binding]; other site 313596004220 CoA binding site [chemical binding]; other site 313596004221 Uncharacterized protein family (UPF0081); Region: UPF0081; pfam03652 313596004222 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 313596004223 active site 313596004224 catalytic residues [active] 313596004225 metal binding site [ion binding]; metal-binding site 313596004226 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 313596004227 tol-pal system beta propeller repeat protein TolB; Region: propeller_TolB; TIGR02800 313596004228 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 313596004229 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 313596004230 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 313596004231 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 313596004232 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 313596004233 Glycosyl hydrolase family 20, domain 2; Region: Glyco_hydro_20b; pfam02838 313596004234 A subgroup of the Glycosyl hydrolase family 20 (GH20) catalytic domain found in proteins similar to the N-acetylhexosaminidase from Streptomyces plicatus (SpHex). SpHex catalyzes the hydrolysis of N-acetyl-beta-hexosaminides. An Asp residue within the...; Region: GH20_SpHex_like; cd06568 313596004235 Glycosyl hydrolase family 20, catalytic domain; Region: Glyco_hydro_20; pfam00728 313596004236 active site 313596004237 Members of the SGNH-hydrolase superfamily, a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase_like_7; cd04502 313596004238 active site 313596004239 catalytic triad [active] 313596004240 oxyanion hole [active] 313596004241 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 313596004242 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 313596004243 Gluconolactonase [Carbohydrate transport and metabolism]; Region: COG3386 313596004244 N-acyl-D-aspartate/D-glutamate deacylase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3653 313596004245 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 313596004246 active site 313596004247 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 313596004248 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 313596004249 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 313596004250 homodimer interface [polypeptide binding]; other site 313596004251 metal binding site [ion binding]; metal-binding site 313596004252 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 313596004253 homodimer interface [polypeptide binding]; other site 313596004254 active site 313596004255 putative chemical substrate binding site [chemical binding]; other site 313596004256 metal binding site [ion binding]; metal-binding site 313596004257 multidrug efflux protein; Reviewed; Region: PRK01766 313596004258 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 313596004259 cation binding site [ion binding]; other site 313596004260 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 313596004261 active site 313596004262 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 313596004263 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 313596004264 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 313596004265 cytochrome c-type protein NapC; Provisional; Region: PRK10617; cl17554 313596004266 Uncharacterized protein family (UPF0104); Region: UPF0104; pfam03706 313596004267 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 313596004268 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 313596004269 Ligand binding site; other site 313596004270 Putative Catalytic site; other site 313596004271 DXD motif; other site 313596004272 membrane ATPase/protein kinase; Provisional; Region: PRK09435 313596004273 The function of this protein family is unkown. The protein sequences are similar to the ArgK protein in E. coli. ArgK protein is a membrane ATPase which is required for transporting arginine, ornithine and lysine into the cells by the arginine and...; Region: ArgK-like; cd03114 313596004274 Walker A; other site 313596004275 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 313596004276 G4 box; other site 313596004277 G5 box; other site 313596004278 Protein of unknown function (DUF2911); Region: DUF2911; pfam11138 313596004279 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 313596004280 active site 313596004281 catalytic residues [active] 313596004282 RNA polymerase sigma factor RpoE; Provisional; Region: PRK09652 313596004283 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 313596004284 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 313596004285 DNA binding residues [nucleotide binding] 313596004286 methionine sulfoxide reductase A; Provisional; Region: PRK14054 313596004287 Peptidase family M23; Region: Peptidase_M23; pfam01551 313596004288 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 313596004289 active site 313596004290 catalytic triad [active] 313596004291 oxyanion hole [active] 313596004292 switch loop; other site 313596004293 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 313596004294 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 313596004295 Walker A/P-loop; other site 313596004296 ATP binding site [chemical binding]; other site 313596004297 Q-loop/lid; other site 313596004298 ABC transporter signature motif; other site 313596004299 Walker B; other site 313596004300 D-loop; other site 313596004301 H-loop/switch region; other site 313596004302 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 313596004303 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 313596004304 FtsX-like permease family; Region: FtsX; pfam02687 313596004305 FtsX-like permease family; Region: FtsX; pfam02687 313596004306 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 313596004307 Sialidases or neuraminidases function to bind and hydrolyze terminal sialic acid residues from various glycoconjugates as well as playing roles in pathogenesis, bacterial nutrition and cellular interactions. They have a six-bladed, beta-propeller fold...; Region: Sialidase; cl17698 313596004308 Asp-box motif; other site 313596004309 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 313596004310 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 313596004311 Amidohydrolase; Region: Amidohydro_4; pfam13147 313596004312 active site 313596004313 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 313596004314 Peptidase M14-like domain; uncharacterized subgroup; Region: M14-like_1_1; cd06238 313596004315 putative active site [active] 313596004316 Zn binding site [ion binding]; other site 313596004317 Domain of unknown function (DUF4350); Region: DUF4350; pfam14258 313596004318 Protein of unknown function (DUF998); Region: DUF998; pfam06197 313596004319 Predicted membrane protein (DUF2157); Region: DUF2157; cl10480 313596004320 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 313596004321 Histidine kinase; Region: HisKA_2; pfam07568 313596004322 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 313596004323 ATP binding site [chemical binding]; other site 313596004324 Mg2+ binding site [ion binding]; other site 313596004325 G-X-G motif; other site 313596004326 preprotein translocase subunit SecA; Reviewed; Region: secA; PRK12901 313596004327 SecA preprotein cross-linking domain; Region: SecA_PP_bind; pfam01043 313596004328 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cl17351 313596004329 nucleotide binding region [chemical binding]; other site 313596004330 ATP-binding site [chemical binding]; other site 313596004331 Protein of unknown function (DUF2795); Region: DUF2795; pfam11387 313596004332 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; pfam01923 313596004333 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 313596004334 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 313596004335 Walker A/P-loop; other site 313596004336 ATP binding site [chemical binding]; other site 313596004337 Q-loop/lid; other site 313596004338 ABC transporter signature motif; other site 313596004339 Walker B; other site 313596004340 D-loop; other site 313596004341 H-loop/switch region; other site 313596004342 ABC transporter; Region: ABC_tran_2; pfam12848 313596004343 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 313596004344 Domain of unknown function (DUF4105); Region: DUF4105; pfam13387 313596004345 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 313596004346 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 313596004347 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 313596004348 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 313596004349 Walker A/P-loop; other site 313596004350 ATP binding site [chemical binding]; other site 313596004351 Q-loop/lid; other site 313596004352 ABC transporter signature motif; other site 313596004353 Walker B; other site 313596004354 D-loop; other site 313596004355 H-loop/switch region; other site 313596004356 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 313596004357 Sec-independent protein translocase protein (TatC); Region: TatC; pfam00902 313596004358 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 313596004359 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 313596004360 putative active site [active] 313596004361 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 313596004362 ATP-dependent DNA helicase RecQ; Region: recQ; TIGR01389 313596004363 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 313596004364 ATP binding site [chemical binding]; other site 313596004365 putative Mg++ binding site [ion binding]; other site 313596004366 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 313596004367 nucleotide binding region [chemical binding]; other site 313596004368 ATP-binding site [chemical binding]; other site 313596004369 RQC domain; Region: RQC; pfam09382 313596004370 HRDC domain; Region: HRDC; pfam00570 313596004371 Protein of unknown function (DUF2752); Region: DUF2752; pfam10825 313596004372 Interferon-induced transmembrane protein; Region: CD225; pfam04505 313596004373 Domain of unknown function (DUF4190); Region: DUF4190; pfam13828 313596004374 Protein of unknown function (DUF2752); Region: DUF2752; pfam10825 313596004375 Smr domain; Region: Smr; cl02619 313596004376 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 313596004377 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 313596004378 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 313596004379 catalytic residue [active] 313596004380 Peptidase family M23; Region: Peptidase_M23; pfam01551 313596004381 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 313596004382 Rough deal protein C-terminal region; Region: Rod_C; pfam10493 313596004383 Cell division protein ZapA; Region: ZapA; pfam05164 313596004384 phosphodiesterase; Provisional; Region: PRK12704 313596004385 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 313596004386 Zn2+ binding site [ion binding]; other site 313596004387 Mg2+ binding site [ion binding]; other site 313596004388 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 313596004389 hydrophobic ligand binding site; other site 313596004390 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 313596004391 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cd07812 313596004392 hydrophobic ligand binding site; other site 313596004393 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 313596004394 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 313596004395 MoxR-like ATPases [General function prediction only]; Region: COG0714 313596004396 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 313596004397 Walker A motif; other site 313596004398 ATP binding site [chemical binding]; other site 313596004399 Walker B motif; other site 313596004400 arginine finger; other site 313596004401 aconitate hydratase; Validated; Region: PRK07229 313596004402 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 313596004403 substrate binding site [chemical binding]; other site 313596004404 ligand binding site [chemical binding]; other site 313596004405 Aconitase swivel domain. Aconitase (aconitate hydratase) catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle. This is the aconitase swivel domain, which undergoes swivelling conformational change in the enzyme...; Region: Aconitase_swivel; cl00215 313596004406 substrate binding site [chemical binding]; other site 313596004407 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 313596004408 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 313596004409 catalytic residues [active] 313596004410 beta-carotene hydroxylase; Region: PLN02601 313596004411 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 313596004412 active site lid residues [active] 313596004413 substrate binding pocket [chemical binding]; other site 313596004414 catalytic residues [active] 313596004415 substrate-Mg2+ binding site; other site 313596004416 aspartate-rich region 1; other site 313596004417 aspartate-rich region 2; other site 313596004418 phytoene desaturase; Region: crtI_fam; TIGR02734 313596004419 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 313596004420 Helix-Turn-Helix DNA binding domain of the transcription regulators MlrA and CarA; Region: HTH_MlrA-CarA; cd01104 313596004421 DNA binding residues [nucleotide binding] 313596004422 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 313596004423 B12 binding domain; Region: B12-binding_2; pfam02607 313596004424 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 313596004425 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 313596004426 polyphosphate kinase; Provisional; Region: PRK05443 313596004427 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 313596004428 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 313596004429 Catalytic C-terminal domain, first repeat, of Escherichia coli polyphosphate kinase 1 and similar proteins; Region: PLDc_EcPPK1_C1_like; cd09164 313596004430 domain interface [polypeptide binding]; other site 313596004431 active site 313596004432 catalytic site [active] 313596004433 Catalytic C-terminal domain, second repeat, of Escherichia coli polyphosphate kinase 1 and similar proteins; Region: PLDc_EcPPK1_C2_like; cd09167 313596004434 domain interface [polypeptide binding]; other site 313596004435 active site 313596004436 catalytic site [active] 313596004437 chaperone protein DnaJ; Provisional; Region: PRK14299 313596004438 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 313596004439 HSP70 interaction site [polypeptide binding]; other site 313596004440 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 313596004441 dimer interface [polypeptide binding]; other site 313596004442 MerR HTH family regulatory protein; Region: MerR_2; pfam13591 313596004443 chaperone-modulator protein CbpM; Provisional; Region: PRK10265 313596004444 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 313596004445 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 313596004446 Walker A/P-loop; other site 313596004447 ATP binding site [chemical binding]; other site 313596004448 Q-loop/lid; other site 313596004449 ABC transporter signature motif; other site 313596004450 Walker B; other site 313596004451 D-loop; other site 313596004452 H-loop/switch region; other site 313596004453 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 313596004454 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 313596004455 FtsX-like permease family; Region: FtsX; pfam02687 313596004456 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 313596004457 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 313596004458 HlyD family secretion protein; Region: HlyD_3; pfam13437 313596004459 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 313596004460 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 313596004461 catalytic residues [active] 313596004462 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 313596004463 Ligand Binding Site [chemical binding]; other site 313596004464 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 313596004465 Ligand Binding Site [chemical binding]; other site 313596004466 ATP cone domain; Region: ATP-cone; pfam03477 313596004467 Restriction endonuclease; Region: Mrr_cat; pfam04471 313596004468 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 313596004469 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 313596004470 Beta-Casp domain; Region: Beta-Casp; pfam10996 313596004471 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 313596004472 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 313596004473 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 313596004474 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 313596004475 putative active site [active] 313596004476 catalytic site [active] 313596004477 catalytic domain repeat 2 of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_2; cd09112 313596004478 putative active site [active] 313596004479 catalytic site [active] 313596004480 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 313596004481 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 313596004482 Protein of unknown function (DUF2911); Region: DUF2911; pfam11138 313596004483 NIPSNAP; Region: NIPSNAP; pfam07978 313596004484 NIPSNAP; Region: NIPSNAP; pfam07978 313596004485 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 313596004486 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 313596004487 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 313596004488 Zinc-dependent metalloprotease. This super-family of metalloproteases contains two major branches, the astacin-like proteases and the adamalysin/reprolysin-like proteases. Both branches have wide phylogenetic distribution, and contain sub-families, which...; Region: ZnMc; cl00064 313596004489 active site 313596004490 M28 Zn-peptidases include aminopeptidases and carboxypeptidases; Region: M28; cd02690 313596004491 Peptidase family M28; Region: Peptidase_M28; pfam04389 313596004492 metal binding site [ion binding]; metal-binding site 313596004493 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 313596004494 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 313596004495 Methyltransferase domain; Region: Methyltransf_31; pfam13847 313596004496 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 313596004497 S-adenosylmethionine binding site [chemical binding]; other site 313596004498 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 313596004499 homodimer interface [polypeptide binding]; other site 313596004500 homotetramer interface [polypeptide binding]; other site 313596004501 active site pocket [active] 313596004502 cleavage site 313596004503 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 313596004504 Transglutaminase-like superfamily; Region: Transglut_core; cl17362 313596004505 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 313596004506 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 313596004507 active site 313596004508 phosphorylation site [posttranslational modification] 313596004509 intermolecular recognition site; other site 313596004510 dimerization interface [polypeptide binding]; other site 313596004511 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 313596004512 DNA binding residues [nucleotide binding] 313596004513 dimerization interface [polypeptide binding]; other site 313596004514 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 313596004515 binding surface 313596004516 TPR motif; other site 313596004517 Tetratricopeptide repeat; Region: TPR_12; pfam13424 313596004518 Tetratricopeptide repeat; Region: TPR_12; pfam13424 313596004519 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 313596004520 binding surface 313596004521 TPR motif; other site 313596004522 Tetratricopeptide repeat; Region: TPR_12; pfam13424 313596004523 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 313596004524 Histidine kinase; Region: HisKA_3; pfam07730 313596004525 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 313596004526 ATP binding site [chemical binding]; other site 313596004527 Mg2+ binding site [ion binding]; other site 313596004528 G-X-G motif; other site 313596004529 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 313596004530 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 313596004531 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 313596004532 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 313596004533 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 313596004534 Domain of unknown function (DUF305); Region: DUF305; cl17794 313596004535 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 313596004536 Ketosteroid isomerase-related protein [General function prediction only]; Region: COG3631 313596004537 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_16; cd07263 313596004538 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 313596004539 Agmatinase and related proteins; Region: Agmatinase-like_2; cd11593 313596004540 agmatinase; Region: agmatinase; TIGR01230 313596004541 putative active site [active] 313596004542 Mn binding site [ion binding]; other site 313596004543 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 313596004544 Mechanosensitive ion channel; Region: MS_channel; pfam00924 313596004545 CAAX protease self-immunity; Region: Abi; pfam02517 313596004546 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 313596004547 Beta-lactamase; Region: Beta-lactamase; pfam00144 313596004548 Protein of unknown function (DUF1593); Region: DUF1593; pfam07632 313596004549 Glutaminase [Amino acid transport and metabolism]; Region: GlsA; COG2066 313596004550 glutaminase; Provisional; Region: PRK00971 313596004551 biliverdin IX beta reductase (BVR-B, aka flavin reductase)-like proteins; atypical (a) SDRs; Region: BVR-B_like_SDR_a; cd05244 313596004552 NADH(P)-binding; Region: NAD_binding_10; pfam13460 313596004553 NAD binding site [chemical binding]; other site 313596004554 substrate binding site [chemical binding]; other site 313596004555 putative active site [active] 313596004556 triphenylmethane reductase (TMR)-like proteins, NMRa-like, atypical (a) SDRs; Region: TMR_SDR_a; cd05269 313596004557 NADH(P)-binding; Region: NAD_binding_10; pfam13460 313596004558 NADP binding site [chemical binding]; other site 313596004559 SnoaL-like domain; Region: SnoaL_2; pfam12680 313596004560 Amidohydrolase; Region: Amidohydro_2; pfam04909 313596004561 Antibiotic biosynthesis monooxygenase; Region: ABM; pfam03992 313596004562 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cd00312 313596004563 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 313596004564 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 313596004565 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 313596004566 active site 313596004567 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 313596004568 DinB superfamily; Region: DinB_2; pfam12867 313596004569 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 313596004570 metal-binding site [ion binding] 313596004571 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 313596004572 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 313596004573 active site 313596004574 DNA binding site [nucleotide binding] 313596004575 Int/Topo IB signature motif; other site 313596004576 aconitate hydratase; Validated; Region: PRK07229 313596004577 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 313596004578 substrate binding site [chemical binding]; other site 313596004579 ligand binding site [chemical binding]; other site 313596004580 Aconitase swivel domain. Aconitase (aconitate hydratase) catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle. This is the aconitase swivel domain, which undergoes swivelling conformational change in the enzyme...; Region: Aconitase_swivel; cl00215 313596004581 substrate binding site [chemical binding]; other site 313596004582 Na+/H+ antiporter [Inorganic ion transport and metabolism]; Region: NhaA; COG3004 313596004583 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 313596004584 active site 313596004585 DOMON-like type 9 carbohydrate binding module; Region: CBM9_like_2; cd09618 313596004586 putative ligand binding site [chemical binding]; other site 313596004587 Ribonucleotide reductase, all-alpha domain; Region: Ribonuc_red_lgN; pfam00317 313596004588 ribonucleoside-diphosphate reductase, adenosylcobalamin-dependent; Region: NrdJ_Z; TIGR02504 313596004589 Class II ribonucleotide reductase, dimeric form; Region: RNR_II_dimer; cd02888 313596004590 active site 313596004591 dimer interface [polypeptide binding]; other site 313596004592 effector binding site; other site 313596004593 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 313596004594 TSCPD domain; Region: TSCPD; cl14834 313596004595 shikimate kinase; Reviewed; Region: aroK; PRK00131 313596004596 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 313596004597 ADP binding site [chemical binding]; other site 313596004598 magnesium binding site [ion binding]; other site 313596004599 putative shikimate binding site; other site 313596004600 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 313596004601 active site 313596004602 Thiopurine S-methyltransferase (TPMT); Region: TPMT; pfam05724 313596004603 Superfamily of activating enzymes (E1) of the ubiquitin-like proteins. This family includes classical ubiquitin-activating enzymes E1, ubiquitin-like (ubl) activating enzymes and other mechanistic homologes, like MoeB, Thif1 and others. The common...; Region: E1_enzyme_family; cl17196 313596004604 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 313596004605 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 313596004606 RNA binding surface [nucleotide binding]; other site 313596004607 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 313596004608 Outer membrane protein beta-barrel domain; Region: OMP_b-brl_2; pfam13568 313596004609 Transketolase, C-terminal subunit [Carbohydrate transport and metabolism]; Region: COG3958 313596004610 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 313596004611 PYR/PP interface [polypeptide binding]; other site 313596004612 dimer interface [polypeptide binding]; other site 313596004613 TPP binding site [chemical binding]; other site 313596004614 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 313596004615 transketolase; Reviewed; Region: PRK05899 313596004616 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 313596004617 TPP-binding site [chemical binding]; other site 313596004618 dimer interface [polypeptide binding]; other site 313596004619 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 313596004620 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 313596004621 Predicted permeases [General function prediction only]; Region: COG0795 313596004622 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 313596004623 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 313596004624 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 313596004625 replicative DNA helicase; Region: DnaB; TIGR00665 313596004626 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 313596004627 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 313596004628 Walker A motif; other site 313596004629 ATP binding site [chemical binding]; other site 313596004630 Walker B motif; other site 313596004631 DNA binding loops [nucleotide binding] 313596004632 Predicted hydrolases of the HAD superfamily [General function prediction only]; Region: Cof; COG0561 313596004633 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 313596004634 active site 313596004635 motif I; other site 313596004636 motif II; other site 313596004637 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 313596004638 Uncharacterized protein family UPF0047; Region: UPF0047; pfam01894 313596004639 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 313596004640 23S rRNA binding site [nucleotide binding]; other site 313596004641 L21 binding site [polypeptide binding]; other site 313596004642 L13 binding site [polypeptide binding]; other site 313596004643 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 313596004644 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 313596004645 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 313596004646 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 313596004647 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 313596004648 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 313596004649 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 313596004650 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 313596004651 active site 313596004652 dimer interface [polypeptide binding]; other site 313596004653 motif 1; other site 313596004654 motif 2; other site 313596004655 motif 3; other site 313596004656 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 313596004657 anticodon binding site; other site 313596004658 Glycerate kinase [Carbohydrate transport and metabolism]; Region: COG1929 313596004659 Domain of unknown function (DUF4249); Region: DUF4249; pfam14054 313596004660 Domain of unknown function (DUF4249); Region: DUF4249; pfam14054 313596004661 Cna protein B-type domain; Region: Cna_B_2; pfam13715 313596004662 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 313596004663 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 313596004664 Monomeric isocitrate dehydrogenase [Energy production and conversion]; Region: Icd; COG2838 313596004665 Monomeric isocitrate dehydrogenase; Region: IDH; cl15383 313596004666 Cna protein B-type domain; Region: Cna_B_2; pfam13715 313596004667 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 313596004668 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 313596004669 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 313596004670 catalytic residue [active] 313596004671 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 313596004672 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 313596004673 Peptidase M14-like domain; uncharacterized subgroup; Region: M14-like_1_1; cd06238 313596004674 putative active site [active] 313596004675 Zn binding site [ion binding]; other site 313596004676 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 313596004677 Uncharacterized protein conserved in bacteria (DUF2317); Region: DUF2317; pfam10079 313596004678 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4365 313596004679 Glutamate decarboxylase and related PLP-dependent proteins [Amino acid transport and metabolism]; Region: GadB; COG0076 313596004680 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 313596004681 catalytic residue [active] 313596004682 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxase_2; pfam12766 313596004683 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 313596004684 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 313596004685 TPR motif; other site 313596004686 binding surface 313596004687 Tetratricopeptide repeat; Region: TPR_12; pfam13424 313596004688 Tetratricopeptide repeat; Region: TPR_12; pfam13424 313596004689 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; cl17315 313596004690 GMP synthase; Reviewed; Region: guaA; PRK00074 313596004691 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 313596004692 AMP/PPi binding site [chemical binding]; other site 313596004693 candidate oxyanion hole; other site 313596004694 catalytic triad [active] 313596004695 potential glutamine specificity residues [chemical binding]; other site 313596004696 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 313596004697 ATP Binding subdomain [chemical binding]; other site 313596004698 Ligand Binding sites [chemical binding]; other site 313596004699 Dimerization subdomain; other site 313596004700 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 313596004701 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 313596004702 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 313596004703 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 313596004704 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 313596004705 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 313596004706 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 313596004707 ligand binding site [chemical binding]; other site 313596004708 OsmC-like protein; Region: OsmC; pfam02566 313596004709 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 313596004710 Protein of unknown function (DUF3820); Region: DUF3820; pfam12843 313596004711 CTP synthetase; Validated; Region: pyrG; PRK05380 313596004712 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 313596004713 Catalytic site [active] 313596004714 active site 313596004715 UTP binding site [chemical binding]; other site 313596004716 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 313596004717 active site 313596004718 putative oxyanion hole; other site 313596004719 catalytic triad [active] 313596004720 membrane protein insertase; Provisional; Region: PRK01318 313596004721 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 313596004722 Secreted and surface protein containing fasciclin-like repeats [Cell envelope biogenesis, outer membrane]; Region: COG2335 313596004723 Fasciclin domain; Region: Fasciclin; pfam02469 313596004724 Fasciclin domain; Region: Fasciclin; pfam02469 313596004725 Fasciclin domain; Region: Fasciclin; pfam02469 313596004726 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 313596004727 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 313596004728 putative enoyl-[acyl-carrier-protein] reductase II; Region: enACPred_II; TIGR03151 313596004729 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 313596004730 FMN binding site [chemical binding]; other site 313596004731 substrate binding site [chemical binding]; other site 313596004732 putative catalytic residue [active] 313596004733 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 313596004734 TPR motif; other site 313596004735 binding surface 313596004736 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 313596004737 Strictosidine synthase; Region: Str_synth; pfam03088 313596004738 putative membrane-bound dehydrogenase domain; Region: Piru_Ver_Nterm; TIGR02604 313596004739 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 313596004740 HEAT repeats; Region: HEAT_2; pfam13646 313596004741 Armadillo/beta-catenin-like repeats. An approximately 40 amino acid long tandemly repeated sequence motif first identified in the Drosophila segment polarity gene armadillo; these repeats were also found in the mammalian armadillo homolog beta-catenin; Region: ARM; cd00020 313596004742 protein binding surface [polypeptide binding]; other site 313596004743 HEAT repeats; Region: HEAT_2; pfam13646 313596004744 HEAT repeats; Region: HEAT_2; pfam13646 313596004745 putative heme-binding domain, Pirellula/Verrucomicrobium type; Region: CxxCH_TIGR02603 313596004746 Cytochrome c; Region: Cytochrom_C; pfam00034 313596004747 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 313596004748 PA_GCPII_like: Protease-associated domain containing protein, glutamate carboxypeptidase II (GCPII)-like. This group contains various PA domain-containing proteins similar to GCPII including, GCPIII (NAALADase2) and NAALADase L. These proteins belong to...; Region: PA_GCPII_like; cd02121 313596004749 apical/protease domain interface [polypeptide binding]; other site 313596004750 substrate binding [chemical binding]; other site 313596004751 dimer interface [polypeptide binding]; other site 313596004752 M28 Zn-peptidase prostate-specific membrane antigen; Region: M28_PSMA_like; cd08022 313596004753 dimer interface [polypeptide binding]; other site 313596004754 Peptidase family M28; Region: Peptidase_M28; pfam04389 313596004755 active site 313596004756 metal binding site [ion binding]; metal-binding site 313596004757 Transferrin receptor-like dimerisation domain; Region: TFR_dimer; pfam04253 313596004758 allantoate amidohydrolase; Reviewed; Region: PRK09290 313596004759 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 313596004760 active site 313596004761 metal binding site [ion binding]; metal-binding site 313596004762 dimer interface [polypeptide binding]; other site 313596004763 Trehalose phosphorylase (TP) reversibly catalyzes trehalose synthesis and degradation from alpha-glucose-1-phosphate (alpha-Glc-1-P) and glucose. The catalyzing activity includes the phosphorolysis of trehalose, which produce alpha-Glc-1-P and glucose; Region: GT1_Trehalose_phosphorylase; cd03792 313596004764 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 313596004765 Predicted membrane protein [Function unknown]; Region: COG2860 313596004766 UPF0126 domain; Region: UPF0126; pfam03458 313596004767 UPF0126 domain; Region: UPF0126; pfam03458 313596004768 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 313596004769 active site 313596004770 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 313596004771 putative active site [active] 313596004772 putative CoA binding site [chemical binding]; other site 313596004773 nudix motif; other site 313596004774 metal binding site [ion binding]; metal-binding site 313596004775 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 313596004776 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cl17185 313596004777 putative acyl-acceptor binding pocket; other site 313596004778 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 313596004779 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 313596004780 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 313596004781 DNA binding residues [nucleotide binding] 313596004782 M20 Peptidase Aminoacylase 1-like protein 2 aminobenzoyl-glutamate utilization protein B subfamily; Region: M20_Acy1L2_AbgB; cd05673 313596004783 amidohydrolase; Region: amidohydrolases; TIGR01891 313596004784 putative metal binding site [ion binding]; other site 313596004785 XerD and XerC integrases, DNA breaking-rejoining enzymes, N- and C-terminal domains. XerD-like integrases are involved in the site-specific integration and excision of lysogenic bacteriophage genomes, transposition of conjugative transposons, termination...; Region: INT_XerDC; cd00798 313596004786 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 313596004787 active site 313596004788 Int/Topo IB signature motif; other site 313596004789 Dehydroquinase class II; Region: DHquinase_II; pfam01220 313596004790 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 313596004791 active site 313596004792 trimer interface [polypeptide binding]; other site 313596004793 dimer interface [polypeptide binding]; other site 313596004794 integral membrane protein; Region: integ_memb_HG; TIGR03954 313596004795 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06416 313596004796 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 313596004797 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 313596004798 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 313596004799 methionine sulfoxide reductase B; Provisional; Region: PRK00222 313596004800 SelR domain; Region: SelR; pfam01641 313596004801 Major Facilitator Superfamily; Region: MFS_1; pfam07690 313596004802 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 313596004803 putative substrate translocation pore; other site 313596004804 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 313596004805 Major Facilitator Superfamily; Region: MFS_1; pfam07690 313596004806 Alpha amylase catalytic domain found in archaeal and bacterial Alpha-amylases (also called 1,4-alpha-D-glucan-4-glucanohydrolase); Region: AmyAc_arch_bac_AmyA; cd11313 313596004807 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 313596004808 active site 313596004809 catalytic site [active] 313596004810 Domain of unknown function (DUF3416); Region: DUF3416; pfam11896 313596004811 Alpha amylase catalytic domain found in GlgE-like proteins; Region: AmyAc_GlgE_like; cd11344 313596004812 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 313596004813 active site 313596004814 homodimer interface [polypeptide binding]; other site 313596004815 catalytic site [active] 313596004816 acceptor binding site [chemical binding]; other site 313596004817 trehalose synthase-fused probable maltokinase; Region: TreS_Cterm; TIGR02457 313596004818 Uncharacterized protein, probably involved in trehalose biosynthesis [Carbohydrate transport and metabolism]; Region: Ble; COG3281 313596004819 glycogen branching enzyme; Provisional; Region: PRK12313 313596004820 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 313596004821 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 313596004822 active site 313596004823 catalytic site [active] 313596004824 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 313596004825 alpha-glucosidase; Provisional; Region: PRK10426 313596004826 Galactose mutarotase-like; Region: Gal_mutarotas_2; pfam13802 313596004827 Alpha-glucosidase II (alpha-D-glucoside glucohydrolase) is a glycosyl hydrolase family 31 (GH31) enzyme, found in bacteria and plants, which has exo-alpha-1,4-glucosidase and oligo-1,6-glucosidase activities. Alpha-glucosidase II has been characterized...; Region: GH31_glucosidase_II_MalA; cd06604 313596004828 trimer interface [polypeptide binding]; other site 313596004829 active site 313596004830 homohexamer (dimer of homotrimer) interface [polypeptide binding]; other site 313596004831 catalytic site [active] 313596004832 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 313596004833 GTP/Mg2+ binding site [chemical binding]; other site 313596004834 G1 box; other site 313596004835 G2 box; other site 313596004836 Switch I region; other site 313596004837 Peptidase family M48; Region: Peptidase_M48; pfam01435 313596004838 Vacuole effluxer Atg22 like; Region: ATG22; pfam11700 313596004839 Protein of unknown function (DUF2807); Region: DUF2807; pfam10988 313596004840 Domain of unknown function (DUF4098); Region: DUF4098; pfam13345 313596004841 Protein of unknown function (DUF2807); Region: DUF2807; pfam10988 313596004842 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 313596004843 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 313596004844 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 313596004845 DNA binding residues [nucleotide binding] 313596004846 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 313596004847 Found in ATP-dependent protease La (LON); Region: LON; smart00464 313596004848 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 313596004849 Walker A motif; other site 313596004850 ATP binding site [chemical binding]; other site 313596004851 Walker B motif; other site 313596004852 arginine finger; other site 313596004853 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 313596004854 cytidylate kinase; Provisional; Region: cmk; PRK00023 313596004855 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 313596004856 CMP-binding site; other site 313596004857 The sites determining sugar specificity; other site 313596004858 LysM domain/BON superfamily protein; Provisional; Region: PRK11198 313596004859 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 313596004860 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 313596004861 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 313596004862 RNA binding site [nucleotide binding]; other site 313596004863 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 313596004864 RNA binding site [nucleotide binding]; other site 313596004865 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 313596004866 RNA binding site [nucleotide binding]; other site 313596004867 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 313596004868 RNA binding site [nucleotide binding]; other site 313596004869 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 313596004870 RNA binding site [nucleotide binding]; other site 313596004871 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 313596004872 RNA binding site [nucleotide binding]; other site 313596004873 Pyrimidine operon attenuation protein/uracil phosphoribosyltransferase [Nucleotide transport and metabolism]; Region: PyrR; COG2065 313596004874 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 313596004875 active site 313596004876 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 313596004877 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 313596004878 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 313596004879 ribonuclease Z; Reviewed; Region: PRK00055 313596004880 pyridoxamine-phosphate oxidase; Region: pdxH; TIGR00558 313596004881 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 313596004882 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 313596004883 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 313596004884 catalytic core [active] 313596004885 polyphosphate kinase; Provisional; Region: PRK05443 313596004886 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 313596004887 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 313596004888 Catalytic C-terminal domain, first repeat, of Escherichia coli polyphosphate kinase 1 and similar proteins; Region: PLDc_EcPPK1_C1_like; cd09164 313596004889 domain interface [polypeptide binding]; other site 313596004890 active site 313596004891 catalytic site [active] 313596004892 Catalytic C-terminal domain, second repeat, of Escherichia coli polyphosphate kinase 1 and similar proteins; Region: PLDc_EcPPK1_C2_like; cd09167 313596004893 domain interface [polypeptide binding]; other site 313596004894 active site 313596004895 catalytic site [active] 313596004896 exopolyphosphatase; Region: exo_poly_only; TIGR03706 313596004897 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 313596004898 Major Facilitator Superfamily; Region: MFS_1; pfam07690 313596004899 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 313596004900 putative substrate translocation pore; other site 313596004901 MiaE tRNA-modifying nonheme diiron monooxygenase, ferritin-like diiron-binding domain; Region: MiaE; cd07910 313596004902 active site 313596004903 dinuclear metal binding site [ion binding]; other site 313596004904 dimerization interface [polypeptide binding]; other site 313596004905 Predicted metal-dependent hydrolases with the TIM-barrel fold [General function prediction only]; Region: COG1099 313596004906 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 313596004907 active site 313596004908 UbiA prenyltransferase family; Region: UbiA; pfam01040 313596004909 4-hydroxybenzoate polyprenyltransferase and related prenyltransferases [Coenzyme metabolism]; Region: UbiA; COG0382 313596004910 Dehydroquinate synthase (DHQS)-like. DHQS catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS-like2; cd08198 313596004911 active site 313596004912 metal binding site [ion binding]; metal-binding site 313596004913 Uncharacterized conserved protein [Function unknown]; Region: COG3379 313596004914 Type I phosphodiesterase / nucleotide pyrophosphatase; Region: Phosphodiest; pfam01663 313596004915 DNA polymerase III subunits gamma and tau; Provisional; Region: PRK14971 313596004916 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 313596004917 Walker A motif; other site 313596004918 ATP binding site [chemical binding]; other site 313596004919 Walker B motif; other site 313596004920 arginine finger; other site 313596004921 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 313596004922 Conserved hypothetical protein 95; Region: Cons_hypoth95; pfam03602 313596004923 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 313596004924 S-adenosylmethionine binding site [chemical binding]; other site 313596004925 Protein of unknown function (DUF3822); Region: DUF3822; pfam12864 313596004926 AAA domain; Region: AAA_30; pfam13604 313596004927 Family description; Region: UvrD_C_2; pfam13538 313596004928 Domain of unknown function (DUF4126); Region: DUF4126; pfam13548 313596004929 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 313596004930 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 313596004931 Ligand binding site; other site 313596004932 oligomer interface; other site 313596004933 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 313596004934 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 313596004935 motif II; other site 313596004936 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 313596004937 Iron-containing alcohol dehydrogenase; Region: Fe-ADH; pfam00465 313596004938 active site 313596004939 NAD binding site [chemical binding]; other site 313596004940 metal binding site [ion binding]; metal-binding site 313596004941 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: Unknown ABO13168; Region: LPLAT_ABO13168-like; cd07988 313596004942 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 313596004943 putative acyl-acceptor binding pocket; other site 313596004944 Type II cohesin domain, interaction partner of dockerin; Region: Type_II_cohesin; cd08547 313596004945 dockerin binding interface; other site 313596004946 polycystic kidney disease I (PKD) domain; similar to other cell-surface modules, with an IG-like fold; domain probably functions as a ligand binding site in protein-protein or protein-carbohydrate interactions; a single instance of the repeat is...; Region: PKD; cd00146 313596004947 Di-glucose binding within endoplasmic reticulum; Region: Malectin; pfam11721 313596004948 Cadherin repeat-like domain; Region: CA_like; cl15786 313596004949 Ca2+ binding site [ion binding]; other site 313596004950 Carbohydrate Binding Module 6 (CBM6) and CBM35_like superfamily; Region: CBM6-CBM35-CBM36_like; cl14880 313596004951 Di-glucose binding within endoplasmic reticulum; Region: Malectin; pfam11721 313596004952 HYR domain; Region: HYR; pfam02494 313596004953 Putative glycoside hydrolase xylanase; Region: Xylanase; pfam13201 313596004954 HYR domain; Region: HYR; pfam02494 313596004955 HYR domain; Region: HYR; pfam02494 313596004956 Di-glucose binding within endoplasmic reticulum; Region: Malectin; pfam11721 313596004957 Di-glucose binding within endoplasmic reticulum; Region: Malectin; pfam11721 313596004958 Kelch motif; Region: Kelch_1; pfam01344 313596004959 Kelch motif; Region: Kelch_1; pfam01344 313596004960 Di-glucose binding within endoplasmic reticulum; Region: Malectin; pfam11721 313596004961 hypothetical protein; Provisional; Region: PRK12378 313596004962 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 313596004963 aromatic arch; other site 313596004964 DCoH dimer interaction site [polypeptide binding]; other site 313596004965 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 313596004966 DCoH tetramer interaction site [polypeptide binding]; other site 313596004967 substrate binding site [chemical binding]; other site 313596004968 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 313596004969 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 313596004970 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 313596004971 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 313596004972 NAD(P) binding site [chemical binding]; other site 313596004973 active site 313596004974 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 313596004975 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 313596004976 threonine synthase; Validated; Region: PRK09225 313596004977 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 313596004978 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 313596004979 catalytic residue [active] 313596004980 homoserine kinase; Provisional; Region: PRK01212 313596004981 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 313596004982 bifunctional aspartokinase I/homoserine dehydrogenase I; Provisional; Region: thrA; PRK09436 313596004983 AAK_AK-HSDH-like: Amino Acid Kinase Superfamily (AAK), AK-HSDH-like; this family includes the N-terminal catalytic domain of aspartokinase (AK) of the bifunctional enzyme AK- homoserine dehydrogenase (HSDH). These aspartokinases are found in such...; Region: AAK_AK-HSDH-like; cd04243 313596004984 putative catalytic residues [active] 313596004985 nucleotide binding site [chemical binding]; other site 313596004986 aspartate binding site [chemical binding]; other site 313596004987 ACT domains of the bifunctional enzyme aspartokinase (AK) - homoserine dehydrogenase (HSDH); Region: ACT_AKi-HSDH-ThrA-like_1; cd04921 313596004988 dimer interface [polypeptide binding]; other site 313596004989 putative threonine allosteric regulatory site; other site 313596004990 ACT domains of the bifunctional enzyme aspartokinase (AK) - homoserine dehydrogenase (HSDH); Region: ACT_AKi-HSDH-ThrA_2; cd04922 313596004991 putative threonine allosteric regulatory site; other site 313596004992 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 313596004993 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 313596004994 putative carbohydrate kinase; Provisional; Region: PRK10565 313596004995 YjeF-related protein N-terminus; Region: YjeF_N; pfam03853 313596004996 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 313596004997 putative substrate binding site [chemical binding]; other site 313596004998 putative ATP binding site [chemical binding]; other site 313596004999 ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]; Region: clpA; COG0542 313596005000 Clp amino terminal domain; Region: Clp_N; pfam02861 313596005001 Clp amino terminal domain; Region: Clp_N; pfam02861 313596005002 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 313596005003 Walker A motif; other site 313596005004 ATP binding site [chemical binding]; other site 313596005005 Walker B motif; other site 313596005006 arginine finger; other site 313596005007 UvrB/uvrC motif; Region: UVR; pfam02151 313596005008 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 313596005009 Walker A motif; other site 313596005010 ATP binding site [chemical binding]; other site 313596005011 Walker B motif; other site 313596005012 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 313596005013 cytochrome c-550; Provisional; Region: psbV; cl17239 313596005014 DNA gyrase subunit A; Validated; Region: PRK05560 313596005015 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 313596005016 CAP-like domain; other site 313596005017 active site 313596005018 primary dimer interface [polypeptide binding]; other site 313596005019 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 313596005020 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 313596005021 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 313596005022 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 313596005023 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 313596005024 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 313596005025 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 313596005026 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 313596005027 binding surface 313596005028 TPR motif; other site 313596005029 TPR repeat; Region: TPR_11; pfam13414 313596005030 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 313596005031 binding surface 313596005032 TPR motif; other site 313596005033 Bacterial SH3 domain; Region: SH3_4; pfam06347 313596005034 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 313596005035 NlpC/P60 family; Region: NLPC_P60; cl17555 313596005036 acetyl-CoA C-acetyltransferase; Region: PLN02644 313596005037 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 313596005038 dimer interface [polypeptide binding]; other site 313596005039 active site 313596005040 7TM receptor with intracellular HD hydrolase; Region: 7TM-7TMR_HD; pfam07698 313596005041 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 313596005042 Zn2+ binding site [ion binding]; other site 313596005043 Mg2+ binding site [ion binding]; other site 313596005044 Tetratricopeptide repeat; Region: TPR_12; pfam13424 313596005045 Tetratricopeptide repeat; Region: TPR_12; pfam13424 313596005046 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 313596005047 binding surface 313596005048 TPR motif; other site 313596005049 Tetratricopeptide repeat; Region: TPR_12; pfam13424 313596005050 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 313596005051 dimer interface [polypeptide binding]; other site 313596005052 phosphorylation site [posttranslational modification] 313596005053 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 313596005054 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 313596005055 ATP binding site [chemical binding]; other site 313596005056 Mg2+ binding site [ion binding]; other site 313596005057 G-X-G motif; other site 313596005058 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4430 313596005059 Domain of unknown function (DU1801); Region: DUF1801; pfam08818 313596005060 Bacteriocin-protection, YdeI or OmpD-Associated; Region: OmdA; pfam13376 313596005061 diphosphate--fructose-6-phosphate 1-phosphotransferase; Provisional; Region: PRK06830 313596005062 6-phosphofructokinase; Region: PLN02884 313596005063 active site 313596005064 ADP/pyrophosphate binding site [chemical binding]; other site 313596005065 dimerization interface [polypeptide binding]; other site 313596005066 allosteric effector site; other site 313596005067 fructose-1,6-bisphosphate binding site; other site 313596005068 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 313596005069 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 313596005070 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 313596005071 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 313596005072 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 313596005073 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 313596005074 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2; pfam00111 313596005075 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 313596005076 Response regulator receiver domain; Region: Response_reg; pfam00072 313596005077 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 313596005078 active site 313596005079 phosphorylation site [posttranslational modification] 313596005080 intermolecular recognition site; other site 313596005081 dimerization interface [polypeptide binding]; other site 313596005082 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 313596005083 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 313596005084 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 313596005085 catalytic residues [active] 313596005086 Human Ape1-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Ape1-like_AP-endo; cd09087 313596005087 active site 313596005088 putative catalytic site [active] 313596005089 DNA binding site [nucleotide binding] 313596005090 putative phosphate binding site [ion binding]; other site 313596005091 metal binding site A [ion binding]; metal-binding site 313596005092 AP binding site [nucleotide binding]; other site 313596005093 metal binding site B [ion binding]; metal-binding site 313596005094 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_ox_2; cl17869 313596005095 Domain of unknown function (DUF4212); Region: DUF4212; cl01781 313596005096 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 313596005097 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 313596005098 Na binding site [ion binding]; other site 313596005099 acetyl-CoA synthetase; Provisional; Region: PRK00174 313596005100 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 313596005101 active site 313596005102 CoA binding site [chemical binding]; other site 313596005103 acyl-activating enzyme (AAE) consensus motif; other site 313596005104 AMP binding site [chemical binding]; other site 313596005105 acetate binding site [chemical binding]; other site 313596005106 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 313596005107 active site 313596005108 Zn binding site [ion binding]; other site 313596005109 Galactose oxidase, central domain; Region: Kelch_3; cl02701 313596005110 Galactose oxidase, central domain; Region: Kelch_3; cl02701 313596005111 Galactose oxidase, central domain; Region: Kelch_3; cl02701 313596005112 Galactose oxidase, central domain; Region: Kelch_3; cl02701 313596005113 Galactose oxidase, central domain; Region: Kelch_4; pfam13418 313596005114 Kelch domain; Region: Kelch; smart00612 313596005115 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 313596005116 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 313596005117 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 313596005118 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 313596005119 dimer interface [polypeptide binding]; other site 313596005120 phosphorylation site [posttranslational modification] 313596005121 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 313596005122 ATP binding site [chemical binding]; other site 313596005123 Mg2+ binding site [ion binding]; other site 313596005124 G-X-G motif; other site 313596005125 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 313596005126 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 313596005127 active site 313596005128 phosphorylation site [posttranslational modification] 313596005129 intermolecular recognition site; other site 313596005130 dimerization interface [polypeptide binding]; other site 313596005131 Helix-turn-helix domain; Region: HTH_18; pfam12833 313596005132 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 313596005133 enterobactin exporter EntS; Provisional; Region: PRK10489 313596005134 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 313596005135 putative substrate translocation pore; other site 313596005136 Protein of unknown function (DUF1593); Region: DUF1593; pfam07632 313596005137 Amidohydrolase; Region: Amidohydro_2; pfam04909 313596005138 active site 313596005139 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 313596005140 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cd00312 313596005141 Carboxylesterase family; Region: COesterase; pfam00135 313596005142 substrate binding pocket [chemical binding]; other site 313596005143 catalytic triad [active] 313596005144 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 313596005145 Family description; Region: VCBS; pfam13517 313596005146 Family description; Region: VCBS; pfam13517 313596005147 Family description; Region: VCBS; pfam13517 313596005148 ASPIC and UnbV; Region: UnbV_ASPIC; pfam07593 313596005149 MSMEG_0570 family protein; Region: MSMEG_0570_fam; TIGR04042 313596005150 Family description; Region: VCBS; pfam13517 313596005151 Family description; Region: VCBS; pfam13517 313596005152 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 313596005153 starch binding outer membrane protein SusD; Region: SusD; cl17845 313596005154 SusD family; Region: SusD; pfam07980 313596005155 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 313596005156 Cna protein B-type domain; Region: Cna_B_2; pfam13715 313596005157 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 313596005158 TonB dependent receptor; Region: TonB_dep_Rec; pfam00593 313596005159 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 313596005160 Domain of unknown function (DUF377); Region: DUF377; pfam04041 313596005161 Glycosyl hydrolase families 32 and 68, which for the clan GH-J; Region: GH_J; cd08979 313596005162 active site 313596005163 D-ala-D-ala dipeptidase; Region: Peptidase_M15; cl00813 313596005164 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 313596005165 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 313596005166 Methyltransferase domain; Region: Methyltransf_26; pfam13659 313596005167 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 313596005168 Domain of unknown function (DUF4159); Region: DUF4159; pfam13709 313596005169 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 313596005170 RNA methyltransferase, RsmE family; Region: TIGR00046 313596005171 TfoX N-terminal domain; Region: TfoX_N; cl17592 313596005172 UGMP family protein; Validated; Region: PRK09604 313596005173 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 313596005174 Family of unknown function (DUF490); Region: DUF490; pfam04357 313596005175 6-phosphofructokinase; Provisional; Region: PRK03202 313596005176 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 313596005177 active site 313596005178 ADP/pyrophosphate binding site [chemical binding]; other site 313596005179 dimerization interface [polypeptide binding]; other site 313596005180 allosteric effector site; other site 313596005181 fructose-1,6-bisphosphate binding site; other site 313596005182 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; pfam00044 313596005183 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 313596005184 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 313596005185 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 313596005186 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 313596005187 homotrimer interaction site [polypeptide binding]; other site 313596005188 putative active site [active] 313596005189 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 313596005190 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 313596005191 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 313596005192 active site 313596005193 metal binding site [ion binding]; metal-binding site 313596005194 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 313596005195 mce related protein; Region: MCE; pfam02470 313596005196 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 313596005197 4Fe-4S binding domain; Region: Fer4; cl02805 313596005198 4Fe-4S dicluster domain; Region: Fer4_8; pfam13183 313596005199 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 313596005200 Cysteine-rich domain; Region: CCG; pfam02754 313596005201 Cysteine-rich domain; Region: CCG; pfam02754 313596005202 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 313596005203 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 313596005204 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 313596005205 Beta-lactamase; Region: Beta-lactamase; cl17358 313596005206 This family is most closely related to the GT1 family of glycosyltransferases. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can...; Region: GT1_like_5; cd04962 313596005207 N-acetyl-alpha-D-glucosaminyl L-malate synthase BshA; Region: thiol_BshA; TIGR03999 313596005208 GTPases - Sulfate adenylate transferase subunit 1 [Inorganic ion transport and metabolism]; Region: CysN; COG2895 313596005209 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 313596005210 GTP/Mg2+ binding site [chemical binding]; other site 313596005211 putative GEF interaction site [polypeptide binding]; other site 313596005212 G1 box; other site 313596005213 Switch I region; other site 313596005214 G2 box; other site 313596005215 CysD dimerization site [polypeptide binding]; other site 313596005216 G3 box; other site 313596005217 Switch II region; other site 313596005218 G4 box; other site 313596005219 G5 box; other site 313596005220 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 313596005221 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 313596005222 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 313596005223 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 313596005224 Active Sites [active] 313596005225 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 313596005226 ligand-binding site [chemical binding]; other site 313596005227 Predicted membrane protein (DUF2061); Region: DUF2061; pfam09834 313596005228 Predicted membrane protein (DUF2061); Region: DUF2061; pfam09834 313596005229 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 313596005230 active site 313596005231 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 313596005232 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 313596005233 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 313596005234 ligand binding site [chemical binding]; other site 313596005235 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; pfam13480 313596005236 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; pfam13480 313596005237 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; pfam13480 313596005238 putative glycosyl transferase; Provisional; Region: PRK10073 313596005239 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 313596005240 active site 313596005241 2-deoxy-D-gluconate 3-dehydrogenase; Provisional; Region: PRK06935 313596005242 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 313596005243 NAD(P) binding site [chemical binding]; other site 313596005244 active site 313596005245 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 313596005246 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 313596005247 NAD(P) binding site [chemical binding]; other site 313596005248 active site 313596005249 ATP-grasp domain; Region: ATP-grasp_4; cl17255 313596005250 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 313596005251 active site 313596005252 short chain dehydrogenase; Provisional; Region: PRK06198 313596005253 classical (c) SDRs; Region: SDR_c; cd05233 313596005254 NAD(P) binding site [chemical binding]; other site 313596005255 active site 313596005256 Bacterial sugar transferase; Region: Bac_transf; pfam02397 313596005257 This family is most closely related to the GT1 family of glycosyltransferases. cap1E in Streptococcus pneumoniae is required for the synthesis of type 1 capsular polysaccharides; Region: GT1_cap1E_like; cd03808 313596005258 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 313596005259 putative ADP-binding pocket [chemical binding]; other site 313596005260 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 313596005261 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 313596005262 TupA-like ATPgrasp; Region: ATPgrasp_TupA; pfam14305 313596005263 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 313596005264 O-antigen ligase like membrane protein; Region: O-antigen_lig; pfam13425 313596005265 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 313596005266 MviN-like protein; Region: MVIN; pfam03023 313596005267 This family is most closely related to the GT1 family of glycosyltransferases. AmSD in Erwinia amylovora has been shown to be involved in the biosynthesis of amylovoran, the acidic exopolysaccharide acting as a virulence factor. This enzyme may be...; Region: GT1_amsD_like; cd03820 313596005268 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 313596005269 putative ADP-binding pocket [chemical binding]; other site 313596005270 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 313596005271 This family is most closely related to the GT1 family of glycosyltransferases. AmSD in Erwinia amylovora has been shown to be involved in the biosynthesis of amylovoran, the acidic exopolysaccharide acting as a virulence factor. This enzyme may be...; Region: GT1_amsD_like; cd03820 313596005272 putative ADP-binding pocket [chemical binding]; other site 313596005273 Right handed beta helix region; Region: Beta_helix; pfam13229 313596005274 FOG: PKD repeat [General function prediction only]; Region: COG3291 313596005275 polycystic kidney disease I (PKD) domain; similar to other cell-surface modules, with an IG-like fold; domain probably functions as a ligand binding site in protein-protein or protein-carbohydrate interactions; a single instance of the repeat is...; Region: PKD; cd00146 313596005276 polycystic kidney disease I (PKD) domain; similar to other cell-surface modules, with an IG-like fold; domain probably functions as a ligand binding site in protein-protein or protein-carbohydrate interactions; a single instance of the repeat is...; Region: PKD; cd00146 313596005277 FOG: PKD repeat [General function prediction only]; Region: COG3291 313596005278 polycystic kidney disease I (PKD) domain; similar to other cell-surface modules, with an IG-like fold; domain probably functions as a ligand binding site in protein-protein or protein-carbohydrate interactions; a single instance of the repeat is...; Region: PKD; cd00146 313596005279 Right handed beta helix region; Region: Beta_helix; pfam13229 313596005280 heptad repeat 1-heptad repeat 2 region (ectodomain) of the transmembrane subunit of various endogenous retroviruses (ERVs) and infectious retroviruses, including Ebola virus and human immunodeficiency virus type 1 (HIV-1); Region: Ebola_HIV-1-like_HR1-HR2; cl02885 313596005281 Arylsulfotransferase (ASST); Region: Arylsulfotran_2; pfam14269 313596005282 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 313596005283 UDP glucuronic acid epimerase, extended (e) SDRs; Region: UDP_GE_SDE_e; cd05253 313596005284 putative NAD(P) binding site [chemical binding]; other site 313596005285 active site 313596005286 putative substrate binding site [chemical binding]; other site 313596005287 aminotransferase, LLPSF_NHT_00031 family; Region: NHT_00031; TIGR04181 313596005288 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 313596005289 inhibitor-cofactor binding pocket; inhibition site 313596005290 pyridoxal 5'-phosphate binding site [chemical binding]; other site 313596005291 catalytic residue [active] 313596005292 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 313596005293 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 313596005294 NAD(P) binding site [chemical binding]; other site 313596005295 homodimer interface [polypeptide binding]; other site 313596005296 substrate binding site [chemical binding]; other site 313596005297 active site 313596005298 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 313596005299 SLBB domain; Region: SLBB; pfam10531 313596005300 tyrosine kinase; Provisional; Region: PRK11519 313596005301 Chain length determinant protein; Region: Wzz; pfam02706 313596005302 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 313596005303 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 313596005304 Di-glucose binding within endoplasmic reticulum; Region: Malectin; pfam11721 313596005305 Di-glucose binding within endoplasmic reticulum; Region: Malectin; pfam11721 313596005306 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 313596005307 Kelch motif; Region: Kelch_1; pfam01344 313596005308 Kelch motif; Region: Kelch_1; pfam01344 313596005309 Galactose oxidase, central domain; Region: Kelch_4; pfam13418 313596005310 polycystic kidney disease I (PKD) domain; similar to other cell-surface modules, with an IG-like fold; domain probably functions as a ligand binding site in protein-protein or protein-carbohydrate interactions; a single instance of the repeat is...; Region: PKD; cd00146 313596005311 FOG: PKD repeat [General function prediction only]; Region: COG3291 313596005312 polycystic kidney disease I (PKD) domain; similar to other cell-surface modules, with an IG-like fold; domain probably functions as a ligand binding site in protein-protein or protein-carbohydrate interactions; a single instance of the repeat is...; Region: PKD; cd00146 313596005313 Repeats in polycystic kidney disease 1 (PKD1) and other proteins; Region: PKD; smart00089 313596005314 Repeats in polycystic kidney disease 1 (PKD1) and other proteins; Region: PKD; smart00089 313596005315 FOG: PKD repeat [General function prediction only]; Region: COG3291 313596005316 polycystic kidney disease I (PKD) domain; similar to other cell-surface modules, with an IG-like fold; domain probably functions as a ligand binding site in protein-protein or protein-carbohydrate interactions; a single instance of the repeat is...; Region: PKD; cd00146 313596005317 polycystic kidney disease I (PKD) domain; similar to other cell-surface modules, with an IG-like fold; domain probably functions as a ligand binding site in protein-protein or protein-carbohydrate interactions; a single instance of the repeat is...; Region: PKD; cd00146 313596005318 FOG: PKD repeat [General function prediction only]; Region: COG3291 313596005319 polycystic kidney disease I (PKD) domain; similar to other cell-surface modules, with an IG-like fold; domain probably functions as a ligand binding site in protein-protein or protein-carbohydrate interactions; a single instance of the repeat is...; Region: PKD; cd00146 313596005320 Capsular polysaccharide biosynthesis protein [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: CapC; COG4464 313596005321 Pyrroline-5-carboxylate reductase [Amino acid transport and metabolism]; Region: ProC; COG0345 313596005322 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 313596005323 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 313596005324 nucleotide binding site [chemical binding]; other site 313596005325 homotetrameric interface [polypeptide binding]; other site 313596005326 putative phosphate binding site [ion binding]; other site 313596005327 putative allosteric binding site; other site 313596005328 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 313596005329 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 313596005330 putative catalytic cysteine [active] 313596005331 pyruvate phosphate dikinase; Provisional; Region: PRK09279 313596005332 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 313596005333 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 313596005334 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 313596005335 YceI-like domain; Region: YceI; pfam04264 313596005336 YceI-like domain; Region: YceI; cl01001 313596005337 putative addiction module antidote protein, CC2985 family; Region: antidote_CC2985; TIGR02606 313596005338 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 313596005339 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 313596005340 trmE is a tRNA modification GTPase; Region: trmE; cd04164 313596005341 G1 box; other site 313596005342 GTP/Mg2+ binding site [chemical binding]; other site 313596005343 Switch I region; other site 313596005344 G2 box; other site 313596005345 Switch II region; other site 313596005346 G3 box; other site 313596005347 G4 box; other site 313596005348 G5 box; other site 313596005349 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 313596005350 Tic20-like protein; Region: Tic20; pfam09685 313596005351 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; pfam13480 313596005352 DNA polymerase III subunit beta; Validated; Region: PRK05643 313596005353 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 313596005354 putative DNA binding surface [nucleotide binding]; other site 313596005355 dimer interface [polypeptide binding]; other site 313596005356 beta-clamp/clamp loader binding surface; other site 313596005357 beta-clamp/translesion DNA polymerase binding surface; other site 313596005358 gliding-associated putative ABC transporter substrate-binding component GldG; Region: GldG; TIGR03521 313596005359 gliding motility-associated ABC transporter permease protein GldF; Region: ABC_perm_GldF; TIGR03518 313596005360 Antibiotic biosynthesis monooxygenase; Region: ABM; pfam03992 313596005361 S-adenosyl-l-methionine hydroxide adenosyltransferase; Region: SAM_adeno_trans; pfam01887 313596005362 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 313596005363 PhoH-like protein; Region: PhoH; pfam02562 313596005364 non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_Sc; cd01414 313596005365 ATP binding site [chemical binding]; other site 313596005366 active site 313596005367 substrate binding site [chemical binding]; other site 313596005368 Bacterial surface proteins containing Ig-like domains [Cell motility and secretion]; Region: COG5492 313596005369 Bacterial Ig-like domain (group 2); Region: Big_2; pfam02368 313596005370 Calx-beta domain; Region: Calx-beta; cl02522 313596005371 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 313596005372 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 313596005373 active site 313596005374 catalytic site [active] 313596005375 substrate binding site [chemical binding]; other site 313596005376 Predicted signal-transduction protein containing cAMP-binding and CBS domains [Signal transduction mechanisms]; Region: COG2905 313596005377 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 313596005378 ligand binding site [chemical binding]; other site 313596005379 flexible hinge region; other site 313596005380 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with either the CAP_ED (cAMP receptor protein effector domain) family of transcription factors and the DUF294 domain or the PB1 (Phox and Bem1p) domain; Region: CBS_pair_CAP-ED_DUF294_PBI_assoc2; cd04800 313596005381 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 313596005382 metal binding triad; other site 313596005383 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 313596005384 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 313596005385 TrkA-C domain; Region: TrkA_C; pfam02080 313596005386 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 313596005387 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 313596005388 substrate binding site [chemical binding]; other site 313596005389 ATP binding site [chemical binding]; other site 313596005390 2-keto-3-deoxy-6-phosphogluconate aldolase [Carbohydrate transport and metabolism]; Region: Eda; COG0800 313596005391 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 313596005392 active site 313596005393 intersubunit interface [polypeptide binding]; other site 313596005394 catalytic residue [active] 313596005395 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 313596005396 hydrophobic ligand binding site; other site 313596005397 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 313596005398 PyridoxaL 5'-Phosphate Dependent Enzymes class IV (PLPDE_IV). This D-amino acid superfamily, one of five classes of PLPDE, consists of branched-chain amino acid aminotransferases (BCAT), D-amino acid transferases (DAAT), and...; Region: PLPDE_IV; cd00449 313596005399 homodimer interface [polypeptide binding]; other site 313596005400 substrate-cofactor binding pocket; other site 313596005401 pyridoxal 5'-phosphate binding site [chemical binding]; other site 313596005402 catalytic residue [active] 313596005403 Uncharacterized ACR, COG1678; Region: DUF179; pfam02622 313596005404 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 313596005405 IHF dimer interface [polypeptide binding]; other site 313596005406 IHF - DNA interface [nucleotide binding]; other site 313596005407 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 313596005408 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 313596005409 putative active site [active] 313596005410 substrate binding site [chemical binding]; other site 313596005411 putative cosubstrate binding site; other site 313596005412 catalytic site [active] 313596005413 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 313596005414 substrate binding site [chemical binding]; other site 313596005415 DEAD-like helicases superfamily; Region: DEXDc; smart00487 313596005416 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 313596005417 ATP binding site [chemical binding]; other site 313596005418 putative Mg++ binding site [ion binding]; other site 313596005419 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 313596005420 nucleotide binding region [chemical binding]; other site 313596005421 ATP-binding site [chemical binding]; other site 313596005422 Predicted ATPase [General function prediction only]; Region: COG3911 313596005423 AAA domain; Region: AAA_28; pfam13521 313596005424 Protein of unknown function (DUF493); Region: DUF493; pfam04359 313596005425 Domain of unknown function (DUF4290); Region: DUF4290; pfam14123 313596005426 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 313596005427 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 313596005428 hinge; other site 313596005429 active site 313596005430 Pirin; Region: Pirin; pfam02678 313596005431 Pirin-related protein [General function prediction only]; Region: COG1741 313596005432 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 313596005433 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_9; cd07245 313596005434 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 313596005435 dimer interface [polypeptide binding]; other site 313596005436 putative metal binding site [ion binding]; other site 313596005437 Protein of unknown function (DUF1271); Region: DUF1271; pfam06902 313596005438 Zinc finger domain containing protein (CDGSH-type) [Function unknown]; Region: COG3369 313596005439 Iron-binding zinc finger CDGSH type; Region: zf-CDGSH; pfam09360 313596005440 Predicted acetyltransferase [General function prediction only]; Region: COG2388 313596005441 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 313596005442 M20 Peptidase Aminoacylase 1-like protein 2 aminobenzoyl-glutamate utilization protein B subfamily; Region: M20_Acy1L2_AbgB; cd05673 313596005443 putative metal binding site [ion binding]; other site 313596005444 DNA uptake lipoprotein [General function prediction only]; Region: ComL; COG4105 313596005445 Deoxyribodipyrimidine photolyase [DNA replication, recombination, and repair]; Region: PhrB; COG0415 313596005446 DNA photolyase; Region: DNA_photolyase; pfam00875 313596005447 classical (c) SDRs; Region: SDR_c; cd05233 313596005448 NAD(P) binding site [chemical binding]; other site 313596005449 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 313596005450 active site 313596005451 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_3; cd07820 313596005452 putative hydrophobic ligand binding site [chemical binding]; other site 313596005453 Protein of unknown function (DUF2911); Region: DUF2911; pfam11138 313596005454 uncharacterized subgroup of the Na(+)/iodide (NIS) cotransporter subfamily; putative solute-binding domain; Region: SLC5sbd_NIS-like_u2; cd11494 313596005455 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 313596005456 Na binding site [ion binding]; other site 313596005457 GlcNAc-PI de-N-acetylase; Region: PIG-L; pfam02585 313596005458 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 313596005459 Mechanosensitive ion channel; Region: MS_channel; pfam00924 313596005460 Maf-like protein; Region: Maf; pfam02545 313596005461 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 313596005462 active site 313596005463 dimer interface [polypeptide binding]; other site 313596005464 HAD-superfamily hydrolase, subfamily IIIA; Region: HAD-SF-IIIA; TIGR01662 313596005465 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 313596005466 active site 313596005467 motif I; other site 313596005468 motif II; other site 313596005469 Domain of unknown function (DUF2520); Region: DUF2520; pfam10728 313596005470 ResB protein required for cytochrome c biosynthesis [Posttranslational modification, protein turnover, chaperones]; Region: ResB; cl09125 313596005471 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 313596005472 putative substrate translocation pore; other site 313596005473 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_like_14; cd13139 313596005474 putative efflux protein, MATE family; Region: matE; TIGR00797 313596005475 Cystathionine beta-lyases/cystathionine gamma-synthases [Amino acid transport and metabolism]; Region: MetC; COG0626 313596005476 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 313596005477 homodimer interface [polypeptide binding]; other site 313596005478 substrate-cofactor binding pocket; other site 313596005479 pyridoxal 5'-phosphate binding site [chemical binding]; other site 313596005480 catalytic residue [active] 313596005481 bacillithiol biosynthesis deacetylase BshB1; Region: thiol_BshB1; TIGR04001 313596005482 Tetratricopeptide repeat; Region: TPR_12; pfam13424 313596005483 Tetratricopeptide repeat; Region: TPR_12; pfam13424 313596005484 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 313596005485 binding surface 313596005486 TPR motif; other site 313596005487 Tetratricopeptide repeat; Region: TPR_12; pfam13424 313596005488 Protein of unknown function (DUF1043); Region: DUF1043; cl11473 313596005489 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 313596005490 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 313596005491 ATP binding site [chemical binding]; other site 313596005492 Mg2+ binding site [ion binding]; other site 313596005493 G-X-G motif; other site 313596005494 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 313596005495 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 313596005496 non-specific DNA binding site [nucleotide binding]; other site 313596005497 salt bridge; other site 313596005498 sequence-specific DNA binding site [nucleotide binding]; other site 313596005499 DNA polymerase III subunit beta; Validated; Region: PRK05643 313596005500 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; cl17512 313596005501 putative DNA binding surface [nucleotide binding]; other site 313596005502 dimer interface [polypeptide binding]; other site 313596005503 beta-clamp/clamp loader binding surface; other site 313596005504 beta-clamp/translesion DNA polymerase binding surface; other site 313596005505 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 313596005506 DnaA box-binding interface [nucleotide binding]; other site 313596005507 methionine S-methyltransferase; Region: PLN02672 313596005508 Cna protein B-type domain; Region: Cna_B_2; pfam13715 313596005509 conjugal transfer protein TrbE; Provisional; Region: PRK13891 313596005510 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 313596005511 active site 313596005512 metal binding site [ion binding]; metal-binding site 313596005513 Domain of unknown function (DUF1738); Region: DUF1738; pfam08401 313596005514 Antirestriction protein [DNA replication, recombination, and repair]; Region: COG4227 313596005515 Methyltransferase domain; Region: Methyltransf_26; pfam13659 313596005516 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 313596005517 Phage integrase, N-terminal SAM-like domain; Region: Phage_integr_N2; pfam13495 313596005518 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 313596005519 active site 313596005520 catalytic residues [active] 313596005521 DNA binding site [nucleotide binding] 313596005522 Int/Topo IB signature motif; other site 313596005523 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 313596005524 PA: Protease-associated (PA) domain. The PA domain is an insert domain in a diverse fraction of proteases. The significance of the PA domain to many of the proteins in which it is inserted is undetermined. It may be a protein-protein interaction domain; Region: PA; cl08238 313596005525 M28 Zn-Peptidases containing a PA domain insert; Region: M28_like_PA; cd03877 313596005526 Peptidase family M28; Region: Peptidase_M28; pfam04389 313596005527 metal binding site [ion binding]; metal-binding site 313596005528 substrate binding site [chemical binding]; other site 313596005529 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 313596005530 ribokinase/pfkB superfamily: Kinases that accept a wide variety of substrates, including carbohydrates and aromatic small molecules, all are phosphorylated at a hydroxyl group. The superfamily includes ribokinase, fructokinase, ketohexokinase; Region: ribokinase_pfkB_like; cl00192 313596005531 ATP binding site [chemical binding]; other site 313596005532 Predicted membrane protein involved in D-alanine export [Cell envelope biogenesis, outer membrane]; Region: DltB; COG1696 313596005533 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; pfam13480 313596005534 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; pfam13480 313596005535 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; pfam13480 313596005536 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; pfam13480 313596005537 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; pfam13480 313596005538 FOG: CBS domain [General function prediction only]; Region: COG0517 313596005539 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_16; cd04629 313596005540 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 313596005541 DNA-binding site [nucleotide binding]; DNA binding site 313596005542 RNA-binding motif; other site 313596005543 Domain of unknown function (DUF4382); Region: DUF4382; pfam14321 313596005544 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 313596005545 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 313596005546 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cl17736 313596005547 active site 313596005548 phosphorylation site [posttranslational modification] 313596005549 intermolecular recognition site; other site 313596005550 dimerization interface [polypeptide binding]; other site 313596005551 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 313596005552 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 313596005553 putative active site [active] 313596005554 heme pocket [chemical binding]; other site 313596005555 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 313596005556 putative active site [active] 313596005557 heme pocket [chemical binding]; other site 313596005558 Transcriptional regulator containing GAF, AAA-type ATPase, and DNA binding domains [Transcription / Signal transduction mechanisms]; Region: FhlA; COG3604 313596005559 GAF domain; Region: GAF; pfam01590 313596005560 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 313596005561 Walker A motif; other site 313596005562 ATP binding site [chemical binding]; other site 313596005563 Walker B motif; other site 313596005564 arginine finger; other site 313596005565 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 313596005566 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 313596005567 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 313596005568 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 313596005569 active site 313596005570 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 313596005571 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 313596005572 DNA binding residues [nucleotide binding] 313596005573 dimerization interface [polypeptide binding]; other site 313596005574 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 313596005575 PA_GCPII_like: Protease-associated domain containing protein, glutamate carboxypeptidase II (GCPII)-like. This group contains various PA domain-containing proteins similar to GCPII including, GCPIII (NAALADase2) and NAALADase L. These proteins belong to...; Region: PA_GCPII_like; cd02121 313596005576 apical/protease domain interface [polypeptide binding]; other site 313596005577 substrate binding [chemical binding]; other site 313596005578 dimer interface [polypeptide binding]; other site 313596005579 M28 Zn-peptidase prostate-specific membrane antigen; Region: M28_PSMA_like; cd08022 313596005580 dimer interface [polypeptide binding]; other site 313596005581 Peptidase family M28; Region: Peptidase_M28; pfam04389 313596005582 active site 313596005583 metal binding site [ion binding]; metal-binding site 313596005584 Transferrin receptor-like dimerisation domain; Region: TFR_dimer; pfam04253 313596005585 Outer membrane protein beta-barrel domain; Region: OMP_b-brl_2; pfam13568 313596005586 Tetratricopeptide repeat; Region: TPR_12; pfam13424 313596005587 Tetratricopeptide repeat; Region: TPR_12; pfam13424 313596005588 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 313596005589 binding surface 313596005590 TPR motif; other site 313596005591 Tetratricopeptide repeat; Region: TPR_12; pfam13424 313596005592 Tetratricopeptide repeat; Region: TPR_12; pfam13424 313596005593 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 313596005594 binding surface 313596005595 TPR motif; other site 313596005596 Tetratricopeptide repeat; Region: TPR_12; pfam13424 313596005597 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 313596005598 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 313596005599 dimer interface [polypeptide binding]; other site 313596005600 phosphorylation site [posttranslational modification] 313596005601 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 313596005602 ATP binding site [chemical binding]; other site 313596005603 Mg2+ binding site [ion binding]; other site 313596005604 G-X-G motif; other site 313596005605 Response regulator receiver domain; Region: Response_reg; pfam00072 313596005606 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 313596005607 active site 313596005608 phosphorylation site [posttranslational modification] 313596005609 intermolecular recognition site; other site 313596005610 dimerization interface [polypeptide binding]; other site 313596005611 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 313596005612 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 313596005613 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 313596005614 Protein of unknown function (DUF3308); Region: DUF3308; pfam11751 313596005615 Sporulation related domain; Region: SPOR; pfam05036 313596005616 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 313596005617 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 313596005618 active site 313596005619 phosphorylation site [posttranslational modification] 313596005620 intermolecular recognition site; other site 313596005621 dimerization interface [polypeptide binding]; other site 313596005622 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 313596005623 DNA binding residues [nucleotide binding] 313596005624 dimerization interface [polypeptide binding]; other site 313596005625 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 313596005626 hypothetical protein; Provisional; Region: PRK10621 313596005627 NAD(P)H:FMN oxidoreductase family. This domain catalyzes the reduction of flavin, nitrocompound, quinones and azo compounds using NADH or NADPH as an electron donor. The enzyme is a homodimer, and each monomer binds a FMN as co-factor. This family...; Region: NfsB_like_nitroreductase; cd02149 313596005628 dimer interface [polypeptide binding]; other site 313596005629 FMN binding site [chemical binding]; other site 313596005630 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 313596005631 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 313596005632 inhibitor-cofactor binding pocket; inhibition site 313596005633 pyridoxal 5'-phosphate binding site [chemical binding]; other site 313596005634 catalytic residue [active] 313596005635 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09311 313596005636 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 313596005637 GTP cyclohydrolase II; Region: GTP_cyclohydro2; pfam00925 313596005638 dimerization interface [polypeptide binding]; other site 313596005639 active site 313596005640 Predicted permeases [General function prediction only]; Region: COG0795 313596005641 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 313596005642 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 313596005643 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 313596005644 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl17548 313596005645 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 313596005646 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 313596005647 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 313596005648 This domain directs oriented DNA translocation and forms a winged helix structure; Region: Ftsk_gamma; smart00843 313596005649 Prokaryotic diacylglycerol kinase; Region: DAGK_prokar; pfam01219 313596005650 Na+/H+ antiporter NhaC; Region: antiport_nhaC; TIGR00931 313596005651 methionine gamma-lyase; Region: PLN02242 313596005652 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 313596005653 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 313596005654 catalytic residue [active] 313596005655 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 313596005656 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 313596005657 putative DNA binding site [nucleotide binding]; other site 313596005658 putative Zn2+ binding site [ion binding]; other site 313596005659 AsnC family; Region: AsnC_trans_reg; pfam01037 313596005660 dihydrolipoamide dehydrogenase; Validated; Region: PRK06327 313596005661 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; cl17730 313596005662 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 313596005663 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 313596005664 Protein of unknown function (DUF1624); Region: DUF1624; cl01394 313596005665 Acyltransferase family; Region: Acyl_transf_3; pfam01757 313596005666 Predicted flavoprotein [General function prediction only]; Region: COG0431 313596005667 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 313596005668 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 313596005669 aminodeoxychorismate synthase, component I, clade 2; Region: PabB-clade2; TIGR01824 313596005670 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 313596005671 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 313596005672 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 313596005673 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 313596005674 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 313596005675 Ligand Binding Site [chemical binding]; other site 313596005676 TilS substrate C-terminal domain; Region: TilS_C; smart00977 313596005677 Thiol:disulfide interchange protein [Posttranslational modification, protein turnover, chaperones / Energy production and conversion]; Region: COG4232 313596005678 Thioredoxin-like; Region: Thioredoxin_7; pfam13899 313596005679 Protein related to penicillin acylase [General function prediction only]; Region: COG2366 313596005680 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 313596005681 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 313596005682 active site 313596005683 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 313596005684 Cna protein B-type domain; Region: Cna_B_2; pfam13715 313596005685 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 313596005686 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 313596005687 Domain of unknown function (DUF4249); Region: DUF4249; pfam14054 313596005688 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 313596005689 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 313596005690 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 313596005691 Walker A motif; other site 313596005692 ATP binding site [chemical binding]; other site 313596005693 Walker B motif; other site 313596005694 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 313596005695 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 313596005696 Beta-lactamase; Region: Beta-lactamase; pfam00144 313596005697 histidinol-phosphate aminotransferase; Validated; Region: PRK02731 313596005698 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 313596005699 pyridoxal 5'-phosphate binding site [chemical binding]; other site 313596005700 homodimer interface [polypeptide binding]; other site 313596005701 catalytic residue [active] 313596005702 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; COG1914 313596005703 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 313596005704 uncharacterized proteins similar to the Aspergillus nidulans lactam utilization protein LamB; Region: LamB_YcsF_like_1; cd10801 313596005705 putative active site [active] 313596005706 Allophanate hydrolase subunit 1; Region: AHS1; pfam02682 313596005707 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; COG2049 313596005708 Allophanate hydrolase subunit 2; Region: AHS2; pfam02626 313596005709 dihydroxy-acid dehydratase; Provisional; Region: PRK00911 313596005710 Thiamine pyrophosphate-requiring enzymes [acetolactate synthase, pyruvate dehydrogenase (cytochrome), glyoxylate carboligase, phosphonopyruvate decarboxylase] [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvB; COG0028 313596005711 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 313596005712 PYR/PP interface [polypeptide binding]; other site 313596005713 dimer interface [polypeptide binding]; other site 313596005714 TPP binding site [chemical binding]; other site 313596005715 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 313596005716 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 313596005717 TPP-binding site [chemical binding]; other site 313596005718 dimer interface [polypeptide binding]; other site 313596005719 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 313596005720 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 313596005721 putative valine binding site [chemical binding]; other site 313596005722 dimer interface [polypeptide binding]; other site 313596005723 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 313596005724 ketol-acid reductoisomerase; Validated; Region: PRK05225 313596005725 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 313596005726 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 313596005727 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 313596005728 NADP+-dependent non-phosphorylating glyceraldehyde 3-phosphate dehydrogenase and ALDH family 11; Region: ALDH_F11_NP-GAPDH; cd07082 313596005729 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 313596005730 tetrameric interface [polypeptide binding]; other site 313596005731 activator binding site; other site 313596005732 NADP binding site [chemical binding]; other site 313596005733 substrate binding site [chemical binding]; other site 313596005734 catalytic residues [active] 313596005735 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 313596005736 putative substrate translocation pore; other site 313596005737 2-isopropylmalate synthase; Validated; Region: PRK00915 313596005738 DRE-TIM metallolyase superfamily; Region: DRE_TIM_metallolyase; cl07974 313596005739 active site 313596005740 catalytic residues [active] 313596005741 metal binding site [ion binding]; metal-binding site 313596005742 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; cl07212 313596005743 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 313596005744 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 313596005745 substrate binding site [chemical binding]; other site 313596005746 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 313596005747 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 313596005748 substrate binding site [chemical binding]; other site 313596005749 ligand binding site [chemical binding]; other site 313596005750 Protein of unknown function (DUF2911); Region: DUF2911; pfam11138 313596005751 Tetratricopeptide repeat; Region: TPR_16; pfam13432 313596005752 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 313596005753 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 313596005754 generic binding surface II; other site 313596005755 ssDNA binding site; other site 313596005756 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 313596005757 ATP binding site [chemical binding]; other site 313596005758 putative Mg++ binding site [ion binding]; other site 313596005759 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 313596005760 nucleotide binding region [chemical binding]; other site 313596005761 ATP-binding site [chemical binding]; other site 313596005762 Peptidase family M1; Region: Peptidase_M1; pfam01433 313596005763 Peptidase M1 family Aminopeptidase N; Region: M1_APN_4; cd09603 313596005764 Zn binding site [ion binding]; other site 313596005765 Patatin-like phospholipase; Region: Patatin; pfam01734 313596005766 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cl02931 313596005767 ligand binding site [chemical binding]; other site 313596005768 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like2; cd05667 313596005769 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 313596005770 metal binding site [ion binding]; metal-binding site 313596005771 putative dimer interface [polypeptide binding]; other site 313596005772 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 313596005773 Part of AAA domain; Region: AAA_19; pfam13245 313596005774 Family description; Region: UvrD_C_2; pfam13538 313596005775 Laminarinase, member of the glycosyl hydrolase family 16; Region: GH16_laminarinase_like; cd08023 313596005776 active site 313596005777 catalytic residues [active] 313596005778 Telomere recombination; Region: Sua5_yciO_yrdC; pfam01300 313596005779 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 313596005780 ligand binding site [chemical binding]; other site 313596005781 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 313596005782 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 313596005783 Probable Catalytic site; other site 313596005784 metal-binding site 313596005785 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N_2; pfam13588 313596005786 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 313596005787 DNA polymerase III, delta subunit; Region: holA; TIGR01128 313596005788 Predicted membrane protein [Function unknown]; Region: COG2259 313596005789 Phosphotransferase enzyme family; Region: APH; pfam01636 313596005790 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 313596005791 active site 313596005792 substrate binding site [chemical binding]; other site 313596005793 ATP binding site [chemical binding]; other site 313596005794 4-aminobutyrate aminotransferase and related aminotransferases [Amino acid transport and metabolism]; Region: GabT; COG0160 313596005795 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 313596005796 inhibitor-cofactor binding pocket; inhibition site 313596005797 pyridoxal 5'-phosphate binding site [chemical binding]; other site 313596005798 catalytic residue [active] 313596005799 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 313596005800 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 313596005801 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 313596005802 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 313596005803 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 313596005804 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 313596005805 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_x; TIGR03181 313596005806 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 313596005807 tetramer interface [polypeptide binding]; other site 313596005808 TPP-binding site [chemical binding]; other site 313596005809 heterodimer interface [polypeptide binding]; other site 313596005810 phosphorylation loop region [posttranslational modification] 313596005811 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 313596005812 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 313596005813 PYR/PP interface [polypeptide binding]; other site 313596005814 dimer interface [polypeptide binding]; other site 313596005815 TPP binding site [chemical binding]; other site 313596005816 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 313596005817 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 313596005818 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 313596005819 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 313596005820 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 313596005821 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 313596005822 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 313596005823 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 313596005824 Domain of unknown function (DUF4130; Region: DUF4130; cl14836 313596005825 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 313596005826 non-specific DNA binding site [nucleotide binding]; other site 313596005827 salt bridge; other site 313596005828 sequence-specific DNA binding site [nucleotide binding]; other site 313596005829 Predicted transcriptional regulator [Transcription]; Region: COG2932 313596005830 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 313596005831 Catalytic site [active] 313596005832 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 313596005833 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 313596005834 Protein of unknown function, DUF479; Region: DUF479; cl01203 313596005835 phosphoglucosamine mutase; Region: Arch_GlmM; TIGR03990 313596005836 The alpha-D-phosphohexomutase superfamily includes several related enzymes that catalyze a reversible intramolecular phosphoryl transfer on their sugar substrates. Members of this family include the phosphoglucomutases (PGM1 and PGM2), phosphoglucosamine...; Region: phosphohexomutase; cl03757 313596005837 active site 313596005838 substrate binding site [chemical binding]; other site 313596005839 metal binding site [ion binding]; metal-binding site 313596005840 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 313596005841 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cl17185 313596005842 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 313596005843 putative acyl-acceptor binding pocket; other site 313596005844 Membrane associated serine protease [Amino acid transport and metabolism]; Region: COG0705 313596005845 Domain of unknown function (DUF4369); Region: DUF4369; pfam14289 313596005846 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 313596005847 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 313596005848 catalytic residues [active] 313596005849 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 313596005850 FAD binding domain; Region: FAD_binding_4; pfam01565 313596005851 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 313596005852 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 313596005853 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 313596005854 putative active site [active] 313596005855 putative metal binding site [ion binding]; other site 313596005856 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 313596005857 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 313596005858 Tetramer interface [polypeptide binding]; other site 313596005859 active site 313596005860 FMN-binding site [chemical binding]; other site 313596005861 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 313596005862 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 313596005863 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 313596005864 glutathione synthetase; Provisional; Region: PRK12458 313596005865 Prokaryotic glutathione synthetase, ATP-grasp domain; Region: GSH-S_ATP; pfam02955 313596005866 N-formylglutamate amidohydrolase; Region: FGase; pfam05013 313596005867 Domain of unknown function (DUF1704); Region: DUF1704; pfam08014 313596005868 Predicted thiol-disulfide oxidoreductase [General function prediction only]; Region: COG3011 313596005869 MutS domain III; Region: MutS_III; pfam05192 313596005870 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 313596005871 Walker A/P-loop; other site 313596005872 ATP binding site [chemical binding]; other site 313596005873 Q-loop/lid; other site 313596005874 ABC transporter signature motif; other site 313596005875 Walker B; other site 313596005876 D-loop; other site 313596005877 H-loop/switch region; other site 313596005878 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 313596005879 ligand binding site [chemical binding]; other site 313596005880 active site 313596005881 UGI interface [polypeptide binding]; other site 313596005882 catalytic site [active] 313596005883 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 313596005884 Phosphorylase superfamily; Region: PNP_UDP_1; pfam01048 313596005885 Homologs of eIF1/SUI1 including Escherichia coli YciH; Region: YciH_like; cd11567 313596005886 putative rRNA binding site [nucleotide binding]; other site 313596005887 Isopenicillin N synthase and related dioxygenases [General function prediction only]; Region: PcbC; COG3491 313596005888 non-haem dioxygenase in morphine synthesis N-terminal; Region: DIOX_N; pfam14226 313596005889 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; pfam03171 313596005890 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_y; TIGR03182 313596005891 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 313596005892 tetramer interface [polypeptide binding]; other site 313596005893 TPP-binding site [chemical binding]; other site 313596005894 heterodimer interface [polypeptide binding]; other site 313596005895 phosphorylation loop region [posttranslational modification] 313596005896 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 313596005897 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 313596005898 alpha subunit interface [polypeptide binding]; other site 313596005899 TPP binding site [chemical binding]; other site 313596005900 heterodimer interface [polypeptide binding]; other site 313596005901 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 313596005902 Lipocalin-like domain; Region: Lipocalin_4; pfam13648 313596005903 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 313596005904 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 313596005905 ligand binding site [chemical binding]; other site 313596005906 geranylgeranyl reductase family; Region: GG-red-SF; TIGR02032 313596005907 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 313596005908 Methyltransferase domain; Region: Methyltransf_31; pfam13847 313596005909 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 313596005910 S-adenosylmethionine binding site [chemical binding]; other site 313596005911 Chalcone and stilbene synthases; plant-specific polyketide synthases (PKS) and related enzymes, also called type III PKSs. PKS generate an array of different products, dependent on the nature of the starter molecule. They share a common chemical strategy; Region: CHS_like; cd00831 313596005912 Predicted naringenin-chalcone synthase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: BcsA; COG3424 313596005913 malonyl-CoA binding site [chemical binding]; other site 313596005914 dimer interface [polypeptide binding]; other site 313596005915 active site 313596005916 product binding site; other site 313596005917 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK08063 313596005918 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 313596005919 NAD(P) binding site [chemical binding]; other site 313596005920 active site 313596005921 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 313596005922 active site 2 [active] 313596005923 active site 1 [active] 313596005924 3-oxoacyl-(acyl-carrier-protein) synthase [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: FabB; COG0304 313596005925 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 313596005926 dimer interface [polypeptide binding]; other site 313596005927 active site 313596005928 acyl carrier protein; Provisional; Region: acpP; PRK00982 313596005929 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 313596005930 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 313596005931 30S subunit binding site; other site 313596005932 integral membrane protein, TerC family; Region: R_switched_Alx; TIGR03718 313596005933 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 313596005934 putative substrate translocation pore; other site 313596005935 oxidoreductase alpha (molybdopterin) subunit; Region: Fdhalpha-like; TIGR01701 313596005936 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 313596005937 molybdopterin cofactor binding site; other site 313596005938 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 313596005939 putative molybdopterin cofactor binding site; other site 313596005940 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 313596005941 Active site serine [active] 313596005942 Tetratricopeptide repeat; Region: TPR_16; pfam13432 313596005943 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 313596005944 TPR motif; other site 313596005945 Domain of unknown function (DUF4251); Region: DUF4251; pfam14059 313596005946 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 313596005947 dimerization interface [polypeptide binding]; other site 313596005948 putative DNA binding site [nucleotide binding]; other site 313596005949 putative Zn2+ binding site [ion binding]; other site 313596005950 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 313596005951 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 313596005952 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 313596005953 catalytic residue [active] 313596005954 Possible plasma membrane-binding motif in junctophilins, PIP-5-kinases and protein kinases; Region: MORN; smart00698 313596005955 MORN repeat; Region: MORN; pfam02493 313596005956 Protein of unknown function (DUF2490); Region: DUF2490; pfam10677 313596005957 phage shock protein A; Region: phageshock_pspA; TIGR02977 313596005958 FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]; Region: SlpA; COG1047 313596005959 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 313596005960 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 313596005961 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 313596005962 S-adenosylmethionine binding site [chemical binding]; other site 313596005963 DOMON-like type 9 carbohydrate binding module; Region: CBM9_like_2; cd09618 313596005964 putative ligand binding site [chemical binding]; other site 313596005965 putative DMT superfamily transporter inner membrane protein; Provisional; Region: PRK11272 313596005966 EamA-like transporter family; Region: EamA; pfam00892 313596005967 EamA-like transporter family; Region: EamA; pfam00892 313596005968 Glucose/sorbosone dehydrogenases [Carbohydrate transport and metabolism]; Region: COG2133 313596005969 trehalose synthase; Region: treS_nterm; TIGR02456 313596005970 Alpha amylase catalytic domain found in Trehalose synthetase; Region: AmyAc_TreS; cd11334 313596005971 active site 313596005972 catalytic site [active] 313596005973 trehalose synthase-fused probable maltokinase; Region: TreS_Cterm; TIGR02457 313596005974 Uncharacterized protein, probably involved in trehalose biosynthesis [Carbohydrate transport and metabolism]; Region: Ble; COG3281 313596005975 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 313596005976 peroxiredoxin, OsmC subfamily; Region: osmo_induc_OsmC; TIGR03562 313596005977 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 313596005978 classical (c) SDRs; Region: SDR_c; cd05233 313596005979 NAD(P) binding site [chemical binding]; other site 313596005980 active site 313596005981 GH3 auxin-responsive promoter; Region: GH3; pfam03321 313596005982 Cna protein B-type domain; Region: Cna_B_2; pfam13715 313596005983 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 313596005984 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 313596005985 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 313596005986 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 313596005987 Ligand binding site; other site 313596005988 metal-binding site 313596005989 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 313596005990 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 313596005991 XdhC Rossmann domain; Region: XdhC_C; pfam13478 313596005992 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 313596005993 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 313596005994 dimer interface [polypeptide binding]; other site 313596005995 putative functional site; other site 313596005996 putative MPT binding site; other site 313596005997 molybdopterin biosynthesis protein MoeB; Validated; Region: PRK05597 313596005998 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 313596005999 ATP binding site [chemical binding]; other site 313596006000 substrate interface [chemical binding]; other site 313596006001 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cd00158 313596006002 active site residue [active] 313596006003 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 313596006004 GTP binding site; other site 313596006005 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 313596006006 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 313596006007 FeS/SAM binding site; other site 313596006008 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 313596006009 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 313596006010 MoaE interaction surface [polypeptide binding]; other site 313596006011 MoeB interaction surface [polypeptide binding]; other site 313596006012 thiocarboxylated glycine; other site 313596006013 VWFA-related Acidobacterial domain; Region: acidobact_VWFA; TIGR03436 313596006014 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cd00198 313596006015 metal ion-dependent adhesion site (MIDAS); other site 313596006016 Peptidase M14-like domain; uncharacterized subgroup; Region: M14-like_1_2; cd06239 313596006017 putative active site [active] 313596006018 Zn binding site [ion binding]; other site 313596006019 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 313596006020 amidase catalytic site [active] 313596006021 Zn binding residues [ion binding]; other site 313596006022 substrate binding site [chemical binding]; other site 313596006023 3D domain; Region: 3D; cl01439 313596006024 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 313596006025 Enoyl-CoA hydratase/isomerase family; Region: ECH; pfam00378 313596006026 substrate binding site [chemical binding]; other site 313596006027 oxyanion hole (OAH) forming residues; other site 313596006028 trimer interface [polypeptide binding]; other site 313596006029 DEAD-like helicases superfamily; Region: DEXDc; smart00487 313596006030 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 313596006031 ATP binding site [chemical binding]; other site 313596006032 putative Mg++ binding site [ion binding]; other site 313596006033 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 313596006034 nucleotide binding region [chemical binding]; other site 313596006035 ATP-binding site [chemical binding]; other site 313596006036 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 313596006037 Putative glycerate dehydrogenase and related proteins of the D-specific 2-hydroxy dehydrogenase family; Region: GDH_like_2; cd12164 313596006038 putative ligand binding site [chemical binding]; other site 313596006039 NAD binding site [chemical binding]; other site 313596006040 dimerization interface [polypeptide binding]; other site 313596006041 catalytic site [active] 313596006042 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 313596006043 RNA polymerase sigma factor RpoD, C-terminal domain; Region: RpoD_Cterm; TIGR02393 313596006044 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 313596006045 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 313596006046 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 313596006047 DNA binding residues [nucleotide binding] 313596006048 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 313596006049 Sulfatase; Region: Sulfatase; cl17466 313596006050 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 313596006051 binding surface 313596006052 TPR motif; other site 313596006053 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 313596006054 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 313596006055 DXD motif; other site 313596006056 HEAT repeats; Region: HEAT_2; pfam13646 313596006057 Response regulator receiver domain; Region: Response_reg; pfam00072 313596006058 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 313596006059 active site 313596006060 phosphorylation site [posttranslational modification] 313596006061 intermolecular recognition site; other site 313596006062 dimerization interface [polypeptide binding]; other site 313596006063 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 313596006064 dimer interface [polypeptide binding]; other site 313596006065 phosphorylation site [posttranslational modification] 313596006066 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 313596006067 ATP binding site [chemical binding]; other site 313596006068 Mg2+ binding site [ion binding]; other site 313596006069 G-X-G motif; other site 313596006070 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 313596006071 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 313596006072 active site 313596006073 phosphorylation site [posttranslational modification] 313596006074 intermolecular recognition site; other site 313596006075 dimerization interface [polypeptide binding]; other site 313596006076 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 313596006077 Zn-dependent dipeptidase, microsomal dipeptidase homolog [Amino acid transport and metabolism]; Region: COG2355 313596006078 active site 313596006079 dimer interface [polypeptide binding]; other site 313596006080 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 313596006081 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 313596006082 Mycobacterium tuberculosis succinate-semialdehyde dehydrogenase 1-like; Region: ALDH_SSADH1_GabD1; cd07100 313596006083 NAD(P) binding site [chemical binding]; other site 313596006084 catalytic residues [active] 313596006085 Conserved hypothetical protein (DUF2461); Region: DUF2461; pfam09365 313596006086 Serine acetyltransferase [Amino acid transport and metabolism]; Region: CysE; COG1045 313596006087 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 313596006088 trimer interface [polypeptide binding]; other site 313596006089 active site 313596006090 substrate binding site [chemical binding]; other site 313596006091 CoA binding site [chemical binding]; other site 313596006092 cysteine synthase B; Region: cysM; TIGR01138 313596006093 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 313596006094 dimer interface [polypeptide binding]; other site 313596006095 pyridoxal 5'-phosphate binding site [chemical binding]; other site 313596006096 catalytic residue [active] 313596006097 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 313596006098 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 313596006099 dimerization interface [polypeptide binding]; other site 313596006100 DPS ferroxidase diiron center [ion binding]; other site 313596006101 ion pore; other site 313596006102 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 313596006103 Thermotoga maritima CorA_like subfamily; Region: TmCorA-like_1; cd12828 313596006104 oligomer interface [polypeptide binding]; other site 313596006105 metal binding site [ion binding]; metal-binding site 313596006106 metal binding site [ion binding]; metal-binding site 313596006107 Cl binding site [ion binding]; other site 313596006108 aspartate ring; other site 313596006109 basic sphincter; other site 313596006110 putative hydrophobic gate; other site 313596006111 periplasmic entrance; other site 313596006112 Pseudouridylate synthase [Translation, ribosomal structure and biogenesis]; Region: TruA; COG0101 313596006113 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 313596006114 active site 313596006115 Mg-chelatase subunit ChlI [Coenzyme metabolism]; Region: ChlI; COG1239 313596006116 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cd00198 313596006117 metal ion-dependent adhesion site (MIDAS); other site 313596006118 bifunctional phosphoribosyl-AMP cyclohydrolase/phosphoribosyl-ATP pyrophosphatase protein; Reviewed; Region: PRK02759 313596006119 Phosphoribosyl-AMP cyclohydrolase [Amino acid transport and metabolism]; Region: HisI; COG0139 313596006120 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 313596006121 metal binding site [ion binding]; metal-binding site 313596006122 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 313596006123 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 313596006124 substrate binding site [chemical binding]; other site 313596006125 glutamase interaction surface [polypeptide binding]; other site 313596006126 Protein of unknown function (DUF1572); Region: DUF1572; pfam07609 313596006127 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 313596006128 phosphoribosylformimino-5-aminoimidazole carboxamide ribotide isomerase; Region: TIGR00007 313596006129 catalytic residues [active] 313596006130 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13181 313596006131 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 313596006132 putative active site [active] 313596006133 oxyanion strand; other site 313596006134 catalytic triad [active] 313596006135 imidazole glycerol-phosphate dehydratase/histidinol phosphatase; Provisional; Region: PRK05446 313596006136 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 313596006137 active site 313596006138 motif I; other site 313596006139 motif II; other site 313596006140 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 313596006141 putative active site pocket [active] 313596006142 4-fold oligomerization interface [polypeptide binding]; other site 313596006143 metal binding residues [ion binding]; metal-binding site 313596006144 3-fold/trimer interface [polypeptide binding]; other site 313596006145 histidinol-phosphate aminotransferase; Region: hisC; TIGR01141 313596006146 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 313596006147 pyridoxal 5'-phosphate binding site [chemical binding]; other site 313596006148 homodimer interface [polypeptide binding]; other site 313596006149 catalytic residue [active] 313596006150 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 313596006151 histidinol dehydrogenase; Region: hisD; TIGR00069 313596006152 NAD binding site [chemical binding]; other site 313596006153 dimerization interface [polypeptide binding]; other site 313596006154 product binding site; other site 313596006155 substrate binding site [chemical binding]; other site 313596006156 zinc binding site [ion binding]; other site 313596006157 catalytic residues [active] 313596006158 ATP phosphoribosyltransferase; Reviewed; Region: hisG; PRK00489 313596006159 ATP phosphoribosyltransferase; Region: hisG; TIGR00070 313596006160 ATP phosphoribosyltransferase, C-terminal domain; Region: HisG_C-term; TIGR03455 313596006161 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 313596006162 The band 7 domain of flotillin (reggie) like proteins. This group contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. Many of these band 7 domain-containing proteins are lipid raft-associated. Individual proteins of this...; Region: Band_7; cl02525 313596006163 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cd00198 313596006164 metal ion-dependent adhesion site (MIDAS); other site 313596006165 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 313596006166 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 313596006167 NAD(P) binding site [chemical binding]; other site 313596006168 homotetramer interface [polypeptide binding]; other site 313596006169 homodimer interface [polypeptide binding]; other site 313596006170 active site 313596006171 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 313596006172 CoA binding domain; Region: CoA_binding; smart00881 313596006173 CoA-ligase; Region: Ligase_CoA; pfam00549 313596006174 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 313596006175 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 313596006176 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 313596006177 trimer interface [polypeptide binding]; other site 313596006178 active site 313596006179 UDP-GlcNAc binding site [chemical binding]; other site 313596006180 lipid binding site [chemical binding]; lipid-binding site 313596006181 elongation factor P; Validated; Region: PRK00529 313596006182 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 313596006183 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 313596006184 RNA binding site [nucleotide binding]; other site 313596006185 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 313596006186 RNA binding site [nucleotide binding]; other site 313596006187 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 313596006188 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 313596006189 active site 313596006190 bifunctional UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase/(3R)-hydroxymyristoyl-[acyl-carrier-protein] dehydratase; Reviewed; Region: PRK13188 313596006191 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 313596006192 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 313596006193 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 313596006194 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 313596006195 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 313596006196 trimer interface [polypeptide binding]; other site 313596006197 active site 313596006198 UDP-GlcNAc binding site [chemical binding]; other site 313596006199 lipid binding site [chemical binding]; lipid-binding site 313596006200 HD superfamily phosphohydrolases [General function prediction only]; Region: COG1078 313596006201 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 313596006202 Zn2+ binding site [ion binding]; other site 313596006203 Mg2+ binding site [ion binding]; other site 313596006204 Response regulator receiver domain; Region: Response_reg; pfam00072 313596006205 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 313596006206 active site 313596006207 phosphorylation site [posttranslational modification] 313596006208 intermolecular recognition site; other site 313596006209 dimerization interface [polypeptide binding]; other site 313596006210 PglZ domain; Region: PglZ; pfam08665 313596006211 Archaeal PaREP1/PaREP8 family; Region: PaREP1; pfam05942 313596006212 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 313596006213 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 313596006214 Alanine dehydrogenase NAD-binding and catalytic domains; Region: L-AlaDH; cd05305 313596006215 hexamer interface [polypeptide binding]; other site 313596006216 ligand binding site [chemical binding]; other site 313596006217 putative active site [active] 313596006218 NAD(P) binding site [chemical binding]; other site 313596006219 Proline dehydrogenase; Region: Pro_dh; cl03282 313596006220 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 313596006221 active site 313596006222 dimer interface [polypeptide binding]; other site 313596006223 metal binding site [ion binding]; metal-binding site 313596006224 DinB superfamily; Region: DinB_2; pfam12867 313596006225 DNA-binding transcriptional regulator AsnC; Provisional; Region: PRK11179 313596006226 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 313596006227 putative DNA binding site [nucleotide binding]; other site 313596006228 putative Zn2+ binding site [ion binding]; other site 313596006229 AsnC family; Region: AsnC_trans_reg; pfam01037 313596006230 Peptidase M14-like domain; uncharacterized subgroup; Region: M14-like_1_2; cd06239 313596006231 putative active site [active] 313596006232 Zn binding site [ion binding]; other site 313596006233 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 313596006234 non-specific DNA binding site [nucleotide binding]; other site 313596006235 salt bridge; other site 313596006236 sequence-specific DNA binding site [nucleotide binding]; other site 313596006237 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 313596006238 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 313596006239 Large-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscL; COG1970 313596006240 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 313596006241 DNA topoisomerase IV subunit A; Provisional; Region: PRK12758 313596006242 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; cl00148 313596006243 CAP-like domain; other site 313596006244 active site 313596006245 primary dimer interface [polypeptide binding]; other site 313596006246 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 313596006247 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 313596006248 ATP binding site [chemical binding]; other site 313596006249 Mg2+ binding site [ion binding]; other site 313596006250 G-X-G motif; other site 313596006251 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 313596006252 anchoring element; other site 313596006253 dimer interface [polypeptide binding]; other site 313596006254 ATP binding site [chemical binding]; other site 313596006255 TOPRIM_TopoIIA_like: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in proteins of the type IIA family of DNA topoisomerases similar to Saccharomyces cerevisiae Topoisomerase II. TopoIIA enzymes cut both strands...; Region: TOPRIM_TopoIIA_like; cd01030 313596006256 active site 313596006257 putative metal-binding site [ion binding]; other site 313596006258 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 313596006259 GTP-binding protein YchF; Reviewed; Region: PRK09601 313596006260 YchF GTPase; Region: YchF; cd01900 313596006261 G1 box; other site 313596006262 GTP/Mg2+ binding site [chemical binding]; other site 313596006263 Switch I region; other site 313596006264 G2 box; other site 313596006265 Switch II region; other site 313596006266 G3 box; other site 313596006267 G4 box; other site 313596006268 G5 box; other site 313596006269 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 313596006270 Cna protein B-type domain; Region: Cna_B_2; pfam13715 313596006271 4Fe-4S binding domain; Region: Fer4; pfam00037 313596006272 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 313596006273 NAD(P) binding site [chemical binding]; other site 313596006274 catalytic residues [active] 313596006275 3-phosphoserine/phosphohydroxythreonine aminotransferase; Provisional; Region: PRK05355 313596006276 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 313596006277 catalytic residue [active] 313596006278 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 313596006279 Phosphoglycerate dehydrogenase (PGDH) NAD-binding and catalytic domains; Region: PGDH_2; cd05303 313596006280 putative ligand binding site [chemical binding]; other site 313596006281 NAD binding site [chemical binding]; other site 313596006282 dimerization interface [polypeptide binding]; other site 313596006283 catalytic site [active] 313596006284 Bacterial protein of unknown function (DUF937); Region: DUF937; pfam06078 313596006285 Predicted membrane protein [Function unknown]; Region: COG1511 313596006286 Cna protein B-type domain; Region: Cna_B_2; pfam13715 313596006287 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 313596006288 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 313596006289 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 313596006290 homodecamer interface [polypeptide binding]; other site 313596006291 GTP cyclohydrolase I; Provisional; Region: PLN03044 313596006292 active site 313596006293 putative catalytic site residues [active] 313596006294 zinc binding site [ion binding]; other site 313596006295 GTP-CH-I/GFRP interaction surface; other site 313596006296 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 313596006297 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 313596006298 Walker A/P-loop; other site 313596006299 ATP binding site [chemical binding]; other site 313596006300 Q-loop/lid; other site 313596006301 ABC transporter signature motif; other site 313596006302 Walker B; other site 313596006303 D-loop; other site 313596006304 H-loop/switch region; other site 313596006305 Protein of unknown function (DUF2400); Region: DUF2400; pfam09674 313596006306 Fasciclin domain; Region: Fasciclin; pfam02469 313596006307 Di-haem cytochrome c peroxidase; Region: CCP_MauG; pfam03150 313596006308 Bacterial protein of unknown function (DUF839); Region: DUF839; pfam05787 313596006309 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 313596006310 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 313596006311 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 313596006312 Carboxypeptidase C (cathepsin A) [Amino acid transport and metabolism]; Region: COG2939 313596006313 Serine carboxypeptidase; Region: Peptidase_S10; cl08270 313596006314 Members of the SGNH-hydrolase superfamily, a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase_like_4; cd04501 313596006315 active site 313596006316 catalytic triad [active] 313596006317 oxyanion hole [active] 313596006318 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 313596006319 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 313596006320 active site 313596006321 Aerotolerance regulator N-terminal; Region: BatA; pfam07584 313596006322 dihydroorotase; Validated; Region: pyrC; PRK09357 313596006323 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 313596006324 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 313596006325 active site 313596006326 Predicted esterase [General function prediction only]; Region: COG0400 313596006327 putative hydrolase; Provisional; Region: PRK11460 313596006328 putative hydrolase; Provisional; Region: PRK02113 313596006329 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 313596006330 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 313596006331 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 313596006332 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 313596006333 catalytic triad [active] 313596006334 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 313596006335 endonuclease III; Region: ENDO3c; smart00478 313596006336 minor groove reading motif; other site 313596006337 helix-hairpin-helix signature motif; other site 313596006338 substrate binding pocket [chemical binding]; other site 313596006339 active site 313596006340 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 313596006341 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 313596006342 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 313596006343 DNA binding residues [nucleotide binding] 313596006344 RNA polymerase sigma factor; Provisional; Region: PRK12513 313596006345 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 313596006346 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 313596006347 DNA binding residues [nucleotide binding] 313596006348 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 313596006349 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 313596006350 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 313596006351 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 313596006352 Polysaccharide biosynthesis protein; Region: Polysacc_synt; cl10513 313596006353 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 313596006354 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 313596006355 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 313596006356 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 313596006357 Bacterial membrane protein YfhO; Region: YfhO; pfam09586 313596006358 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; pfam13557 313596006359 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 313596006360 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 313596006361 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 313596006362 catalytic residue [active] 313596006363 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 313596006364 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 313596006365 dimer interface [polypeptide binding]; other site 313596006366 pyridoxal 5'-phosphate binding site [chemical binding]; other site 313596006367 catalytic residue [active] 313596006368 Protease II [Amino acid transport and metabolism]; Region: PtrB; COG1770 313596006369 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 313596006370 hypothetical protein; Provisional; Region: PRK14623 313596006371 Domain of unknown function (DUF1508); Region: DUF1508; cl01356 313596006372 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 313596006373 Beta-eliminating lyase; Region: Beta_elim_lyase; pfam01212 313596006374 tetramer interface [polypeptide binding]; other site 313596006375 pyridoxal 5'-phosphate binding site [chemical binding]; other site 313596006376 catalytic residue [active] 313596006377 Zinc-dependent metalloprotease; MMP_like sub-family 2. A group of bacterial metalloproteinase domains similar to matrix metalloproteinases and astacin; Region: ZnMc_MMP_like_2; cd04276 313596006378 active site 313596006379 Uncharacterized conserved protein [Function unknown]; Region: COG2308 313596006380 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2307 313596006381 A predicted alpha-helical domain with a conserved ER motif; Region: Alpha-E; pfam04168 313596006382 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 313596006383 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 313596006384 PCRF domain; Region: PCRF; pfam03462 313596006385 Protein chain release factor B [Translation, ribosomal structure and biogenesis]; Region: PrfB; COG1186 313596006386 RF-1 domain; Region: RF-1; pfam00472 313596006387 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 313596006388 ArsC family; Region: ArsC; pfam03960 313596006389 catalytic residues [active] 313596006390 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 313596006391 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 313596006392 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 313596006393 fumarate hydratase; Reviewed; Region: fumC; PRK00485 313596006394 Class II fumarases; Region: Fumarase_classII; cd01362 313596006395 active site 313596006396 tetramer interface [polypeptide binding]; other site 313596006397 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 313596006398 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 313596006399 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 313596006400 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 313596006401 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 313596006402 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 313596006403 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 313596006404 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 313596006405 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 313596006406 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 313596006407 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 313596006408 ABC transporter; Region: ABC_tran_2; pfam12848 313596006409 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 313596006410 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 313596006411 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 313596006412 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 313596006413 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 313596006414 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 313596006415 Cna protein B-type domain; Region: Cna_B_2; pfam13715 313596006416 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 313596006417 Tetratricopeptide repeat; Region: TPR_12; pfam13424 313596006418 binding surface 313596006419 TPR motif; other site 313596006420 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 313596006421 active site 313596006422 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 313596006423 acyl-activating enzyme (AAE) consensus motif; other site 313596006424 AMP binding site [chemical binding]; other site 313596006425 active site 313596006426 CoA binding site [chemical binding]; other site 313596006427 CAAX protease self-immunity; Region: Abi; pfam02517 313596006428 o-succinylbenzoate synthase; Region: menC_gamma/gm+; TIGR01927 313596006429 o-Succinylbenzoate synthase (OSBS) catalyzes the conversion of 2-succinyl-6-hydroxy-2,4-cyclohexadiene-1-carboxylate (SHCHC) to 4-(2'-carboxyphenyl)-4-oxobutyrate (o-succinylbenzoate or OSB), a reaction in the menaquinone biosynthetic pathway; Region: OSBS; cd03320 313596006430 active site 313596006431 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 313596006432 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 313596006433 Tetratricopeptide repeat; Region: TPR_12; pfam13424 313596006434 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 313596006435 Histidine kinase; Region: HisKA_2; pfam07568 313596006436 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 313596006437 ATP binding site [chemical binding]; other site 313596006438 Mg2+ binding site [ion binding]; other site 313596006439 G-X-G motif; other site 313596006440 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 313596006441 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 313596006442 active site 313596006443 phosphorylation site [posttranslational modification] 313596006444 intermolecular recognition site; other site 313596006445 dimerization interface [polypeptide binding]; other site 313596006446 LytTr DNA-binding domain; Region: LytTR; smart00850 313596006447 1,4-dihydroxy-2-naphthoate octaprenyltransferase; Validated; Region: PRK06080 313596006448 UbiA prenyltransferase family; Region: UbiA; pfam01040 313596006449 Sporulation related domain; Region: SPOR; pfam05036 313596006450 Predicted RNA-bindining protein (contains S1 and HTH domains) [General function prediction only]; Region: COG2996 313596006451 S1 domain; Region: S1_2; pfam13509 313596006452 Protein of unknown function (DUF2853); Region: DUF2853; pfam11015 313596006453 Pyrimidine (PYR) binding domain of 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexadiene-1- carboxylate synthase (MenD) and related proteins; Region: TPP_PYR_MenD; cd07037 313596006454 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1- carboxylic-acid synthase; Region: menD; TIGR00173 313596006455 dimer interface [polypeptide binding]; other site 313596006456 tetramer interface [polypeptide binding]; other site 313596006457 PYR/PP interface [polypeptide binding]; other site 313596006458 TPP binding site [chemical binding]; other site 313596006459 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 313596006460 TPP-binding site [chemical binding]; other site 313596006461 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 313596006462 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 313596006463 CoenzymeA binding site [chemical binding]; other site 313596006464 subunit interaction site [polypeptide binding]; other site 313596006465 PHB binding site; other site 313596006466 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 313596006467 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 313596006468 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 313596006469 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 313596006470 Nucleotide-binding domain of human HSPA9 and similar proteins; Region: HSPA9-Ssq1-like_NBD; cd10234 313596006471 NEF interaction site [polypeptide binding]; other site 313596006472 nucleotide binding site [chemical binding]; other site 313596006473 SBD interface [polypeptide binding]; other site 313596006474 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 313596006475 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 313596006476 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 313596006477 acetylornithine deacetylase or succinyl-diaminopimelate desuccinylase; Region: DapE-ArgE; TIGR01910 313596006478 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 313596006479 oligomerization interface [polypeptide binding]; other site 313596006480 active site 313596006481 metal binding site [ion binding]; metal-binding site 313596006482 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 313596006483 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 313596006484 active site 313596006485 Isopropylmalate/homocitrate/citramalate synthases [Amino acid transport and metabolism]; Region: LeuA; COG0119 313596006486 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 313596006487 active site 313596006488 catalytic residues [active] 313596006489 metal binding site [ion binding]; metal-binding site 313596006490 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 313596006491 tartrate dehydrogenase; Region: TTC; TIGR02089 313596006492 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 313596006493 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 313596006494 putative tRNA-binding site [nucleotide binding]; other site 313596006495 B3/4 domain; Region: B3_4; pfam03483 313596006496 tRNA synthetase B5 domain; Region: B5; cl08394 313596006497 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 313596006498 dimer interface [polypeptide binding]; other site 313596006499 motif 1; other site 313596006500 motif 3; other site 313596006501 motif 2; other site 313596006502 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 313596006503 Fasciclin domain; Region: Fasciclin; pfam02469 313596006504 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 313596006505 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 313596006506 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 313596006507 ABC transporter; Region: ABC_tran_2; pfam12848 313596006508 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 313596006509 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 313596006510 active site 313596006511 intersubunit interactions; other site 313596006512 catalytic residue [active] 313596006513 short chain dehydrogenase; Provisional; Region: PRK06179 313596006514 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 313596006515 NADP binding site [chemical binding]; other site 313596006516 active site 313596006517 steroid binding site; other site 313596006518 Glutamine cyclotransferase; Region: Glu_cyclase_2; pfam05096 313596006519 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 313596006520 active site 313596006521 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 313596006522 LytTr DNA-binding domain; Region: LytTR; smart00850 313596006523 Tetratricopeptide repeat; Region: TPR_12; pfam13424 313596006524 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 313596006525 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 313596006526 ATP binding site [chemical binding]; other site 313596006527 Mg2+ binding site [ion binding]; other site 313596006528 G-X-G motif; other site 313596006529 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 313596006530 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 313596006531 active site 313596006532 phosphorylation site [posttranslational modification] 313596006533 intermolecular recognition site; other site 313596006534 dimerization interface [polypeptide binding]; other site 313596006535 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 313596006536 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 313596006537 dimer interface [polypeptide binding]; other site 313596006538 active site 313596006539 glycine-pyridoxal phosphate binding site [chemical binding]; other site 313596006540 folate binding site [chemical binding]; other site 313596006541 fumarylacetoacetase; Region: PLN02856 313596006542 Domain of unknown function (DUF1969); Region: DUF1969; pfam09298 313596006543 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 313596006544 Protein of unknown function (DUF2847); Region: DUF2847; pfam11009 313596006545 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 313596006546 Clp amino terminal domain; Region: Clp_N; pfam02861 313596006547 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 313596006548 Walker A motif; other site 313596006549 ATP binding site [chemical binding]; other site 313596006550 Walker B motif; other site 313596006551 arginine finger; other site 313596006552 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 313596006553 Walker A motif; other site 313596006554 ATP binding site [chemical binding]; other site 313596006555 Walker B motif; other site 313596006556 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 313596006557 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 313596006558 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 313596006559 Protein of unknown function (DUF3308); Region: DUF3308; cl14675 313596006560 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 313596006561 catalytic core [active] 313596006562 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 313596006563 SmpB-tmRNA interface; other site 313596006564 protein-L-isoaspartate O-methyltransferase; Reviewed; Region: pcm; PRK00312 313596006565 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 313596006566 S-adenosylmethionine binding site [chemical binding]; other site 313596006567 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 313596006568 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 313596006569 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK05808 313596006570 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 313596006571 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 313596006572 Protein of unknown function (DUF1015); Region: DUF1015; pfam06245 313596006573 Uncharacterized conserved protein [Function unknown]; Region: COG4198 313596006574 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 313596006575 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 313596006576 catalytic residue [active] 313596006577 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 313596006578 active site 313596006579 catalytic site [active] 313596006580 substrate binding site [chemical binding]; other site 313596006581 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 313596006582 GIY-YIG motif/motif A; other site 313596006583 active site 313596006584 catalytic site [active] 313596006585 putative DNA binding site [nucleotide binding]; other site 313596006586 metal binding site [ion binding]; metal-binding site 313596006587 Ion transport protein; Region: Ion_trans; pfam00520 313596006588 Ion channel; Region: Ion_trans_2; pfam07885 313596006589 zinc-ribbon domain; Region: zf-ribbon_3; pfam13248 313596006590 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 313596006591 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 313596006592 Gluconate kinase (GntK) catalyzes the phosphoryl transfer from ATP to gluconate. The resulting product gluconate-6-phoshate is an important precursor of gluconate metabolism. GntK acts as a dimmer composed of two identical subunits; Region: GntK; cd02021 313596006593 AAA domain; Region: AAA_33; pfam13671 313596006594 ATP-binding site [chemical binding]; other site 313596006595 Gluconate-6-phosphate binding site [chemical binding]; other site 313596006596 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 313596006597 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 313596006598 active site 313596006599 phosphorylation site [posttranslational modification] 313596006600 intermolecular recognition site; other site 313596006601 dimerization interface [polypeptide binding]; other site 313596006602 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 313596006603 DNA binding site [nucleotide binding] 313596006604 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 313596006605 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 313596006606 dimer interface [polypeptide binding]; other site 313596006607 phosphorylation site [posttranslational modification] 313596006608 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 313596006609 ATP binding site [chemical binding]; other site 313596006610 Mg2+ binding site [ion binding]; other site 313596006611 G-X-G motif; other site 313596006612 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 313596006613 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 313596006614 CoA-binding site [chemical binding]; other site 313596006615 ATP-binding [chemical binding]; other site 313596006616 YbbR-like protein; Region: YbbR; pfam07949 313596006617 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 313596006618 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 313596006619 active site 313596006620 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 313596006621 Enoyl-(Acyl carrier protein) reductase; Region: adh_short_C2; pfam13561 313596006622 NAD(P) binding site [chemical binding]; other site 313596006623 active site 313596006624 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 313596006625 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 313596006626 Walker A/P-loop; other site 313596006627 ATP binding site [chemical binding]; other site 313596006628 Q-loop/lid; other site 313596006629 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 313596006630 ABC transporter signature motif; other site 313596006631 Walker B; other site 313596006632 D-loop; other site 313596006633 H-loop/switch region; other site 313596006634 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 313596006635 Flavoprotein; Region: Flavoprotein; pfam02441 313596006636 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 313596006637 RNA polymerase Rpb6; Region: RNA_pol_Rpb6; cl14651 313596006638 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 313596006639 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 313596006640 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 313596006641 dimer interface [polypeptide binding]; other site 313596006642 active site 313596006643 catalytic residue [active] 313596006644 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 313596006645 Escherichia coli UshA-like family, N-terminal metallophosphatase domain; Region: MPP_UshA_N_like; cd00845 313596006646 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 313596006647 active site 313596006648 metal binding site [ion binding]; metal-binding site 313596006649 Lhr-like helicases [General function prediction only]; Region: Lhr; COG1201 313596006650 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 313596006651 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 313596006652 nucleotide binding pocket [chemical binding]; other site 313596006653 K-X-D-G motif; other site 313596006654 catalytic site [active] 313596006655 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 313596006656 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 313596006657 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 313596006658 Dimer interface [polypeptide binding]; other site 313596006659 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 313596006660 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 313596006661 S-adenosylmethionine binding site [chemical binding]; other site 313596006662 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 313596006663 Coenzyme A binding pocket [chemical binding]; other site 313596006664 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 313596006665 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 313596006666 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 313596006667 catalytic motif [active] 313596006668 Zn binding site [ion binding]; other site 313596006669 RibD C-terminal domain; Region: RibD_C; cl17279 313596006670 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 313596006671 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 313596006672 motif II; other site 313596006673 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 313596006674 EamA-like transporter family; Region: EamA; cl17759 313596006675 EamA-like transporter family; Region: EamA; pfam00892 313596006676 uncharacterized protein, YigZ family; Region: IMPACT_YIGZ; TIGR00257 313596006677 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 313596006678 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 313596006679 active site 313596006680 DnaA N-terminal domain; Region: DnaA_N; pfam11638 313596006681 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 313596006682 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 313596006683 Walker A motif; other site 313596006684 ATP binding site [chemical binding]; other site 313596006685 Walker B motif; other site 313596006686 arginine finger; other site 313596006687 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 313596006688 DnaA box-binding interface [nucleotide binding]; other site 313596006689 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 313596006690 Low molecular weight phosphatase family; Region: LMWPc; cd00115 313596006691 active site 313596006692 Uncharacterized subfamily of the tetrapyrrole methylase family similar to ribosomal RNA small subunit methyltransferase I (RsmI); Region: RsmI_like; cd11649 313596006693 putative SAM binding site [chemical binding]; other site 313596006694 homodimer interface [polypeptide binding]; other site 313596006695 YceG-like family; Region: YceG; pfam02618 313596006696 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 313596006697 dimerization interface [polypeptide binding]; other site 313596006698 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 313596006699 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 313596006700 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 313596006701 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 313596006702 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 313596006703 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 313596006704 PDZ domain, also called DHR (Dlg homologous region) or GLGF (after a conserved sequence motif). Many PDZ domains bind C-terminal polypeptides, though binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated; Region: PDZ; cl00117 313596006705 protein binding site [polypeptide binding]; other site 313596006706 glyceraldehyde-3-phosphate dehydrogenase; Reviewed; Region: PRK08289 313596006707 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; pfam00044 313596006708 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 313596006709 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 313596006710 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 313596006711 ornithine aminotransferase; Region: Orn_aminotrans; TIGR01885 313596006712 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 313596006713 inhibitor-cofactor binding pocket; inhibition site 313596006714 pyridoxal 5'-phosphate binding site [chemical binding]; other site 313596006715 catalytic residue [active] 313596006716 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 313596006717 TRAM domain; Region: TRAM; pfam01938 313596006718 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 313596006719 S-adenosylmethionine binding site [chemical binding]; other site 313596006720 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 313596006721 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 313596006722 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl17173 313596006723 ZIP Zinc transporter; Region: Zip; pfam02535 313596006724 Trehalose utilisation; Region: ThuA; pfam06283 313596006725 channel protein, hemolysin III family; Region: hlyIII; TIGR01065 313596006726 Haemolysin-III related; Region: HlyIII; cl03831 313596006727 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 313596006728 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 313596006729 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 313596006730 active site 313596006731 Domain of unknown function (DUF4294); Region: DUF4294; pfam14127 313596006732 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 313596006733 M42 Peptidase, Endoglucanases; Region: M42_Frv; cd05656 313596006734 oligomer interface [polypeptide binding]; other site 313596006735 active site 313596006736 metal binding site [ion binding]; metal-binding site 313596006737 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_33; cd04692 313596006738 nudix motif; other site 313596006739 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 313596006740 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 313596006741 dimer interface [polypeptide binding]; other site 313596006742 motif 1; other site 313596006743 active site 313596006744 motif 2; other site 313596006745 motif 3; other site 313596006746 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 313596006747 anticodon binding site; other site 313596006748 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 313596006749 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 313596006750 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 313596006751 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 313596006752 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 313596006753 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 313596006754 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 313596006755 active site 313596006756 phosphorylation site [posttranslational modification] 313596006757 intermolecular recognition site; other site 313596006758 dimerization interface [polypeptide binding]; other site 313596006759 LytTr DNA-binding domain; Region: LytTR; smart00850 313596006760 Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]; Region: PriA; COG1198 313596006761 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 313596006762 ATP binding site [chemical binding]; other site 313596006763 putative Mg++ binding site [ion binding]; other site 313596006764 Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may...; Region: HELICc; cl17351 313596006765 Virulence factor BrkB; Region: Virul_fac_BrkB; pfam03631 313596006766 Nicotinate-nucleotide pyrophosphorylase [Coenzyme metabolism]; Region: NadC; COG0157 313596006767 Quinolinate phosphoribosyl transferase (QAPRTase or QPRTase), also called nicotinate-nucleotide pyrophosphorylase, is involved in the de novo synthesis of NAD in both prokaryotes and eukaryotes. It catalyses the reaction of quinolinic acid (QA) with...; Region: QPRTase; cd01572 313596006768 dimerization interface [polypeptide binding]; other site 313596006769 active site 313596006770 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 313596006771 Methyltransferase domain; Region: Methyltransf_31; pfam13847 313596006772 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 313596006773 S-adenosylmethionine binding site [chemical binding]; other site 313596006774 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 313596006775 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 313596006776 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK11790 313596006777 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_3; cd12176 313596006778 ligand binding site [chemical binding]; other site 313596006779 NAD binding site [chemical binding]; other site 313596006780 tetramer interface [polypeptide binding]; other site 313596006781 catalytic site [active] 313596006782 C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria; Region: ACT_3PGDH; cd04901 313596006783 L-serine binding site [chemical binding]; other site 313596006784 ACT domain interface; other site 313596006785 Protein of unknown function (DUF3307); Region: DUF3307; pfam11750 313596006786 Putative protein-S-isoprenylcysteine methyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: STE14; COG2020 313596006787 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 313596006788 active site 313596006789 dimerization interface [polypeptide binding]; other site 313596006790 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 313596006791 DEAD-like helicases superfamily; Region: DEXDc; smart00487 313596006792 ATP binding site [chemical binding]; other site 313596006793 Mg++ binding site [ion binding]; other site 313596006794 motif III; other site 313596006795 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 313596006796 nucleotide binding region [chemical binding]; other site 313596006797 ATP-binding site [chemical binding]; other site 313596006798 RNA recognition motif in the DbpA subfamily of prokaryotic DEAD-box rRNA helicases; Region: RRM_DbpA; cd12252 313596006799 RNA binding site [nucleotide binding]; other site 313596006800 Cna protein B-type domain; Region: Cna_B_2; pfam13715 313596006801 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 313596006802 active site 313596006803 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 313596006804 active site 313596006805 catalytic site [active] 313596006806 catalytic site [active] 313596006807 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 313596006808 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 313596006809 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_1; cd07818 313596006810 putative hydrophobic ligand binding site [chemical binding]; other site 313596006811 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 313596006812 NAD-dependent deacetylase; Provisional; Region: PRK00481 313596006813 SIRT5_Af1_CobB: Eukaryotic, archaeal and prokaryotic group (class3) which includes human sirtuin SIRT5, Archaeoglobus fulgidus Sir2-Af1, and E. coli CobB; and are members of the SIR2 family of proteins, silent information regulator 2 (Sir2) enzymes which...; Region: SIRT5_Af1_CobB; cd01412 313596006814 NAD+ binding site [chemical binding]; other site 313596006815 substrate binding site [chemical binding]; other site 313596006816 Zn binding site [ion binding]; other site 313596006817 Haem-binding domain; Region: Haem_bd; pfam14376 313596006818 adenylosuccinate lyase; Provisional; Region: PRK09285 313596006819 PurB_like adenylosuccinases (adenylsuccinate lyase, ASL); Region: PurB; cd01598 313596006820 tetramer interface [polypeptide binding]; other site 313596006821 active site 313596006822 Domain of unknown function (DUF4252); Region: DUF4252; pfam14060 313596006823 Domain of unknown function (DUF4252); Region: DUF4252; pfam14060 313596006824 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 313596006825 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 313596006826 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 313596006827 DNA binding residues [nucleotide binding] 313596006828 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 313596006829 C-terminal processing peptidase-like; serine protease family S41; Region: Peptidase_S41_CPP_like; cd07561 313596006830 Catalytic dyad [active] 313596006831 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 313596006832 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 313596006833 N-terminal plug; other site 313596006834 ligand-binding site [chemical binding]; other site 313596006835 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 313596006836 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 313596006837 intersubunit interface [polypeptide binding]; other site 313596006838 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 313596006839 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 313596006840 ABC-ATPase subunit interface; other site 313596006841 dimer interface [polypeptide binding]; other site 313596006842 putative PBP binding regions; other site 313596006843 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 313596006844 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 313596006845 Walker A/P-loop; other site 313596006846 ATP binding site [chemical binding]; other site 313596006847 Q-loop/lid; other site 313596006848 ABC transporter signature motif; other site 313596006849 Walker B; other site 313596006850 D-loop; other site 313596006851 H-loop/switch region; other site 313596006852 RmuC family; Region: RmuC; pfam02646 313596006853 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 313596006854 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 313596006855 putative active site [active] 313596006856 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 313596006857 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 313596006858 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 313596006859 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 313596006860 6-phosphogluconate dehydrogenase; Validated; Region: PRK09287 313596006861 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 313596006862 YceI-like domain; Region: YceI; pfam04264 313596006863 Carbamoylphosphate synthase large subunit (split gene in MJ) [Amino acid transport and metabolism / Nucleotide transport and metabolism]; Region: CarB; COG0458 313596006864 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 313596006865 ATP-grasp domain; Region: ATP-grasp_4; cl17255 313596006866 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 313596006867 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; smart01096 313596006868 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 313596006869 Carbamoylphosphate synthase large subunit (split gene in MJ) [Amino acid transport and metabolism / Nucleotide transport and metabolism]; Region: CarB; COG0458 313596006870 ATP-grasp domain; Region: ATP-grasp_4; cl17255 313596006871 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399 313596006872 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 313596006873 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 313596006874 putative active site [active] 313596006875 catalytic site [active] 313596006876 catalytic domain repeat 2 of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_2; cd09112 313596006877 putative active site [active] 313596006878 catalytic site [active] 313596006879 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 313596006880 N-acetyl-D-glucosamine binding site [chemical binding]; other site 313596006881 catalytic residue [active] 313596006882 2-methylthioadenine synthetase [Translation, ribosomal structure and biogenesis]; Region: MiaB; COG0621 313596006883 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 313596006884 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 313596006885 FeS/SAM binding site; other site 313596006886 UDP-N-acetylglucosamine diphosphorylase/glucosamine-1-phosphate N-acetyltransferase; Region: alt_bact_glmU; TIGR03991 313596006887 Sugar nucleotidyl transferase; Region: NTP_transf_4; pfam13562 313596006888 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cl00160 313596006889 putative trimer interface [polypeptide binding]; other site 313596006890 putative CoA binding site [chemical binding]; other site 313596006891 50S ribosomal protein L31 type B; Reviewed; Region: rpmE2; PRK01678 313596006892 Protein of unknown function (DUF4199); Region: DUF4199; pfam13858 313596006893 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 313596006894 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 313596006895 Ligand binding site; other site 313596006896 Putative Catalytic site; other site 313596006897 DXD motif; other site 313596006898 polycystic kidney disease I (PKD) domain; similar to other cell-surface modules, with an IG-like fold; domain probably functions as a ligand binding site in protein-protein or protein-carbohydrate interactions; a single instance of the repeat is...; Region: PKD; cd00146 313596006899 gliding motility-associated C-terminal domain; Region: Bac_Flav_CTERM; TIGR04131 313596006900 phosphoglucomutase-2-like protein; Provisional; Region: PTZ00150 313596006901 This CD includes PGM2 (phosphoglucomutase 2) and PGM2L1 (phosphoglucomutase 2-like 1). The mammalian PGM2 is thought to be a phosphopentomutase that catalyzes the conversion of the nucleoside breakdown products, ribose-1-phosphate and...; Region: PGM2; cd05799 313596006902 active site 313596006903 substrate binding site [chemical binding]; other site 313596006904 metal binding site [ion binding]; metal-binding site 313596006905 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 313596006906 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 313596006907 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 313596006908 Walker A/P-loop; other site 313596006909 ATP binding site [chemical binding]; other site 313596006910 Q-loop/lid; other site 313596006911 ABC transporter signature motif; other site 313596006912 Walker B; other site 313596006913 D-loop; other site 313596006914 H-loop/switch region; other site 313596006915 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 313596006916 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 313596006917 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 313596006918 DNA binding residues [nucleotide binding] 313596006919 Uncharacterized protein related to plant photosystem II stability/assembly factor [General function prediction only]; Region: COG4447 313596006920 16S rRNA methyltransferase B; Provisional; Region: PRK14902 313596006921 NOL1/NOP2/sun family putative RNA methylase; Region: nop2p; TIGR00446 313596006922 phosphoribosylformylglycinamidine synthase; Provisional; Region: PRK05297 313596006923 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 313596006924 dimerization interface [polypeptide binding]; other site 313596006925 ATP binding site [chemical binding]; other site 313596006926 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 313596006927 dimerization interface [polypeptide binding]; other site 313596006928 ATP binding site [chemical binding]; other site 313596006929 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 313596006930 putative active site [active] 313596006931 catalytic triad [active] 313596006932 DinB superfamily; Region: DinB_2; pfam12867 313596006933 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 313596006934 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 313596006935 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 313596006936 Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907 313596006937 acyl-activating enzyme (AAE) consensus motif; other site 313596006938 acyl-activating enzyme (AAE) consensus motif; other site 313596006939 putative AMP binding site [chemical binding]; other site 313596006940 putative active site [active] 313596006941 putative CoA binding site [chemical binding]; other site 313596006942 Transcriptional regulators [Transcription]; Region: MarR; COG1846 313596006943 MarR family; Region: MarR; pfam01047 313596006944 3-hydroxybutyryl-CoA dehydrogenase; Region: PLN02545 313596006945 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 313596006946 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 313596006947 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 313596006948 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 313596006949 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 313596006950 substrate binding site [chemical binding]; other site 313596006951 oxyanion hole (OAH) forming residues; other site 313596006952 trimer interface [polypeptide binding]; other site 313596006953 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 313596006954 acetyl-CoA acetyltransferase; Provisional; Region: PRK09052 313596006955 dimer interface [polypeptide binding]; other site 313596006956 active site 313596006957 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 313596006958 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 313596006959 active site 313596006960 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 313596006961 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 313596006962 catalytic residue [active] 313596006963 Glucoamylase and related glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: SGA1; COG3387 313596006964 Glycosyl hydrolases family 15; Region: Glyco_hydro_15; pfam00723 313596006965 putative bifunctional trehalose-6-phosphate synthase/HAD hydrolase subfamily IIB; Provisional; Region: PRK14501 313596006966 Trehalose-6-Phosphate Synthase (TPS) is a glycosyltransferase that catalyses the synthesis of alpha,alpha-1,1-trehalose-6-phosphate from glucose-6-phosphate using a UDP-glucose donor. It is a key enzyme in the trehalose synthesis pathway. Trehalose is a...; Region: GT1_TPS; cd03788 313596006967 active site 313596006968 homotetramer interface [polypeptide binding]; other site 313596006969 trehalose-6-phosphate phosphatase; Provisional; Region: PRK10187; cl17105 313596006970 Protein of unknown function (DUF1211); Region: DUF1211; pfam06736 313596006971 M28 Zn-Peptidase Aeromonas (Vibrio) proteolytica aminopeptidase (AAP)-like; Region: M28_AAP_like; cd05642 313596006972 Predicted aminopeptidases [General function prediction only]; Region: Iap; COG2234 313596006973 putative metal binding site [ion binding]; other site 313596006974 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 313596006975 Predicted Zn-dependent protease (DUF2268); Region: DUF2268; cl02316 313596006976 Peptidase M1 family Aminopeptidase N; Region: M1_APN_4; cd09603 313596006977 Peptidase family M1; Region: Peptidase_M1; pfam01433 313596006978 Zn binding site [ion binding]; other site 313596006979 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 313596006980 Beta-lactamase; Region: Beta-lactamase; pfam00144 313596006981 Trehalose utilisation; Region: ThuA; pfam06283 313596006982 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 313596006983 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 313596006984 PKD domain; Region: PKD; pfam00801 313596006985 Cytochrome c; Region: Cytochrom_C; cl11414 313596006986 Carbohydrate Binding Module 6 (CBM6); many are appended to glycoside hydrolase (GH) family 11 and GH43 xylanase domains; Region: CBM6_xylanase-like; cd04084 313596006987 ligand binding site [chemical binding]; other site 313596006988 metal binding site [ion binding]; metal-binding site 313596006989 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4430 313596006990 Bacteriocin-protection, YdeI or OmpD-Associated; Region: OmdA; pfam13376 313596006991 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 313596006992 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 313596006993 Amidohydrolase; Region: Amidohydro_4; pfam13147 313596006994 active site 313596006995 Uncharacterized conserved protein [Function unknown]; Region: COG2353 313596006996 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 313596006997 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 313596006998 Glycosyl hydrolase family 3 C-terminal domain; Region: Glyco_hydro_3_C; pfam01915 313596006999 DOMON-like type 9 carbohydrate binding module; Region: CBM9_like_2; cd09618 313596007000 putative ligand binding site [chemical binding]; other site 313596007001 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 313596007002 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 313596007003 ATP binding site [chemical binding]; other site 313596007004 Mg2+ binding site [ion binding]; other site 313596007005 G-X-G motif; other site 313596007006 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 313596007007 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 313596007008 active site 313596007009 phosphorylation site [posttranslational modification] 313596007010 intermolecular recognition site; other site 313596007011 dimerization interface [polypeptide binding]; other site 313596007012 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 313596007013 Walker A motif; other site 313596007014 ATP binding site [chemical binding]; other site 313596007015 Walker B motif; other site 313596007016 arginine finger; other site 313596007017 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 313596007018 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 313596007019 HlyD family secretion protein; Region: HlyD_3; pfam13437 313596007020 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 313596007021 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 313596007022 Walker A/P-loop; other site 313596007023 ATP binding site [chemical binding]; other site 313596007024 Q-loop/lid; other site 313596007025 ABC transporter signature motif; other site 313596007026 Walker B; other site 313596007027 D-loop; other site 313596007028 H-loop/switch region; other site 313596007029 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 313596007030 FtsX-like permease family; Region: FtsX; pfam02687 313596007031 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 313596007032 FtsX-like permease family; Region: FtsX; pfam02687 313596007033 Acidobacterial duplicated orphan permease; Region: ADOP; TIGR03434 313596007034 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 313596007035 FtsX-like permease family; Region: FtsX; pfam02687 313596007036 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 313596007037 FtsX-like permease family; Region: FtsX; pfam02687 313596007038 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 313596007039 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 313596007040 Walker A/P-loop; other site 313596007041 ATP binding site [chemical binding]; other site 313596007042 Q-loop/lid; other site 313596007043 ABC transporter signature motif; other site 313596007044 Walker B; other site 313596007045 D-loop; other site 313596007046 H-loop/switch region; other site 313596007047 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 313596007048 Beta-lactamase; Region: Beta-lactamase; pfam00144 313596007049 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 313596007050 GDSL-like Lipase/Acylhydrolase family; Region: Lipase_GDSL_2; pfam13472 313596007051 helicase 45; Provisional; Region: PTZ00424 313596007052 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 313596007053 ATP binding site [chemical binding]; other site 313596007054 Mg++ binding site [ion binding]; other site 313596007055 motif III; other site 313596007056 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 313596007057 nucleotide binding region [chemical binding]; other site 313596007058 ATP-binding site [chemical binding]; other site 313596007059 Protein of unknown function (DUF664); Region: DUF664; pfam04978 313596007060 DinB superfamily; Region: DinB_2; pfam12867 313596007061 Sialidases or neuraminidases function to bind and hydrolyze terminal sialic acid residues from various glycoconjugates as well as playing roles in pathogenesis, bacterial nutrition and cellular interactions. They have a six-bladed, beta-propeller fold...; Region: Sialidase; cl17698 313596007062 Asp-box motif; other site 313596007063 Protein of unknown function (DUF2490); Region: DUF2490; pfam10677 313596007064 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 313596007065 BAAT / Acyl-CoA thioester hydrolase C terminal; Region: BAAT_C; pfam08840 313596007066 Predicted redox protein, regulator of disulfide bond formation [Posttranslational modification, protein turnover, chaperones]; Region: COG1765 313596007067 Bacteriocin-protection, YdeI or OmpD-Associated; Region: OmdA; pfam13376 313596007068 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 313596007069 E-class dimer interface [polypeptide binding]; other site 313596007070 P-class dimer interface [polypeptide binding]; other site 313596007071 active site 313596007072 Cu2+ binding site [ion binding]; other site 313596007073 Zn2+ binding site [ion binding]; other site 313596007074 RNA polymerase sigma factor SigK; Reviewed; Region: PRK09646 313596007075 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 313596007076 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 313596007077 DNA binding residues [nucleotide binding] 313596007078 putative anti-sigmaE protein; Provisional; Region: PRK13920 313596007079 Anti-sigma-K factor rskA; Region: RskA; pfam10099 313596007080 GT_2_like_a represents a glycosyltransferase family-2 subfamily with unknown function; Region: GT_2_like_a; cd02522 313596007081 transferase 2, rSAM/selenodomain-associated; Region: glyco_like_mftF; TIGR04283 313596007082 Probable Catalytic site; other site 313596007083 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 313596007084 binding surface 313596007085 TPR motif; other site 313596007086 Domain of unknown function (DUF4331); Region: DUF4331; pfam14224 313596007087 Domain of unknown function (DUF4331); Region: DUF4331; pfam14224 313596007088 LETM1-like protein; Region: LETM1; pfam07766 313596007089 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 313596007090 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 313596007091 active site 313596007092 phosphorylation site [posttranslational modification] 313596007093 intermolecular recognition site; other site 313596007094 dimerization interface [polypeptide binding]; other site 313596007095 LytTr DNA-binding domain; Region: LytTR; smart00850 313596007096 2TM domain; Region: 2TM; pfam13239 313596007097 2TM domain; Region: 2TM; pfam13239 313596007098 2TM domain; Region: 2TM; pfam13239 313596007099 Ethanolamine utilisation protein, EutH; Region: EutH; cl01248 313596007100 Histidine kinase; Region: His_kinase; pfam06580 313596007101 2TM domain; Region: 2TM; pfam13239 313596007102 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 313596007103 TAP-like protein; Region: Abhydrolase_4; pfam08386 313596007104 Putative FMN-binding domain; Region: FMN_bind_2; pfam04299 313596007105 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 313596007106 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 313596007107 Coenzyme A binding pocket [chemical binding]; other site 313596007108 Uncharacterized protein conserved in bacteria (DUF2141); Region: DUF2141; pfam09912 313596007109 Transcriptional regulator [Transcription]; Region: LysR; COG0583 313596007110 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 313596007111 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 313596007112 dimerization interface [polypeptide binding]; other site 313596007113 D-Ala-D-Ala carboxypeptidase 3 (S13) family; Region: Peptidase_S13; cl17429 313596007114 D-alanyl-D-alanine carboxypeptidase, serine-type, PBP4 family; Region: PBP4; TIGR00666 313596007115 GDP-mannose pyrophosphatase NudK; Provisional; Region: PRK15009 313596007116 ADP-ribose pyrophosphatase (ADPRase) catalyzes the hydrolysis of ADP-ribose and a variety of additional ADP-sugar conjugates to AMP and ribose-5-phosphate. Like other members of the Nudix hydrolase superfamily, it requires a divalent cation, such as Mg2+; Region: ADPRase_NUDT5; cd03424 313596007117 dimer interface [polypeptide binding]; other site 313596007118 ADP-ribose binding site [chemical binding]; other site 313596007119 active site 313596007120 nudix motif; other site 313596007121 metal binding site [ion binding]; metal-binding site 313596007122 Uncharacterized conserved protein [Function unknown]; Region: COG5476 313596007123 Protein of unknown function (DUF1485); Region: DUF1485; pfam07364 313596007124 MlrC C-terminus; Region: MlrC_C; pfam07171 313596007125 Mitochondrial biogenesis AIM24; Region: AIM24; pfam01987 313596007126 Tic20-like protein; Region: Tic20; pfam09685 313596007127 Predicted transcriptional regulators [Transcription]; Region: COG1695 313596007128 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 313596007129 PspC domain; Region: PspC; pfam04024 313596007130 Protein of unknown function (DUF2807); Region: DUF2807; pfam10988 313596007131 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 313596007132 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 313596007133 active site 313596007134 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 313596007135 7-keto-8-aminopelargonate synthetase and related enzymes [Coenzyme metabolism]; Region: BioF; COG0156 313596007136 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 313596007137 catalytic residue [active] 313596007138 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 313596007139 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 313596007140 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 313596007141 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 313596007142 HlyD family secretion protein; Region: HlyD_3; pfam13437 313596007143 Protein of unknown function (DUF3347); Region: DUF3347; pfam11827 313596007144 PepSY-associated TM helix; Region: PepSY_TM_3; pfam13706 313596007145 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 313596007146 metal-binding site [ion binding] 313596007147 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 313596007148 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 313596007149 Soluble P-type ATPase [General function prediction only]; Region: COG4087 313596007150 Helix-turn-helix domain; Region: HTH_18; pfam12833 313596007151 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 313596007152 Protein of unknown function (DUF3347); Region: DUF3347; pfam11827 313596007153 Outer membrane efflux protein; Region: OEP; pfam02321 313596007154 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 313596007155 hydroxyproline-2-epimerase; Provisional; Region: PRK13971 313596007156 Proline racemase; Region: Pro_racemase; pfam05544 313596007157 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 313596007158 Alpha-Ketoglutaric Semialdehyde Dehydrogenase; Region: ALDH_KGSADH; cd07129 313596007159 dimer interface [polypeptide binding]; other site 313596007160 NADP binding site [chemical binding]; other site 313596007161 catalytic residues [active] 313596007162 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 313596007163 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 313596007164 inhibitor site; inhibition site 313596007165 active site 313596007166 dimer interface [polypeptide binding]; other site 313596007167 catalytic residue [active] 313596007168 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 313596007169 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 313596007170 Beta-lactamase; Region: Beta-lactamase; pfam00144 313596007171 Alpha-L-rhamnosidase N-terminal domain; Region: Bac_rhamnosid_N; pfam08531 313596007172 Bacterial alpha-L-rhamnosidase; Region: Bac_rhamnosid; pfam05592 313596007173 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 313596007174 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 313596007175 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 313596007176 Uncharacterized conserved protein [Function unknown]; Region: COG1262 313596007177 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 313596007178 Uncharacterized conserved protein (DUF2048); Region: DUF2048; pfam09752 313596007179 Esterase/lipase [Lipid metabolism]; Region: Aes; COG0657 313596007180 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 313596007181 F5/8 type C domain; Region: F5_F8_type_C; pfam00754 313596007182 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 313596007183 Alpha-L-rhamnosidase N-terminal domain; Region: Bac_rhamnosid_N; pfam08531 313596007184 Bacterial alpha-L-rhamnosidase; Region: Bac_rhamnosid; pfam05592 313596007185 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 313596007186 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 313596007187 Acetyltransferase (isoleucine patch superfamily) [General function prediction only]; Region: WbbJ; COG0110 313596007188 Maltose O-acetyltransferase (MAT) and Galactoside O-acetyltransferase (GAT): MAT and GAT catalyze the CoA-dependent acetylation of the 6-hydroxyl group of their respective sugar substrates. MAT acetylates maltose and glucose exclusively at the C6...; Region: LbH_MAT_GAT; cd03357 313596007189 active site 313596007190 substrate binding site [chemical binding]; other site 313596007191 trimer interface [polypeptide binding]; other site 313596007192 CoA binding site [chemical binding]; other site 313596007193 Alpha-L-rhamnosidase N-terminal domain; Region: Bac_rhamnosid_N; pfam08531 313596007194 Bacterial alpha-L-rhamnosidase; Region: Bac_rhamnosid; pfam05592 313596007195 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 313596007196 starch binding outer membrane protein SusD; Region: SusD; cd08977 313596007197 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 313596007198 Cna protein B-type domain; Region: Cna_B_2; pfam13715 313596007199 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 313596007200 TonB dependent receptor; Region: TonB_dep_Rec; pfam00593 313596007201 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 313596007202 DNA-binding site [nucleotide binding]; DNA binding site 313596007203 Ligand-binding domain of a transcription repressor, FucR, which functions as a molecular sensor of L-fucose availability; Region: PBP1_FucR_like; cd06276 313596007204 putative dimerization interface [polypeptide binding]; other site 313596007205 putative ligand binding site [chemical binding]; other site 313596007206 Transcriptional regulators [Transcription]; Region: PurR; COG1609 313596007207 short chain dehydrogenase; Validated; Region: PRK08324 313596007208 Class II Aldolase and Adducin N-terminal domain; Region: Aldolase_II; smart01007 313596007209 active site 313596007210 Zn2+ binding site [ion binding]; other site 313596007211 intersubunit interface [polypeptide binding]; other site 313596007212 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 313596007213 NAD(P) binding site [chemical binding]; other site 313596007214 active site 313596007215 Predicted sugar isomerase [Cell envelope biogenesis, outer membrane]; Region: COG4952; cl17900 313596007216 L-rhamnose catabolism isomerase, Pseudomonas stutzeri subtype; Region: L_rham_iso_rhiz; TIGR02629 313596007217 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 313596007218 nucleotide binding site [chemical binding]; other site 313596007219 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 313596007220 L-lactate dehydrogenase; Provisional; Region: lldD; PRK11197 313596007221 phosphate binding site [ion binding]; other site 313596007222 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 313596007223 Na binding site [ion binding]; other site 313596007224 Alpha-L-rhamnosidase N-terminal domain; Region: Bac_rhamnosid_N; pfam08531 313596007225 Bacterial alpha-L-rhamnosidase; Region: Bac_rhamnosid; pfam05592 313596007226 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 313596007227 Sulfatase; Region: Sulfatase; pfam00884 313596007228 Chitobiase/beta-hexosaminidase C-terminal domain; Region: CHB_HEX_C; pfam03174 313596007229 Ribosomal protein L24e/L24 is a ribosomal protein found in eukaryotes (L24) and in archaea (L24e, distinct from archaeal L24). L24e/L24 is located on the surface of the large subunit, adjacent to proteins L14 and L3, and near the translation factor...; Region: Ribosomal_L24e_L24; cl00909 313596007230 NRDE protein; Region: NRDE; cl01315 313596007231 Carboxylesterase type B [Lipid metabolism]; Region: PnbA; COG2272 313596007232 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cd00312 313596007233 substrate binding pocket [chemical binding]; other site 313596007234 catalytic triad [active] 313596007235 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; cl17312 313596007236 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 313596007237 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 313596007238 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 313596007239 classical (c) SDRs; Region: SDR_c; cd05233 313596007240 NAD(P) binding site [chemical binding]; other site 313596007241 active site 313596007242 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 313596007243 classical (c) SDRs; Region: SDR_c; cd05233 313596007244 NAD(P) binding site [chemical binding]; other site 313596007245 active site 313596007246 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 313596007247 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 313596007248 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 313596007249 PAP2_like_2 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which is specific to bacteria, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_2; cd03392 313596007250 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 313596007251 active site 313596007252 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 313596007253 active site 313596007254 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 313596007255 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 313596007256 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 313596007257 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 313596007258 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 313596007259 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 313596007260 catalytic loop [active] 313596007261 iron binding site [ion binding]; other site 313596007262 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 313596007263 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 313596007264 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 313596007265 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 313596007266 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 313596007267 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 313596007268 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 313596007269 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 313596007270 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 313596007271 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 313596007272 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 313596007273 catalytic loop [active] 313596007274 iron binding site [ion binding]; other site 313596007275 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 313596007276 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 313596007277 Helix-turn-helix domain; Region: HTH_18; pfam12833 313596007278 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 313596007279 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 313596007280 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 313596007281 Carboxylesterase family; Region: COesterase; pfam00135 313596007282 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cd00312 313596007283 substrate binding pocket [chemical binding]; other site 313596007284 catalytic triad [active] 313596007285 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 313596007286 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 313596007287 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 313596007288 dimerization interface [polypeptide binding]; other site 313596007289 putative DNA binding site [nucleotide binding]; other site 313596007290 putative Zn2+ binding site [ion binding]; other site 313596007291 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 313596007292 arsenical-resistance protein; Region: acr3; TIGR00832 313596007293 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 313596007294 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 313596007295 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 313596007296 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 313596007297 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 313596007298 HlyD family secretion protein; Region: HlyD_3; pfam13437 313596007299 Outer membrane efflux protein; Region: OEP; pfam02321 313596007300 Histidine kinase; Region: His_kinase; pfam06580 313596007301 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 313596007302 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 313596007303 active site 313596007304 phosphorylation site [posttranslational modification] 313596007305 intermolecular recognition site; other site 313596007306 dimerization interface [polypeptide binding]; other site 313596007307 LytTr DNA-binding domain; Region: LytTR; smart00850 313596007308 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 313596007309 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 313596007310 Mg++ binding site [ion binding]; other site 313596007311 putative catalytic motif [active] 313596007312 substrate binding site [chemical binding]; other site 313596007313 GDP-D-mannose dehydratase [Cell envelope biogenesis, outer membrane]; Region: Gmd; COG1089 313596007314 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 313596007315 NADP-binding site; other site 313596007316 homotetramer interface [polypeptide binding]; other site 313596007317 substrate binding site [chemical binding]; other site 313596007318 homodimer interface [polypeptide binding]; other site 313596007319 active site 313596007320 GDP-fucose synthetase, extended (e) SDRs; Region: GDP_FS_SDR_e; cd05239 313596007321 GDP-4-keto-6-deoxymannose-3, 5-epimerase-4-reductase; Region: PLN02725 313596007322 NADP binding site [chemical binding]; other site 313596007323 active site 313596007324 putative substrate binding site [chemical binding]; other site 313596007325 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 313596007326 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 313596007327 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 313596007328 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 313596007329 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 313596007330 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 313596007331 putative ADP-binding pocket [chemical binding]; other site 313596007332 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 313596007333 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 313596007334 putative metal binding site; other site 313596007335 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 313596007336 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 313596007337 active site 313596007338 WfgS and WfeV are involved in O-antigen biosynthesis; Region: GT_2_WfgS_like; cd06433 313596007339 metal-binding site 313596007340 Chain length determinant protein; Region: Wzz; pfam02706 313596007341 Uncharacterized protein involved in exopolysaccharide biosynthesis [Cell envelope biogenesis, outer membrane]; Region: GumC; COG3206 313596007342 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 313596007343 AAA domain; Region: AAA_31; pfam13614 313596007344 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; cd01983 313596007345 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 313596007346 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 313596007347 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 313596007348 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cd00312 313596007349 Carboxylesterase family; Region: COesterase; pfam00135 313596007350 substrate binding pocket [chemical binding]; other site 313596007351 catalytic triad [active] 313596007352 Sulfatase; Region: Sulfatase; pfam00884 313596007353 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 313596007354 Trehalose utilisation; Region: ThuA; pfam06283 313596007355 Protein of unknown function (DUF808); Region: DUF808; cl01002 313596007356 Tetratricopeptide repeat; Region: TPR_12; pfam13424 313596007357 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 313596007358 binding surface 313596007359 TPR motif; other site 313596007360 Tetratricopeptide repeat; Region: TPR_12; pfam13424 313596007361 Tetratricopeptide repeat; Region: TPR_12; pfam13424 313596007362 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 313596007363 binding surface 313596007364 TPR motif; other site 313596007365 Tetratricopeptide repeat; Region: TPR_12; pfam13424 313596007366 TIGR03503 family protein; Region: TIGR03503 313596007367 helix_turn_helix, Lux Regulon; Region: HTH_LUXR; smart00421 313596007368 DNA binding residues [nucleotide binding] 313596007369 dimerization interface [polypeptide binding]; other site 313596007370 atypical (a) SDRs, subgroup 5; Region: SDR_a5; cd05243 313596007371 NADH(P)-binding; Region: NAD_binding_10; pfam13460 313596007372 NAD(P) binding site [chemical binding]; other site 313596007373 putative active site [active] 313596007374 Peptidase M15; Region: Peptidase_M15_3; cl01194 313596007375 Protein of unknown function C-terminus (DUF2448); Region: DUF2448; pfam10476 313596007376 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 313596007377 Phage terminase large subunit; Region: Terminase_3; cl12054 313596007378 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dam; COG0338 313596007379 VRR-NUC domain; Region: VRR_NUC; pfam08774 313596007380 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 313596007381 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 313596007382 ATP binding site [chemical binding]; other site 313596007383 putative Mg++ binding site [ion binding]; other site 313596007384 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 313596007385 nucleotide binding region [chemical binding]; other site 313596007386 ATP-binding site [chemical binding]; other site 313596007387 Uncharacterized protein family UPF0547; Region: UPF0547; pfam10571 313596007388 VirE N-terminal domain; Region: VirE_N; pfam08800 313596007389 Primase C terminal 2 (PriCT-2); Region: PriCT_2; pfam08707 313596007390 Virulence-associated protein E; Region: VirE; pfam05272 313596007391 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 313596007392 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 313596007393 non-specific DNA binding site [nucleotide binding]; other site 313596007394 salt bridge; other site 313596007395 sequence-specific DNA binding site [nucleotide binding]; other site 313596007396 Uncharacterized proteins similar to Bacteroides ovatus 4320; Region: Bacova_04320_like; cd12190 313596007397 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 313596007398 DNA binding site [nucleotide binding] 313596007399 Int/Topo IB signature motif; other site 313596007400 active site 313596007401 catalytic residues [active] 313596007402 putative membrane-bound dehydrogenase domain; Region: Piru_Ver_Nterm; TIGR02604 313596007403 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 313596007404 Cytochrome c; Region: Cytochrom_C; pfam00034 313596007405 fructuronate transporter; Provisional; Region: PRK10034; cl15264 313596007406 GntP family permease; Region: GntP_permease; pfam02447 313596007407 dihydroxy-acid dehydratase; Validated; Region: PRK06131 313596007408 classical (c) SDRs; Region: SDR_c; cd05233 313596007409 short chain dehydrogenase; Provisional; Region: PRK07577 313596007410 NAD(P) binding site [chemical binding]; other site 313596007411 active site 313596007412 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 313596007413 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 313596007414 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 313596007415 NAD(P) binding site [chemical binding]; other site 313596007416 active site 313596007417 gliding motility-associated C-terminal domain; Region: Bac_Flav_CTERM; TIGR04131 313596007418 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 313596007419 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 313596007420 N-acetylmuramic acid-6-phosphate etherase; Reviewed; Region: murQ; PRK05441 313596007421 N-acetylmuramic acid 6-phosphate etherase. Members of this family contain the SIS (Sugar ISomerase) domain. The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. The bacterial cell wall sugar N-acetylmuramic acid...; Region: SIS_Etherase; cd05007 313596007422 putative active site [active] 313596007423 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 313596007424 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 313596007425 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 313596007426 glucosamine-6-phosphate deaminase-like protein; Validated; Region: PRK02122 313596007427 GlcN6P_deaminase: Glucosamine-6-phosphate (GlcN6P) deaminase subfamily; GlcN6P deaminase catalyzes the reversible conversion of GlcN6P to D-fructose-6-phosphate (Fru6P) and ammonium. The reaction is an aldo-keto isomerization coupled with an amination or...; Region: GlcN6P_deaminase; cd01399 313596007428 active site 313596007429 trimer interface [polypeptide binding]; other site 313596007430 allosteric site; other site 313596007431 active site lid [active] 313596007432 hexamer (dimer of trimers) interface [polypeptide binding]; other site 313596007433 GlcNAc-PI de-N-acetylase; Region: PIG-L; pfam02585 313596007434 muropeptide transporter; Reviewed; Region: ampG; PRK11902 313596007435 muropeptide transporter; Validated; Region: ampG; cl17669 313596007436 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 313596007437 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 313596007438 anhydro-N-acetylmuramic acid kinase; Reviewed; Region: anmK; PRK09585 313596007439 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 313596007440 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 313596007441 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 313596007442 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 313596007443 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 313596007444 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 313596007445 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 313596007446 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 313596007447 carboxyltransferase (CT) interaction site; other site 313596007448 biotinylation site [posttranslational modification]; other site 313596007449 Uridine kinase [Nucleotide transport and metabolism]; Region: Udk; COG0572 313596007450 Uridine monophosphate kinase (UMPK, EC 2.7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK), catalyzes the reversible phosphoryl transfer from ATP to uridine or cytidine to yield UMP or CMP. In the primidine nucleotide-salvage pathway; Region: UMPK; cd02023 313596007451 ATP-binding site [chemical binding]; other site 313596007452 Sugar specificity; other site 313596007453 Pyrimidine base specificity; other site 313596007454 Coenzyme B12-dependent-methylmalonyl coenzyme A (CoA) mutase (MCM) family, Beta subunit-like subfamily; contains bacterial proteins similar to the beta subunit of MCMs from Propionbacterium shermanni and Streptomyces cinnamonensis, which are alpha/beta...; Region: MM_CoA_mutase_beta; cd03677 313596007455 heterodimer interface [polypeptide binding]; other site 313596007456 substrate interaction site [chemical binding]; other site 313596007457 methylmalonyl-CoA mutase; Reviewed; Region: PRK09426 313596007458 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 313596007459 active site 313596007460 substrate binding site [chemical binding]; other site 313596007461 coenzyme B12 binding site [chemical binding]; other site 313596007462 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 313596007463 B12 binding site [chemical binding]; other site 313596007464 cobalt ligand [ion binding]; other site 313596007465 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 313596007466 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 313596007467 P-loop; other site 313596007468 Magnesium ion binding site [ion binding]; other site 313596007469 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 313596007470 Magnesium ion binding site [ion binding]; other site 313596007471 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 313596007472 ParB-like nuclease domain; Region: ParBc; pfam02195 313596007473 dihydrodipicolinate reductase; Provisional; Region: PRK00048 313596007474 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 313596007475 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 313596007476 Signal peptidase I [Intracellular trafficking and secretion]; Region: LepB; COG0681 313596007477 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 313596007478 Catalytic site [active] 313596007479 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 313596007480 WbqC-like protein family; Region: WbqC; pfam08889 313596007481 urocanate hydratase; Region: hutU; TIGR01228 313596007482 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; uncharacterized family 2; Region: EEP-2; cd09084 313596007483 putative catalytic site [active] 313596007484 putative metal binding site [ion binding]; other site 313596007485 putative phosphate binding site [ion binding]; other site 313596007486 Rhomboid family; Region: Rhomboid; pfam01694 313596007487 Membrane associated serine protease [Amino acid transport and metabolism]; Region: COG0705 313596007488 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 313596007489 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 313596007490 ATP binding site [chemical binding]; other site 313596007491 Mg2+ binding site [ion binding]; other site 313596007492 G-X-G motif; other site 313596007493 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 313596007494 ATP binding site [chemical binding]; other site 313596007495 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 313596007496 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 313596007497 homopentamer interface [polypeptide binding]; other site 313596007498 active site 313596007499 Tetratricopeptide repeat; Region: TPR_12; pfam13424 313596007500 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 313596007501 binding surface 313596007502 TPR motif; other site 313596007503 recombination protein F; Reviewed; Region: recF; PRK00064 313596007504 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 313596007505 Walker A/P-loop; other site 313596007506 ATP binding site [chemical binding]; other site 313596007507 Q-loop/lid; other site 313596007508 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 313596007509 ABC transporter signature motif; other site 313596007510 Walker B; other site 313596007511 D-loop; other site 313596007512 H-loop/switch region; other site 313596007513 Protein of unknown function (DUF721); Region: DUF721; pfam05258 313596007514 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 313596007515 active site 313596007516 multimer interface [polypeptide binding]; other site 313596007517 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 313596007518 DHH family; Region: DHH; pfam01368 313596007519 DHHA1 domain; Region: DHHA1; pfam02272 313596007520 peptidyl-prolyl isomerase, gliding motility-associated; Region: ppisom_GldI; TIGR03516 313596007521 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 313596007522 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 313596007523 active site 313596007524 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 313596007525 Xaa-His dipeptidase; Region: aa-his-dipept; TIGR01893 313596007526 M20 Peptidase D has specificity for beta-alanyl-L-histidine dipeptide; Region: M20_pepD; cd03890 313596007527 metal binding site [ion binding]; metal-binding site 313596007528 dimer interface [polypeptide binding]; other site 313596007529 Protein of unknown function (DUF3810); Region: DUF3810; pfam12725 313596007530 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 313596007531 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 313596007532 active site 313596007533 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 313596007534 Metallo-dependent hydrolases, subgroup C 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_C; cd01309 313596007535 active site 313596007536 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 313596007537 Amidohydrolase; Region: Amidohydro_4; pfam13147 313596007538 active site 313596007539 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 313596007540 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 313596007541 Peptidase family M48; Region: Peptidase_M48; cl12018 313596007542 Predicted amidohydrolase [General function prediction only]; Region: COG0388 313596007543 Uncharacterized subgroup of the nitrilase superfamily; some members of this subgroup have an N-terminal RimI domain (class 12 nitrilases); Region: nitrilase_Rim1_like; cd07574 313596007544 putative active site [active] 313596007545 catalytic triad [active] 313596007546 putative dimer interface [polypeptide binding]; other site 313596007547 ADP-ribosylglycohydrolase; Region: ADP_ribosyl_GH; cl00614 313596007548 GyrI-like small molecule binding domain; Region: GyrI-like; pfam06445 313596007549 Domain of unknown function (DUF1200); Region: DUF1200; pfam06713 313596007550 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 313596007551 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 313596007552 Zn2+ binding site [ion binding]; other site 313596007553 Mg2+ binding site [ion binding]; other site 313596007554 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 313596007555 synthetase active site [active] 313596007556 NTP binding site [chemical binding]; other site 313596007557 metal binding site [ion binding]; metal-binding site 313596007558 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 313596007559 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 313596007560 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 313596007561 metal binding site 2 [ion binding]; metal-binding site 313596007562 putative DNA binding helix; other site 313596007563 metal binding site 1 [ion binding]; metal-binding site 313596007564 dimer interface [polypeptide binding]; other site 313596007565 structural Zn2+ binding site [ion binding]; other site 313596007566 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 313596007567 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 313596007568 GDP-binding site [chemical binding]; other site 313596007569 ACT binding site; other site 313596007570 IMP binding site; other site 313596007571 OstA-like protein; Region: OstA_2; pfam13100 313596007572 Ornithine/acetylornithine aminotransferase [Amino acid transport and metabolism]; Region: ArgD; COG4992 313596007573 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 313596007574 inhibitor-cofactor binding pocket; inhibition site 313596007575 pyridoxal 5'-phosphate binding site [chemical binding]; other site 313596007576 catalytic residue [active] 313596007577 TPR repeat; Region: TPR_11; pfam13414 313596007578 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 313596007579 binding surface 313596007580 TPR motif; other site 313596007581 TPR repeat; Region: TPR_11; pfam13414 313596007582 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 313596007583 binding surface 313596007584 TPR repeat; Region: TPR_11; pfam13414 313596007585 TPR motif; other site 313596007586 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 313596007587 binding surface 313596007588 TPR motif; other site 313596007589 Domain of unknown function (DUF368); Region: DUF368; pfam04018 313596007590 Domain of unknown function (DUF368); Region: DUF368; pfam04018 313596007591 Shikimate 5-dehydrogenase [Amino acid transport and metabolism]; Region: AroE; COG0169 313596007592 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 313596007593 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 313596007594 shikimate binding site; other site 313596007595 NAD(P) binding site [chemical binding]; other site 313596007596 Domain of Unknown Function (DUF349); Region: DUF349; pfam03993 313596007597 Domain of Unknown Function (DUF349); Region: DUF349; pfam03993 313596007598 Domain of Unknown Function (DUF349); Region: DUF349; pfam03993 313596007599 Domain of Unknown Function (DUF349); Region: DUF349; pfam03993 313596007600 Domain of Unknown Function (DUF349); Region: DUF349; pfam03993 313596007601 ribosomal protein S12 methylthiotransferase RimO; Region: TIGR01125 313596007602 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 313596007603 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cl15377 313596007604 FeS/SAM binding site; other site 313596007605 Beta-lactamase; Region: Beta-lactamase; pfam00144 313596007606 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 313596007607 amidase; Provisional; Region: PRK06707 313596007608 Amidase; Region: Amidase; cl11426 313596007609 Protein of unknown function (DUF2911); Region: DUF2911; pfam11138 313596007610 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 313596007611 TPR motif; other site 313596007612 TPR repeat; Region: TPR_11; pfam13414 313596007613 binding surface 313596007614 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 313596007615 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 313596007616 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 313596007617 GTP binding site [chemical binding]; other site 313596007618 ribosomal protein L33; Region: rpl33; CHL00104 313596007619 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 313596007620 competence damage-inducible protein A; Provisional; Region: PRK00549 313596007621 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 313596007622 putative MPT binding site; other site 313596007623 Competence-damaged protein; Region: CinA; pfam02464 313596007624 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cl00086 313596007625 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 313596007626 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 313596007627 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 313596007628 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 313596007629 active site 313596007630 catalytic site [active] 313596007631 substrate binding site [chemical binding]; other site 313596007632 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 313596007633 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 313596007634 E3 interaction surface; other site 313596007635 lipoyl attachment site [posttranslational modification]; other site 313596007636 e3 binding domain; Region: E3_binding; pfam02817 313596007637 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 313596007638 recombination protein RecR; Reviewed; Region: recR; PRK00076 313596007639 RecR protein; Region: RecR; pfam02132 313596007640 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 313596007641 putative active site [active] 313596007642 putative metal-binding site [ion binding]; other site 313596007643 tetramer interface [polypeptide binding]; other site 313596007644 Na(+)/iodide (NIS) and Na(+)/multivitamin (SMVT) cotransporters, and related proteins; solute binding domain; Region: SLC5sbd_NIS-like; cd10326 313596007645 Na binding site [ion binding]; other site 313596007646 CoA binding domain; Region: CoA_binding_2; pfam13380 313596007647 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 313596007648 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 313596007649 dimer interface [polypeptide binding]; other site 313596007650 active site 313596007651 CoA binding pocket [chemical binding]; other site 313596007652 X-Pro dipeptidyl-peptidase (S15 family); Region: Peptidase_S15; pfam02129 313596007653 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 313596007654 Predicted unusual protein kinase [General function prediction only]; Region: AarF; COG0661 313596007655 ABC1 family; Region: ABC1; cl17513 313596007656 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 313596007657 heat shock protein 90; Provisional; Region: PRK05218 313596007658 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 313596007659 ATP binding site [chemical binding]; other site 313596007660 Mg2+ binding site [ion binding]; other site 313596007661 G-X-G motif; other site 313596007662 Predicted membrane protein [Function unknown]; Region: COG4270 313596007663 RNA polymerase sigma factor RpoE; Provisional; Region: PRK09652 313596007664 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 313596007665 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 313596007666 DNA binding residues [nucleotide binding] 313596007667 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2258 313596007668 MOSC domain; Region: MOSC; pfam03473 313596007669 MG2 domain; Region: A2M_N; pfam01835 313596007670 Cupin domain; Region: Cupin_2; pfam07883 313596007671 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 313596007672 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_2; pfam13532 313596007673 S1/P1 nucleases and related enzymes; Region: S1-P1_nuclease; cd11010 313596007674 active site 313596007675 Zn binding site [ion binding]; other site 313596007676 monofunctional biosynthetic peptidoglycan transglycosylase; Provisional; Region: mtgA; PRK00056 313596007677 Transglycosylase; Region: Transgly; pfam00912 313596007678 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 313596007679 DOMON-like type 9 carbohydrate binding module; Region: CBM9_like_2; cd09618 313596007680 putative ligand binding site [chemical binding]; other site 313596007681 Protein of unknown function (DUF819); Region: DUF819; cl02317 313596007682 Domain of unknown function (DUF4369); Region: DUF4369; pfam14289 313596007683 Phosphomannose isomerase [Carbohydrate transport and metabolism]; Region: ManA; COG1482 313596007684 Alpha-Mannosidase Binding Domain of Atg19/34; Region: ABD; cl15429 313596007685 ligand binding site [chemical binding]; other site 313596007686 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 313596007687 active site 313596007688 Isopentenyldiphosphate isomerase [Lipid metabolism]; Region: Idi; COG1443 313596007689 Isopentenyl diphosphate (IPP) isomerase, a member of the Nudix hydrolase superfamily, is a key enzyme in the isoprenoid biosynthetic pathway. Isoprenoids comprise a large family of natural products including sterols, carotenoids, dolichols and prenylated...; Region: IPP_Isomerase; cd02885 313596007690 active site 313596007691 metal binding site [ion binding]; metal-binding site 313596007692 nudix motif; other site 313596007693 Protein of unknown function (DUF3308); Region: DUF3308; pfam11751 313596007694 C-terminal domain of CHU protein family; Region: CHU_C; pfam13585 313596007695 Domains in Na-Ca exchangers and integrin-beta4; Region: Calx_beta; smart00237 313596007696 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 313596007697 Right handed beta helix region; Region: Beta_helix; pfam13229 313596007698 TPR repeat; Region: TPR_11; pfam13414 313596007699 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 313596007700 binding surface 313596007701 TPR motif; other site 313596007702 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 313596007703 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 313596007704 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 313596007705 ligand binding site [chemical binding]; other site 313596007706 Protein of unknown function (DUF3308); Region: DUF3308; pfam11751 313596007707 C-terminal domain of CHU protein family; Region: CHU_C; pfam13585 313596007708 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 313596007709 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 313596007710 G1 box; other site 313596007711 putative GEF interaction site [polypeptide binding]; other site 313596007712 GTP/Mg2+ binding site [chemical binding]; other site 313596007713 Switch I region; other site 313596007714 G2 box; other site 313596007715 G3 box; other site 313596007716 Switch II region; other site 313596007717 G4 box; other site 313596007718 G5 box; other site 313596007719 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 313596007720 Protein of unknown function (DUF3467); Region: DUF3467; pfam11950 313596007721 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 313596007722 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 313596007723 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 313596007724 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 313596007725 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 313596007726 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 313596007727 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 313596007728 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 313596007729 DNA binding site [nucleotide binding] 313596007730 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 313596007731 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 313596007732 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 313596007733 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 313596007734 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 313596007735 RPB11 interaction site [polypeptide binding]; other site 313596007736 RPB12 interaction site [polypeptide binding]; other site 313596007737 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 313596007738 RPB3 interaction site [polypeptide binding]; other site 313596007739 RPB1 interaction site [polypeptide binding]; other site 313596007740 RPB11 interaction site [polypeptide binding]; other site 313596007741 RPB10 interaction site [polypeptide binding]; other site 313596007742 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 313596007743 core dimer interface [polypeptide binding]; other site 313596007744 peripheral dimer interface [polypeptide binding]; other site 313596007745 L10 interface [polypeptide binding]; other site 313596007746 L11 interface [polypeptide binding]; other site 313596007747 putative EF-Tu interaction site [polypeptide binding]; other site 313596007748 putative EF-G interaction site [polypeptide binding]; other site 313596007749 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 313596007750 23S rRNA interface [nucleotide binding]; other site 313596007751 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 313596007752 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 313596007753 mRNA/rRNA interface [nucleotide binding]; other site 313596007754 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 313596007755 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 313596007756 23S rRNA interface [nucleotide binding]; other site 313596007757 L7/L12 interface [polypeptide binding]; other site 313596007758 putative thiostrepton binding site; other site 313596007759 L25 interface [polypeptide binding]; other site 313596007760 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 313596007761 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 313596007762 putative homodimer interface [polypeptide binding]; other site 313596007763 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 313596007764 heterodimer interface [polypeptide binding]; other site 313596007765 homodimer interface [polypeptide binding]; other site 313596007766 SecE/Sec61-gamma subunits of protein translocation complex; Region: SecE; pfam00584 313596007767 elongation factor Tu; Reviewed; Region: PRK12735 313596007768 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 313596007769 G1 box; other site 313596007770 GEF interaction site [polypeptide binding]; other site 313596007771 GTP/Mg2+ binding site [chemical binding]; other site 313596007772 Switch I region; other site 313596007773 G2 box; other site 313596007774 G3 box; other site 313596007775 Switch II region; other site 313596007776 G4 box; other site 313596007777 G5 box; other site 313596007778 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 313596007779 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 313596007780 Antibiotic Binding Site [chemical binding]; other site 313596007781 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 313596007782 30S subunit binding site; other site 313596007783 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 313596007784 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 313596007785 active site 313596007786 DNA binding site [nucleotide binding] 313596007787 Int/Topo IB signature motif; other site 313596007788 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 313596007789 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 313596007790 Short chain acyl-CoA dehydrogenases and eukaryotic short/branched chain acyl-CoA dehydrogenases; Region: SCAD_SBCAD; cd01158 313596007791 FAD binding site [chemical binding]; other site 313596007792 homotetramer interface [polypeptide binding]; other site 313596007793 substrate binding pocket [chemical binding]; other site 313596007794 catalytic base [active] 313596007795 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 313596007796 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 313596007797 Parallel beta-helix repeat of pectate lyase; Region: PbH1; pfam13573 313596007798 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 313596007799 E3 interaction surface; other site 313596007800 lipoyl attachment site [posttranslational modification]; other site 313596007801 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 313596007802 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 313596007803 Ion channel; Region: Ion_trans_2; pfam07885 313596007804 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 313596007805 TrkA-N domain; Region: TrkA_N; pfam02254 313596007806 TrkA-C domain; Region: TrkA_C; pfam02080 313596007807 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cd00158 313596007808 active site residue [active] 313596007809 Peroxiredoxin (PRX)-like 1 family; hypothetical proteins that show sequence similarity to PRXs. Members of this group contain a conserved cysteine that aligns to the first cysteine in the CXXC motif of TRX. This does not correspond to the peroxidatic...; Region: PRX_like1; cd02969 313596007810 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 313596007811 putative catalytic residue [active] 313596007812 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 313596007813 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 313596007814 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 313596007815 catalytic residues [active] 313596007816 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 313596007817 MarR family; Region: MarR; pfam01047 313596007818 NAD(P)H:FMN oxidoreductase family. This domain catalyzes the reduction of flavin, nitrocompound, quinones and azo compounds using NADH or NADPH as an electron donor. The enzyme is a homodimer, and each monomer binds a FMN as co-factor. This family...; Region: NfsB_like_nitroreductase; cd02149 313596007819 dimer interface [polypeptide binding]; other site 313596007820 FMN binding site [chemical binding]; other site 313596007821 YceI-like domain; Region: YceI; pfam04264 313596007822 Anthranilate/para-aminobenzoate synthases component I [Amino acid transport and metabolism / Coenzyme metabolism]; Region: TrpE; COG0147 313596007823 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 313596007824 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 313596007825 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 313596007826 Glutamine amidotransferase class-I; Region: GATase; pfam00117 313596007827 glutamine binding [chemical binding]; other site 313596007828 catalytic triad [active] 313596007829 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 313596007830 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 313596007831 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 313596007832 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 313596007833 active site 313596007834 ribulose/triose binding site [chemical binding]; other site 313596007835 phosphate binding site [ion binding]; other site 313596007836 substrate (anthranilate) binding pocket [chemical binding]; other site 313596007837 product (indole) binding pocket [chemical binding]; other site 313596007838 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 313596007839 active site 313596007840 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 313596007841 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 313596007842 pyridoxal 5'-phosphate binding site [chemical binding]; other site 313596007843 catalytic residue [active] 313596007844 tryptophan synthase alpha subunit; Provisional; Region: trpA; CHL00200 313596007845 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 313596007846 substrate binding site [chemical binding]; other site 313596007847 active site 313596007848 catalytic residues [active] 313596007849 heterodimer interface [polypeptide binding]; other site 313596007850 Uncharacterized M20 Dipeptidases; Region: M20_dipept_like_1; cd05678 313596007851 hypothetical protein; Provisional; Region: PRK08201 313596007852 putative metal binding site [ion binding]; other site 313596007853 putative dimer interface [polypeptide binding]; other site 313596007854 Phosphoenolpyruvate carboxylase; Region: PEPcase; cl17418 313596007855 MUG-like Uracil-DNA glycosylase enzyme family; Region: UDG_MUG_like; cd10032 313596007856 putative active site [active] 313596007857 hypothetical protein; Validated; Region: PRK02101 313596007858 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 313596007859 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 313596007860 RNA binding surface [nucleotide binding]; other site 313596007861 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 313596007862 active site 313596007863 PASTA domain of bacterial serine/threonine kinase pknB-like proteins. PknB is a member of a group of related transmembrane sensor kinases present in many gram positive bacteria, which has been shown to regulate cell shape in Mycobacterium tubercolosis; Region: PASTA_pknB; cd06577 313596007864 PASTA domain. This domain is found at the C-termini of several Penicillin-binding proteins (PBPs) and bacterial serine/threonine kinases. It is a small globular fold consisting of 3 beta-sheets and an alpha-helix. The name PASTA is derived from PBP and...; Region: PASTA; cl02768 313596007865 D-alanyl-alanine synthetase A; Reviewed; Region: ddl; PRK01966 313596007866 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 313596007867 ATP-grasp domain; Region: ATP-grasp_4; cl17255 313596007868 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 313596007869 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 313596007870 active site 313596007871 (T/H)XGH motif; other site 313596007872 PAS fold; Region: PAS_4; pfam08448 313596007873 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 313596007874 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 313596007875 putative active site [active] 313596007876 heme pocket [chemical binding]; other site 313596007877 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 313596007878 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 313596007879 ATP binding site [chemical binding]; other site 313596007880 Mg2+ binding site [ion binding]; other site 313596007881 G-X-G motif; other site 313596007882 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 313596007883 active site 313596007884 phosphorylation site [posttranslational modification] 313596007885 intermolecular recognition site; other site 313596007886 dimerization interface [polypeptide binding]; other site 313596007887 Peptidase M14-like domain; uncharacterized subgroup; Region: M14-like_1_4; cd06241 313596007888 putative active site [active] 313596007889 Zn binding site [ion binding]; other site 313596007890 Diadenosine hexaphosphate (Ap6A) hydrolase is a member of the Nudix hydrolase superfamily. Ap6A hydrolase specifically hydrolyzes diadenosine polyphosphates, but not ATP or diadenosine triphosphate, and it generates ATP as the product. Ap6A, the most...; Region: Ap6A_hydrolase; cd03673 313596007891 active site 313596007892 Ap6A binding site [chemical binding]; other site 313596007893 nudix motif; other site 313596007894 metal binding site [ion binding]; metal-binding site 313596007895 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 313596007896 active site 313596007897 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cd07812 313596007898 hydrophobic ligand binding site; other site 313596007899 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 313596007900 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 313596007901 iojap-like ribosome-associated protein; Region: iojap_ybeB; TIGR00090 313596007902 FtsH Extracellular; Region: FtsH_ext; pfam06480 313596007903 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 313596007904 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 313596007905 Walker A motif; other site 313596007906 ATP binding site [chemical binding]; other site 313596007907 Walker B motif; other site 313596007908 arginine finger; other site 313596007909 Peptidase family M41; Region: Peptidase_M41; pfam01434 313596007910 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 313596007911 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 313596007912 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 313596007913 phosphatidylserine decarboxylase; Provisional; Region: PRK05305 313596007914 Acyl CoA binding protein (ACBP) binds thiol esters of long fatty acids and coenzyme A in a one-to-one binding mode with high specificity and affinity. Acyl-CoAs are important intermediates in fatty lipid synthesis and fatty acid degradation and play a...; Region: ACBP; cl00221 313596007915 acyl-CoA binding pocket [chemical binding]; other site 313596007916 CoA binding site [chemical binding]; other site 313596007917 Creatinine amidohydrolase; Region: Creatininase; pfam02633 313596007918 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 313596007919 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 313596007920 E3 ubiquitin-protein ligase SlrP; Provisional; Region: PRK15370 313596007921 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 313596007922 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 313596007923 active site 313596007924 phosphorylation site [posttranslational modification] 313596007925 intermolecular recognition site; other site 313596007926 dimerization interface [polypeptide binding]; other site 313596007927 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 313596007928 DNA binding site [nucleotide binding] 313596007929 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 313596007930 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 313596007931 dimer interface [polypeptide binding]; other site 313596007932 phosphorylation site [posttranslational modification] 313596007933 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 313596007934 ATP binding site [chemical binding]; other site 313596007935 Mg2+ binding site [ion binding]; other site 313596007936 G-X-G motif; other site 313596007937 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 313596007938 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 313596007939 active site 313596007940 HIGH motif; other site 313596007941 nucleotide binding site [chemical binding]; other site 313596007942 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 313596007943 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 313596007944 active site 313596007945 KMSKS motif; other site 313596007946 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 313596007947 tRNA binding surface [nucleotide binding]; other site 313596007948 anticodon binding site; other site 313596007949 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 313596007950 Protein of unknown function (DUF1573); Region: DUF1573; pfam07610 313596007951 Aspartyl protease; Region: Asp_protease_2; pfam13650 313596007952 Aspartyl protease; Region: Asp_protease_2; pfam13650 313596007953 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 313596007954 aspartate aminotransferase; Provisional; Region: PRK07568 313596007955 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 313596007956 pyridoxal 5'-phosphate binding site [chemical binding]; other site 313596007957 homodimer interface [polypeptide binding]; other site 313596007958 catalytic residue [active] 313596007959 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK00046 313596007960 FAD binding domain; Region: FAD_binding_4; pfam01565 313596007961 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 313596007962 RNA polymerase sigma factor RpoE; Provisional; Region: PRK09652 313596007963 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 313596007964 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 313596007965 DNA binding residues [nucleotide binding] 313596007966 mycothiol system anti-sigma-R factor; Region: antisig_RsrA; cl15806 313596007967 Anti-sigma-K factor rskA; Region: RskA; pfam10099 313596007968 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 313596007969 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 313596007970 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 313596007971 DNA binding residues [nucleotide binding] 313596007972 lipoyl synthase; Provisional; Region: PRK05481 313596007973 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 313596007974 FeS/SAM binding site; other site 313596007975 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; pfam00044 313596007976 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 313596007977 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 313596007978 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 313596007979 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 313596007980 dimer interface [polypeptide binding]; other site 313596007981 phosphorylation site [posttranslational modification] 313596007982 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 313596007983 ATP binding site [chemical binding]; other site 313596007984 Mg2+ binding site [ion binding]; other site 313596007985 G-X-G motif; other site 313596007986 Response regulator receiver domain; Region: Response_reg; pfam00072 313596007987 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 313596007988 active site 313596007989 phosphorylation site [posttranslational modification] 313596007990 intermolecular recognition site; other site 313596007991 dimerization interface [polypeptide binding]; other site 313596007992 Tetraacyldisaccharide-1-P 4'-kinase [Cell envelope biogenesis, outer membrane]; Region: LpxK; COG1663 313596007993 Tetraacyldisaccharide-1-P 4'-kinase; Region: LpxK; pfam02606 313596007994 Uncharacterized conserved protein [Function unknown]; Region: COG0327 313596007995 NIF3 (NGG1p interacting factor 3); Region: NIF3; pfam01784 313596007996 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3323 313596007997 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 313596007998 Zn-ribbon protein, possibly nucleic acid-binding [General function prediction only]; Region: COG1579 313596007999 Putative zinc ribbon domain; Region: DUF164; pfam02591 313596008000 FAD binding domain; Region: FAD_binding_3; pfam01494 313596008001 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 313596008002 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 313596008003 Uncharacterized protein conserved in bacteria (DUF2256); Region: DUF2256; pfam10013 313596008004 cryptochrome, DASH family; Region: crypto_DASH; TIGR02765 313596008005 DNA photolyase; Region: DNA_photolyase; pfam00875 313596008006 Uncharacterized protein related to deoxyribodipyrimidine photolyase [General function prediction only]; Region: COG3046 313596008007 Deoxyribodipyrimidine photo-lyase-related protein; Region: DPRP; pfam04244 313596008008 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 313596008009 Clp protease; Region: CLP_protease; pfam00574 313596008010 oligomer interface [polypeptide binding]; other site 313596008011 active site residues [active] 313596008012 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 313596008013 putative substrate translocation pore; other site 313596008014 kynureninase; Region: kynureninase; TIGR01814 313596008015 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 313596008016 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 313596008017 catalytic residue [active] 313596008018 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 313596008019 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 313596008020 Coenzyme A binding pocket [chemical binding]; other site 313596008021 Predicted O-methyltransferase [General function prediction only]; Region: COG4122 313596008022 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 313596008023 S-adenosylmethionine binding site [chemical binding]; other site 313596008024 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 313596008025 active site 313596008026 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 313596008027 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 313596008028 Peptidase M1 family containing bacterial Aminopeptidase N; Region: M1_APN_5; cd09604 313596008029 Zn binding site [ion binding]; other site 313596008030 Cna protein B-type domain; Region: Cna_B_2; pfam13715 313596008031 Cna protein B-type domain; Region: Cna_B_2; pfam13715 313596008032 basic region leucin zipper; Region: BRLZ; smart00338 313596008033 C-terminal domain of CHU protein family; Region: CHU_C; pfam13585 313596008034 C-terminal domain of CHU protein family; Region: CHU_C; pfam13585 313596008035 D-alanyl-D-alanine carboxypeptidase; Region: VanY; pfam02557 313596008036 Peptidase family M48; Region: Peptidase_M48; pfam01435 313596008037 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 313596008038 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 313596008039 phosphoglyceromutase; Provisional; Region: PRK05434 313596008040 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 313596008041 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 313596008042 catalytic residues [active] 313596008043 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 313596008044 active site 313596008045 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 313596008046 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 313596008047 ApbE family; Region: ApbE; pfam02424 313596008048 Na(+)-translocating NADH-quinone reductase subunit F; Provisional; Region: PRK05464 313596008049 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 313596008050 catalytic loop [active] 313596008051 iron binding site [ion binding]; other site 313596008052 Na+-translocating NADH:quinone oxidoreductase (Na+-NQR) FAD/NADH binding domain. (Na+-NQR) provides a means of storing redox reaction energy via the transmembrane translocation of Na2+ ions. The C-terminal domain resembles ferredoxin:NADP+ oxidoreductase; Region: NADH_quinone_reductase; cd06188 313596008053 FAD binding pocket [chemical binding]; other site 313596008054 FAD binding motif [chemical binding]; other site 313596008055 phosphate binding motif [ion binding]; other site 313596008056 beta-alpha-beta structure motif; other site 313596008057 NAD binding pocket [chemical binding]; other site 313596008058 Na(+)-translocating NADH-quinone reductase subunit E; Provisional; Region: PRK02830 313596008059 Na(+)-translocating NADH-quinone reductase subunit D; Validated; Region: PRK09292 313596008060 Na(+)-translocating NADH-quinone reductase subunit C; Provisional; Region: PRK05346 313596008061 NADH:ubiquinone oxidoreductase, Na(+)-translocating, C subunit; Region: nqrC; TIGR01938 313596008062 Na(+)-translocating NADH-quinone reductase subunit B; Provisional; Region: PRK05349 313596008063 Na(+)-translocating NADH-quinone reductase subunit A; Provisional; Region: PRK05352 313596008064 NQRA C-terminal domain; Region: NQRA_SLBB; pfam11973 313596008065 zinc-ribbon domain; Region: zf-ribbon_3; pfam13248 313596008066 Protein of unknown function (DUF3667); Region: DUF3667; pfam12412 313596008067 CO2+/MG2+ efflux protein ApaG; Reviewed; Region: apaG; PRK05461 313596008068 Delta(1)-pyrroline-5-carboxylate dehydrogenase, ALDH families 4 and 17; Region: ALDH_F4-17_P5CDH; cd07123 313596008069 delta-1-pyrroline-5-carboxylate dehydrogenase, group 1; Region: D1pyr5carbox1; TIGR01236 313596008070 Glutamate binding site [chemical binding]; other site 313596008071 NAD binding site [chemical binding]; other site 313596008072 catalytic residues [active] 313596008073 rRNA small subunit methyltransferase G; Region: GidB; pfam02527 313596008074 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 313596008075 S-adenosylmethionine binding site [chemical binding]; other site 313596008076 Fatty acid desaturase; Region: FA_desaturase; pfam00487 313596008077 The Delta6 Fatty Acid Desaturase (Delta6-FADS)-like CD includes the integral-membrane enzymes: delta-4, delta-5, delta-6, delta-8, delta-8-sphingolipid, and delta-11 desaturases found in vertebrates, higher plants, fungi, and bacteria. These desaturases...; Region: Delta6-FADS-like; cd03506 313596008078 putative di-iron ligands [ion binding]; other site 313596008079 aspartate aminotransferase; Provisional; Region: PRK05764 313596008080 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 313596008081 pyridoxal 5'-phosphate binding site [chemical binding]; other site 313596008082 homodimer interface [polypeptide binding]; other site 313596008083 catalytic residue [active] 313596008084 Cation transport protein; Region: TrkH; cl17365 313596008085 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 313596008086 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 313596008087 TrkA-N domain; Region: TrkA_N; pfam02254 313596008088 TrkA-C domain; Region: TrkA_C; pfam02080 313596008089 TrkA-N domain; Region: TrkA_N; pfam02254 313596008090 TrkA-C domain; Region: TrkA_C; pfam02080 313596008091 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 313596008092 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 313596008093 S-adenosylmethionine binding site [chemical binding]; other site 313596008094 Outer membrane protein beta-barrel domain; Region: OMP_b-brl_2; pfam13568 313596008095 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 313596008096 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 313596008097 Surface antigen; Region: Bac_surface_Ag; pfam01103 313596008098 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 313596008099 Class II Type A, Fructose-1,6-bisphosphate (FBP) aldolases. The enzyme catalyses the zinc-dependent, reversible aldol condensation of dihydroxyacetone phosphate with glyceraldehyde-3-phosphate to form fructose-1,6-bisphosphate. FBP aldolase is...; Region: FBP_aldolase_IIA; cd00946 313596008100 active site 313596008101 intersubunit interface [polypeptide binding]; other site 313596008102 zinc binding site [ion binding]; other site 313596008103 Na+ binding site [ion binding]; other site 313596008104 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 313596008105 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 313596008106 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 313596008107 16S/18S rRNA binding site [nucleotide binding]; other site 313596008108 S13e-L30e interaction site [polypeptide binding]; other site 313596008109 25S rRNA binding site [nucleotide binding]; other site 313596008110 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 313596008111 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 313596008112 RNase E interface [polypeptide binding]; other site 313596008113 trimer interface [polypeptide binding]; other site 313596008114 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 313596008115 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 313596008116 RNase E interface [polypeptide binding]; other site 313596008117 trimer interface [polypeptide binding]; other site 313596008118 active site 313596008119 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 313596008120 putative nucleic acid binding region [nucleotide binding]; other site 313596008121 G-X-X-G motif; other site 313596008122 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 313596008123 RNA binding site [nucleotide binding]; other site 313596008124 domain interface; other site 313596008125 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 313596008126 RNA polymerase sigma factor RpoD, C-terminal domain; Region: RpoD_Cterm; TIGR02393 313596008127 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 313596008128 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 313596008129 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 313596008130 DNA binding residues [nucleotide binding] 313596008131 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 313596008132 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 313596008133 substrate binding site [chemical binding]; other site 313596008134 hexamer interface [polypeptide binding]; other site 313596008135 metal binding site [ion binding]; metal-binding site 313596008136 FOG: CBS domain [General function prediction only]; Region: COG0517 313596008137 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 313596008138 putative bacillithiol system oxidoreductase, YpdA family; Region: Bthiol_YpdA; TIGR04018 313596008139 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 313596008140 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 313596008141 SGNH_hydrolase subfamily. SGNH hydrolases are a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site...; Region: SGNH_hydrolase_like_2; cd01834 313596008142 active site 313596008143 catalytic triad [active] 313596008144 oxyanion hole [active] 313596008145 putative membrane-bound dehydrogenase domain; Region: Piru_Ver_Nterm; TIGR02604 313596008146 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 313596008147 Cytochrome c; Region: Cytochrom_C; pfam00034 313596008148 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 313596008149 GTP cyclohydrolase I; Provisional; Region: folE; PRK09347 313596008150 active site 313596008151 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 313596008152 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 313596008153 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 313596008154 Gluconate 2-dehydrogenase subunit 3; Region: Gluconate_2-dh3; pfam13618 313596008155 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 313596008156 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 313596008157 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 313596008158 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 313596008159 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 313596008160 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 313596008161 catalytic loop [active] 313596008162 iron binding site [ion binding]; other site 313596008163 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 313596008164 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 313596008165 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 313596008166 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 313596008167 Predicted peptidase [General function prediction only]; Region: COG4099 313596008168 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 313596008169 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 313596008170 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 313596008171 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 313596008172 active site 313596008173 phosphorylation site [posttranslational modification] 313596008174 intermolecular recognition site; other site 313596008175 dimerization interface [polypeptide binding]; other site 313596008176 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 313596008177 DNA binding site [nucleotide binding] 313596008178 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 313596008179 dimerization interface [polypeptide binding]; other site 313596008180 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 313596008181 dimer interface [polypeptide binding]; other site 313596008182 phosphorylation site [posttranslational modification] 313596008183 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 313596008184 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 313596008185 ATP binding site [chemical binding]; other site 313596008186 Mg2+ binding site [ion binding]; other site 313596008187 G-X-G motif; other site 313596008188 Yqey-like protein; Region: YqeY; pfam09424 313596008189 cell division protein FtsZ; Validated; Region: PRK09330 313596008190 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 313596008191 nucleotide binding site [chemical binding]; other site 313596008192 SulA interaction site; other site 313596008193 cell division protein FtsA; Region: ftsA; TIGR01174 313596008194 Cell division protein FtsA; Region: FtsA; smart00842 313596008195 Cell division protein FtsA; Region: FtsA; pfam14450 313596008196 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 313596008197 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 313596008198 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 313596008199 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 313596008200 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 313596008201 homodimer interface [polypeptide binding]; other site 313596008202 active site 313596008203 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 313596008204 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK02472 313596008205 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 313596008206 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 313596008207 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 313596008208 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 313596008209 Mg++ binding site [ion binding]; other site 313596008210 putative catalytic motif [active] 313596008211 putative substrate binding site [chemical binding]; other site 313596008212 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 313596008213 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 313596008214 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 313596008215 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 313596008216 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 313596008217 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 313596008218 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 313596008219 PASTA domain of PBP2x-like proteins, second repeat. Penicillin-binding proteins (PBPs) are the major targets for beta-lactam antibiotics, like penicillins and cephalosporins. Beta-lactam antibiotics specifically inhibit transpeptidase activity by...; Region: PASTA_Pbp2x-like_2; cd06575 313596008220 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 313596008221 MraW methylase family; Region: Methyltransf_5; cl17771 313596008222 cell division protein MraZ; Reviewed; Region: PRK00326 313596008223 MraZ protein; Region: MraZ; pfam02381 313596008224 MraZ protein; Region: MraZ; pfam02381 313596008225 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 313596008226 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 313596008227 G1 box; other site 313596008228 GTP/Mg2+ binding site [chemical binding]; other site 313596008229 Switch I region; other site 313596008230 G2 box; other site 313596008231 G3 box; other site 313596008232 Switch II region; other site 313596008233 G4 box; other site 313596008234 G5 box; other site 313596008235 Pirin; Region: Pirin; pfam02678 313596008236 Pirin-related protein [General function prediction only]; Region: COG1741 313596008237 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 313596008238 Ligand Binding Site [chemical binding]; other site 313596008239 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 313596008240 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 313596008241 alpha-glucan phosphorylases; Region: more_P_ylases; TIGR02094 313596008242 gliding motility-associated protein GldC; Region: GldC; TIGR03515 313596008243 gliding motility-associated lipoprotein GldB; Region: GldB_lipo; TIGR03514 313596008244 NAD synthase [Coenzyme metabolism]; Region: NadE; COG0171 313596008245 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 313596008246 homodimer interface [polypeptide binding]; other site 313596008247 NAD binding pocket [chemical binding]; other site 313596008248 ATP binding pocket [chemical binding]; other site 313596008249 Mg binding site [ion binding]; other site 313596008250 active-site loop [active] 313596008251 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 313596008252 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 313596008253 active site 313596008254 phosphorylation site [posttranslational modification] 313596008255 intermolecular recognition site; other site 313596008256 dimerization interface [polypeptide binding]; other site 313596008257 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 313596008258 DNA binding residues [nucleotide binding] 313596008259 dimerization interface [polypeptide binding]; other site 313596008260 DNA primase; Validated; Region: dnaG; PRK05667 313596008261 CHC2 zinc finger; Region: zf-CHC2; cl17510 313596008262 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 313596008263 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 313596008264 active site 313596008265 metal binding site [ion binding]; metal-binding site 313596008266 interdomain interaction site; other site 313596008267 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 313596008268 DNA polymerase III subunits gamma and tau; Validated; Region: PRK07003 313596008269 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 313596008270 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 313596008271 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 313596008272 DNA binding residues [nucleotide binding] 313596008273 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 313596008274 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 313596008275 substrate binding pocket [chemical binding]; other site 313596008276 chain length determination region; other site 313596008277 substrate-Mg2+ binding site; other site 313596008278 catalytic residues [active] 313596008279 aspartate-rich region 1; other site 313596008280 active site lid residues [active] 313596008281 aspartate-rich region 2; other site 313596008282 Predicted Fe-S-cluster redox enzyme [General function prediction only]; Region: COG0820 313596008283 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 313596008284 FeS/SAM binding site; other site 313596008285 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 313596008286 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 313596008287 META domain; Region: META; pfam03724 313596008288 Protein of unknown function (DUF3124); Region: DUF3124; pfam11322 313596008289 5-enolpyruvylshikimate-3-phosphate synthase [Amino acid transport and metabolism]; Region: AroA; COG0128 313596008290 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 313596008291 hinge; other site 313596008292 active site 313596008293 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain putative pyrophosphatase YpjD from Bacillus subtilis and its bacterial homologs; Region: NTP-PPase_BsYpjD; cd11531 313596008294 homodimer interface [polypeptide binding]; other site 313596008295 metal binding site [ion binding]; metal-binding site 313596008296 D-Tyrosyl-tRNAtyr deacylases; a class of tRNA-dependent hydrolases which are capable of hydrolyzing the ester bond of D-Tyrosyl-tRNA reducing the level of cellular D-Tyrosine while recycling the peptidyl-tRNA; found in bacteria and in eukaryotes but not...; Region: Dtyr_deacylase; cd00563 313596008297 dimerization interface [polypeptide binding]; other site 313596008298 putative tRNAtyr binding site [nucleotide binding]; other site 313596008299 putative active site [active] 313596008300 GTPase RsgA; Reviewed; Region: PRK00098 313596008301 S1_YloQ_GTPase: YloQ GTase family (also known as YjeQ and CpgA), S1-like RNA-binding domain. Proteins in the YloQ GTase family bind the ribosome and have GTPase activity. The precise role of this family is unknown. The protein structure is composed of...; Region: S1_YloQ_GTPase; cd04466 313596008302 RNA binding site [nucleotide binding]; other site 313596008303 homodimer interface [polypeptide binding]; other site 313596008304 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 313596008305 GTPase/Zn-binding domain interface [polypeptide binding]; other site 313596008306 GTP/Mg2+ binding site [chemical binding]; other site 313596008307 G4 box; other site 313596008308 G5 box; other site 313596008309 G1 box; other site 313596008310 Switch I region; other site 313596008311 G2 box; other site 313596008312 G3 box; other site 313596008313 Switch II region; other site 313596008314 Protein of unknown function (DUF2807); Region: DUF2807; pfam10988 313596008315 3-deoxy-D-manno-octulosonic acid (KDO) 8-phosphate synthase [Cell envelope biogenesis, outer membrane]; Region: KdsA; cl17225 313596008316 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 313596008317 Chorismate mutase type II; Region: CM_2; smart00830 313596008318 prephenate dehydrogenase; Validated; Region: PRK08507 313596008319 Prephenate dehydrogenase; Region: PDH; pfam02153 313596008320 LL-diaminopimelate aminotransferase; Provisional; Region: PRK09276 313596008321 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 313596008322 pyridoxal 5'-phosphate binding site [chemical binding]; other site 313596008323 homodimer interface [polypeptide binding]; other site 313596008324 catalytic residue [active] 313596008325 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 313596008326 Prephenate dehydratase; Region: PDT; pfam00800 313596008327 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 313596008328 putative L-Phe binding site [chemical binding]; other site 313596008329 gliding motility-associated ABC transporter ATP-binding subunit GldA; Region: GldA_ABC_ATP; TIGR03522 313596008330 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 313596008331 Walker A/P-loop; other site 313596008332 ATP binding site [chemical binding]; other site 313596008333 Q-loop/lid; other site 313596008334 ABC transporter signature motif; other site 313596008335 Walker B; other site 313596008336 D-loop; other site 313596008337 H-loop/switch region; other site 313596008338 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2859 313596008339 Uncharacterized ACR, COG2135; Region: DUF159; pfam02586 313596008340 Protein of unknown function (DUF541); Region: SIMPL; pfam04402 313596008341 Beta-lactamase; Region: Beta-lactamase; pfam00144 313596008342 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 313596008343 Protein of unknown function (DUF2807); Region: DUF2807; pfam10988 313596008344 Lipid A 3-O-deacylase (PagL); Region: PagL; pfam09411 313596008345 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 313596008346 FAD binding site [chemical binding]; other site 313596008347 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; COG0646 313596008348 B12-dependent methionine synthase; Provisional; Region: metH; PRK09490 313596008349 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 313596008350 substrate binding pocket [chemical binding]; other site 313596008351 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 313596008352 B12 binding site [chemical binding]; other site 313596008353 cobalt ligand [ion binding]; other site 313596008354 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 313596008355 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 313596008356 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 313596008357 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 313596008358 Siroheme synthase (precorrin-2 oxidase/ferrochelatase domain) [Coenzyme metabolism]; Region: CysG; COG1648 313596008359 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 313596008360 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 313596008361 active site 313596008362 SAM binding site [chemical binding]; other site 313596008363 homodimer interface [polypeptide binding]; other site 313596008364 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 313596008365 precorrin-3B synthase; Region: CobG; TIGR02435 313596008366 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 313596008367 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 313596008368 Active Sites [active] 313596008369 Rrf2 family protein; Region: rrf2_super; TIGR00738 313596008370 Transcriptional regulator; Region: Rrf2; pfam02082 313596008371 O-succinylhomoserine sulfhydrylase; Validated; Region: PRK08133 313596008372 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 313596008373 homodimer interface [polypeptide binding]; other site 313596008374 substrate-cofactor binding pocket; other site 313596008375 pyridoxal 5'-phosphate binding site [chemical binding]; other site 313596008376 catalytic residue [active] 313596008377 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 313596008378 homoserine O-acetyltransferase; Region: homoserO_Ac_trn; TIGR01392 313596008379 bifunctional aspartokinase I/homoserine dehydrogenase I; Provisional; Region: thrA; PRK09436 313596008380 AAK_AK-HSDH: Amino Acid Kinase Superfamily (AAK), AK-HSDH; this CD includes the N-terminal catalytic domain of aspartokinase (AK) of the bifunctional enzyme AK - homoserine dehydrogenase (HSDH). These aspartokinases are found in bacteria (E. coli...; Region: AAK_AK-HSDH; cd04257 313596008381 putative catalytic residues [active] 313596008382 putative nucleotide binding site [chemical binding]; other site 313596008383 putative aspartate binding site [chemical binding]; other site 313596008384 ACT domains of the bifunctional enzyme aspartokinase (AK) - homoserine dehydrogenase (HSDH); Region: ACT_AKi-HSDH-ThrA-like_1; cd04921 313596008385 dimer interface [polypeptide binding]; other site 313596008386 putative threonine allosteric regulatory site; other site 313596008387 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 313596008388 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 313596008389 S-adenosylmethionine synthetase; Validated; Region: PRK05250 313596008390 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 313596008391 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 313596008392 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 313596008393 Deoxynucleoside kinases [Nucleotide transport and metabolism]; Region: COG1428 313596008394 Deoxyribonucleoside kinase (dNK) catalyzes the phosphorylation of deoxyribonucleosides to yield corresponding monophosphates (dNMPs). This family consists of various deoxynucleoside kinases including deoxyribo- cytidine (EC 2.7.1.74), guanosine (EC 2.7.1; Region: dNK; cd01673 313596008395 Substrate-binding site [chemical binding]; other site 313596008396 Substrate specificity [chemical binding]; other site 313596008397 Uncharacterized conserved protein [Function unknown]; Region: COG4850 313596008398 Uncharacterized conserved protein (DUF2183); Region: DUF2183; pfam09949 313596008399 MgtC family; Region: MgtC; pfam02308 313596008400 Predicted membrane protein [Function unknown]; Region: COG3174 313596008401 Domain of unknown function (DUF4010); Region: DUF4010; pfam13194 313596008402 H(+) -translocating inorganic pyrophosphatase; Region: PLN02255; cl11452 313596008403 membrane-bound proton-translocating pyrophosphatase; Validated; Region: hppA; PRK00733 313596008404 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 313596008405 dimer interface [polypeptide binding]; other site 313596008406 substrate binding site [chemical binding]; other site 313596008407 metal binding sites [ion binding]; metal-binding site 313596008408 Cna protein B-type domain; Region: Cna_B_2; pfam13715 313596008409 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 313596008410 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 313596008411 alpha subunit interface [polypeptide binding]; other site 313596008412 TPP binding site [chemical binding]; other site 313596008413 heterodimer interface [polypeptide binding]; other site 313596008414 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 313596008415 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 313596008416 Ligand binding site [chemical binding]; other site 313596008417 Electron transfer flavoprotein domain; Region: ETF; pfam01012 313596008418 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 313596008419 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases, ATP sulphurylases Universal Stress Response protein and electron transfer flavoprotein (ETF). The domain forms a apha/beta/apha fold which binds to Adenosine nucleotide; Region: AANH_like; cl00292 313596008420 Ligand Binding Site [chemical binding]; other site 313596008421 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 313596008422 Bifunctional nuclease; Region: DNase-RNase; pfam02577 313596008423 UvrB/uvrC motif; Region: UVR; pfam02151 313596008424 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 313596008425 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 313596008426 Nucleoside recognition; Region: Gate; pfam07670 313596008427 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 313596008428 thymidylate synthase; Reviewed; Region: thyA; PRK01827 313596008429 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 313596008430 dimerization interface [polypeptide binding]; other site 313596008431 active site 313596008432 ergothioneine biosynthesis protein EgtB; Region: egtB_TIGR03440 313596008433 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 313596008434 dimethylhistidine N-methyltransferase; Region: egtD_ergothio; TIGR03438 313596008435 Uncharacterized conserved protein (DUF2260); Region: DUF2260; pfam10017 313596008436 N-terminal Early set domain associated with the catalytic domain of isoamylase-like (also called glycogen 6-glucanohydrolase) proteins; Region: E_set_Isoamylase_like_N; cd07184 313596008437 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 313596008438 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 313596008439 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 313596008440 catalytic residue [active] 313596008441 2TM domain; Region: 2TM; pfam13239 313596008442 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 313596008443 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 313596008444 folate binding site [chemical binding]; other site 313596008445 NADP+ binding site [chemical binding]; other site 313596008446 glutamate racemase; Provisional; Region: PRK00865 313596008447 Outer membrane protein (OmpH-like); Region: OmpH; pfam03938 313596008448 Outer membrane protein (OmpH-like); Region: OmpH; pfam03938 313596008449 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 313596008450 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 313596008451 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 313596008452 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 313596008453 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 313596008454 Surface antigen; Region: Bac_surface_Ag; pfam01103 313596008455 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; cd00475 313596008456 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 313596008457 catalytic residue [active] 313596008458 putative FPP diphosphate binding site; other site 313596008459 putative FPP binding hydrophobic cleft; other site 313596008460 dimer interface [polypeptide binding]; other site 313596008461 putative IPP diphosphate binding site; other site 313596008462 Outer membrane protein beta-barrel domain; Region: OMP_b-brl_2; pfam13568 313596008463 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK01911 313596008464 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK02231 313596008465 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cd02205 313596008466 Pyridoxine 5'-phosphate (PNP) synthase domain; pyridoxal 5'-phosphate is the active form of vitamin B6 that acts as an essential, ubiquitous coenzyme in amino acid metabolism. In bacteria, formation of pyridoxine 5'-phosphate is a step in...; Region: PNPsynthase; cd00003 313596008467 active site 313596008468 hydrophilic channel; other site 313596008469 dimerization interface [polypeptide binding]; other site 313596008470 catalytic residues [active] 313596008471 active site lid [active] 313596008472 PGAP1-like protein; Region: PGAP1; pfam07819 313596008473 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 313596008474 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cl01053 313596008475 catalytic triad [active]