-- dump date 20140619_152125 -- class Genbank::misc_feature -- table misc_feature_note -- id note 350054000001 Transposase; Region: DEDD_Tnp_IS110; pfam01548 350054000002 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 350054000003 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 350054000004 Mannan-binding protein; Region: MVL; pfam12151 350054000005 virulence factor Mce family protein; Region: Mtu_fam_mce; TIGR00996 350054000006 mce related protein; Region: MCE; pfam02470 350054000007 virulence factor Mce family protein; Region: Mtu_fam_mce; TIGR00996 350054000008 mce related protein; Region: MCE; pfam02470 350054000009 virulence factor Mce family protein; Region: Mtu_fam_mce; TIGR00996 350054000010 mce related protein; Region: MCE; pfam02470 350054000011 virulence factor Mce family protein; Region: Mtu_fam_mce; TIGR00996 350054000012 mce related protein; Region: MCE; pfam02470 350054000013 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 350054000014 mce related protein; Region: MCE; pfam02470 350054000015 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 350054000016 mce related protein; Region: MCE; pfam02470 350054000017 Protein of unknown function (DUF3407); Region: DUF3407; pfam11887 350054000018 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 350054000019 Permease; Region: Permease; pfam02405 350054000020 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 350054000021 Permease; Region: Permease; pfam02405 350054000022 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 350054000023 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350054000024 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 350054000025 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350054000026 acyl-CoA synthetase; Validated; Region: PRK06188 350054000027 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 350054000028 putative active site [active] 350054000029 putative CoA binding site [chemical binding]; other site 350054000030 putative AMP binding site [chemical binding]; other site 350054000031 Transcriptional regulators [Transcription]; Region: FadR; COG2186 350054000032 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 350054000033 DNA-binding site [nucleotide binding]; DNA binding site 350054000034 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 350054000035 Cyanate permease [Inorganic ion transport and metabolism]; Region: CynX; COG2807 350054000036 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 350054000037 GlcNAc-PI de-N-acetylase; Region: PIG-L; pfam02585 350054000038 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 350054000039 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 350054000040 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 350054000041 active site 350054000042 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 350054000043 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 350054000044 motif II; other site 350054000045 Domain of unknown function (DUF385); Region: DUF385; cl04387 350054000046 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 350054000047 Enoyl-CoA hydratase/isomerase family; Region: ECH; pfam00378 350054000048 substrate binding site [chemical binding]; other site 350054000049 oxyanion hole (OAH) forming residues; other site 350054000050 trimer interface [polypeptide binding]; other site 350054000051 short chain dehydrogenase; Provisional; Region: PRK05866 350054000052 classical (c) SDRs; Region: SDR_c; cd05233 350054000053 NAD(P) binding site [chemical binding]; other site 350054000054 active site 350054000055 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 350054000056 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 350054000057 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 350054000058 acyl-activating enzyme (AAE) consensus motif; other site 350054000059 acyl-activating enzyme (AAE) consensus motif; other site 350054000060 putative AMP binding site [chemical binding]; other site 350054000061 putative active site [active] 350054000062 putative CoA binding site [chemical binding]; other site 350054000063 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 350054000064 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 350054000065 active site 350054000066 Protein of unknown function (DUF3349); Region: DUF3349; pfam11829 350054000067 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 350054000068 Protein of unknown function (DUF3349); Region: DUF3349; pfam11829 350054000069 O-succinylbenzoic acid--CoA ligase; Provisional; Region: PRK07824 350054000070 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 350054000071 acyl-activating enzyme (AAE) consensus motif; other site 350054000072 AMP binding site [chemical binding]; other site 350054000073 active site 350054000074 CoA binding site [chemical binding]; other site 350054000075 PPOX class probable FMN-dependent enzyme, DR_2398 family; Region: PPOX_FMN_DR2398; TIGR04025 350054000076 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 350054000077 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 350054000078 active site 350054000079 phosphorylation site [posttranslational modification] 350054000080 intermolecular recognition site; other site 350054000081 dimerization interface [polypeptide binding]; other site 350054000082 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 350054000083 DNA binding site [nucleotide binding] 350054000084 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 350054000085 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 350054000086 dimer interface [polypeptide binding]; other site 350054000087 phosphorylation site [posttranslational modification] 350054000088 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 350054000089 ATP binding site [chemical binding]; other site 350054000090 Mg2+ binding site [ion binding]; other site 350054000091 G-X-G motif; other site 350054000092 Nitronate monooxygenase; Region: NMO; pfam03060 350054000093 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 350054000094 FMN binding site [chemical binding]; other site 350054000095 substrate binding site [chemical binding]; other site 350054000096 putative catalytic residue [active] 350054000097 1,4-dihydroxy-2-naphthoate octaprenyltransferase; Validated; Region: PRK06080 350054000098 UbiA prenyltransferase family; Region: UbiA; pfam01040 350054000099 MoxR-like ATPases [General function prediction only]; Region: COG0714 350054000100 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 350054000101 ATP binding site [chemical binding]; other site 350054000102 Walker A motif; other site 350054000103 Walker B motif; other site 350054000104 arginine finger; other site 350054000105 Protein of unknown function DUF58; Region: DUF58; pfam01882 350054000106 VWFA-related Acidobacterial domain; Region: acidobact_VWFA; TIGR03436 350054000107 von Willebrand factor type A domain; Region: VWA_2; pfam13519 350054000108 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 350054000109 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 350054000110 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 350054000111 P-loop; other site 350054000112 Magnesium ion binding site [ion binding]; other site 350054000113 cytochrome c-type biogenesis protein CcsB; Region: cytochr_II_ccsB; TIGR03144 350054000114 ResB protein required for cytochrome c biosynthesis [Posttranslational modification, protein turnover, chaperones]; Region: ResB; COG1333 350054000115 ResB-like family; Region: ResB; pfam05140 350054000116 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 350054000117 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 350054000118 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 350054000119 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 350054000120 catalytic residues [active] 350054000121 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 350054000122 catalytic core [active] 350054000123 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 350054000124 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 350054000125 inhibitor-cofactor binding pocket; inhibition site 350054000126 pyridoxal 5'-phosphate binding site [chemical binding]; other site 350054000127 catalytic residue [active] 350054000128 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 350054000129 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 350054000130 Cytochrome P450; Region: p450; cl12078 350054000131 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 350054000132 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 350054000133 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350054000134 Uncharacterized protein conserved in bacteria (DUF2236); Region: DUF2236; pfam09995 350054000135 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; cd00384 350054000136 dimer interface [polypeptide binding]; other site 350054000137 active site 350054000138 Schiff base residues; other site 350054000139 S-AdoMet dependent tetrapyrrole methylases; Region: TP_methylase; cd09815 350054000140 homodimer interface [polypeptide binding]; other site 350054000141 active site 350054000142 SAM binding site [chemical binding]; other site 350054000143 Uroporphyrinogen-III synthase [Coenzyme metabolism]; Region: HemD; COG1587 350054000144 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 350054000145 active site 350054000146 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 350054000147 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 350054000148 domain interfaces; other site 350054000149 active site 350054000150 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 350054000151 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 350054000152 tRNA; other site 350054000153 putative tRNA binding site [nucleotide binding]; other site 350054000154 putative NADP binding site [chemical binding]; other site 350054000155 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 350054000156 Glutaredoxin-like domain (DUF836); Region: DUF836; pfam05768 350054000157 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 350054000158 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 350054000159 (R)-hydratase [(R)-specific enoyl-CoA hydratase]. Catalyzes the hydration of trans-2-enoyl CoA to (R)-3-hydroxyacyl-CoA as part of the PHA (polyhydroxyalkanoate) biosynthetic pathway. The structure of the monomer includes a five-strand antiparallel...; Region: R_hydratase_like; cd03441 350054000160 active site 350054000161 catalytic site [active] 350054000162 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 350054000163 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: MGAT-like; Region: LPLAT_MGAT-like; cd07987 350054000164 putative acyl-acceptor binding pocket; other site 350054000165 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 350054000166 UDP-glucose 4 epimerase (G4E), subgroup 3, extended (e) SDRs; Region: UDP_G4E_3_SDR_e; cd05240 350054000167 putative NAD(P) binding site [chemical binding]; other site 350054000168 active site 350054000169 putative substrate binding site [chemical binding]; other site 350054000170 DNA binding domain, excisionase family; Region: excise; TIGR01764 350054000171 pyrroline-5-carboxylate reductase; Region: proC; TIGR00112 350054000172 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 350054000173 Thioesterase-like superfamily; Region: 4HBT_3; pfam13622 350054000174 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 350054000175 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 350054000176 DNA interaction; other site 350054000177 Metal-binding active site; metal-binding site 350054000178 AP (apurinic/apyrimidinic) site pocket; other site 350054000179 exopolyphosphatase; Region: exo_poly_only; TIGR03706 350054000180 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 350054000181 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 350054000182 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 350054000183 active site 350054000184 phosphorylation site [posttranslational modification] 350054000185 intermolecular recognition site; other site 350054000186 dimerization interface [polypeptide binding]; other site 350054000187 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 350054000188 DNA binding site [nucleotide binding] 350054000189 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 350054000190 dimer interface [polypeptide binding]; other site 350054000191 phosphorylation site [posttranslational modification] 350054000192 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 350054000193 ATP binding site [chemical binding]; other site 350054000194 Mg2+ binding site [ion binding]; other site 350054000195 G-X-G motif; other site 350054000196 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 350054000197 catalytic core [active] 350054000198 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 350054000199 Putative bacterial sensory transduction regulator; Region: YbjN; pfam10722 350054000200 This family is most closely related to the GT1 family of glycosyltransferases. The sucrose-phosphate synthases in this family may be unique to plants and photosynthetic bacteria. This enzyme catalyzes the synthesis of sucrose 6-phosphate from fructose...; Region: GT1_Sucrose_synthase; cd03800 350054000201 D-inositol-3-phosphate glycosyltransferase; Region: mycothiol_MshA; TIGR03449 350054000202 putative ADP-binding pocket [chemical binding]; other site 350054000203 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 350054000204 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 350054000205 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 350054000206 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 350054000207 NAD(P) binding site [chemical binding]; other site 350054000208 active site 350054000209 IgD-like repeat domain of mycobacterial L,D-transpeptidases; Region: LDT_IgD_like; cl17506 350054000210 IgD-like repeat domain of mycobacterial L,D-transpeptidases; Region: LDT_IgD_like_2; cd13432 350054000211 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 350054000212 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 350054000213 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13903 350054000214 FAD binding domain; Region: FAD_binding_4; pfam01565 350054000215 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 350054000216 Protein of unknown function (DUF2505); Region: DUF2505; pfam10698 350054000217 Na(+)- and Cl(-)-dependent choline cotransporter CHT and related proteins; solute-binding domain; Region: SLC5sbd_CHT; cd11474 350054000218 Na binding site [ion binding]; other site 350054000219 putative glycosylation site [posttranslational modification]; other site 350054000220 putative glycosylation site [posttranslational modification]; other site 350054000221 agmatinase; Region: agmatinase; TIGR01230 350054000222 Agmatinase-like family; Region: Agmatinase-like; cd09990 350054000223 active site 350054000224 oligomer interface [polypeptide binding]; other site 350054000225 Mn binding site [ion binding]; other site 350054000226 Predicted amidohydrolase [General function prediction only]; Region: COG0388 350054000227 Uncharacterized subgroup of the nitrilase superfamily (putative class 13 nitrilases); Region: nitrilase_3; cd07581 350054000228 putative active site [active] 350054000229 catalytic triad [active] 350054000230 putative dimer interface [polypeptide binding]; other site 350054000231 Protein of unknown function (DUF2993); Region: DUF2993; pfam11209 350054000232 deoxyribose-phosphate aldolase; Provisional; Region: PRK00507 350054000233 catalytic residue [active] 350054000234 Protein of unknown function (DUF2599); Region: DUF2599; pfam10783 350054000235 Protein of unknown function (DUF2516); Region: DUF2516; pfam10724 350054000236 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 350054000237 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 350054000238 non-specific DNA binding site [nucleotide binding]; other site 350054000239 salt bridge; other site 350054000240 sequence-specific DNA binding site [nucleotide binding]; other site 350054000241 Predicted membrane protein [Function unknown]; Region: COG2733 350054000242 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 350054000243 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350054000244 polyphosphate:nucleotide phosphotransferase, PPK2 family; Region: PPK2_rel_1; TIGR03709 350054000245 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK07819 350054000246 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 350054000247 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 350054000248 isocitrate lyase; Provisional; Region: PRK15063 350054000249 Members of the ICL/PEPM enzyme family catalyze either P-C or C-C bond formation/cleavage. Known members are phosphoenolpyruvate mutase (PEPM), phosphonopyruvate hydrolase (PPH), carboxyPEP mutase (CPEP mutase), oxaloacetate hydrolase (OAH), isocitrate...; Region: ICL_PEPM; cd00377 350054000250 tetramer interface [polypeptide binding]; other site 350054000251 active site 350054000252 Mg2+/Mn2+ binding site [ion binding]; other site 350054000253 Acyl-ACP thioesterase [Lipid metabolism]; Region: FatA; COG3884 350054000254 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 350054000255 active site 2 [active] 350054000256 active site 1 [active] 350054000257 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 350054000258 active site 2 [active] 350054000259 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 350054000260 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 350054000261 non-specific DNA binding site [nucleotide binding]; other site 350054000262 salt bridge; other site 350054000263 sequence-specific DNA binding site [nucleotide binding]; other site 350054000264 Predicted transcriptional regulator [General function prediction only]; Region: COG3800 350054000265 Domain of unknown function (DUF955); Region: DUF955; pfam06114 350054000266 Predicted transcriptional regulator (DUF2083); Region: DUF2083; pfam09856 350054000267 Uncharacterized conserved protein [Function unknown]; Region: COG2128 350054000268 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 350054000269 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 350054000270 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 350054000271 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 350054000272 metal binding site [ion binding]; metal-binding site 350054000273 active site 350054000274 I-site; other site 350054000275 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK07818 350054000276 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; cl17730 350054000277 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 350054000278 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 350054000279 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 350054000280 Walker A/P-loop; other site 350054000281 ATP binding site [chemical binding]; other site 350054000282 ABC transporter; Region: ABC_tran; pfam00005 350054000283 Q-loop/lid; other site 350054000284 ABC transporter signature motif; other site 350054000285 Walker B; other site 350054000286 D-loop; other site 350054000287 H-loop/switch region; other site 350054000288 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 350054000289 nickel import ATP-binding protein NikD; Region: nickel_nikD; TIGR02770 350054000290 Walker A/P-loop; other site 350054000291 ATP binding site [chemical binding]; other site 350054000292 Q-loop/lid; other site 350054000293 ABC transporter signature motif; other site 350054000294 Walker B; other site 350054000295 D-loop; other site 350054000296 H-loop/switch region; other site 350054000297 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 350054000298 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 350054000299 dimer interface [polypeptide binding]; other site 350054000300 conserved gate region; other site 350054000301 putative PBP binding loops; other site 350054000302 ABC-ATPase subunit interface; other site 350054000303 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 350054000304 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 350054000305 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 350054000306 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cl01709 350054000307 Protein of unknown function (DUF779); Region: DUF779; pfam05610 350054000308 GAF domain; Region: GAF; pfam01590 350054000309 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 350054000310 acetoin reductases; Region: 23BDH; TIGR02415 350054000311 NAD(P) binding site [chemical binding]; other site 350054000312 active site 350054000313 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 350054000314 (2R,3R)-2,3-butanediol dehydrogenase; Region: butanediol_DH_like; cd08233 350054000315 putative NAD(P) binding site [chemical binding]; other site 350054000316 catalytic Zn binding site [ion binding]; other site 350054000317 SnoaL-like domain; Region: SnoaL_3; pfam13474 350054000318 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 350054000319 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 350054000320 Serine proteases of the peptidase family S9A [Amino acid transport and metabolism]; Region: COG1505 350054000321 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 350054000322 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 350054000323 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 350054000324 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 350054000325 Methylomonas sp. 4,4'-diapolycopene-dialdehyde dehydrogenase-like; Region: ALDH_DDALDH; cd07099 350054000326 NAD(P) binding site [chemical binding]; other site 350054000327 catalytic residues [active] 350054000328 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 350054000329 active site 350054000330 Protein of unknown function (DUF664); Region: DUF664; pfam04978 350054000331 DinB superfamily; Region: DinB_2; pfam12867 350054000332 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_19; cd07262 350054000333 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 350054000334 N-acyl-D-aspartate/D-glutamate deacylase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3653 350054000335 D-aminoacylases (N-acyl-D-Amino acid amidohydrolases) catalyze the hydrolysis of N-acyl-D-amino acids to produce the corresponding D-amino acids, which are used as intermediates in the synthesis of pesticides, bioactive peptides, and antibiotics; Region: D-aminoacylase; cd01297 350054000336 active site 350054000337 putative substrate binding pocket [chemical binding]; other site 350054000338 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 350054000339 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 350054000340 classical (c) SDRs; Region: SDR_c; cd05233 350054000341 NAD(P) binding site [chemical binding]; other site 350054000342 active site 350054000343 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 350054000344 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 350054000345 metabolite-proton symporter; Region: 2A0106; TIGR00883 350054000346 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 350054000347 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 350054000348 ring oligomerisation interface [polypeptide binding]; other site 350054000349 ATP/Mg binding site [chemical binding]; other site 350054000350 stacking interactions; other site 350054000351 hinge regions; other site 350054000352 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 350054000353 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350054000354 short chain dehydrogenase; Provisional; Region: PRK06197 350054000355 retinol dehydrogenase (retinol-DH), Light dependent Protochlorophyllide (Pchlide) OxidoReductase (LPOR) and related proteins, classical (c) SDRs; Region: retinol-DH_like_SDR_c_like; cd05327 350054000356 putative NAD(P) binding site [chemical binding]; other site 350054000357 active site 350054000358 Cupin domain; Region: Cupin_2; pfam07883 350054000359 DNA phosphorothioation system restriction enzyme; Region: dnd_restrict_1; TIGR04095 350054000360 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 350054000361 ATP binding site [chemical binding]; other site 350054000362 putative Mg++ binding site [ion binding]; other site 350054000363 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_7; cd07825 350054000364 putative hydrophobic ligand binding site [chemical binding]; other site 350054000365 Predicted sugar phosphatases of the HAD superfamily [Carbohydrate transport and metabolism]; Region: NagD; COG0647 350054000366 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 350054000367 active site 350054000368 motif I; other site 350054000369 motif II; other site 350054000370 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 350054000371 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 350054000372 Helix-Turn-Helix DNA binding domain of the transcription regulators TipAL, Mta, and SkgA; Region: HTH_TipAL-Mta; cd01106 350054000373 DNA binding residues [nucleotide binding] 350054000374 dimer interface [polypeptide binding]; other site 350054000375 TipAS antibiotic-recognition domain; Region: TipAS; pfam07739 350054000376 Predicted membrane protein [Function unknown]; Region: COG3428 350054000377 Bacterial PH domain; Region: DUF304; pfam03703 350054000378 Uncharacterized conserved protein [Function unknown]; Region: COG3402 350054000379 short chain dehydrogenase; Provisional; Region: PRK06197 350054000380 retinol dehydrogenase (retinol-DH), Light dependent Protochlorophyllide (Pchlide) OxidoReductase (LPOR) and related proteins, classical (c) SDRs; Region: retinol-DH_like_SDR_c_like; cd05327 350054000381 putative NAD(P) binding site [chemical binding]; other site 350054000382 active site 350054000383 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 350054000384 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 350054000385 dimer interface [polypeptide binding]; other site 350054000386 putative functional site; other site 350054000387 putative MPT binding site; other site 350054000388 phosphatidylserine decarboxylase; Provisional; Region: PRK05305 350054000389 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 350054000390 AAA family ATPase, CDC48 subfamily; Region: CDC48; TIGR01243 350054000391 Cell division protein 48 (CDC48), N-terminal domain; Region: CDC48_N; pfam02359 350054000392 ATPase family associated with various cellular activities (AAA); Region: AAA; pfam00004 350054000393 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 350054000394 Walker A motif; other site 350054000395 ATP binding site [chemical binding]; other site 350054000396 Walker B motif; other site 350054000397 arginine finger; other site 350054000398 Protein of unknown function (DUF2580); Region: DUF2580; pfam10824 350054000399 Domain of unknown function (DUF1707); Region: DUF1707; pfam08044 350054000400 2TM domain; Region: 2TM; pfam13239 350054000401 potassium/proton antiporter; Reviewed; Region: PRK05326 350054000402 TrkA-C domain; Region: TrkA_C; pfam02080 350054000403 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 350054000404 TrkA-N domain; Region: TrkA_N; pfam02254 350054000405 TrkA-C domain; Region: TrkA_C; pfam02080 350054000406 putative monovalent cation/H+ antiporter subunit A; Reviewed; Region: PRK12644 350054000407 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 350054000408 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 350054000409 Domain of unknown function (DUF4040); Region: DUF4040; pfam13244 350054000410 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 350054000411 putative monovalent cation/H+ antiporter subunit C; Reviewed; Region: PRK07946 350054000412 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK12665 350054000413 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 350054000414 putative monovalent cation/H+ antiporter subunit E; Reviewed; Region: PRK08965 350054000415 putative monovalent cation/H+ antiporter subunit F; Reviewed; Region: PRK07948 350054000416 putative monovalent cation/H+ antiporter subunit G; Reviewed; Region: PRK12674 350054000417 O-Methyltransferase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3315 350054000418 Leucine carboxyl methyltransferase; Region: LCM; cl01306 350054000419 Uncharacterized protein, similar to the N-terminal domain of Lon protease [General function prediction only]; Region: COG2802 350054000420 carboxylate-amine ligase; Provisional; Region: PRK13517 350054000421 carboxylate-amine ligase, YbdK family; Region: gshA_cyan_rel; TIGR02050 350054000422 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 350054000423 E-class dimer interface [polypeptide binding]; other site 350054000424 P-class dimer interface [polypeptide binding]; other site 350054000425 active site 350054000426 Cu2+ binding site [ion binding]; other site 350054000427 Zn2+ binding site [ion binding]; other site 350054000428 LytR cell envelope-related transcriptional attenuator; Region: LytR_C; pfam13399 350054000429 Protein of unknown function (DUF3263); Region: DUF3263; pfam11662 350054000430 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 350054000431 active site 350054000432 catalytic residues [active] 350054000433 metal binding site [ion binding]; metal-binding site 350054000434 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 350054000435 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 350054000436 Coenzyme A binding pocket [chemical binding]; other site 350054000437 Escherichia coli exonuclease III (ExoIII) and Neisseria meningitides NExo-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: ExoIII-like_AP-endo; cd09086 350054000438 putative catalytic site [active] 350054000439 putative phosphate binding site [ion binding]; other site 350054000440 active site 350054000441 metal binding site A [ion binding]; metal-binding site 350054000442 DNA binding site [nucleotide binding] 350054000443 putative AP binding site [nucleotide binding]; other site 350054000444 putative metal binding site B [ion binding]; other site 350054000445 Domain of unknown function (DUF222); Region: DUF222; pfam02720 350054000446 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cd00085 350054000447 active site 350054000448 4-amino-5-hydroxymethyl-2-methyl-pyrimidine phosphate kinase (HMPP-kinase) catalyzes two consecutive phosphorylation steps in the thiamine phosphate biosynthesis pathway, leading to the synthesis of vitamin B1. The first step is the phosphorylation of...; Region: HMPP_kinase; cd01169 350054000449 dimer interface [polypeptide binding]; other site 350054000450 substrate binding site [chemical binding]; other site 350054000451 ATP binding site [chemical binding]; other site 350054000452 Predicted hydrolase of the alpha/beta-hydrolase fold [General function prediction only]; Region: COG3571 350054000453 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 350054000454 Domain of unknown function (DUF4190); Region: DUF4190; pfam13828 350054000455 Septum formation; Region: Septum_form; pfam13845 350054000456 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 350054000457 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 350054000458 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 350054000459 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350054000460 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 350054000461 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350054000462 amino acid transporter; Region: 2A0306; TIGR00909 350054000463 pyrimidine utilization transport protein G; Region: RutG; TIGR03616 350054000464 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 350054000465 PA_SaNapH_like: Protease-associated domain containing proteins like Streptomyces anulatus N-acetylpuromycin N-acetylhydrolase (SaNapH).This group contains various PA domain-containing proteins similar SaNapH. Proteins in this group belong to the...; Region: PA_SaNapH_like; cd04816 350054000466 PA/protease or protease-like domain interface [polypeptide binding]; other site 350054000467 M28 Zn-peptidase Streptomyces griseus Aminopeptidase and similar proteins; Region: M28_SGAP_like; cd03876 350054000468 Peptidase family M28; Region: Peptidase_M28; pfam04389 350054000469 active site 350054000470 metal binding site [ion binding]; metal-binding site 350054000471 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 350054000472 PA_SaNapH_like: Protease-associated domain containing proteins like Streptomyces anulatus N-acetylpuromycin N-acetylhydrolase (SaNapH).This group contains various PA domain-containing proteins similar SaNapH. Proteins in this group belong to the...; Region: PA_SaNapH_like; cd04816 350054000473 PA/protease or protease-like domain interface [polypeptide binding]; other site 350054000474 M28 Zn-peptidase Streptomyces griseus Aminopeptidase and similar proteins; Region: M28_SGAP_like; cd03876 350054000475 Peptidase family M28; Region: Peptidase_M28; pfam04389 350054000476 active site 350054000477 metal binding site [ion binding]; metal-binding site 350054000478 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 350054000479 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 350054000480 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 350054000481 Walker A/P-loop; other site 350054000482 ATP binding site [chemical binding]; other site 350054000483 Q-loop/lid; other site 350054000484 ABC transporter signature motif; other site 350054000485 Walker B; other site 350054000486 D-loop; other site 350054000487 H-loop/switch region; other site 350054000488 SEST_like. A family of secreted SGNH-hydrolases similar to Streptomyces scabies esterase (SEST), a causal agent of the potato scab disease, which hydrolyzes a specific ester bond in suberin, a plant lipid. The tertiary fold of this enzyme is...; Region: SEST_like; cd01823 350054000489 active site 350054000490 catalytic triad [active] 350054000491 oxyanion hole [active] 350054000492 Thiazole synthase (ThiG) is the tetrameric enzyme that is involved in the formation of the thiazole moiety of thiamin pyrophosphate, an essential ubiquitous cofactor that plays an important role in carbohydrate and amino acid metabolism. ThiG catalyzes...; Region: ThiG; cd04728 350054000493 ThiS interaction site; other site 350054000494 putative active site [active] 350054000495 tetramer interface [polypeptide binding]; other site 350054000496 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 350054000497 thiS-thiF/thiG interaction site; other site 350054000498 glycine oxidase ThiO; Region: thiamin_ThiO; TIGR02352 350054000499 Thiamine monophosphate synthase (TMP synthase)/TenI. TMP synthase catalyzes an important step in the thiamine biosynthesis pathway, the substitution of the pyrophosphate of 2-methyl-4-amino-5- hydroxymethylpyrimidine pyrophosphate by 4-methyl-5-; Region: TMP_TenI; cd00564 350054000500 thiamine phosphate binding site [chemical binding]; other site 350054000501 active site 350054000502 pyrophosphate binding site [ion binding]; other site 350054000503 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cd02883 350054000504 nudix motif; other site 350054000505 CobD/Cbib protein; Region: CobD_Cbib; cl00561 350054000506 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 350054000507 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 350054000508 substrate binding pocket [chemical binding]; other site 350054000509 membrane-bound complex binding site; other site 350054000510 hinge residues; other site 350054000511 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 350054000512 Catalytic domain of Protein Kinases; Region: PKc; cd00180 350054000513 active site 350054000514 ATP binding site [chemical binding]; other site 350054000515 substrate binding site [chemical binding]; other site 350054000516 activation loop (A-loop); other site 350054000517 Sulphate Transporter and Anti-Sigma factor antagonist) domain of anti-anti-sigma factors, key regulators of anti-sigma factors by phosphorylation; Region: STAS_anti-anti-sigma_factors; cd07043 350054000518 anti sigma factor interaction site; other site 350054000519 regulatory phosphorylation site [posttranslational modification]; other site 350054000520 propionate/acetate kinase; Provisional; Region: PRK12379 350054000521 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 350054000522 phosphate acetyltransferase; Reviewed; Region: PRK05632 350054000523 DRTGG domain; Region: DRTGG; pfam07085 350054000524 phosphotransacetylase; Reviewed; Region: eutD; PRK09653 350054000525 CESA_like_2 is a member of the cellulose synthase superfamily; Region: CESA_like_2; cd06427 350054000526 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 350054000527 DXD motif; other site 350054000528 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 350054000529 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 350054000530 putative catalytic site [active] 350054000531 putative phosphate binding site [ion binding]; other site 350054000532 putative metal binding site [ion binding]; other site 350054000533 glucose-6-phosphate dehydrogenase (coenzyme-F420); Region: F420_G6P_DH; TIGR03554 350054000534 probable F420-dependent oxidoreductase, MSMEG_4141 family; Region: F420_MSMEG_4141; TIGR03620 350054000535 N5,N10-methylenetetrahydromethanopterin reductase (Mer) catalyzes the reduction of N5,N10-methylenetetrahydromethanopterin with reduced coenzyme F420 to N5-methyltetrahydromethanopterin and oxidized coenzyme F420; Region: Tetrahydromethanopterin_reductase; cd01097 350054000536 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 350054000537 Luciferase-like monooxygenase; Region: Bac_luciferase; pfam00296 350054000538 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 350054000539 luciferase family oxidoreductase, group 1; Region: oxido_grp_1; TIGR03558 350054000540 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cd00347 350054000541 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 350054000542 Luciferase-like monooxygenase; Region: Bac_luciferase; pfam00296 350054000543 short chain dehydrogenase; Provisional; Region: PRK07825 350054000544 classical (c) SDRs; Region: SDR_c; cd05233 350054000545 NAD(P) binding site [chemical binding]; other site 350054000546 active site 350054000547 O-succinylhomoserine sulfhydrylase; Provisional; Region: PRK07810 350054000548 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 350054000549 homodimer interface [polypeptide binding]; other site 350054000550 substrate-cofactor binding pocket; other site 350054000551 pyridoxal 5'-phosphate binding site [chemical binding]; other site 350054000552 catalytic residue [active] 350054000553 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cl00125 350054000554 active site residue [active] 350054000555 phosphoribosylglycinamide formyltransferase 2; Validated; Region: purT; PRK09288 350054000556 ATP-grasp domain; Region: ATP-grasp_4; cl17255 350054000557 Transcriptional regulators [Transcription]; Region: MarR; COG1846 350054000558 MarR family; Region: MarR_2; pfam12802 350054000559 MMPL family; Region: MMPL; pfam03176 350054000560 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 350054000561 Cytochrome P450; Region: p450; cl12078 350054000562 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 350054000563 CoenzymeA binding site [chemical binding]; other site 350054000564 subunit interaction site [polypeptide binding]; other site 350054000565 PHB binding site; other site 350054000566 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 350054000567 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 350054000568 GDP-binding site [chemical binding]; other site 350054000569 ACT binding site; other site 350054000570 IMP binding site; other site 350054000571 Uncharacterized homologs of Site-2 protease (S2P), zinc metalloproteases (MEROPS family M50) which cleave transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of the...; Region: S2P-M50_like_1; cd06158 350054000572 Peptidase family M50; Region: Peptidase_M50; pfam02163 350054000573 active site 350054000574 putative substrate binding region [chemical binding]; other site 350054000575 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 350054000576 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 350054000577 Protein of unknown function (DUF3151); Region: DUF3151; pfam11349 350054000578 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 350054000579 Fructose/tagarose-bisphosphate aldolase class II. This family includes fructose-1,6-bisphosphate (FBP) and tagarose 1,6-bisphosphate (TBP) aldolases. FBP-aldolase is homodimeric and used in gluconeogenesis and glycolysis; the enzyme controls the...; Region: FTBP_aldolase_II; cl17181 350054000580 active site 350054000581 intersubunit interface [polypeptide binding]; other site 350054000582 zinc binding site [ion binding]; other site 350054000583 Na+ binding site [ion binding]; other site 350054000584 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 350054000585 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 350054000586 NAD(P) binding site [chemical binding]; other site 350054000587 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 350054000588 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 350054000589 Na+/H+ antiporter 1; Region: Na_H_antiport_1; cl01133 350054000590 Thioredoxin; Region: Thioredoxin_4; pfam13462 350054000591 Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: DsbG; COG1651 350054000592 Glycosyl hydrolase family 76; Region: Glyco_hydro_76; cl01996 350054000593 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 350054000594 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350054000595 methyl viologen resistance protein SmvA; Provisional; Region: PRK14995 350054000596 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 350054000597 putative substrate translocation pore; other site 350054000598 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 350054000599 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 350054000600 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 350054000601 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 350054000602 classical (c) SDRs; Region: SDR_c; cd05233 350054000603 NAD(P) binding site [chemical binding]; other site 350054000604 active site 350054000605 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 350054000606 Clp amino terminal domain; Region: Clp_N; pfam02861 350054000607 Clp amino terminal domain; Region: Clp_N; pfam02861 350054000608 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 350054000609 Walker A motif; other site 350054000610 ATP binding site [chemical binding]; other site 350054000611 Walker B motif; other site 350054000612 arginine finger; other site 350054000613 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 350054000614 Walker A motif; other site 350054000615 ATP binding site [chemical binding]; other site 350054000616 Walker B motif; other site 350054000617 arginine finger; other site 350054000618 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 350054000619 CYTH-like Clostridium thermocellum TTM-like subgroup 1; Region: CYTH-like_CthTTM-like_1; cd07891 350054000620 putative active site [active] 350054000621 putative metal binding residues [ion binding]; other site 350054000622 signature motif; other site 350054000623 putative dimer interface [polypeptide binding]; other site 350054000624 putative phosphate binding site [ion binding]; other site 350054000625 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 350054000626 Na binding site [ion binding]; other site 350054000627 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 350054000628 nitrilotriacetate monoxygenase oxidizes nitrilotriacetate utilizing reduced flavin mononucleotide (FMNH2) and oxygen. The FMNH2 is provided by an NADH:flavin mononucleotide (FMN) oxidorductase that uses NADH to reduce FMN to FMNH2; Region: Nitrilotriacetate_monoxgenase; cd01095 350054000629 active site 350054000630 non-prolyl cis peptide bond; other site 350054000631 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 350054000632 active site 350054000633 Protein of unknown function (DUF2910); Region: DUF2910; pfam11139 350054000634 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350054000635 Globins are heme proteins, which bind and transport oxygen. This family summarizes a diverse set of homologous protein domains, including: (1) tetrameric vertebrate hemoglobins, which are the major protein component of erythrocytes and transport oxygen...; Region: globin; cd01040 350054000636 heme-binding site [chemical binding]; other site 350054000637 The oxygenase reductase FAD/NADH binding domain acts as part of the multi-component bacterial oxygenases which oxidize hydrocarbons using oxygen as the oxidant. Electron transfer is from NADH via FAD (in the oxygenase reductase) and an [2FE-2S]...; Region: O2ase_reductase_like; cd06187 350054000638 FMN reductase; Validated; Region: fre; PRK08051 350054000639 FAD binding pocket [chemical binding]; other site 350054000640 FAD binding motif [chemical binding]; other site 350054000641 phosphate binding motif [ion binding]; other site 350054000642 beta-alpha-beta structure motif; other site 350054000643 NAD binding pocket [chemical binding]; other site 350054000644 aldose 1-epimerase superfamily; Region: Aldose_epim; cd01081 350054000645 active site 350054000646 catalytic residues [active] 350054000647 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 350054000648 DNA binding residues [nucleotide binding] 350054000649 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 350054000650 chaperone protein DnaJ; Provisional; Region: PRK14279 350054000651 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 350054000652 HSP70 interaction site [polypeptide binding]; other site 350054000653 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 350054000654 Zn binding sites [ion binding]; other site 350054000655 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 350054000656 dimer interface [polypeptide binding]; other site 350054000657 Molecular chaperone GrpE (heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: GrpE; COG0576 350054000658 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 350054000659 dimer interface [polypeptide binding]; other site 350054000660 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 350054000661 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 350054000662 Nucleotide-binding domain of human HSPA9 and similar proteins; Region: HSPA9-Ssq1-like_NBD; cd10234 350054000663 nucleotide binding site [chemical binding]; other site 350054000664 NEF interaction site [polypeptide binding]; other site 350054000665 SBD interface [polypeptide binding]; other site 350054000666 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_ox_2; pfam12900 350054000667 pyruvate kinase; Provisional; Region: PRK14725 350054000668 active site 350054000669 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2187 350054000670 Predicted kinase [General function prediction only]; Region: COG0645 350054000671 AAA domain; Region: AAA_17; pfam13207 350054000672 mycothione reductase; Reviewed; Region: PRK07846 350054000673 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 350054000674 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 350054000675 glucose-6-phosphate 1-dehydrogenase; Provisional; Region: PRK12853 350054000676 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 350054000677 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 350054000678 TIGR03085 family protein; Region: TIGR03085 350054000679 Mycothiol maleylpyruvate isomerase N-terminal domain; Region: MDMPI_N; pfam11716 350054000680 probable F420-dependent oxidoreductase, Rv1855c family; Region: F420_Rv1855c; TIGR03560 350054000681 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 350054000682 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 350054000683 nucleotide binding site [chemical binding]; other site 350054000684 Predicted GTPases (dynamin-related) [General function prediction only]; Region: COG0699 350054000685 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 350054000686 G1 box; other site 350054000687 GTP/Mg2+ binding site [chemical binding]; other site 350054000688 G2 box; other site 350054000689 Switch I region; other site 350054000690 G3 box; other site 350054000691 Switch II region; other site 350054000692 G4 box; other site 350054000693 G5 box; other site 350054000694 Predicted GTPases (dynamin-related) [General function prediction only]; Region: COG0699 350054000695 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 350054000696 G1 box; other site 350054000697 GTP/Mg2+ binding site [chemical binding]; other site 350054000698 G2 box; other site 350054000699 Switch I region; other site 350054000700 G3 box; other site 350054000701 Switch II region; other site 350054000702 G4 box; other site 350054000703 G5 box; other site 350054000704 Molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: DnaK; COG0443 350054000705 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 350054000706 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 350054000707 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 350054000708 DNA binding residues [nucleotide binding] 350054000709 dimerization interface [polypeptide binding]; other site 350054000710 Major Facilitator Superfamily; Region: MFS_1; pfam07690 350054000711 4Fe-4S binding domain; Region: Fer4; cl02805 350054000712 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 350054000713 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 350054000714 4Fe-4S binding domain; Region: Fer4; pfam00037 350054000715 Cysteine-rich domain; Region: CCG; pfam02754 350054000716 Cysteine-rich domain; Region: CCG; pfam02754 350054000717 aminotransferase AlaT; Validated; Region: PRK09265 350054000718 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 350054000719 pyridoxal 5'-phosphate binding site [chemical binding]; other site 350054000720 homodimer interface [polypeptide binding]; other site 350054000721 catalytic residue [active] 350054000722 Domain of unknown function (DUF4304); Region: DUF4304; pfam14137 350054000723 YibE/F-like protein; Region: YibE_F; pfam07907 350054000724 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 350054000725 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 350054000726 catalytic loop [active] 350054000727 iron binding site [ion binding]; other site 350054000728 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 350054000729 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 350054000730 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; smart01092 350054000731 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 350054000732 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 350054000733 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 350054000734 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 350054000735 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 350054000736 substrate binding site; other site 350054000737 tetramer interface; other site 350054000738 SnoaL-like domain; Region: SnoaL_2; pfam12680 350054000739 Mycothiol maleylpyruvate isomerase N-terminal domain; Region: MDMPI_N; pfam11716 350054000740 uncharacterized Actinobacterial protein TIGR03083; Region: TIGR03083 350054000741 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 350054000742 Cytochrome P450; Region: p450; cl12078 350054000743 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 350054000744 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 350054000745 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 350054000746 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 350054000747 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 350054000748 trimer interface [polypeptide binding]; other site 350054000749 active site 350054000750 Fic/DOC family N-terminal; Region: Fic_N; pfam13784 350054000751 Fic family protein [Function unknown]; Region: COG3177 350054000752 Fic/DOC family; Region: Fic; pfam02661 350054000753 short chain dehydrogenase; Provisional; Region: PRK08263 350054000754 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 350054000755 NADP binding site [chemical binding]; other site 350054000756 active site 350054000757 steroid binding site; other site 350054000758 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 350054000759 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 350054000760 NAD(P) binding site [chemical binding]; other site 350054000761 active site 350054000762 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 350054000763 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350054000764 Laminarinase, member of the glycosyl hydrolase family 16; Region: GH16_laminarinase_like; cd08023 350054000765 active site 350054000766 catalytic residues [active] 350054000767 Lipocalin-like domain; Region: Lipocalin_2; pfam08212 350054000768 PGAP1-like protein; Region: PGAP1; pfam07819 350054000769 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 350054000770 putative substrate translocation pore; other site 350054000771 nitrobindin heme-binding domain; Region: nitrobindin; cd07828 350054000772 heme-binding site [chemical binding]; other site 350054000773 Phosphodiesterase domain of human TDP2, a 5'-tyrosyl DNA phosphodiesterase, and related domains; Region: TDP2; cd09080 350054000774 putative catalytic site [active] 350054000775 putative metal binding site [ion binding]; other site 350054000776 putative phosphate binding site [ion binding]; other site 350054000777 hypothetical protein; Provisional; Region: PRK06185 350054000778 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 350054000779 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 350054000780 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 350054000781 NAD(P) binding site [chemical binding]; other site 350054000782 active site 350054000783 A subgroup of L-lactate dehydrogenases; Region: LDH_2; cd05292 350054000784 L-lactate dehydrogenase; Region: L-LDH-NAD; TIGR01771 350054000785 NAD binding site [chemical binding]; other site 350054000786 dimer interface [polypeptide binding]; other site 350054000787 substrate binding site [chemical binding]; other site 350054000788 tetramer (dimer of dimers) interface [polypeptide binding]; other site 350054000789 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 350054000790 nucleotide binding site [chemical binding]; other site 350054000791 SnoaL-like domain; Region: SnoaL_4; pfam13577 350054000792 SnoaL-like domain; Region: SnoaL_3; pfam13474 350054000793 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3786 350054000794 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 350054000795 PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cd01610 350054000796 active site 350054000797 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 350054000798 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]; Region: LCB5; COG1597 350054000799 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 350054000800 active site 350054000801 Domain of unknown function (DUF222); Region: DUF222; pfam02720 350054000802 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cd00085 350054000803 active site 350054000804 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 350054000805 Transposase; Region: DDE_Tnp_ISL3; pfam01610 350054000806 Trans-aconitate methyltransferase [General function prediction only]; Region: Tam; COG4106 350054000807 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 350054000808 S-adenosylmethionine binding site [chemical binding]; other site 350054000809 type VII secretion protein EccE; Region: T7SS_EccE; TIGR03923 350054000810 type VII secretion-associated serine protease mycosin; Region: T7SS_mycosin; TIGR03921 350054000811 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 350054000812 active site 350054000813 catalytic residues [active] 350054000814 type VII secretion integral membrane protein EccD; Region: T7SS_EccD; TIGR03920 350054000815 EspG family; Region: ESX-1_EspG; pfam14011 350054000816 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4842 350054000817 PPE-repeat proteins [Cell motility and secretion]; Region: COG5651 350054000818 PPE family; Region: PPE; pfam00823 350054000819 type VII secretion protein EccCa; Region: T7SS_EccC_a; TIGR03924 350054000820 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 350054000821 type VII secretion protein EccCb; Region: T7SS_EccC_b; TIGR03925 350054000822 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 350054000823 Protein of unknown function (DUF690); Region: DUF690; cl04939 350054000824 type VII secretion AAA-ATPase EccA; Region: T7SS_EccA; TIGR03922 350054000825 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 350054000826 Walker A motif; other site 350054000827 ATP binding site [chemical binding]; other site 350054000828 Walker B motif; other site 350054000829 arginine finger; other site 350054000830 Uncharacterized protein conserved in bacteria (DUF2236); Region: DUF2236; cl01472 350054000831 N-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_N_like; cd08346 350054000832 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 350054000833 Zn binding site [ion binding]; other site 350054000834 Esterase/lipase [General function prediction only]; Region: COG1647 350054000835 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 350054000836 Putative D-isomer specific 2-hydroxyacid dehydrogenases, NAD-binding and catalytic domains; Region: 2-Hacid_dh_11; cd12175 350054000837 putative ligand binding site [chemical binding]; other site 350054000838 putative NAD binding site [chemical binding]; other site 350054000839 catalytic site [active] 350054000840 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 350054000841 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 350054000842 active site 350054000843 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 350054000844 Putative acyl-CoA dehydrogenases similar to fadE6, fadE17, and fadE26; Region: ACAD_fadE6_17_26; cd01152 350054000845 FAD binding site [chemical binding]; other site 350054000846 substrate binding site [chemical binding]; other site 350054000847 catalytic base [active] 350054000848 Cupin superfamily protein; Region: Cupin_4; pfam08007 350054000849 Cupin-like domain; Region: Cupin_8; pfam13621 350054000850 Formate/glycerate dehydrogenases, D-specific 2-hydroxy acid dehydrogenases and related dehydrogenases; Region: FDH_GDH_like; cl17240 350054000851 NAD binding site [chemical binding]; other site 350054000852 TRX-like [2Fe-2S] Ferredoxin (Fd) family, Sucrase subfamily; composed of proteins with similarity to a novel plant enzyme, isolated from potato, which contains a Fd-like domain and exhibits sucrolytic activity. The putative active site of the Fd-like...; Region: TRX_Fd_Sucrase; cd03062 350054000853 putative dimer interface [polypeptide binding]; other site 350054000854 putative [2Fe-2S] cluster binding site [ion binding]; other site 350054000855 Flavin containing amine oxidoreductase; Region: Amino_oxidase; pfam01593 350054000856 acyl-CoA synthetase; Validated; Region: PRK07788 350054000857 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 350054000858 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 350054000859 active site 350054000860 CoA binding site [chemical binding]; other site 350054000861 AMP binding site [chemical binding]; other site 350054000862 AE_Prim_S_like: primase domain similar to that found in the small subunit of archaeal and eukaryotic (A/E) DNA primases. The replication machineries of A/Es are distinct from that of bacteria. Primases are DNA-dependent RNA polymerases which synthesis...; Region: AE_Prim_S_like; cl01287 350054000863 nucleotide binding site [chemical binding]; other site 350054000864 Sulphate Transporter and Anti-Sigma factor antagonist) domain of anti-anti-sigma factors, key regulators of anti-sigma factors by phosphorylation; Region: STAS_anti-anti-sigma_factors; cd07043 350054000865 anti sigma factor interaction site; other site 350054000866 regulatory phosphorylation site [posttranslational modification]; other site 350054000867 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 350054000868 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 350054000869 active site 350054000870 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 350054000871 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 350054000872 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 350054000873 active site 350054000874 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 350054000875 Sulfite reductase, alpha subunit (flavoprotein) [Inorganic ion transport and metabolism]; Region: CysJ; COG0369 350054000876 Flavodoxin; Region: Flavodoxin_1; pfam00258 350054000877 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 350054000878 FAD binding pocket [chemical binding]; other site 350054000879 conserved FAD binding motif [chemical binding]; other site 350054000880 phosphate binding motif [ion binding]; other site 350054000881 beta-alpha-beta structure motif; other site 350054000882 NAD binding pocket [chemical binding]; other site 350054000883 acyltransferase, WS/DGAT/MGAT; Region: acyl_WS_DGAT; TIGR02946 350054000884 Wax ester synthase-like Acyl-CoA acyltransferase domain; Region: WES_acyltransf; pfam03007 350054000885 mycofactocin system transcriptional regulator; Region: mycofact_TetR; TIGR03968 350054000886 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350054000887 Amidohydrolase; Region: Amidohydro_2; pfam04909 350054000888 Precorrin-4 C11-methyltransferase (CbiF/CobM); Region: Precorrin-4_C11-MT; cd11641 350054000889 active site 350054000890 SAM binding site [chemical binding]; other site 350054000891 homodimer interface [polypeptide binding]; other site 350054000892 Subfamily of the nitroreductase family that includes BluB protein in Rhodobacter capsulatus is involved in the conversion of cobinamide to cobalamin in Cobalamin (vitamin B12) biosynthesis. Nitroreductases typically reduce their substrates by using NAD(P)...; Region: BluB; cd02145 350054000893 putative FMN binding site [chemical binding]; other site 350054000894 spore photoproduct lyase family protein; Region: lyase_spl_fam; TIGR03886 350054000895 Cobinamide kinase / cobinamide phosphate guanyltransferase; Region: CobU; pfam02283 350054000896 Purine catabolism regulatory protein-like family; Region: PucR; pfam07905 350054000897 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 350054000898 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 350054000899 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 350054000900 tetrameric interface [polypeptide binding]; other site 350054000901 NAD binding site [chemical binding]; other site 350054000902 catalytic residues [active] 350054000903 hypothetical protein; Provisional; Region: PRK06062 350054000904 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 350054000905 inhibitor-cofactor binding pocket; inhibition site 350054000906 pyridoxal 5'-phosphate binding site [chemical binding]; other site 350054000907 catalytic residue [active] 350054000908 Precorrin-6x reductase CbiJ/CobK; Region: CbiJ; pfam02571 350054000909 cobyric acid synthase; Provisional; Region: PRK00784 350054000910 Dethiobiotin synthetase [Coenzyme metabolism]; Region: BioD; COG0132 350054000911 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 350054000912 catalytic triad [active] 350054000913 Precorrin-6A synthase, the cobalamin biosynthesis enzyme CobF; Region: Precorrin-6A-synthase; cd11643 350054000914 active site 350054000915 SAM binding site [chemical binding]; other site 350054000916 homodimer interface [polypeptide binding]; other site 350054000917 chromosome replication initiation inhibitor protein; Validated; Region: PRK03635 350054000918 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 350054000919 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 350054000920 dimerization interface [polypeptide binding]; other site 350054000921 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 350054000922 Cytochrome P450; Region: p450; cl12078 350054000923 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 350054000924 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cl17393 350054000925 DNA-binding interface [nucleotide binding]; DNA binding site 350054000926 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 350054000927 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 350054000928 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350054000929 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 350054000930 NAD(P) binding site [chemical binding]; other site 350054000931 active site 350054000932 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 350054000933 Protein of unknown function (DUF3478); Region: DUF3478; pfam11964 350054000934 Lysine efflux permease [General function prediction only]; Region: COG1279 350054000935 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 350054000936 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 350054000937 intersubunit interface [polypeptide binding]; other site 350054000938 Uncharacterized member of the PurR regulon [General function prediction only]; Region: yhhQ; COG1738 350054000939 Allophanate hydrolase subunit 1; Region: AHS1; smart00796 350054000940 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; COG2049 350054000941 Allophanate hydrolase subunit 2 [Amino acid transport and metabolism]; Region: DUR1; COG1984 350054000942 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 350054000943 Coenzyme A binding pocket [chemical binding]; other site 350054000944 bifunctional uroporphyrinogen-III synthetase/response regulator domain protein; Validated; Region: PRK07239 350054000945 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 350054000946 active site 350054000947 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cl17355 350054000948 DNA binding site [nucleotide binding] 350054000949 Sirohydrochlorin ferrochelatase [Inorganic ion transport and metabolism]; Region: COG2138 350054000950 Sirohydrochlorin cobalt chelatase (CbiX) and sirohydrochlorin iron chelatase (SirB), N-terminal domain. SirB catalyzes the ferro-chelation of sirohydrochlorin to siroheme, the prosthetic group of sulfite and nitrite reductases. CbiX is a cobaltochelatase; Region: CbiX_SirB_N; cd03416 350054000951 putative active site [active] 350054000952 Sirohydrochlorin cobalt chelatase (CbiX) and sirohydrochlorin iron chelatase (SirB), C-terminal domain. SirB catalyzes the ferro-chelation of sirohydrochlorin to siroheme, the prosthetic group of sulfite and nitrite reductases. CbiX is a cobaltochelatase; Region: CbiX_SirB_C; cd03414 350054000953 putative active site [active] 350054000954 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 350054000955 Helix-turn-helix domain; Region: HTH_38; pfam13936 350054000956 Integrase core domain; Region: rve; pfam00665 350054000957 Ferredoxin [Energy production and conversion]; Region: COG1146 350054000958 4Fe-4S binding domain; Region: Fer4; pfam00037 350054000959 Integrase core domain; Region: rve; pfam00665 350054000960 Integrase core domain; Region: rve_3; pfam13683 350054000961 Assimilatory nitrite reductase (NirD) family, Rieske domain; Assimilatory nitrate and nitrite reductases convert nitrate through nitrite to ammonium. Members include bacterial and fungal proteins. The bacterial NirD contains a single Rieske domain while...; Region: Rieske_NirD; cd03529 350054000962 nitrite reductase [NAD(P)H], large subunit; Region: nitri_red_nirB; TIGR02374 350054000963 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 350054000964 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 350054000965 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 350054000966 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 350054000967 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 350054000968 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 350054000969 putative dimer interface [polypeptide binding]; other site 350054000970 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 350054000971 Members of the ICL/PEPM enzyme family catalyze either P-C or C-C bond formation/cleavage. Known members are phosphoenolpyruvate mutase (PEPM), phosphonopyruvate hydrolase (PPH), carboxyPEP mutase (CPEP mutase), oxaloacetate hydrolase (OAH), isocitrate...; Region: ICL_PEPM; cd00377 350054000972 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 350054000973 tetramer interface [polypeptide binding]; other site 350054000974 active site 350054000975 Mg2+/Mn2+ binding site [ion binding]; other site 350054000976 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK07803 350054000977 L-aspartate oxidase; Provisional; Region: PRK06175 350054000978 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 350054000979 fumarate reductase iron-sulfur subunit; Provisional; Region: PRK12386 350054000980 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 350054000981 catalytic loop [active] 350054000982 iron binding site [ion binding]; other site 350054000983 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 350054000984 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 350054000985 putative DNA binding site [nucleotide binding]; other site 350054000986 putative Zn2+ binding site [ion binding]; other site 350054000987 AsnC family; Region: AsnC_trans_reg; pfam01037 350054000988 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 350054000989 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 350054000990 active site 350054000991 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 350054000992 Protein of unknown function (DUF2910); Region: DUF2910; pfam11139 350054000993 PE-PPE domain; Region: PE-PPE; pfam08237 350054000994 acyl-CoA synthetase; Validated; Region: PRK05850 350054000995 Fatty acyl-AMP ligase (FAAL); Region: FAAL; cd05931 350054000996 acyl-activating enzyme (AAE) consensus motif; other site 350054000997 active site 350054000998 Transport protein; Region: actII; TIGR00833 350054000999 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 350054001000 Beta-ketoacyl synthase; Region: PKS_KS; smart00825 350054001001 active site 350054001002 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 350054001003 Acyl transferase domain in polyketide synthase (PKS) enzymes; Region: PKS_AT; smart00827 350054001004 beta-ketoacyl reductase (KR) domain of fatty acid synthase (FAS), subgroup 2, complex (x); Region: KR_2_FAS_SDR_x; cd08955 350054001005 KR domain; Region: KR; pfam08659 350054001006 putative NADP binding site [chemical binding]; other site 350054001007 active site 350054001008 Phosphopantetheine attachment site; Region: PKS_PP; smart00823 350054001009 Polyketide synthase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3321 350054001010 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 350054001011 active site 350054001012 Acyl transferase domain in polyketide synthase (PKS) enzymes; Region: PKS_AT; smart00827 350054001013 Dehydratase domain in polyketide synthase (PKS) enzymes; Region: PKS_DH; smart00826 350054001014 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 350054001015 enoyl reductase of polyketide synthase; Region: enoyl_red; cd05195 350054001016 Enoylreductase; Region: PKS_ER; smart00829 350054001017 NAD(P) binding site [chemical binding]; other site 350054001018 beta-ketoacyl reductase (KR) domain of fatty acid synthase (FAS), subgroup 2, complex (x); Region: KR_2_FAS_SDR_x; cd08955 350054001019 This enzymatic domain is part of bacterial polyketide synthases; Region: PKS_KR; smart00822 350054001020 putative NADP binding site [chemical binding]; other site 350054001021 active site 350054001022 Phosphopantetheine attachment site; Region: PKS_PP; smart00823 350054001023 TspO/MBR family; Region: TspO_MBR; pfam03073 350054001024 short chain dehydrogenase; Provisional; Region: PRK08267 350054001025 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 350054001026 NAD(P) binding site [chemical binding]; other site 350054001027 active site 350054001028 Uncharacterized conserved protein related to dihydrodipicolinate reductase [Function unknown]; Region: COG3804 350054001029 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 350054001030 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 350054001031 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 350054001032 Putative acyl-CoA dehydrogenases similar to fadE5; Region: ACAD_fadE5; cd01153 350054001033 FAD binding site [chemical binding]; other site 350054001034 substrate binding site [chemical binding]; other site 350054001035 catalytic residues [active] 350054001036 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 350054001037 F420-dependent oxidoreductase, MSMEG_4879 family; Region: F420_MSMEG_4879; TIGR03564 350054001038 N5,N10-methylenetetrahydromethanopterin reductase (Mer) catalyzes the reduction of N5,N10-methylenetetrahydromethanopterin with reduced coenzyme F420 to N5-methyltetrahydromethanopterin and oxidized coenzyme F420; Region: Tetrahydromethanopterin_reductase; cd01097 350054001039 acetyl-CoA acetyltransferase; Provisional; Region: PRK09268 350054001040 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 350054001041 dimer interface [polypeptide binding]; other site 350054001042 active site 350054001043 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK08261 350054001044 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 350054001045 NAD(P) binding site [chemical binding]; other site 350054001046 active site 350054001047 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 350054001048 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 350054001049 active site 2 [active] 350054001050 active site 1 [active] 350054001051 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 350054001052 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350054001053 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 350054001054 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 350054001055 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 350054001056 Ligand Binding Site [chemical binding]; other site 350054001057 Protein of unknown function (DUF2613); Region: DUF2613; pfam11021 350054001058 Domain of unknown function (DUF3367); Region: DUF3367; pfam11847 350054001059 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK08276 350054001060 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 350054001061 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 350054001062 putative AMP binding site [chemical binding]; other site 350054001063 putative active site [active] 350054001064 acyl-activating enzyme (AAE) consensus motif; other site 350054001065 putative CoA binding site [chemical binding]; other site 350054001066 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 350054001067 Protein of unknown function (DUF3068); Region: DUF3068; pfam11271 350054001068 Uncharacterized protein conserved in bacteria (DUF2236); Region: DUF2236; cl01472 350054001069 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 350054001070 Cytochrome P450; Region: p450; cl12078 350054001071 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 350054001072 Glycosyltransferase Family 4; Region: Glyco_transf_4; pfam13439 350054001073 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 350054001074 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 350054001075 S-adenosylmethionine binding site [chemical binding]; other site 350054001076 Mycobacterium tuberculosis aldehyde dehydrogenase AldA-like; Region: ALDH_AldA-Rv0768; cd07139 350054001077 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 350054001078 NAD binding site [chemical binding]; other site 350054001079 catalytic residues [active] 350054001080 Ketosteroid isomerase homolog [Function unknown]; Region: COG4319 350054001081 SnoaL-like domain; Region: SnoaL_3; pfam13474 350054001082 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 350054001083 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 350054001084 Putative acyl-CoA dehydrogenases similar to fadE5; Region: ACAD_fadE5; cd01153 350054001085 FAD binding site [chemical binding]; other site 350054001086 substrate binding site [chemical binding]; other site 350054001087 catalytic residues [active] 350054001088 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 350054001089 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 350054001090 RibD C-terminal domain; Region: RibD_C; cl17279 350054001091 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 350054001092 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 350054001093 DinB superfamily; Region: DinB_2; pfam12867 350054001094 Arylamine N-acetyltransferase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: NhoA; COG2162 350054001095 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 350054001096 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: MGAT-like; Region: LPLAT_MGAT-like; cd07987 350054001097 putative acyl-acceptor binding pocket; other site 350054001098 acyl-CoA synthetase; Provisional; Region: PRK13382 350054001099 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 350054001100 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 350054001101 acyl-activating enzyme (AAE) consensus motif; other site 350054001102 acyl-activating enzyme (AAE) consensus motif; other site 350054001103 putative AMP binding site [chemical binding]; other site 350054001104 putative active site [active] 350054001105 putative CoA binding site [chemical binding]; other site 350054001106 Esterase/lipase [Lipid metabolism]; Region: Aes; COG0657 350054001107 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 350054001108 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 350054001109 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 350054001110 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350054001111 acyltransferase, WS/DGAT/MGAT; Region: acyl_WS_DGAT; TIGR02946 350054001112 Wax ester synthase-like Acyl-CoA acyltransferase domain; Region: WES_acyltransf; pfam03007 350054001113 Protein of unknown function (DUF1298); Region: DUF1298; pfam06974 350054001114 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 350054001115 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 350054001116 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 350054001117 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 350054001118 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 350054001119 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 350054001120 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 350054001121 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 350054001122 active site 350054001123 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 350054001124 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 350054001125 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 350054001126 active site 350054001127 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 350054001128 CoA-transferase family III; Region: CoA_transf_3; pfam02515 350054001129 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 350054001130 active site 2 [active] 350054001131 active site 1 [active] 350054001132 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 350054001133 active site 2 [active] 350054001134 active site 1 [active] 350054001135 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 350054001136 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 350054001137 active site 350054001138 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 350054001139 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 350054001140 DNA-binding site [nucleotide binding]; DNA binding site 350054001141 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 350054001142 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 350054001143 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 350054001144 substrate binding site [chemical binding]; other site 350054001145 oxyanion hole (OAH) forming residues; other site 350054001146 trimer interface [polypeptide binding]; other site 350054001147 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 350054001148 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK08276 350054001149 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 350054001150 acyl-activating enzyme (AAE) consensus motif; other site 350054001151 acyl-activating enzyme (AAE) consensus motif; other site 350054001152 putative AMP binding site [chemical binding]; other site 350054001153 putative active site [active] 350054001154 putative CoA binding site [chemical binding]; other site 350054001155 Transposase; Region: DEDD_Tnp_IS110; pfam01548 350054001156 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 350054001157 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 350054001158 Phosphoenolpyruvate carboxykinase (PEPCK), a critical gluconeogenic enzyme, catalyzes the first committed step in the diversion of tricarboxylic acid cycle intermediates toward gluconeogenesis. It catalyzes the reversible decarboxylation and...; Region: PEPCK_GTP; cd00819 350054001159 active site 350054001160 substrate-binding site [chemical binding]; other site 350054001161 metal-binding site [ion binding] 350054001162 GTP binding site [chemical binding]; other site 350054001163 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 350054001164 S-adenosylmethionine binding site [chemical binding]; other site 350054001165 LabA_like proteins; Region: LabA_like; cd06167 350054001166 putative metal binding site [ion binding]; other site 350054001167 Predicted drug exporters of the RND superfamily [General function prediction only]; Region: COG2409 350054001168 Domain of unknown function (DUF4190); Region: DUF4190; pfam13828 350054001169 MMPL family; Region: MMPL; pfam03176 350054001170 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 350054001171 Domain of unknown function DUF20; Region: UPF0118; pfam01594 350054001172 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 350054001173 Predicted integral membrane protein [Function unknown]; Region: COG0392 350054001174 Protein of unknown function (DUF3054); Region: DUF3054; pfam11255 350054001175 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 350054001176 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 350054001177 phosphorylation site [posttranslational modification] 350054001178 dimer interface [polypeptide binding]; other site 350054001179 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 350054001180 ATP binding site [chemical binding]; other site 350054001181 Mg2+ binding site [ion binding]; other site 350054001182 G-X-G motif; other site 350054001183 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 350054001184 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 350054001185 active site 350054001186 phosphorylation site [posttranslational modification] 350054001187 intermolecular recognition site; other site 350054001188 dimerization interface [polypeptide binding]; other site 350054001189 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 350054001190 DNA binding site [nucleotide binding] 350054001191 Predicted drug exporters of the RND superfamily [General function prediction only]; Region: COG2409 350054001192 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 350054001193 active site 350054001194 TDP-binding site; other site 350054001195 acceptor substrate-binding pocket; other site 350054001196 MMPL family; Region: MMPL; pfam03176 350054001197 MMPL family; Region: MMPL; pfam03176 350054001198 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl17364 350054001199 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 350054001200 RibD C-terminal domain; Region: RibD_C; cl17279 350054001201 Predicted metalloendopeptidase [Posttranslational modification, protein turnover, chaperones]; Region: PepO; COG3590 350054001202 Peptidase family M13 includes neprilysin, endothelin-converting enzyme I; Region: M13; cd08662 350054001203 active site 350054001204 Zn binding site [ion binding]; other site 350054001205 Predicted thiol-disulfide oxidoreductase [General function prediction only]; Region: COG3011 350054001206 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 350054001207 Protein of unknown function DUF58; Region: DUF58; pfam01882 350054001208 MoxR-like ATPases [General function prediction only]; Region: COG0714 350054001209 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 350054001210 Walker A motif; other site 350054001211 ATP binding site [chemical binding]; other site 350054001212 Walker B motif; other site 350054001213 arginine finger; other site 350054001214 Domain of unknown function (DUF4129); Region: DUF4129; pfam13559 350054001215 IgD-like repeat domain of mycobacterial L,D-transpeptidases; Region: LDT_IgD_like_1; cd13431 350054001216 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 350054001217 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 350054001218 Domain of unknown function DUF77; Region: DUF77; pfam01910 350054001219 Helix-turn-helix domain; Region: HTH_38; pfam13936 350054001220 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 350054001221 Integrase core domain; Region: rve; pfam00665 350054001222 This family is most closely related to the GT1 family of glycosyltransferases. aviGT4 in Streptomyces viridochromogenes has been shown to be involved in biosynthesis of oligosaccharide antibiotic avilamycin A. Inactivation of aviGT4 resulted in a mutant...; Region: GT1_AviGT4_like; cd03802 350054001223 putative ADP-binding pocket [chemical binding]; other site 350054001224 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 350054001225 Transcriptional regulators CsoR (copper-sensitive operon repressor), RcnR, and FrmR, and related domains; this domain superfamily was previously known as DUF156; Region: CsoR-like_DUF156; cd10148 350054001226 putative homotetramer interface [polypeptide binding]; other site 350054001227 putative homodimer interface [polypeptide binding]; other site 350054001228 putative allosteric switch controlling residues; other site 350054001229 putative metal binding site [ion binding]; other site 350054001230 putative homodimer-homodimer interface [polypeptide binding]; other site 350054001231 Domain of unknown function (DUF305); Region: DUF305; pfam03713 350054001232 dihydroxy-acid dehydratase; Provisional; Region: PRK00911 350054001233 Proteins of this family catalyze the reduction of flavin or nitrocompounds using NAD(P)H as electron donor in a obligatory two-electron transfer, utilizing FMN or FAD as cofactor. They are often found to be homodimers. Enzymes of this family are...; Region: Nitro_FMN_reductase; cl00514 350054001234 Rifampin ADP-ribosyl transferase; Region: Arr-ms; pfam12120 350054001235 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 350054001236 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350054001237 phosphoenolpyruvate synthase; Validated; Region: PRK06241 350054001238 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 350054001239 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 350054001240 Predicted dinucleotide-binding enzymes [General function prediction only]; Region: COG2085 350054001241 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; pfam03807 350054001242 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 350054001243 Beta-lactamase; Region: Beta-lactamase; pfam00144 350054001244 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 350054001245 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 350054001246 Mg2+ binding site [ion binding]; other site 350054001247 G-X-G motif; other site 350054001248 MutL_Trans: transducer domain, having a ribosomal S5 domain 2-like fold, conserved in the C-terminal domain of type II DNA topoisomerases (Topo II) and DNA mismatch repair (MutL/MLH1/PMS2) proteins. This transducer domain is homologous to the second...; Region: TopoII_MutL_Trans; cl02783 350054001249 Topoisomerase-primase domain. This is a nucleotidyl transferase/hydrolase domain found in type IA, type IIA and type IIB topoisomerases, bacterial DnaG-type primases, small primase-like proteins from bacteria and archaea, OLD family nucleases from...; Region: TOPRIM; cl00718 350054001250 active site 350054001251 metal binding site [ion binding]; metal-binding site 350054001252 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 350054001253 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 350054001254 CAP-like domain; other site 350054001255 DNA gyrase/topoisomerase IV, subunit A; Region: DNA_topoisoIV; pfam00521 350054001256 active site 350054001257 primary dimer interface [polypeptide binding]; other site 350054001258 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 350054001259 Protein of unknown function (DUF861); Region: Cupin_3; pfam05899 350054001260 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 350054001261 thioredoxin 2; Provisional; Region: PRK10996 350054001262 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 350054001263 catalytic residues [active] 350054001264 Transcriptional regulators [Transcription]; Region: FadR; COG2186 350054001265 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl17414 350054001266 DNA-binding site [nucleotide binding]; DNA binding site 350054001267 FCD domain; Region: FCD; pfam07729 350054001268 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 350054001269 ATP-binding site [chemical binding]; other site 350054001270 Gluconate-6-phosphate binding site [chemical binding]; other site 350054001271 Shikimate kinase; Region: SKI; pfam01202 350054001272 fructuronate transporter; Provisional; Region: PRK10034; cl15264 350054001273 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 350054001274 Domain of unknown function (DUF1906); Region: DUF1906; pfam08924 350054001275 Alpha-tubulin suppressor and related RCC1 domain-containing proteins [Cell division and chromosome partitioning / Cytoskeleton]; Region: ATS1; COG5184 350054001276 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 350054001277 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 350054001278 Alpha-tubulin suppressor and related RCC1 domain-containing proteins [Cell division and chromosome partitioning / Cytoskeleton]; Region: ATS1; COG5184 350054001279 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 350054001280 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 350054001281 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 350054001282 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 350054001283 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 350054001284 Domain of unknown function (DUF4262); Region: DUF4262; pfam14081 350054001285 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_2; cd07819 350054001286 putative hydrophobic ligand binding site [chemical binding]; other site 350054001287 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 350054001288 Insertion element 4 transposase N-terminal; Region: Nterm_IS4; pfam13006 350054001289 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 350054001290 Predicted O-methyltransferase [General function prediction only]; Region: COG4122 350054001291 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 350054001292 S-adenosylmethionine binding site [chemical binding]; other site 350054001293 putative metallohydrolase, TIGR04338 family; Region: HEXXH_Rv0185 350054001294 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 350054001295 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 350054001296 RNA polymerase factor sigma-70; Validated; Region: PRK08241 350054001297 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 350054001298 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 350054001299 DNA binding residues [nucleotide binding] 350054001300 SnoaL-like domain; Region: SnoaL_2; pfam12680 350054001301 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 350054001302 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 350054001303 putative DNA binding site [nucleotide binding]; other site 350054001304 putative Zn2+ binding site [ion binding]; other site 350054001305 Protein of unknown function (DUF732); Region: DUF732; pfam05305 350054001306 Cupin domain; Region: Cupin_2; pfam07883 350054001307 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 350054001308 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 350054001309 Coenzyme A transferase; Region: CoA_trans; cl17247 350054001310 Coenzyme A transferase; Region: CoA_trans; cl17247 350054001311 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 350054001312 4-carboxymuconolactone decarboxylase; Region: decarb_PcaC; TIGR02425 350054001313 3-carboxy-cis,cis-muconate cycloisomerase; Region: protocat_pcaB; TIGR02426 350054001314 Lyase; Region: Lyase_1; pfam00206 350054001315 tetramer interface [polypeptide binding]; other site 350054001316 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 350054001317 active site 350054001318 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 350054001319 protocatechuate 3,4-dioxygenase, beta subunit; Region: protocat_beta; TIGR02422 350054001320 active site 350054001321 Transcriptional regulator [Transcription]; Region: IclR; COG1414 350054001322 Bacterial transcriptional regulator; Region: IclR; pfam01614 350054001323 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 350054001324 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 350054001325 active site 350054001326 inhibitor site; inhibition site 350054001327 dimer interface [polypeptide binding]; other site 350054001328 catalytic residue [active] 350054001329 2-dehydropantoate 2-reductase; Region: apbA_panE; TIGR00745 350054001330 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 350054001331 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 350054001332 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 350054001333 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 350054001334 Ring hydroxylating dioxygenase beta subunit. This subunit has a similar structure to NTF-2, Ketosteroid isomerase and scytalone dehydratase.The degradation of aromatic compounds by aerobic bacteria frequently begins with the dihydroxylation of the...; Region: ring_hydroxylating_dioxygenases_beta; cd00667 350054001335 inter-subunit interface; other site 350054001336 Rieske non-heme iron oxygenase (RO) family, Nathphalene 1,2-dioxygenase (NDO) subfamily, N-terminal Rieske domain of the oxygenase alpha subunit; ROs comprise a large class of aromatic ring-hydroxylating dioxygenases that enable microorganisms to...; Region: Rieske_RO_Alpha_NDO; cd03535 350054001337 alpha subunit interaction site [polypeptide binding]; other site 350054001338 beta subunit interaction site [polypeptide binding]; other site 350054001339 iron-sulfur cluster [ion binding]; other site 350054001340 C-terminal catalytic domain of the oxygenase alpha subunit of naphthalene 1,2-dioxygenase (NDO) and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_NDO-like; cd08881 350054001341 beta subunit interface [polypeptide binding]; other site 350054001342 alpha subunit interface [polypeptide binding]; other site 350054001343 active site 350054001344 substrate binding site [chemical binding]; other site 350054001345 Fe binding site [ion binding]; other site 350054001346 2,3-dihydroxybiphenyl 1,2-dioxygenase; Region: 23dbph12diox; TIGR03213 350054001347 N-terminal domain of 2,3-dihydroxybiphenyl 1,2-dioxygenase (BphC, EC 1.13.11.39) 1 from Rhodococcus globerulus P6 (BphC1-RGP6) and similar proteins; Region: BphC1-RGP6_N_like; cd07252 350054001348 C-terminal domain of 2,3-dihydroxybiphenyl 1,2-dioxygenase (BphC, EC 1.13.11.39) 1 from Rhodococcus globerulus P6 (BphC1-RGP6) and similar proteins; Region: BphC1-RGP6_C_like; cd07237 350054001349 active site 350054001350 Fe binding site [ion binding]; other site 350054001351 2,3-dihydroxy-2,3-dihydrophenylpropionate dehydrogenase; Provisional; Region: PRK06200 350054001352 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 350054001353 NAD(P) binding site [chemical binding]; other site 350054001354 active site 350054001355 Class II Aldolase and Adducin N-terminal domain; Region: Aldolase_II; pfam00596 350054001356 intersubunit interface [polypeptide binding]; other site 350054001357 active site 350054001358 Zn2+ binding site [ion binding]; other site 350054001359 Subunit B of Class III Extradiol ring-cleavage dioxygenases; Region: Extradiol_Dioxygenase_3B_like; cl00599 350054001360 active site 350054001361 metal binding site [ion binding]; metal-binding site 350054001362 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 350054001363 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 350054001364 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 350054001365 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 350054001366 Ring hydroxylating dioxygenase beta subunit. This subunit has a similar structure to NTF-2, Ketosteroid isomerase and scytalone dehydratase.The degradation of aromatic compounds by aerobic bacteria frequently begins with the dihydroxylation of the...; Region: ring_hydroxylating_dioxygenases_beta; cd00667 350054001367 inter-subunit interface; other site 350054001368 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 350054001369 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 350054001370 iron-sulfur cluster [ion binding]; other site 350054001371 [2Fe-2S] cluster binding site [ion binding]; other site 350054001372 C-terminal catalytic domain of the oxygenase alpha subunit of naphthalene 1,2-dioxygenase (NDO) and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_NDO-like; cd08881 350054001373 beta subunit interface [polypeptide binding]; other site 350054001374 alpha subunit interface [polypeptide binding]; other site 350054001375 active site 350054001376 substrate binding site [chemical binding]; other site 350054001377 Fe binding site [ion binding]; other site 350054001378 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 350054001379 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 350054001380 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 350054001381 MarR family; Region: MarR; pfam01047 350054001382 MarR family; Region: MarR_2; cl17246 350054001383 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 350054001384 Cupin domain; Region: Cupin_2; pfam07883 350054001385 Ring hydroxylating dioxygenase beta subunit. This subunit has a similar structure to NTF-2, Ketosteroid isomerase and scytalone dehydratase.The degradation of aromatic compounds by aerobic bacteria frequently begins with the dihydroxylation of the...; Region: ring_hydroxylating_dioxygenases_beta; cd00667 350054001386 inter-subunit interface; other site 350054001387 anthranilate 1,2-dioxygenase, large subunit; Region: anthran_1_2_A; TIGR03228 350054001388 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 350054001389 iron-sulfur cluster [ion binding]; other site 350054001390 [2Fe-2S] cluster binding site [ion binding]; other site 350054001391 C-terminal catalytic domain of the oxygenase alpha subunit of naphthalene 1,2-dioxygenase (NDO) and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_NDO-like; cd08881 350054001392 beta subunit interface [polypeptide binding]; other site 350054001393 alpha subunit interface [polypeptide binding]; other site 350054001394 active site 350054001395 substrate binding site [chemical binding]; other site 350054001396 Fe binding site [ion binding]; other site 350054001397 Ferredoxin [Energy production and conversion]; Region: Fer; COG1141 350054001398 Protein of unknown function (DUF1271); Region: DUF1271; cl01443 350054001399 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 350054001400 Rubredoxin-like zinc ribbon domain (DUF35_N); Region: DUF35_N; pfam12172 350054001401 DUF35 OB-fold domain; Region: DUF35; pfam01796 350054001402 lipid-transfer protein; Provisional; Region: PRK07855 350054001403 Thiolase domain associated with sterol carrier protein (SCP)-x isoform and related proteins; SCP-2 has multiple roles in intracellular lipid circulation and metabolism. The N-terminal presequence in the SCP-x isoform represents a peroxisomal...; Region: SCP-x_thiolase; cd00829 350054001404 active site 350054001405 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 350054001406 CoA-transferase family III; Region: CoA_transf_3; pfam02515 350054001407 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 350054001408 (2R,3R)-2,3-butanediol dehydrogenase; Region: butanediol_DH_like; cd08233 350054001409 putative NAD(P) binding site [chemical binding]; other site 350054001410 catalytic Zn binding site [ion binding]; other site 350054001411 Ring hydroxylating dioxygenase beta subunit. This subunit has a similar structure to NTF-2, Ketosteroid isomerase and scytalone dehydratase.The degradation of aromatic compounds by aerobic bacteria frequently begins with the dihydroxylation of the...; Region: ring_hydroxylating_dioxygenases_beta; cd00667 350054001412 inter-subunit interface; other site 350054001413 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 350054001414 Rieske non-heme iron oxygenase (RO) family, Nathphalene 1,2-dioxygenase (NDO) subfamily, N-terminal Rieske domain of the oxygenase alpha subunit; ROs comprise a large class of aromatic ring-hydroxylating dioxygenases that enable microorganisms to...; Region: Rieske_RO_Alpha_NDO; cd03535 350054001415 alpha subunit interaction site [polypeptide binding]; other site 350054001416 beta subunit interaction site [polypeptide binding]; other site 350054001417 iron-sulfur cluster [ion binding]; other site 350054001418 C-terminal catalytic domain of the oxygenase alpha subunit of naphthalene 1,2-dioxygenase (NDO) and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_NDO-like; cd08881 350054001419 beta subunit interface [polypeptide binding]; other site 350054001420 alpha subunit interface [polypeptide binding]; other site 350054001421 active site 350054001422 substrate binding site [chemical binding]; other site 350054001423 Fe binding site [ion binding]; other site 350054001424 HTH-like domain; Region: HTH_21; pfam13276 350054001425 Integrase core domain; Region: rve; pfam00665 350054001426 Integrase core domain; Region: rve_3; pfam13683 350054001427 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 350054001428 Transposase; Region: HTH_Tnp_1; pfam01527 350054001429 Epoxide hydrolase N terminus; Region: EHN; pfam06441 350054001430 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 350054001431 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 350054001432 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 350054001433 Rieske non-heme iron oxygenase (RO) family, N-terminal Rieske domain of the oxygenase alpha subunit; The RO family comprise a large class of aromatic ring-hydroxylating dioxygenases found predominantly in microorganisms. These enzymes enable...; Region: Rieske_RO_Alpha_N; cd03469 350054001434 [2Fe-2S] cluster binding site [ion binding]; other site 350054001435 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 350054001436 hydrophobic ligand binding site; other site 350054001437 VPS10 domain; Region: VPS10; smart00602 350054001438 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 350054001439 (2R,3R)-2,3-butanediol dehydrogenase; Region: butanediol_DH_like; cd08233 350054001440 putative NAD(P) binding site [chemical binding]; other site 350054001441 catalytic Zn binding site [ion binding]; other site 350054001442 short chain dehydrogenase; Provisional; Region: PRK06138 350054001443 classical (c) SDRs; Region: SDR_c; cd05233 350054001444 NAD(P) binding site [chemical binding]; other site 350054001445 active site 350054001446 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 350054001447 Rieske non-heme iron oxygenase (RO) family, Nathphalene 1,2-dioxygenase (NDO) subfamily, N-terminal Rieske domain of the oxygenase alpha subunit; ROs comprise a large class of aromatic ring-hydroxylating dioxygenases that enable microorganisms to...; Region: Rieske_RO_Alpha_NDO; cd03535 350054001448 alpha subunit interaction site [polypeptide binding]; other site 350054001449 beta subunit interaction site [polypeptide binding]; other site 350054001450 iron-sulfur cluster [ion binding]; other site 350054001451 C-terminal catalytic domain of the oxygenase alpha subunit of naphthalene 1,2-dioxygenase (NDO) and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_NDO-like; cd08881 350054001452 beta subunit interface [polypeptide binding]; other site 350054001453 alpha subunit interface [polypeptide binding]; other site 350054001454 active site 350054001455 substrate binding site [chemical binding]; other site 350054001456 Fe binding site [ion binding]; other site 350054001457 Ring hydroxylating dioxygenase beta subunit. This subunit has a similar structure to NTF-2, Ketosteroid isomerase and scytalone dehydratase.The degradation of aromatic compounds by aerobic bacteria frequently begins with the dihydroxylation of the...; Region: ring_hydroxylating_dioxygenases_beta; cd00667 350054001458 inter-subunit interface; other site 350054001459 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 350054001460 Streptomyces aureofaciens putative aldehyde dehydrogenase AldA (AAD23400)-like; Region: ALDH_AldA-AAD23400; cd07106 350054001461 NAD(P) binding site [chemical binding]; other site 350054001462 catalytic residues [active] 350054001463 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 350054001464 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 350054001465 Succinate dehydrogenase/fumarate reductase, flavoprotein subunit [Energy production and conversion]; Region: SdhA; COG1053 350054001466 L-aspartate oxidase; Provisional; Region: PRK06175 350054001467 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 350054001468 Ring hydroxylating dioxygenase beta subunit. This subunit has a similar structure to NTF-2, Ketosteroid isomerase and scytalone dehydratase.The degradation of aromatic compounds by aerobic bacteria frequently begins with the dihydroxylation of the...; Region: ring_hydroxylating_dioxygenases_beta; cd00667 350054001469 inter-subunit interface; other site 350054001470 putative transposase OrfB; Reviewed; Region: PHA02517 350054001471 HTH-like domain; Region: HTH_21; pfam13276 350054001472 Integrase core domain; Region: rve; pfam00665 350054001473 Integrase core domain; Region: rve_3; pfam13683 350054001474 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 350054001475 Transposase; Region: HTH_Tnp_1; pfam01527 350054001476 HTH-like domain; Region: HTH_21; pfam13276 350054001477 Integrase core domain; Region: rve; pfam00665 350054001478 Integrase core domain; Region: rve_3; pfam13683 350054001479 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 350054001480 Transposase; Region: HTH_Tnp_1; pfam01527 350054001481 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 350054001482 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 350054001483 Walker A motif; other site 350054001484 ATP binding site [chemical binding]; other site 350054001485 Walker B motif; other site 350054001486 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 350054001487 Cro/C1-type HTH DNA-binding domain; Region: HTH_26; pfam13443 350054001488 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 350054001489 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 350054001490 active site 350054001491 catalytic residues [active] 350054001492 DNA binding site [nucleotide binding] 350054001493 Int/Topo IB signature motif; other site 350054001494 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl17189 350054001495 Class I aldolases; Region: Aldolase_Class_I; cl17187 350054001496 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 350054001497 catalytic residue [active] 350054001498 SCP-2 sterol transfer family; Region: SCP2; pfam02036 350054001499 2,3-dihydroxybiphenyl 1,2-dioxygenase; Region: 23dbph12diox; TIGR03213 350054001500 N-terminal domain of 2,3-dihydroxybiphenyl 1,2-dioxygenase (BphC, EC 1.13.11.39) 1 from Rhodococcus globerulus P6 (BphC1-RGP6) and similar proteins; Region: BphC1-RGP6_N_like; cd07252 350054001501 C-terminal domain of 2,3-dihydroxybiphenyl 1,2-dioxygenase (BphC, EC 1.13.11.39) 1 from Rhodococcus globerulus P6 (BphC1-RGP6) and similar proteins; Region: BphC1-RGP6_C_like; cd07237 350054001502 active site 350054001503 Fe binding site [ion binding]; other site 350054001504 Trans-o-hydroxybenzylidenepyruvate hydratase-aldolase (HBPHA) and trans-2'-carboxybenzalpyruvate hydratase-aldolase (CBPHA); Region: CHBPH_aldolase; cd00952 350054001505 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 350054001506 putative active site [active] 350054001507 catalytic residue [active] 350054001508 gentisate 1,2-dioxygenase; Region: gentisate_1_2; TIGR02272 350054001509 Cupin domain; Region: Cupin_2; pfam07883 350054001510 Cupin domain; Region: Cupin_2; pfam07883 350054001511 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 350054001512 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 350054001513 Protein of unknown function (DUF1271); Region: DUF1271; cl01443 350054001514 4Fe-4S single cluster domain; Region: Fer4_15; pfam13459 350054001515 2,3-dihydroxy-2,3-dihydrophenylpropionate dehydrogenase; Provisional; Region: PRK06200 350054001516 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 350054001517 NAD(P) binding site [chemical binding]; other site 350054001518 active site 350054001519 Ring hydroxylating dioxygenase beta subunit. This subunit has a similar structure to NTF-2, Ketosteroid isomerase and scytalone dehydratase.The degradation of aromatic compounds by aerobic bacteria frequently begins with the dihydroxylation of the...; Region: ring_hydroxylating_dioxygenases_beta; cd00667 350054001520 inter-subunit interface; other site 350054001521 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 350054001522 iron-sulfur cluster [ion binding]; other site 350054001523 [2Fe-2S] cluster binding site [ion binding]; other site 350054001524 C-terminal catalytic domain of the oxygenase alpha subunit of naphthalene 1,2-dioxygenase (NDO) and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_NDO-like; cd08881 350054001525 beta subunit interface [polypeptide binding]; other site 350054001526 alpha subunit interface [polypeptide binding]; other site 350054001527 active site 350054001528 substrate binding site [chemical binding]; other site 350054001529 Fe binding site [ion binding]; other site 350054001530 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 350054001531 Transcriptional regulator [Transcription]; Region: IclR; COG1414 350054001532 Bacterial transcriptional regulator; Region: IclR; pfam01614 350054001533 Integrase core domain; Region: rve; pfam00665 350054001534 Integrase core domain; Region: rve_3; cl15866 350054001535 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 350054001536 HTH-like domain; Region: HTH_21; pfam13276 350054001537 Integrase core domain; Region: rve; pfam00665 350054001538 Transposase; Region: HTH_Tnp_1; cl17663 350054001539 Transposase; Region: HTH_Tnp_1; pfam01527 350054001540 putative transposase OrfB; Reviewed; Region: PHA02517 350054001541 HTH-like domain; Region: HTH_21; pfam13276 350054001542 Integrase core domain; Region: rve; pfam00665 350054001543 Integrase core domain; Region: rve_3; pfam13683 350054001544 Integrase core domain; Region: rve; pfam00665 350054001545 Integrase core domain; Region: rve_3; cl15866 350054001546 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 350054001547 dimerization interface [polypeptide binding]; other site 350054001548 putative DNA binding site [nucleotide binding]; other site 350054001549 putative Zn2+ binding site [ion binding]; other site 350054001550 heavy metal-(Cd/Co/Hg/Pb/Zn)-translocating P-type ATPase; Region: ATPase-IB2_Cd; TIGR01512 350054001551 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 350054001552 Soluble P-type ATPase [General function prediction only]; Region: COG4087 350054001553 Predicted permease, cadmium resistance protein [Inorganic ion transport and metabolism]; Region: CadD; COG4300 350054001554 HTH-like domain; Region: HTH_21; pfam13276 350054001555 Integrase core domain; Region: rve; pfam00665 350054001556 Integrase core domain; Region: rve_3; pfam13683 350054001557 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 350054001558 Transposase; Region: HTH_Tnp_1; pfam01527 350054001559 Cadmium resistance transporter; Region: Cad; pfam03596 350054001560 TniQ; Region: TniQ; pfam06527 350054001561 AAA domain; Region: AAA_22; pfam13401 350054001562 Bacterial TniB protein; Region: TniB; pfam05621 350054001563 Integrase core domain; Region: rve; pfam00665 350054001564 Mu transposase, C-terminal; Region: Mu-transpos_C; pfam09299 350054001565 putative transposase OrfB; Reviewed; Region: PHA02517 350054001566 Integrase core domain; Region: rve; pfam00665 350054001567 N-terminal domain of 2,3-dihydroxybiphenyl 1,2-dioxygenase (BphC, EC 1.13.11.39) 1 from Rhodococcus globerulus P6 (BphC1-RGP6) and similar proteins; Region: BphC1-RGP6_N_like; cd07252 350054001568 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 350054001569 Transposase; Region: HTH_Tnp_1; pfam01527 350054001570 putative transposase OrfB; Reviewed; Region: PHA02517 350054001571 HTH-like domain; Region: HTH_21; pfam13276 350054001572 Integrase core domain; Region: rve; pfam00665 350054001573 Integrase core domain; Region: rve_3; pfam13683 350054001574 2,3-dihydroxy-2,3-dihydrophenylpropionate dehydrogenase; Provisional; Region: PRK06200 350054001575 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 350054001576 NAD(P) binding site [chemical binding]; other site 350054001577 active site 350054001578 Class II Aldolase and Adducin N-terminal domain; Region: Aldolase_II; pfam00596 350054001579 intersubunit interface [polypeptide binding]; other site 350054001580 active site 350054001581 Zn2+ binding site [ion binding]; other site 350054001582 Subunit B of Class III Extradiol ring-cleavage dioxygenases; Region: Extradiol_Dioxygenase_3B_like; cl00599 350054001583 active site 350054001584 metal binding site [ion binding]; metal-binding site 350054001585 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 350054001586 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 350054001587 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 350054001588 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 350054001589 Ring hydroxylating dioxygenase beta subunit. This subunit has a similar structure to NTF-2, Ketosteroid isomerase and scytalone dehydratase.The degradation of aromatic compounds by aerobic bacteria frequently begins with the dihydroxylation of the...; Region: ring_hydroxylating_dioxygenases_beta; cd00667 350054001590 inter-subunit interface; other site 350054001591 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 350054001592 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 350054001593 iron-sulfur cluster [ion binding]; other site 350054001594 [2Fe-2S] cluster binding site [ion binding]; other site 350054001595 C-terminal catalytic domain of the oxygenase alpha subunit of naphthalene 1,2-dioxygenase (NDO) and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_NDO-like; cd08881 350054001596 beta subunit interface [polypeptide binding]; other site 350054001597 alpha subunit interface [polypeptide binding]; other site 350054001598 active site 350054001599 substrate binding site [chemical binding]; other site 350054001600 Fe binding site [ion binding]; other site 350054001601 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 350054001602 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 350054001603 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 350054001604 MarR family; Region: MarR; pfam01047 350054001605 MarR family; Region: MarR_2; cl17246 350054001606 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 350054001607 Cupin domain; Region: Cupin_2; pfam07883 350054001608 Ring hydroxylating dioxygenase beta subunit. This subunit has a similar structure to NTF-2, Ketosteroid isomerase and scytalone dehydratase.The degradation of aromatic compounds by aerobic bacteria frequently begins with the dihydroxylation of the...; Region: ring_hydroxylating_dioxygenases_beta; cd00667 350054001609 inter-subunit interface; other site 350054001610 anthranilate 1,2-dioxygenase, large subunit; Region: anthran_1_2_A; TIGR03228 350054001611 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 350054001612 iron-sulfur cluster [ion binding]; other site 350054001613 [2Fe-2S] cluster binding site [ion binding]; other site 350054001614 C-terminal catalytic domain of the oxygenase alpha subunit of naphthalene 1,2-dioxygenase (NDO) and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_NDO-like; cd08881 350054001615 beta subunit interface [polypeptide binding]; other site 350054001616 alpha subunit interface [polypeptide binding]; other site 350054001617 active site 350054001618 substrate binding site [chemical binding]; other site 350054001619 Fe binding site [ion binding]; other site 350054001620 Ferredoxin [Energy production and conversion]; Region: Fer; COG1141 350054001621 Protein of unknown function (DUF1271); Region: DUF1271; cl01443 350054001622 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 350054001623 Rubredoxin-like zinc ribbon domain (DUF35_N); Region: DUF35_N; pfam12172 350054001624 DUF35 OB-fold domain; Region: DUF35; pfam01796 350054001625 lipid-transfer protein; Provisional; Region: PRK07855 350054001626 Thiolase domain associated with sterol carrier protein (SCP)-x isoform and related proteins; SCP-2 has multiple roles in intracellular lipid circulation and metabolism. The N-terminal presequence in the SCP-x isoform represents a peroxisomal...; Region: SCP-x_thiolase; cd00829 350054001627 active site 350054001628 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 350054001629 CoA-transferase family III; Region: CoA_transf_3; pfam02515 350054001630 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 350054001631 (2R,3R)-2,3-butanediol dehydrogenase; Region: butanediol_DH_like; cd08233 350054001632 putative NAD(P) binding site [chemical binding]; other site 350054001633 catalytic Zn binding site [ion binding]; other site 350054001634 Ring hydroxylating dioxygenase beta subunit. This subunit has a similar structure to NTF-2, Ketosteroid isomerase and scytalone dehydratase.The degradation of aromatic compounds by aerobic bacteria frequently begins with the dihydroxylation of the...; Region: ring_hydroxylating_dioxygenases_beta; cd00667 350054001635 inter-subunit interface; other site 350054001636 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 350054001637 Rieske non-heme iron oxygenase (RO) family, Nathphalene 1,2-dioxygenase (NDO) subfamily, N-terminal Rieske domain of the oxygenase alpha subunit; ROs comprise a large class of aromatic ring-hydroxylating dioxygenases that enable microorganisms to...; Region: Rieske_RO_Alpha_NDO; cd03535 350054001638 alpha subunit interaction site [polypeptide binding]; other site 350054001639 beta subunit interaction site [polypeptide binding]; other site 350054001640 iron-sulfur cluster [ion binding]; other site 350054001641 C-terminal catalytic domain of the oxygenase alpha subunit of naphthalene 1,2-dioxygenase (NDO) and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_NDO-like; cd08881 350054001642 beta subunit interface [polypeptide binding]; other site 350054001643 alpha subunit interface [polypeptide binding]; other site 350054001644 active site 350054001645 substrate binding site [chemical binding]; other site 350054001646 Fe binding site [ion binding]; other site 350054001647 MarR family; Region: MarR; pfam01047 350054001648 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 350054001649 Major Facilitator Superfamily; Region: MFS_1; pfam07690 350054001650 putative substrate translocation pore; other site 350054001651 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cl17904 350054001652 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 350054001653 Nocardioides 2-carboxybenzaldehyde dehydrogenase, PhdK-like; Region: ALDH_PhdK-like; cd07107 350054001654 NAD(P) binding site [chemical binding]; other site 350054001655 catalytic residues [active] 350054001656 catalytic residues [active] 350054001657 Epoxide hydrolase N terminus; Region: EHN; pfam06441 350054001658 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 350054001659 virulence factor Mce family protein; Region: Mtu_fam_mce; TIGR00996 350054001660 mce related protein; Region: MCE; pfam02470 350054001661 virulence factor Mce family protein; Region: Mtu_fam_mce; TIGR00996 350054001662 mce related protein; Region: MCE; pfam02470 350054001663 Protein of unknown function (DUF3407); Region: DUF3407; pfam11887 350054001664 virulence factor Mce family protein; Region: Mtu_fam_mce; TIGR00996 350054001665 mce related protein; Region: MCE; pfam02470 350054001666 Protein of unknown function (DUF3407); Region: DUF3407; pfam11887 350054001667 virulence factor Mce family protein; Region: Mtu_fam_mce; TIGR00996 350054001668 mce related protein; Region: MCE; pfam02470 350054001669 virulence factor Mce family protein; Region: Mtu_fam_mce; TIGR00996 350054001670 mce related protein; Region: MCE; pfam02470 350054001671 Protein of unknown function (DUF3407); Region: DUF3407; pfam11887 350054001672 virulence factor Mce family protein; Region: Mtu_fam_mce; TIGR00996 350054001673 mce related protein; Region: MCE; pfam02470 350054001674 Protein of unknown function (DUF3407); Region: DUF3407; pfam11887 350054001675 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 350054001676 Permease; Region: Permease; pfam02405 350054001677 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 350054001678 Permease; Region: Permease; pfam02405 350054001679 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 350054001680 active site 350054001681 SCP-2 sterol transfer family; Region: SCP2; pfam02036 350054001682 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 350054001683 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 350054001684 Rieske non-heme iron oxygenase (RO) family, N-terminal Rieske domain of the oxygenase alpha subunit; The RO family comprise a large class of aromatic ring-hydroxylating dioxygenases found predominantly in microorganisms. These enzymes enable...; Region: Rieske_RO_Alpha_N; cd03469 350054001685 [2Fe-2S] cluster binding site [ion binding]; other site 350054001686 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 350054001687 hydrophobic ligand binding site; other site 350054001688 VPS10 domain; Region: VPS10; smart00602 350054001689 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 350054001690 (2R,3R)-2,3-butanediol dehydrogenase; Region: butanediol_DH_like; cd08233 350054001691 putative NAD(P) binding site [chemical binding]; other site 350054001692 catalytic Zn binding site [ion binding]; other site 350054001693 short chain dehydrogenase; Provisional; Region: PRK06138 350054001694 classical (c) SDRs; Region: SDR_c; cd05233 350054001695 NAD(P) binding site [chemical binding]; other site 350054001696 active site 350054001697 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 350054001698 Rieske non-heme iron oxygenase (RO) family, Nathphalene 1,2-dioxygenase (NDO) subfamily, N-terminal Rieske domain of the oxygenase alpha subunit; ROs comprise a large class of aromatic ring-hydroxylating dioxygenases that enable microorganisms to...; Region: Rieske_RO_Alpha_NDO; cd03535 350054001699 alpha subunit interaction site [polypeptide binding]; other site 350054001700 beta subunit interaction site [polypeptide binding]; other site 350054001701 iron-sulfur cluster [ion binding]; other site 350054001702 C-terminal catalytic domain of the oxygenase alpha subunit of naphthalene 1,2-dioxygenase (NDO) and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_NDO-like; cd08881 350054001703 beta subunit interface [polypeptide binding]; other site 350054001704 alpha subunit interface [polypeptide binding]; other site 350054001705 active site 350054001706 substrate binding site [chemical binding]; other site 350054001707 Fe binding site [ion binding]; other site 350054001708 Ring hydroxylating dioxygenase beta subunit. This subunit has a similar structure to NTF-2, Ketosteroid isomerase and scytalone dehydratase.The degradation of aromatic compounds by aerobic bacteria frequently begins with the dihydroxylation of the...; Region: ring_hydroxylating_dioxygenases_beta; cd00667 350054001709 inter-subunit interface; other site 350054001710 putative transposase OrfB; Reviewed; Region: PHA02517 350054001711 HTH-like domain; Region: HTH_21; pfam13276 350054001712 Integrase core domain; Region: rve; pfam00665 350054001713 Integrase core domain; Region: rve_3; pfam13683 350054001714 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 350054001715 Streptomyces aureofaciens putative aldehyde dehydrogenase AldA (AAD23400)-like; Region: ALDH_AldA-AAD23400; cd07106 350054001716 NAD(P) binding site [chemical binding]; other site 350054001717 catalytic residues [active] 350054001718 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 350054001719 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 350054001720 Succinate dehydrogenase/fumarate reductase, flavoprotein subunit [Energy production and conversion]; Region: SdhA; COG1053 350054001721 L-aspartate oxidase; Provisional; Region: PRK06175 350054001722 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 350054001723 Ring hydroxylating dioxygenase beta subunit. This subunit has a similar structure to NTF-2, Ketosteroid isomerase and scytalone dehydratase.The degradation of aromatic compounds by aerobic bacteria frequently begins with the dihydroxylation of the...; Region: ring_hydroxylating_dioxygenases_beta; cd00667 350054001724 inter-subunit interface; other site 350054001725 Class I aldolases; Region: Aldolase_Class_I; cl17187 350054001726 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 350054001727 catalytic residue [active] 350054001728 SCP-2 sterol transfer family; Region: SCP2; pfam02036 350054001729 2,3-dihydroxybiphenyl 1,2-dioxygenase; Region: 23dbph12diox; TIGR03213 350054001730 N-terminal domain of 2,3-dihydroxybiphenyl 1,2-dioxygenase (BphC, EC 1.13.11.39) 1 from Rhodococcus globerulus P6 (BphC1-RGP6) and similar proteins; Region: BphC1-RGP6_N_like; cd07252 350054001731 C-terminal domain of 2,3-dihydroxybiphenyl 1,2-dioxygenase (BphC, EC 1.13.11.39) 1 from Rhodococcus globerulus P6 (BphC1-RGP6) and similar proteins; Region: BphC1-RGP6_C_like; cd07237 350054001732 active site 350054001733 Fe binding site [ion binding]; other site 350054001734 Trans-o-hydroxybenzylidenepyruvate hydratase-aldolase (HBPHA) and trans-2'-carboxybenzalpyruvate hydratase-aldolase (CBPHA); Region: CHBPH_aldolase; cd00952 350054001735 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 350054001736 putative active site [active] 350054001737 catalytic residue [active] 350054001738 Gentisate 1,2-dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3435 350054001739 Cupin domain; Region: Cupin_2; cl17218 350054001740 Cupin domain; Region: Cupin_2; pfam07883 350054001741 Transposase, Mutator family; Region: Transposase_mut; pfam00872 350054001742 MULE transposase domain; Region: MULE; pfam10551 350054001743 Gentisate 1,2-dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3435 350054001744 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 350054001745 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 350054001746 Protein of unknown function (DUF1271); Region: DUF1271; cl01443 350054001747 4Fe-4S single cluster domain; Region: Fer4_15; pfam13459 350054001748 2,3-dihydroxy-2,3-dihydrophenylpropionate dehydrogenase; Provisional; Region: PRK06200 350054001749 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 350054001750 NAD(P) binding site [chemical binding]; other site 350054001751 active site 350054001752 Ring hydroxylating dioxygenase beta subunit. This subunit has a similar structure to NTF-2, Ketosteroid isomerase and scytalone dehydratase.The degradation of aromatic compounds by aerobic bacteria frequently begins with the dihydroxylation of the...; Region: ring_hydroxylating_dioxygenases_beta; cd00667 350054001753 inter-subunit interface; other site 350054001754 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 350054001755 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 350054001756 iron-sulfur cluster [ion binding]; other site 350054001757 [2Fe-2S] cluster binding site [ion binding]; other site 350054001758 C-terminal catalytic domain of the oxygenase alpha subunit of naphthalene 1,2-dioxygenase (NDO) and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_NDO-like; cd08881 350054001759 beta subunit interface [polypeptide binding]; other site 350054001760 alpha subunit interface [polypeptide binding]; other site 350054001761 active site 350054001762 substrate binding site [chemical binding]; other site 350054001763 Fe binding site [ion binding]; other site 350054001764 Transcriptional regulator [Transcription]; Region: IclR; COG1414 350054001765 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 350054001766 Bacterial transcriptional regulator; Region: IclR; pfam01614 350054001767 Transposase, Mutator family; Region: Transposase_mut; pfam00872 350054001768 MULE transposase domain; Region: MULE; pfam10551 350054001769 Transposase; Region: DEDD_Tnp_IS110; pfam01548 350054001770 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 350054001771 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 350054001772 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 350054001773 Helix-turn-helix domain; Region: HTH_38; pfam13936 350054001774 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl17189 350054001775 Pirin-related protein [General function prediction only]; Region: COG1741 350054001776 Pirin; Region: Pirin; pfam02678 350054001777 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 350054001778 Predicted periplasmic protein (DUF2233); Region: DUF2233; pfam09992 350054001779 Protein of unknown function (DUF2510); Region: DUF2510; pfam10708 350054001780 Transposase, Mutator family; Region: Transposase_mut; pfam00872 350054001781 MULE transposase domain; Region: MULE; pfam10551 350054001782 RDD family; Region: RDD; pfam06271 350054001783 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 350054001784 mce related protein; Region: MCE; pfam02470 350054001785 virulence factor Mce family protein; Region: Mtu_fam_mce; TIGR00996 350054001786 mce related protein; Region: MCE; pfam02470 350054001787 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 350054001788 mce related protein; Region: MCE; pfam02470 350054001789 Protein of unknown function (DUF3407); Region: DUF3407; pfam11887 350054001790 virulence factor Mce family protein; Region: Mtu_fam_mce; TIGR00996 350054001791 mce related protein; Region: MCE; pfam02470 350054001792 Bacterial protein of unknown function (DUF948); Region: DUF948; cl01972 350054001793 virulence factor Mce family protein; Region: Mtu_fam_mce; TIGR00996 350054001794 mce related protein; Region: MCE; pfam02470 350054001795 virulence factor Mce family protein; Region: Mtu_fam_mce; TIGR00996 350054001796 mce related protein; Region: MCE; pfam02470 350054001797 Protein of unknown function (DUF3407); Region: DUF3407; pfam11887 350054001798 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 350054001799 Permease; Region: Permease; pfam02405 350054001800 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 350054001801 Permease; Region: Permease; pfam02405 350054001802 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07786 350054001803 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 350054001804 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 350054001805 acyl-activating enzyme (AAE) consensus motif; other site 350054001806 acyl-activating enzyme (AAE) consensus motif; other site 350054001807 putative AMP binding site [chemical binding]; other site 350054001808 putative active site [active] 350054001809 putative CoA binding site [chemical binding]; other site 350054001810 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 350054001811 DNA-binding site [nucleotide binding]; DNA binding site 350054001812 phosphonate utilization associated transcriptional regulator; Region: phnR_burk; TIGR03338 350054001813 FCD domain; Region: FCD; pfam07729 350054001814 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_2; cd07819 350054001815 putative hydrophobic ligand binding site [chemical binding]; other site 350054001816 Protein of unknown function DUF72; Region: DUF72; pfam01904 350054001817 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 350054001818 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 350054001819 metal binding site [ion binding]; metal-binding site 350054001820 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 350054001821 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350054001822 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 350054001823 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 350054001824 Walker A/P-loop; other site 350054001825 ATP binding site [chemical binding]; other site 350054001826 Q-loop/lid; other site 350054001827 ABC transporter signature motif; other site 350054001828 Walker B; other site 350054001829 D-loop; other site 350054001830 H-loop/switch region; other site 350054001831 taurine ABC transporter, periplasmic binding protein; Region: taurine_ABC_bnd; TIGR01729 350054001832 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 350054001833 substrate binding pocket [chemical binding]; other site 350054001834 membrane-bound complex binding site; other site 350054001835 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 350054001836 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 350054001837 dimer interface [polypeptide binding]; other site 350054001838 conserved gate region; other site 350054001839 putative PBP binding loops; other site 350054001840 ABC-ATPase subunit interface; other site 350054001841 Benzyl alcohol dehydrogenase; Region: benzyl_alcohol_DH; cd08278 350054001842 Zn-dependent alcohol dehydrogenases, class III [Energy production and conversion]; Region: AdhC; COG1062 350054001843 catalytic Zn binding site [ion binding]; other site 350054001844 NAD binding site [chemical binding]; other site 350054001845 structural Zn binding site [ion binding]; other site 350054001846 NAD(P) transhydrogenase subunit alpha; Provisional; Region: pntA; PRK09424 350054001847 Rubrum transdehydrogenase NAD-binding and catalytic domains; Region: Rubrum_tdh; cd05304 350054001848 ligand binding site [chemical binding]; other site 350054001849 homodimer interface [polypeptide binding]; other site 350054001850 NAD(P) binding site [chemical binding]; other site 350054001851 trimer interface B [polypeptide binding]; other site 350054001852 trimer interface A [polypeptide binding]; other site 350054001853 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 350054001854 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 350054001855 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; cl00566 350054001856 Transposase domain (DUF772); Region: DUF772; pfam05598 350054001857 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 350054001858 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 350054001859 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 350054001860 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 350054001861 ATP binding site [chemical binding]; other site 350054001862 Mg2+ binding site [ion binding]; other site 350054001863 G-X-G motif; other site 350054001864 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 350054001865 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 350054001866 active site 350054001867 phosphorylation site [posttranslational modification] 350054001868 intermolecular recognition site; other site 350054001869 dimerization interface [polypeptide binding]; other site 350054001870 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 350054001871 DNA binding residues [nucleotide binding] 350054001872 dimerization interface [polypeptide binding]; other site 350054001873 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 350054001874 Helix-turn-helix domain; Region: HTH_18; pfam12833 350054001875 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 350054001876 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 350054001877 iron-sulfur cluster [ion binding]; other site 350054001878 [2Fe-2S] cluster binding site [ion binding]; other site 350054001879 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK06069 350054001880 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 350054001881 Acyl-CoA dehydrogenases similar to fadE2; Region: ACAD_FadE2; cd01155 350054001882 FAD binding site [chemical binding]; other site 350054001883 substrate binding site [chemical binding]; other site 350054001884 catalytic base [active] 350054001885 Tyrosine phosphatase family; Region: Y_phosphatase3; pfam13350 350054001886 Tyrosine phosphatase family C-terminal region; Region: Y_phosphatase3C; pfam13348 350054001887 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 350054001888 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 350054001889 PGAP1-like protein; Region: PGAP1; pfam07819 350054001890 Protein of unknown function (DUF456); Region: DUF456; pfam04306 350054001891 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 350054001892 S-adenosylmethionine binding site [chemical binding]; other site 350054001893 2-haloalkanoic acid dehalogenase, type II; Region: HAD_type_II; TIGR01428 350054001894 Haloacid dehalogenase superfamily, subfamily IA, variant 2 with 3rd motif like haloacid dehalogenase; Region: HAD-SF-IA-v2; TIGR01493 350054001895 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 350054001896 Quinone oxidoreductase (QOR); Region: QOR1; cd08241 350054001897 NAD(P) binding site [chemical binding]; other site 350054001898 short chain dehydrogenase; Provisional; Region: PRK07791 350054001899 (3R)-hydroxyacyl-CoA dehydrogenase-like, classical(c)-like SDRs; Region: hydroxyacyl-CoA-like_DH_SDR_c-like; cd05353 350054001900 NAD binding site [chemical binding]; other site 350054001901 homodimer interface [polypeptide binding]; other site 350054001902 active site 350054001903 aldehyde dehydrogenase family protein; Provisional; Region: PTZ00381 350054001904 ALDH subfamily: Coniferyl aldehyde dehydrogenase, ALDH families 3, 13, and 14, and other related proteins; Region: ALDH_F3-13-14_CALDH-like; cd07087 350054001905 NAD(P) binding site [chemical binding]; other site 350054001906 catalytic residues [active] 350054001907 O-Methyltransferase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3315 350054001908 methyltransferase, TIGR00027 family; Region: mthyl_TIGR00027 350054001909 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 350054001910 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350054001911 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 350054001912 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350054001913 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 350054001914 Pirin-related protein [General function prediction only]; Region: COG1741 350054001915 Pirin; Region: Pirin; pfam02678 350054001916 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 350054001917 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 350054001918 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 350054001919 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 350054001920 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 350054001921 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 350054001922 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 350054001923 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 350054001924 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 350054001925 1-phosphofructokinase (FruK), minor 6-phosphofructokinase (pfkB) and related sugar kinases. FruK plays an important role in the predominant pathway for fructose utilisation.This group also contains tagatose-6-phophate kinase, an enzyme of the tagatose...; Region: FruK_PfkB_like; cd01164 350054001926 putative substrate binding site [chemical binding]; other site 350054001927 putative ATP binding site [chemical binding]; other site 350054001928 PTS_IIA, PTS system, fructose/mannitol specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_fru; cd00211 350054001929 PTS system 2-O-a-mannosyl-D-glycerate specific transporter subunit IIABC; Provisional; Region: PRK09765 350054001930 active site 350054001931 phosphorylation site [posttranslational modification] 350054001932 PTS_IIB_fructose: subunit IIB of enzyme II (EII) of the fructose-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII (also referred to as FruAB) is a fructose-specific permease made up of two proteins (FruA and...; Region: PTS_IIB_fructose; cd05569 350054001933 active site 350054001934 P-loop; other site 350054001935 phosphorylation site [posttranslational modification] 350054001936 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; COG1299 350054001937 Histidine-containing phosphocarrier protein (HPr)-like proteins. HPr is a central component of the bacterial phosphoenolpyruvate sugar phosphotransferase system (PTS). The PTS catalyses the phosphorylation of sugar substrates during their translocation...; Region: PTS-HPr_like; cd00367 350054001938 dimerization domain swap beta strand [polypeptide binding]; other site 350054001939 regulatory protein interface [polypeptide binding]; other site 350054001940 active site 350054001941 regulatory phosphorylation site [posttranslational modification]; other site 350054001942 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 350054001943 ThiC-associated domain; Region: ThiC-associated; pfam13667 350054001944 ThiC family; Region: ThiC; pfam01964 350054001945 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 350054001946 type VII secretion-associated serine protease mycosin; Region: T7SS_mycosin; TIGR03921 350054001947 active site 350054001948 catalytic residues [active] 350054001949 type VII secretion protein EccE; Region: T7SS_EccE; TIGR03923 350054001950 PPE family; Region: PPE; pfam00823 350054001951 YbaB/EbfC DNA-binding family; Region: YbaB_DNA_bd; pfam02575 350054001952 type VII secretion integral membrane protein EccD; Region: T7SS_EccD; TIGR03920 350054001953 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 350054001954 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 350054001955 P-loop; other site 350054001956 Magnesium ion binding site [ion binding]; other site 350054001957 Proteins of 100 residues with WXG; Region: WXG100; cl02005 350054001958 Proteins of 100 residues with WXG; Region: WXG100; pfam06013 350054001959 PPE-repeat proteins [Cell motility and secretion]; Region: COG5651 350054001960 PPE family; Region: PPE; pfam00823 350054001961 PE family; Region: PE; pfam00934 350054001962 type VII secretion protein EccCb; Region: T7SS_EccC_b; TIGR03925 350054001963 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 350054001964 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 350054001965 type VII secretion protein EccCa; Region: T7SS_EccC_a; TIGR03924 350054001966 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 350054001967 type VII secretion protein EccB, Actinobacterial; Region: T7SS_EccB; TIGR03919 350054001968 type VII secretion AAA-ATPase EccA; Region: T7SS_EccA; TIGR03922 350054001969 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 350054001970 Walker A motif; other site 350054001971 ATP binding site [chemical binding]; other site 350054001972 Walker B motif; other site 350054001973 arginine finger; other site 350054001974 EspG family; Region: ESX-1_EspG; pfam14011 350054001975 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 350054001976 Transcription factor WhiB; Region: Whib; pfam02467 350054001977 Uncharacterized conserved protein [Function unknown]; Region: COG3391 350054001978 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 350054001979 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 350054001980 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 350054001981 DivIVA domain; Region: DivI1A_domain; TIGR03544 350054001982 DivIVA domain; Region: DivI1A_domain; TIGR03544 350054001983 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 350054001984 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 350054001985 non-specific DNA binding site [nucleotide binding]; other site 350054001986 salt bridge; other site 350054001987 sequence-specific DNA binding site [nucleotide binding]; other site 350054001988 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 350054001989 active site 350054001990 hypothetical protein; Provisional; Region: PRK02268 350054001991 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4453 350054001992 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 350054001993 Coenzyme A binding pocket [chemical binding]; other site 350054001994 Pirin-related protein [General function prediction only]; Region: COG1741 350054001995 Pirin; Region: Pirin; pfam02678 350054001996 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 350054001997 Predicted acetyltransferase [General function prediction only]; Region: COG2388 350054001998 Thioesterase-like superfamily; Region: 4HBT_3; pfam13622 350054001999 PPOX class probable F420-dependent enzyme; Region: Rv1155_F420; TIGR03618 350054002000 Protein of unknown function (DUF3072); Region: DUF3072; pfam11272 350054002001 ChaB; Region: ChaB; pfam06150 350054002002 Catalytic domain of Helicobacter pylori peptidoglycan deacetylase (HpPgdA) and similar proteins; Region: CE4_HpPgdA_like; cd10938 350054002003 tetramer interface [polypeptide binding]; other site 350054002004 active site 350054002005 Agmatinase-like family includes proclavaminic acid amidinohydrolase; Region: Agmatinase_PAH; cd11592 350054002006 oligomer interface [polypeptide binding]; other site 350054002007 putative active site [active] 350054002008 Mn binding site [ion binding]; other site 350054002009 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK12825 350054002010 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 350054002011 NAD(P) binding site [chemical binding]; other site 350054002012 active site 350054002013 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 350054002014 classical (c) SDRs; Region: SDR_c; cd05233 350054002015 NAD(P) binding site [chemical binding]; other site 350054002016 active site 350054002017 permease, urea carboxylase system; Region: ureacarb_perm; TIGR03428 350054002018 Purine catabolism regulatory protein-like family; Region: PucR; pfam07905 350054002019 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 350054002020 Domain of unknown function (DUF4145); Region: DUF4145; pfam13643 350054002021 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: HsdR; COG4096 350054002022 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 350054002023 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 350054002024 ATP binding site [chemical binding]; other site 350054002025 putative Mg++ binding site [ion binding]; other site 350054002026 nucleotide binding region [chemical binding]; other site 350054002027 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 350054002028 ATP-binding site [chemical binding]; other site 350054002029 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 350054002030 EcoKI restriction-modification system protein HsdS; Provisional; Region: PRK09737 350054002031 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 350054002032 HsdM N-terminal domain; Region: HsdM_N; pfam12161 350054002033 Methyltransferase domain; Region: Methyltransf_26; pfam13659 350054002034 Protein of unknown function (DUF2662); Region: DUF3662; pfam12401 350054002035 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cd00060 350054002036 FOG: FHA domain [Signal transduction mechanisms]; Region: COG1716 350054002037 phosphopeptide binding site; other site 350054002038 FOG: FHA domain [Signal transduction mechanisms]; Region: COG1716 350054002039 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cd00060 350054002040 phosphopeptide binding site; other site 350054002041 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cd00143 350054002042 active site 350054002043 Bacterial cell division membrane protein [Cell division and chromosome partitioning]; Region: FtsW; COG0772 350054002044 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 350054002045 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 350054002046 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 350054002047 Catalytic domain of Protein Kinases; Region: PKc; cd00180 350054002048 active site 350054002049 ATP binding site [chemical binding]; other site 350054002050 substrate binding site [chemical binding]; other site 350054002051 activation loop (A-loop); other site 350054002052 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 350054002053 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 350054002054 active site 350054002055 ATP binding site [chemical binding]; other site 350054002056 substrate binding site [chemical binding]; other site 350054002057 activation loop (A-loop); other site 350054002058 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2815 350054002059 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 350054002060 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 350054002061 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 350054002062 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 350054002063 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 350054002064 Glutamine amidotransferase class-I; Region: GATase; pfam00117 350054002065 glutamine binding [chemical binding]; other site 350054002066 catalytic triad [active] 350054002067 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3879 350054002068 Bacterial protein of unknown function (DUF881); Region: DUF881; pfam05949 350054002069 putative septation inhibitor protein; Reviewed; Region: PRK00159 350054002070 Protein of unknown function (DUF2581); Region: DUF2581; pfam10756 350054002071 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 350054002072 active site 350054002073 Protein of unknown function (DUF2562); Region: DUF2562; pfam10814 350054002074 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 350054002075 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 350054002076 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 350054002077 Transmembrane domain of unknown function (DUF3566); Region: DUF3566; pfam12089 350054002078 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 350054002079 CAP-like domain; other site 350054002080 active site 350054002081 Hedgehog/Intein domain, found in Hedgehog proteins as well as proteins which contain inteins and undergo protein splicing (e.g. DnaB, RIR1-2, GyrA and Pol). In protein splicing an intervening polypeptide sequence - the intein - is excised from a protein; Region: Hint; cd00081 350054002082 protein-splicing catalytic site; other site 350054002083 thioester formation/cholesterol transfer; other site 350054002084 Intein/homing endonuclease [DNA replication, recombination, and repair]; Region: COG1372 350054002085 Hint (Hedgehog/Intein) domain C-terminal region; Region: HintC; smart00305 350054002086 DNA gyrase subunit A; Validated; Region: PRK05560 350054002087 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 350054002088 primary dimer interface [polypeptide binding]; other site 350054002089 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 350054002090 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 350054002091 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 350054002092 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 350054002093 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 350054002094 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 350054002095 DNA gyrase subunit B; Validated; Region: gyrB; PRK05644 350054002096 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 350054002097 Mg2+ binding site [ion binding]; other site 350054002098 G-X-G motif; other site 350054002099 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 350054002100 anchoring element; other site 350054002101 dimer interface [polypeptide binding]; other site 350054002102 ATP binding site [chemical binding]; other site 350054002103 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 350054002104 active site 350054002105 putative metal-binding site [ion binding]; other site 350054002106 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 350054002107 hypothetical protein; Provisional; Region: PRK03195 350054002108 recombination protein F; Reviewed; Region: recF; PRK00064 350054002109 ATP-binding cassette domain of RecF; Region: ABC_RecF; cd03242 350054002110 Walker A/P-loop; other site 350054002111 ATP binding site [chemical binding]; other site 350054002112 Q-loop/lid; other site 350054002113 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 350054002114 ABC transporter signature motif; other site 350054002115 Walker B; other site 350054002116 D-loop; other site 350054002117 H-loop/switch region; other site 350054002118 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 350054002119 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK12490 350054002120 DNA polymerase III subunit beta; Validated; Region: PRK07761 350054002121 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 350054002122 putative DNA binding surface [nucleotide binding]; other site 350054002123 dimer interface [polypeptide binding]; other site 350054002124 beta-clamp/clamp loader binding surface; other site 350054002125 beta-clamp/translesion DNA polymerase binding surface; other site 350054002126 chromosomal replication initiator protein DnaA; Region: DnaA; TIGR00362 350054002127 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 350054002128 Walker A motif; other site 350054002129 ATP binding site [chemical binding]; other site 350054002130 Walker B motif; other site 350054002131 arginine finger; other site 350054002132 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 350054002133 DnaA box-binding interface [nucleotide binding]; other site 350054002134 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399 350054002135 ribonuclease P; Reviewed; Region: rnpA; PRK00588 350054002136 Uncharacterized conserved protein [Function unknown]; Region: COG0759 350054002137 putative inner membrane protein translocase component YidC; Provisional; Region: PRK03449 350054002138 putative inner membrane protein translocase component YidC; Provisional; Region: PRK01315 350054002139 Predicted RNA-binding protein [General function prediction only]; Region: Jag; COG1847 350054002140 jag_K homology RNA-binding domain. The KH domain is found in proteins homologous to the Bacillus subtilis protein Jag, which is associated with SpoIIIJ and is necessary for the third stage of sporulation. The KH motif is a beta-alpha-alpha-beta-beta...; Region: jag_KH; cd02414 350054002141 G-X-X-G motif; other site 350054002142 R3H domain found in proteins homologous to Bacillus subtilus Jag, which is associated with SpoIIIJ. SpoIIIJ is necessary for the third stage of sporulation. The name of the R3H domain comes from the characteristic spacing of the most conserved arginine...; Region: R3H_jag; cd02644 350054002143 RxxxH motif; other site 350054002144 rRNA small subunit methyltransferase G; Region: GidB; pfam02527 350054002145 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 350054002146 S-adenosylmethionine binding site [chemical binding]; other site 350054002147 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 350054002148 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 350054002149 P-loop; other site 350054002150 Magnesium ion binding site [ion binding]; other site 350054002151 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 350054002152 Magnesium ion binding site [ion binding]; other site 350054002153 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 350054002154 ParB-like nuclease domain; Region: ParBc; pfam02195 350054002155 Putative peptidoglycan-binding domain-containing protein [Cell envelope biogenesis, outer membrane]; Region: COG3409 350054002156 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 350054002157 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 350054002158 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 350054002159 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 350054002160 active site 350054002161 metal binding site [ion binding]; metal-binding site 350054002162 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 350054002163 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 350054002164 catalytic residues [active] 350054002165 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 350054002166 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 350054002167 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 350054002168 RNA polymerase sigma factor SigM; Reviewed; Region: PRK09643 350054002169 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 350054002170 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 350054002171 DNA binding residues [nucleotide binding] 350054002172 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 350054002173 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 350054002174 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 350054002175 active site 350054002176 Ap6A binding site [chemical binding]; other site 350054002177 nudix motif; other site 350054002178 metal binding site [ion binding]; metal-binding site 350054002179 tRNA adenylyltransferase; Region: tRNA_CCA_actino; TIGR02692 350054002180 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 350054002181 active site 350054002182 NTP binding site [chemical binding]; other site 350054002183 metal binding triad [ion binding]; metal-binding site 350054002184 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 350054002185 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 350054002186 Zn2+ binding site [ion binding]; other site 350054002187 Mg2+ binding site [ion binding]; other site 350054002188 CHAP domain; Region: CHAP; cl17642 350054002189 TIGR03084 family protein; Region: TIGR03084 350054002190 Mycothiol maleylpyruvate isomerase N-terminal domain; Region: MDMPI_N; pfam11716 350054002191 Wyosine base formation; Region: Wyosine_form; pfam08608 350054002192 H+ Antiporter protein; Region: 2A0121; TIGR00900 350054002193 hypothetical protein; Validated; Region: PRK00228 350054002194 Probable lipoprotein LpqN; Region: Lpp-LpqN; pfam10738 350054002195 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 350054002196 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 350054002197 HIGH motif; other site 350054002198 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 350054002199 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 350054002200 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 350054002201 active site 350054002202 KMSKS motif; other site 350054002203 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 350054002204 tRNA binding surface [nucleotide binding]; other site 350054002205 short chain dehydrogenase; Provisional; Region: PRK08219 350054002206 classical (c) SDRs; Region: SDR_c; cd05233 350054002207 NAD(P) binding site [chemical binding]; other site 350054002208 active site 350054002209 Glycogen debranching enzyme [Carbohydrate transport and metabolism]; Region: GDB1; COG3408 350054002210 MarR family; Region: MarR; pfam01047 350054002211 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 350054002212 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 350054002213 Walker A/P-loop; other site 350054002214 ATP binding site [chemical binding]; other site 350054002215 Q-loop/lid; other site 350054002216 ABC transporter signature motif; other site 350054002217 Walker B; other site 350054002218 D-loop; other site 350054002219 H-loop/switch region; other site 350054002220 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 350054002221 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 350054002222 substrate binding pocket [chemical binding]; other site 350054002223 membrane-bound complex binding site; other site 350054002224 hinge residues; other site 350054002225 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 350054002226 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 350054002227 dimer interface [polypeptide binding]; other site 350054002228 conserved gate region; other site 350054002229 putative PBP binding loops; other site 350054002230 ABC-ATPase subunit interface; other site 350054002231 Transcriptional regulators [Transcription]; Region: GntR; COG1802 350054002232 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 350054002233 DNA-binding site [nucleotide binding]; DNA binding site 350054002234 probable F420-dependent oxidoreductase, MSMEG_2906 family; Region: F420_MSMEG_2906; TIGR03856 350054002235 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 350054002236 N5,N10-methylenetetrahydromethanopterin reductase (Mer) catalyzes the reduction of N5,N10-methylenetetrahydromethanopterin with reduced coenzyme F420 to N5-methyltetrahydromethanopterin and oxidized coenzyme F420; Region: Tetrahydromethanopterin_reductase; cd01097 350054002237 Predicted phosphatase [General function prediction only]; Region: PhoX; COG3211 350054002238 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 350054002239 hypothetical protein; Provisional; Region: PRK01346 350054002240 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 350054002241 Coenzyme A binding pocket [chemical binding]; other site 350054002242 Myo-inositol-1-phosphate synthase [Lipid metabolism]; Region: INO1; COG1260 350054002243 Myo-inositol-1-phosphate synthase; Region: NAD_binding_5; cl00554 350054002244 Predicted transcriptional regulators [Transcription]; Region: COG1695 350054002245 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 350054002246 Domain of unknown function (DUF1707); Region: DUF1707; pfam08044 350054002247 Transglycosylase; Region: Transgly; pfam00912 350054002248 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 350054002249 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 350054002250 Predicted integral membrane protein [Function unknown]; Region: COG5650 350054002251 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 350054002252 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 350054002253 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 350054002254 dimer interface [polypeptide binding]; other site 350054002255 ssDNA binding site [nucleotide binding]; other site 350054002256 tetramer (dimer of dimers) interface [polypeptide binding]; other site 350054002257 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 350054002258 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 350054002259 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 350054002260 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 350054002261 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 350054002262 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 350054002263 Walker A motif; other site 350054002264 Hint (Hedgehog/Intein) domain N-terminal region; Region: HintN; smart00306 350054002265 Hom_end-associated Hint; Region: Hom_end_hint; pfam05203 350054002266 DnaB-like helicase C terminal domain; Region: DnaB_C; pfam03796 350054002267 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 350054002268 Walker A motif; other site 350054002269 ATP binding site [chemical binding]; other site 350054002270 Walker B motif; other site 350054002271 DNA binding loops [nucleotide binding] 350054002272 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 350054002273 TniQ; Region: TniQ; pfam06527 350054002274 Helix-turn-helix domain; Region: HTH_28; pfam13518 350054002275 Integrase core domain; Region: rve; pfam00665 350054002276 Integrase core domain; Region: rve_3; cl15866 350054002277 AAA domain; Region: AAA_22; pfam13401 350054002278 TniQ; Region: TniQ; pfam06527 350054002279 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 350054002280 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 350054002281 non-specific DNA binding site [nucleotide binding]; other site 350054002282 salt bridge; other site 350054002283 sequence-specific DNA binding site [nucleotide binding]; other site 350054002284 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 350054002285 NlpC/P60 family; Region: NLPC_P60; pfam00877 350054002286 Transposase, Mutator family; Region: Transposase_mut; pfam00872 350054002287 MULE transposase domain; Region: MULE; pfam10551 350054002288 BNR repeat-like domain; Region: BNR_2; pfam13088 350054002289 Domain of unknown function (DUF305); Region: DUF305; pfam03713 350054002290 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 350054002291 dimerization interface [polypeptide binding]; other site 350054002292 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 350054002293 dimer interface [polypeptide binding]; other site 350054002294 phosphorylation site [posttranslational modification] 350054002295 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 350054002296 ATP binding site [chemical binding]; other site 350054002297 Mg2+ binding site [ion binding]; other site 350054002298 G-X-G motif; other site 350054002299 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 350054002300 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 350054002301 active site 350054002302 phosphorylation site [posttranslational modification] 350054002303 intermolecular recognition site; other site 350054002304 dimerization interface [polypeptide binding]; other site 350054002305 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 350054002306 DNA binding site [nucleotide binding] 350054002307 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 350054002308 NlpC/P60 family; Region: NLPC_P60; pfam00877 350054002309 Penicillinase repressor; Region: Pencillinase_R; cl17580 350054002310 Peptidase family M48; Region: Peptidase_M48; cl12018 350054002311 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 350054002312 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 350054002313 dimer interface [polypeptide binding]; other site 350054002314 pyridoxal 5'-phosphate binding site [chemical binding]; other site 350054002315 catalytic residue [active] 350054002316 multidrug resistance protein MdtH; Provisional; Region: PRK11646 350054002317 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 350054002318 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 350054002319 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 350054002320 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 350054002321 DNA binding site [nucleotide binding] 350054002322 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 350054002323 NlpC/P60 family; Region: NLPC_P60; pfam00877 350054002324 IgD-like repeat domain of mycobacterial L,D-transpeptidases; Region: LDT_IgD_like_1; cd13431 350054002325 IgD-like repeat domain of mycobacterial L,D-transpeptidases; Region: LDT_IgD_like_2; cd13432 350054002326 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 350054002327 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 350054002328 Protein of unknown function (DUF3703); Region: DUF3703; pfam12487 350054002329 heavy metal-(Cd/Co/Hg/Pb/Zn)-translocating P-type ATPase; Region: ATPase-IB2_Cd; TIGR01512 350054002330 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 350054002331 haloacid dehalogenase-like hydrolase; Region: HAD; pfam12710 350054002332 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 350054002333 putative Zn2+ binding site [ion binding]; other site 350054002334 putative DNA binding site [nucleotide binding]; other site 350054002335 Thioredoxin; Region: Thioredoxin_4; pfam13462 350054002336 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 350054002337 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 350054002338 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 350054002339 metal-binding site [ion binding] 350054002340 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 350054002341 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 350054002342 metal-binding site [ion binding] 350054002343 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 350054002344 Soluble P-type ATPase [General function prediction only]; Region: COG4087 350054002345 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 350054002346 Transcriptional regulators CsoR (copper-sensitive operon repressor), RcnR, and FrmR, and related domains; this domain superfamily was previously known as DUF156; Region: CsoR-like_DUF156; cd10148 350054002347 putative homotetramer interface [polypeptide binding]; other site 350054002348 putative homodimer interface [polypeptide binding]; other site 350054002349 putative allosteric switch controlling residues; other site 350054002350 putative metal binding site [ion binding]; other site 350054002351 putative homodimer-homodimer interface [polypeptide binding]; other site 350054002352 copper-(or silver)-translocating P-type ATPase; Region: ATPase-IB1_Cu; TIGR01511 350054002353 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 350054002354 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 350054002355 active site 350054002356 motif I; other site 350054002357 motif II; other site 350054002358 Protein of unknown function, DUF488; Region: DUF488; pfam04343 350054002359 SERine Proteinase INhibitors (serpins) exhibit conformational polymorphism shifting from native to cleaved, latent, delta, or polymorphic forms. Many serpins, such as antitrypsin and antichymotrypsin, function as serine protease inhibitors which regulate...; Region: SERPIN; cl00137 350054002360 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 350054002361 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350054002362 Uncharacterized conserved protein related to dihydrodipicolinate reductase [Function unknown]; Region: COG3804 350054002363 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 350054002364 short chain dehydrogenase; Provisional; Region: PRK07856 350054002365 classical (c) SDRs; Region: SDR_c; cd05233 350054002366 NAD(P) binding site [chemical binding]; other site 350054002367 active site 350054002368 Mycobacterium tuberculosis PIN domain family; Region: Mtu_PIN_fam; TIGR00028 350054002369 short chain dehydrogenase; Provisional; Region: PRK06180 350054002370 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 350054002371 NADP binding site [chemical binding]; other site 350054002372 active site 350054002373 steroid binding site; other site 350054002374 Helix-Turn-Helix DNA binding domain of the BmrR transcription regulator; Region: HTH_BmrR; cd01107 350054002375 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 350054002376 DNA binding residues [nucleotide binding] 350054002377 drug binding residues [chemical binding]; other site 350054002378 dimer interface [polypeptide binding]; other site 350054002379 Bacterial transcription activator, effector binding domain; Region: AraC_E_bind; smart00871 350054002380 Complex I intermediate-associated protein 30 (CIA30); Region: CIA30; pfam08547 350054002381 Domain of unknown function (DUF4174); Region: DUF4174; pfam13778 350054002382 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 350054002383 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 350054002384 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 350054002385 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 350054002386 P-aminobenzoate N-oxygenase AurF; Region: AurF; pfam11583 350054002387 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 350054002388 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 350054002389 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350054002390 WHG domain; Region: WHG; pfam13305 350054002391 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 350054002392 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 350054002393 active site 350054002394 catalytic tetrad [active] 350054002395 short chain dehydrogenase; Provisional; Region: PRK06523 350054002396 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 350054002397 NAD(P) binding site [chemical binding]; other site 350054002398 active site 350054002399 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 350054002400 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350054002401 acyltransferase, WS/DGAT/MGAT; Region: acyl_WS_DGAT; TIGR02946 350054002402 Domain of unknown function (DUF222); Region: DUF222; pfam02720 350054002403 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cd00085 350054002404 active site 350054002405 Uncharacterized protein conserved in bacteria (DUF2236); Region: DUF2236; pfam09995 350054002406 Survival protein SurE; Region: SurE; pfam01975 350054002407 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 350054002408 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 350054002409 substrate binding site [chemical binding]; other site 350054002410 ATP binding site [chemical binding]; other site 350054002411 lycopene cyclase family protein; Region: carotene-cycl; TIGR01790 350054002412 lycopene cyclase; Region: lycopene_cycl; TIGR01789 350054002413 Excinuclease ATPase subunit [DNA replication, recombination, and repair]; Region: UvrA; COG0178 350054002414 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 350054002415 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 350054002416 ABC transporter signature motif; other site 350054002417 Walker B; other site 350054002418 D-loop; other site 350054002419 H-loop/switch region; other site 350054002420 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 350054002421 Walker A/P-loop; other site 350054002422 ATP binding site [chemical binding]; other site 350054002423 Q-loop/lid; other site 350054002424 ABC transporter signature motif; other site 350054002425 Walker B; other site 350054002426 D-loop; other site 350054002427 H-loop/switch region; other site 350054002428 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 350054002429 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 350054002430 metabolite-proton symporter; Region: 2A0106; TIGR00883 350054002431 putative substrate translocation pore; other site 350054002432 Uncharacterized conserved protein [Function unknown]; Region: COG2966 350054002433 Protein of unknown function (DUF1212); Region: DUF1212; pfam06738 350054002434 Protein of unknown function (DUF3815); Region: DUF3815; cl01118 350054002435 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 350054002436 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 350054002437 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; smart00831 350054002438 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 350054002439 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 350054002440 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 350054002441 Soluble P-type ATPase [General function prediction only]; Region: COG4087 350054002442 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 350054002443 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 350054002444 FAD binding domain; Region: FAD_binding_4; pfam01565 350054002445 4Fe-4S dicluster domain; Region: Fer4_17; pfam13534 350054002446 sn-glycerol-3-phosphate dehydrogenase subunit C; Provisional; Region: glpC; PRK11168 350054002447 Transcriptional regulators [Transcription]; Region: GntR; COG1802 350054002448 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 350054002449 DNA-binding site [nucleotide binding]; DNA binding site 350054002450 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 350054002451 MarR family; Region: MarR; pfam01047 350054002452 Predicted membrane protein [Function unknown]; Region: COG4270 350054002453 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 350054002454 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 350054002455 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 350054002456 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350054002457 Domain of unknown function (DUF309); Region: DUF309; pfam03745 350054002458 CAAX protease self-immunity; Region: Abi; pfam02517 350054002459 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 350054002460 Histidine kinase; Region: HisKA_3; pfam07730 350054002461 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 350054002462 ATP binding site [chemical binding]; other site 350054002463 Mg2+ binding site [ion binding]; other site 350054002464 G-X-G motif; other site 350054002465 two component system sensor kinase SsrB; Provisional; Region: PRK15369 350054002466 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 350054002467 active site 350054002468 phosphorylation site [posttranslational modification] 350054002469 intermolecular recognition site; other site 350054002470 dimerization interface [polypeptide binding]; other site 350054002471 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 350054002472 DNA binding residues [nucleotide binding] 350054002473 hypothetical protein; Provisional; Region: PRK06547 350054002474 ABC-type cobalt transport system, permease component; Region: ABC_cobalt; pfam09819 350054002475 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 350054002476 cobalt transport protein ATP-binding subunit; Region: cbiO; TIGR01166 350054002477 Walker A/P-loop; other site 350054002478 ATP binding site [chemical binding]; other site 350054002479 Q-loop/lid; other site 350054002480 ABC transporter signature motif; other site 350054002481 Walker B; other site 350054002482 D-loop; other site 350054002483 H-loop/switch region; other site 350054002484 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 350054002485 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 350054002486 Walker A/P-loop; other site 350054002487 ATP binding site [chemical binding]; other site 350054002488 Q-loop/lid; other site 350054002489 ABC transporter signature motif; other site 350054002490 Walker B; other site 350054002491 D-loop; other site 350054002492 H-loop/switch region; other site 350054002493 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 350054002494 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350054002495 3-ketoacyl-(acyl-carrier-protein) reductase; Reviewed; Region: PRK12826 350054002496 classical (c) SDRs; Region: SDR_c; cd05233 350054002497 NAD(P) binding site [chemical binding]; other site 350054002498 active site 350054002499 Domain of unknown function (DUF202); Region: DUF202; cl09954 350054002500 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 350054002501 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 350054002502 active site residue [active] 350054002503 Domain of unknown function DUF302; Region: DUF302; pfam03625 350054002504 Transcriptional regulators CsoR (copper-sensitive operon repressor), RcnR, and FrmR, and related domains; this domain superfamily was previously known as DUF156; Region: CsoR-like_DUF156; cd10148 350054002505 putative homotetramer interface [polypeptide binding]; other site 350054002506 putative homodimer interface [polypeptide binding]; other site 350054002507 putative allosteric switch controlling residues; other site 350054002508 putative metal binding site [ion binding]; other site 350054002509 putative homodimer-homodimer interface [polypeptide binding]; other site 350054002510 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 350054002511 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 350054002512 active site residue [active] 350054002513 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 350054002514 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cl00125 350054002515 active site residue [active] 350054002516 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 350054002517 active site residue [active] 350054002518 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 350054002519 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 350054002520 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 350054002521 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 350054002522 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 350054002523 catalytic residues [active] 350054002524 Glutamate synthase domain 2 [Amino acid transport and metabolism]; Region: GltB; COG0069 350054002525 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 350054002526 active site 350054002527 FMN binding site [chemical binding]; other site 350054002528 substrate binding site [chemical binding]; other site 350054002529 3Fe-4S cluster binding site [ion binding]; other site 350054002530 Heme oxygenase catalyzes the rate limiting step in the degradation of heme to bilirubin, it is essential for recycling of iron from heme. Heme is used as a substrate and cofactor for its own degradation to biliverdin, iron, and carbon monoxide. This...; Region: HemeO; cd00232 350054002531 heme binding pocket [chemical binding]; other site 350054002532 heme ligand [chemical binding]; other site 350054002533 Predicted membrane protein [Function unknown]; Region: COG2860 350054002534 UPF0126 domain; Region: UPF0126; pfam03458 350054002535 UPF0126 domain; Region: UPF0126; pfam03458 350054002536 Protein of unknown function (DUF2029); Region: DUF2029; cl09812 350054002537 (R)-hydratase [(R)-specific enoyl-CoA hydratase]. Catalyzes the hydration of trans-2-enoyl CoA to (R)-3-hydroxyacyl-CoA as part of the PHA (polyhydroxyalkanoate) biosynthetic pathway. The structure of the monomer includes a five-strand antiparallel...; Region: R_hydratase_like; cd03441 350054002538 active site 350054002539 catalytic site [active] 350054002540 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 350054002541 active site 2 [active] 350054002542 active site 1 [active] 350054002543 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 350054002544 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 350054002545 Walker A/P-loop; other site 350054002546 ATP binding site [chemical binding]; other site 350054002547 ABC transporter signature motif; other site 350054002548 Walker B; other site 350054002549 H-loop/switch region; other site 350054002550 ABC transporter; Region: ABC_tran_2; pfam12848 350054002551 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 350054002552 4-alpha-glucanotransferase; Provisional; Region: malQ; PRK11052 350054002553 4-alpha-glucanotransferase [Carbohydrate transport and metabolism]; Region: MalQ; COG1640 350054002554 Domain of unknown function (DUF385); Region: DUF385; pfam04075 350054002555 Response regulator receiver domain; Region: Response_reg; pfam00072 350054002556 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 350054002557 active site 350054002558 phosphorylation site [posttranslational modification] 350054002559 intermolecular recognition site; other site 350054002560 dimerization interface [polypeptide binding]; other site 350054002561 PAS fold; Region: PAS; pfam00989 350054002562 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 350054002563 putative active site [active] 350054002564 heme pocket [chemical binding]; other site 350054002565 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 350054002566 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 350054002567 metal binding site [ion binding]; metal-binding site 350054002568 active site 350054002569 I-site; other site 350054002570 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 350054002571 The Bin/Amphiphysin/Rvs (BAR) domain, a dimerization module that binds membranes and detects membrane curvature; Region: BAR; cl12013 350054002572 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 350054002573 GAF domain; Region: GAF_3; pfam13492 350054002574 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 350054002575 dimer interface [polypeptide binding]; other site 350054002576 phosphorylation site [posttranslational modification] 350054002577 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 350054002578 ATP binding site [chemical binding]; other site 350054002579 Mg2+ binding site [ion binding]; other site 350054002580 G-X-G motif; other site 350054002581 Response regulator receiver domain; Region: Response_reg; pfam00072 350054002582 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 350054002583 active site 350054002584 phosphorylation site [posttranslational modification] 350054002585 intermolecular recognition site; other site 350054002586 dimerization interface [polypeptide binding]; other site 350054002587 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 350054002588 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 350054002589 active site 350054002590 phosphorylation site [posttranslational modification] 350054002591 intermolecular recognition site; other site 350054002592 dimerization interface [polypeptide binding]; other site 350054002593 Response regulator receiver domain; Region: Response_reg; pfam00072 350054002594 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 350054002595 active site 350054002596 phosphorylation site [posttranslational modification] 350054002597 intermolecular recognition site; other site 350054002598 dimerization interface [polypeptide binding]; other site 350054002599 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 350054002600 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 350054002601 CheB methylesterase; Region: CheB_methylest; pfam01339 350054002602 Glycosyl hydrolases family 6; Region: Glyco_hydro_6; pfam01341 350054002603 Phosphatidylserine/phosphatidylglycerophosphate/car diolipin synthases and related enzymes [Lipid metabolism]; Region: Cls; COG1502 350054002604 Catalytic domain, repeat 1, of uncharacterized bacterial proteins with similarity to vertebrate phospholipases, PLD1 and PLD2; Region: PLDc_vPLD1_2_like_bac_1; cd09140 350054002605 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 350054002606 putative active site [active] 350054002607 putative active site [active] 350054002608 catalytic site [active] 350054002609 catalytic site [active] 350054002610 Catalytic domain, repeat 2, of uncharacterized bacterial proteins with similarity to vertebrate phospholipases, PLD1 and PLD2; Region: PLDc_vPLD1_2_like_bac_2; cd09143 350054002611 putative active site [active] 350054002612 catalytic site [active] 350054002613 Putative cyclase; Region: Cyclase; pfam04199 350054002614 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 350054002615 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; cd01292 350054002616 active site 350054002617 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 350054002618 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 350054002619 conserved cys residue [active] 350054002620 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 350054002621 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 350054002622 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 350054002623 conserved cys residue [active] 350054002624 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 350054002625 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 350054002626 Nitrile hydratase beta subunit; Region: NHase_beta; pfam02211 350054002627 nitrile hydratase, beta subunit; Region: nitrile_beta; TIGR03888 350054002628 nitrile hydratase, alpha subunit; Region: nitrile_alph; TIGR01323 350054002629 NHLP leader peptide domain; Region: TOMM_pelo; TIGR03793 350054002630 nitrile hydratase accessory protein; Region: nitrile_acc; TIGR03889 350054002631 Formate/nitrite transporter; Region: Form_Nir_trans; pfam01226 350054002632 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 350054002633 Amidase; Region: Amidase; cl11426 350054002634 probable F420-dependent oxidoreductase, Rv2161c family; Region: F420_Rv2161c; TIGR03619 350054002635 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 350054002636 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 350054002637 ATP binding site [chemical binding]; other site 350054002638 putative Mg++ binding site [ion binding]; other site 350054002639 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 350054002640 nucleotide binding region [chemical binding]; other site 350054002641 ATP-binding site [chemical binding]; other site 350054002642 Domain of unknown function (DUF3516); Region: DUF3516; pfam12029 350054002643 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 350054002644 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: MGAT-like; Region: LPLAT_MGAT-like; cd07987 350054002645 putative acyl-acceptor binding pocket; other site 350054002646 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 350054002647 hydrophobic ligand binding site; other site 350054002648 Acyl-CoA thioesterase [Lipid metabolism]; Region: TesB; COG1946 350054002649 Thioesterase II (TEII) is thought to regenerate misprimed nonribosomal peptide synthetases (NRPSs) as well as modular polyketide synthases (PKSs) by hydrolyzing acetyl groups bound to the peptidyl carrier protein (PCP) and acyl carrier protein (ACP)...; Region: Thioesterase_II_repeat2; cd03445 350054002650 active site 350054002651 Thioesterase II (TEII) is thought to regenerate misprimed nonribosomal peptide synthetases (NRPSs) as well as modular polyketide synthases (PKSs) by hydrolyzing acetyl groups bound to the peptidyl carrier protein (PCP) and acyl carrier protein (ACP)...; Region: Thioesterase_II_repeat1; cd03444 350054002652 catalytic triad [active] 350054002653 dimer interface [polypeptide binding]; other site 350054002654 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 350054002655 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 350054002656 putative active site [active] 350054002657 putative metal binding site [ion binding]; other site 350054002658 classical (c) SDRs; Region: SDR_c; cd05233 350054002659 NAD(P) binding site [chemical binding]; other site 350054002660 active site 350054002661 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 350054002662 Iron-containing alcohol dehydrogenase; Region: Fe-ADH; pfam00465 350054002663 active site 350054002664 NAD binding site [chemical binding]; other site 350054002665 metal binding site [ion binding]; metal-binding site 350054002666 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 350054002667 active site 350054002668 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 350054002669 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 350054002670 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 350054002671 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 350054002672 NAD(P) binding site [chemical binding]; other site 350054002673 active site 350054002674 Sulphate Transporter and Anti-Sigma factor antagonist) domain of anti-anti-sigma factors, key regulators of anti-sigma factors by phosphorylation; Region: STAS_anti-anti-sigma_factors; cd07043 350054002675 anti sigma factor interaction site; other site 350054002676 regulatory phosphorylation site [posttranslational modification]; other site 350054002677 B12 binding domain; Region: B12-binding_2; pfam02607 350054002678 B12 binding domain; Region: B12-binding; pfam02310 350054002679 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 350054002680 Sugar-binding cellulase-like; Region: Cellulase-like; pfam12876 350054002681 enterobactin exporter EntS; Provisional; Region: PRK10489 350054002682 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 350054002683 putative substrate translocation pore; other site 350054002684 Transcriptional regulators [Transcription]; Region: MarR; COG1846 350054002685 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 350054002686 A type 1 glutamine amidotransferase (GATase1)-like domain found in PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_like; cd03134 350054002687 intracellular protease, PfpI family; Region: PfpI; TIGR01382 350054002688 proposed catalytic triad [active] 350054002689 conserved cys residue [active] 350054002690 Cutinase; Region: Cutinase; pfam01083 350054002691 putative methyltransferase; Provisional; Region: PRK14967 350054002692 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 350054002693 Iron-binding zinc finger CDGSH type; Region: zf-CDGSH; pfam09360 350054002694 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 350054002695 putative active site [active] 350054002696 putative CoA binding site [chemical binding]; other site 350054002697 nudix motif; other site 350054002698 metal binding site [ion binding]; metal-binding site 350054002699 Phosphotransferase enzyme family; Region: APH; pfam01636 350054002700 Mechanosensitive ion channel; Region: MS_channel; pfam00924 350054002701 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 350054002702 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2258 350054002703 MOSC domain; Region: MOSC; pfam03473 350054002704 Domain of unknown function (DUF4333); Region: DUF4333; pfam14230 350054002705 Uncharacterized protein conserved in bacteria (DUF2237); Region: DUF2237; pfam09996 350054002706 Protein of unknown function (DUF1697); Region: DUF1697; pfam08002 350054002707 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 350054002708 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 350054002709 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 350054002710 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 350054002711 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 350054002712 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 350054002713 metal binding site [ion binding]; metal-binding site 350054002714 active site 350054002715 I-site; other site 350054002716 hypothetical protein; Provisional; Region: PRK06062 350054002717 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 350054002718 inhibitor-cofactor binding pocket; inhibition site 350054002719 pyridoxal 5'-phosphate binding site [chemical binding]; other site 350054002720 catalytic residue [active] 350054002721 Helix-turn-helix domain of transposase family ISL3; Region: HTH_Tnp_ISL3; pfam13542 350054002722 Transposase; Region: DDE_Tnp_ISL3; pfam01610 350054002723 Domain of unknown function (DUF222); Region: DUF222; pfam02720 350054002724 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cd00085 350054002725 active site 350054002726 Wax ester synthase-like Acyl-CoA acyltransferase domain; Region: WES_acyltransf; pfam03007 350054002727 acyltransferase, WS/DGAT/MGAT; Region: acyl_WS_DGAT; TIGR02946 350054002728 Protein of unknown function (DUF1298); Region: DUF1298; pfam06974 350054002729 Uncharacterized conserved protein [Function unknown]; Region: COG0397 350054002730 hypothetical protein; Validated; Region: PRK00029 350054002731 ATP-dependent RNA helicase HrpA; Provisional; Region: PRK11131 350054002732 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 350054002733 ATP binding site [chemical binding]; other site 350054002734 putative Mg++ binding site [ion binding]; other site 350054002735 nucleotide binding region [chemical binding]; other site 350054002736 helicase superfamily c-terminal domain; Region: HELICc; smart00490 350054002737 Helicase associated domain (HA2); Region: HA2; pfam04408 350054002738 Oligonucleotide/oligosaccharide-binding (OB)-fold; Region: OB_NTP_bind; pfam07717 350054002739 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 350054002740 Glutamine cyclotransferase [Posttranslational modification, protein turnover, chaperones]; Region: COG3823 350054002741 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 350054002742 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 350054002743 Beta-lactamase; Region: Beta-lactamase; pfam00144 350054002744 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 350054002745 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 350054002746 active site 350054002747 B-Box-type zinc finger; zinc binding domain (CHC3H2); often present in combination with other motifs, like RING zinc finger, NHL motif, coiled-coil or RFP domain in functionally unrelated proteins, most likely mediating protein-protein interaction; Region: BBOX; cl00034 350054002748 Rhomboid family; Region: Rhomboid; pfam01694 350054002749 beta-phosphoglucomutase family hydrolase; Region: PGMB-YQAB-SF; TIGR02009 350054002750 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 350054002751 motif II; other site 350054002752 Trehalose and maltose hydrolases (possible phosphorylases) [Carbohydrate transport and metabolism]; Region: ATH1; COG1554 350054002753 Glycosyl hydrolase family 65, N-terminal domain; Region: Glyco_hydro_65N; pfam03636 350054002754 Glycosyl hydrolase family 65 central catalytic domain; Region: Glyco_hydro_65m; pfam03632 350054002755 Glycosyl hydrolase family 65, C-terminal domain; Region: Glyco_hydro_65C; pfam03633 350054002756 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 350054002757 metabolite-proton symporter; Region: 2A0106; TIGR00883 350054002758 putative substrate translocation pore; other site 350054002759 RNA polymerase sigma-70 factor, TIGR02947 family; Region: SigH_actino 350054002760 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 350054002761 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 350054002762 DNA binding residues [nucleotide binding] 350054002763 PPOX class probable F420-dependent enzyme, Rv0121 family; Region: Rv0121_F420; TIGR03668 350054002764 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 350054002765 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 350054002766 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 350054002767 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 350054002768 dimer interface [polypeptide binding]; other site 350054002769 conserved gate region; other site 350054002770 putative PBP binding loops; other site 350054002771 ABC-ATPase subunit interface; other site 350054002772 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 350054002773 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 350054002774 Walker A/P-loop; other site 350054002775 ATP binding site [chemical binding]; other site 350054002776 Q-loop/lid; other site 350054002777 ABC transporter signature motif; other site 350054002778 Walker B; other site 350054002779 D-loop; other site 350054002780 H-loop/switch region; other site 350054002781 TOBE domain; Region: TOBE_2; pfam08402 350054002782 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 350054002783 active site 350054002784 Pyridoxamine 5'-phosphate oxidase; Region: Pyrid_oxidase_2; pfam13883 350054002785 Putative heme iron utilization protein [Inorganic ion transport and metabolism]; Region: HugZ; COG0748 350054002786 Protein of unknown function (DUF2470); Region: DUF2470; pfam10615 350054002787 trehalose synthase-fused probable maltokinase; Region: TreS_Cterm; TIGR02457 350054002788 Uncharacterized protein, probably involved in trehalose biosynthesis [Carbohydrate transport and metabolism]; Region: Ble; COG3281 350054002789 glycogen debranching enzyme GlgX; Region: glgX_debranch; TIGR02100 350054002790 N-terminal Early set domain associated with the catalytic domain of Glycogen debranching enzyme and bacterial isoamylase (also called glycogen 6-glucanohydrolase); Region: E_set_GDE_Isoamylase_N; cd02856 350054002791 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 350054002792 active site 350054002793 catalytic site [active] 350054002794 Nicotinamidase/pyrazinamidase (PZase). Nicotinamidase, a ubiquitous enzyme in prokaryotes, converts nicotinamide to nicotinic acid (niacin) and ammonia, which in turn can be recycled to make nicotinamide adenine dinucleotide (NAD). The same enzyme is...; Region: nicotinamidase; cd01011 350054002795 Isochorismatase family; Region: Isochorismatase; pfam00857 350054002796 catalytic triad [active] 350054002797 metal binding site [ion binding]; metal-binding site 350054002798 conserved cis-peptide bond; other site 350054002799 PAS fold; Region: PAS_3; pfam08447 350054002800 ANTAR (AmiR and NasR transcription antitermination regulators) is an RNA-binding domain found in bacterial transcription antitermination regulatory proteins; Region: ANTAR; smart01012 350054002801 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 350054002802 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 350054002803 active site 350054002804 oxalate/formate antiporter family transporter; Region: 2A0111; TIGR00890 350054002805 Domain of unknown function (DUF222); Region: DUF222; pfam02720 350054002806 PPOX class probable F420-dependent enzyme; Region: Rv1155_F420; TIGR03618 350054002807 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 350054002808 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 350054002809 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 350054002810 S-adenosylmethionine binding site [chemical binding]; other site 350054002811 Prenyltransferase-like; Region: Prenyltrans_2; pfam13249 350054002812 Protein of unknown function, DUF608; Region: DUF608; pfam04685 350054002813 Methyltransferase domain; Region: Methyltransf_24; pfam13578 350054002814 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 350054002815 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350054002816 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 350054002817 Cytochrome P450; Region: p450; cl12078 350054002818 methionine sulfoxide reductase A; Provisional; Region: PRK14054 350054002819 SelR domain; Region: SelR; pfam01641 350054002820 methionine sulfoxide reductase B; Provisional; Region: PRK00222 350054002821 SnoaL-like domain; Region: SnoaL_2; pfam12680 350054002822 hopanoid-associated sugar epimerase; Region: HpnA; TIGR03466 350054002823 uncharacterized subgroup of aldehyde reductase and flavonoid reductase related proteins, extended (e) SDRs; Region: AR_FR_like_1_SDR_e; cd05228 350054002824 putative NADP binding site [chemical binding]; other site 350054002825 putative substrate binding site [chemical binding]; other site 350054002826 active site 350054002827 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 350054002828 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 350054002829 Domain of unknown function (DUF427); Region: DUF427; pfam04248 350054002830 3-methyladenine DNA glycosylase/8-oxoguanine DNA glycosylase [DNA replication, recombination, and repair]; Region: AlkA; COG0122 350054002831 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 350054002832 minor groove reading motif; other site 350054002833 helix-hairpin-helix signature motif; other site 350054002834 active site 350054002835 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 350054002836 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 350054002837 dimerization interface [polypeptide binding]; other site 350054002838 DPS ferroxidase diiron center [ion binding]; other site 350054002839 ion pore; other site 350054002840 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 350054002841 CoenzymeA binding site [chemical binding]; other site 350054002842 subunit interaction site [polypeptide binding]; other site 350054002843 PHB binding site; other site 350054002844 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 350054002845 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 350054002846 active site 350054002847 dimer interface [polypeptide binding]; other site 350054002848 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 350054002849 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 350054002850 active site 350054002851 FMN binding site [chemical binding]; other site 350054002852 substrate binding site [chemical binding]; other site 350054002853 3Fe-4S cluster binding site [ion binding]; other site 350054002854 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 350054002855 domain interface; other site 350054002856 glutamate synthase subunit beta; Reviewed; Region: gltD; PRK12810 350054002857 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 350054002858 probable F420-dependent oxidoreductase, Rv1855c family; Region: F420_Rv1855c; TIGR03560 350054002859 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 350054002860 TIGR03086 family protein; Region: TIGR03086 350054002861 uncharacterized Actinobacterial protein TIGR03083; Region: TIGR03083 350054002862 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 350054002863 Sulfate transporter family; Region: Sulfate_transp; pfam00916 350054002864 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 350054002865 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 350054002866 dimerization interface [polypeptide binding]; other site 350054002867 putative DNA binding site [nucleotide binding]; other site 350054002868 putative Zn2+ binding site [ion binding]; other site 350054002869 hypothetical protein; Provisional; Region: PRK07945 350054002870 RelA- and SpoT-like ppGpp Synthetases and Hydrolases, catalytic domain; Region: Rel-Spo_like; cl11966 350054002871 Polymerase and Histidinol Phosphatase domain of bacterial polymerase X; Region: PHP_PolX; cd07436 350054002872 active site 350054002873 DNA polymerase IV; Validated; Region: PRK03858 350054002874 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 350054002875 active site 350054002876 DNA binding site [nucleotide binding] 350054002877 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 350054002878 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 350054002879 ribonuclease activity regulator protein RraA; Provisional; Region: PRK09372 350054002880 Copper resistance protein D; Region: CopD; pfam05425 350054002881 CopC domain; Region: CopC; pfam04234 350054002882 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 350054002883 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 350054002884 Nickel-containing superoxide dismutase; Region: Sod_Ni; pfam09055 350054002885 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 350054002886 Catalytic site [active] 350054002887 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 350054002888 active site residue [active] 350054002889 Domain of unknown function (DUF4328); Region: DUF4328; pfam14219 350054002890 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 350054002891 Glycerophosphodiester phosphodiesterase domain of uncharacterized bacterial glycerophosphodiester phosphodiesterases; Region: GDPD_like_2; cd08582 350054002892 putative active site [active] 350054002893 catalytic site [active] 350054002894 putative metal binding site [ion binding]; other site 350054002895 nonheme-containing ferritins; Region: Nonheme_Ferritin; cd01055 350054002896 Ferritin-like domain; Region: Ferritin; pfam00210 350054002897 ferroxidase diiron center [ion binding]; other site 350054002898 Transcriptional regulator [Transcription]; Region: LytR; COG1316 350054002899 CAAX protease self-immunity; Region: Abi; pfam02517 350054002900 prephenate dehydratase; Provisional; Region: PRK11898 350054002901 Prephenate dehydratase; Region: PDT; pfam00800 350054002902 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 350054002903 putative L-Phe binding site [chemical binding]; other site 350054002904 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 350054002905 catalytic core [active] 350054002906 Minimal MMP-like domain found in Acidothermus cellulolyticus hypothetical protein ACEL2062 and similar protein; Region: MMP_ACEL2062; cd12952 350054002907 Septum formation; Region: Septum_form; pfam13845 350054002908 Septum formation; Region: Septum_form; pfam13845 350054002909 seryl-tRNA synthetase; Provisional; Region: PRK05431 350054002910 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 350054002911 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 350054002912 dimer interface [polypeptide binding]; other site 350054002913 active site 350054002914 motif 1; other site 350054002915 motif 2; other site 350054002916 motif 3; other site 350054002917 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 350054002918 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 350054002919 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 350054002920 iron-sulfur cluster [ion binding]; other site 350054002921 [2Fe-2S] cluster binding site [ion binding]; other site 350054002922 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 350054002923 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 350054002924 putative acyl-acceptor binding pocket; other site 350054002925 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 350054002926 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 350054002927 putative acyl-acceptor binding pocket; other site 350054002928 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 350054002929 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 350054002930 active site 350054002931 motif I; other site 350054002932 motif II; other site 350054002933 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 350054002934 AAA ATPase domain; Region: AAA_16; pfam13191 350054002935 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 350054002936 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 350054002937 DNA binding residues [nucleotide binding] 350054002938 dimerization interface [polypeptide binding]; other site 350054002939 Uncharacterized protein potentially involved in peptidoglycan biosynthesis [Cell envelope biogenesis, outer membrane]; Region: COG5479 350054002940 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 350054002941 amidase catalytic site [active] 350054002942 Zn binding residues [ion binding]; other site 350054002943 substrate binding site [chemical binding]; other site 350054002944 LGFP repeat; Region: LGFP; pfam08310 350054002945 UDP-galactopyranose mutase [Cell envelope biogenesis, outer membrane]; Region: Glf; COG0562 350054002946 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 350054002947 UDP-galactopyranose mutase; Region: GLF; pfam03275 350054002948 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 350054002949 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 350054002950 active site 350054002951 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 350054002952 phosphoribose diphosphate:decaprenyl-phosphate phosphoribosyltransferase; Provisional; Region: PRK12324 350054002953 Predicted esterase [General function prediction only]; Region: COG0627 350054002954 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 350054002955 Putative esterase; Region: Esterase; pfam00756 350054002956 Cutinase; Region: Cutinase; pfam01083 350054002957 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07769 350054002958 Fatty acyl-AMP ligase (FAAL); Region: FAAL; cd05931 350054002959 acyl-activating enzyme (AAE) consensus motif; other site 350054002960 active site 350054002961 Phosphopantetheine attachment site; Region: PKS_PP; smart00823 350054002962 Beta-ketoacyl synthase; Region: PKS_KS; smart00825 350054002963 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 350054002964 active site 350054002965 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 350054002966 Acyl transferase domain in polyketide synthase (PKS) enzymes; Region: PKS_AT; smart00827 350054002967 Phosphopantetheine attachment site; Region: PKS_PP; smart00823 350054002968 Thioesterase domains of type I polyketide synthases or non-ribosomal peptide synthetases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3319 350054002969 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 350054002970 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 350054002971 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 350054002972 Domain of unknown function (DUF4331); Region: DUF4331; pfam14224 350054002973 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 350054002974 Catalytic domain of Protein Kinases; Region: PKc; cd00180 350054002975 active site 350054002976 ATP binding site [chemical binding]; other site 350054002977 substrate binding site [chemical binding]; other site 350054002978 activation loop (A-loop); other site 350054002979 Mycobacterial cell wall arabinan synthesis protein; Region: Arabinose_trans; pfam04602 350054002980 Mycobacterial cell wall arabinan synthesis protein; Region: Arabinose_trans; pfam04602 350054002981 Mycobacterial cell wall arabinan synthesis protein; Region: Arabinose_trans; pfam04602 350054002982 Arabinofuranosyltransferase N terminal; Region: AftA_N; pfam12250 350054002983 Arabinofuranosyltransferase A C terminal; Region: AftA_C; pfam12249 350054002984 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 350054002985 classical (c) SDRs; Region: SDR_c; cd05233 350054002986 NAD(P) binding site [chemical binding]; other site 350054002987 active site 350054002988 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 350054002989 FAD binding domain; Region: FAD_binding_4; pfam01565 350054002990 D-arabinono-1,4-lactone oxidase; Region: ALO; pfam04030 350054002991 Predicted membrane protein [Function unknown]; Region: COG2246 350054002992 GtrA-like protein; Region: GtrA; pfam04138 350054002993 Domain of unknown function (DUF222); Region: DUF222; pfam02720 350054002994 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cd00085 350054002995 active site 350054002996 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 350054002997 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 350054002998 DNA-binding site [nucleotide binding]; DNA binding site 350054002999 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 350054003000 pyridoxal 5'-phosphate binding site [chemical binding]; other site 350054003001 homodimer interface [polypeptide binding]; other site 350054003002 catalytic residue [active] 350054003003 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 350054003004 Uncharacterized conserved protein [Function unknown]; Region: COG2128 350054003005 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_ox_2; pfam12900 350054003006 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 350054003007 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 350054003008 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 350054003009 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 350054003010 active site 350054003011 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 350054003012 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 350054003013 Walker A/P-loop; other site 350054003014 ATP binding site [chemical binding]; other site 350054003015 Q-loop/lid; other site 350054003016 ABC transporter signature motif; other site 350054003017 Walker B; other site 350054003018 D-loop; other site 350054003019 H-loop/switch region; other site 350054003020 Protein of unknown function (DUF2587); Region: DUF2587; pfam10759 350054003021 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 350054003022 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 350054003023 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 350054003024 catalytic residue [active] 350054003025 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 350054003026 PIG3 p53-inducible quinone oxidoreductase; Region: p53_inducible_oxidoreductase; cd05276 350054003027 NAD(P) binding site [chemical binding]; other site 350054003028 Transcriptional regulators [Transcription]; Region: MarR; COG1846 350054003029 MarR family; Region: MarR; pfam01047 350054003030 MarR family; Region: MarR_2; cl17246 350054003031 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 350054003032 RNA polymerase sigma factor SigI; Provisional; Region: sigI; PRK09635 350054003033 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 350054003034 DNA binding residues [nucleotide binding] 350054003035 DoxX-like family; Region: DoxX_2; pfam13564 350054003036 enoyl-CoA hydratase; Provisional; Region: PRK06142 350054003037 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 350054003038 substrate binding site [chemical binding]; other site 350054003039 oxyanion hole (OAH) forming residues; other site 350054003040 trimer interface [polypeptide binding]; other site 350054003041 histidinol-phosphate aminotransferase; Validated; Region: PRK02731 350054003042 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 350054003043 pyridoxal 5'-phosphate binding site [chemical binding]; other site 350054003044 homodimer interface [polypeptide binding]; other site 350054003045 catalytic residue [active] 350054003046 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 350054003047 Ubiquinol oxidase subunit I. Ubiquinol oxidase, the terminal oxidase in the respiratory chains of aerobic bacteria, is a multi-chain transmembrane protein located in the cell membrane. It catalyzes the reduction of O2 and simultaneously pumps protons...; Region: Ubiquinol_Oxidase_I; cd01662 350054003048 D-pathway; other site 350054003049 Putative ubiquinol binding site [chemical binding]; other site 350054003050 Low-spin heme (heme b) binding site [chemical binding]; other site 350054003051 Putative water exit pathway; other site 350054003052 Binuclear center (heme o3/CuB) [ion binding]; other site 350054003053 K-pathway; other site 350054003054 Putative proton exit pathway; other site 350054003055 Transposase; Region: DEDD_Tnp_IS110; pfam01548 350054003056 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 350054003057 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 350054003058 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 350054003059 active site 350054003060 metal binding site [ion binding]; metal-binding site 350054003061 homotetramer interface [polypeptide binding]; other site 350054003062 Transposase domain (DUF772); Region: DUF772; pfam05598 350054003063 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 350054003064 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 350054003065 Cupin domain; Region: Cupin_2; cl17218 350054003066 Alkyl sulfatase and related hydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2015 350054003067 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 350054003068 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 350054003069 classical (c) SDRs; Region: SDR_c; cd05233 350054003070 NAD(P) binding site [chemical binding]; other site 350054003071 active site 350054003072 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 350054003073 catalytic core [active] 350054003074 Acyl-CoA dehydrogenase (ACAD) 10 and 11, N-terminal domain, and similar proteins. This subfamily is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs); Region: ACAD10_11_like; cd05154 350054003075 putative active site [active] 350054003076 putative substrate binding site [chemical binding]; other site 350054003077 ATP binding site [chemical binding]; other site 350054003078 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 350054003079 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 350054003080 Protein of unknown function (DUF1049); Region: DUF1049; cl01539 350054003081 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 350054003082 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 350054003083 ATP-binding cassette domain of the osmoprotectant transporter; Region: ABC_OpuCA_Osmoprotection; cd03295 350054003084 Walker A/P-loop; other site 350054003085 ATP binding site [chemical binding]; other site 350054003086 Q-loop/lid; other site 350054003087 ABC transporter signature motif; other site 350054003088 Walker B; other site 350054003089 D-loop; other site 350054003090 H-loop/switch region; other site 350054003091 ABC-type proline/glycine betaine transport systems, permease component [Amino acid transport and metabolism]; Region: OpuBB; COG1174 350054003092 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 350054003093 putative PBP binding loops; other site 350054003094 dimer interface [polypeptide binding]; other site 350054003095 ABC-ATPase subunit interface; other site 350054003096 Putative glycolipid-binding; Region: Glycolipid_bind; pfam06475 350054003097 Prephenate dehydrogenase [Amino acid transport and metabolism]; Region: TyrA; COG0287 350054003098 prephenate dehydrogenase; Validated; Region: PRK08507 350054003099 putative tRNA adenosine deaminase-associated protein; Region: tRNA_deam_assoc; TIGR03941 350054003100 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 350054003101 nucleoside/Zn binding site; other site 350054003102 dimer interface [polypeptide binding]; other site 350054003103 catalytic motif [active] 350054003104 CsbD-like; Region: CsbD; cl17424 350054003105 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 350054003106 L-iditol 2-dehydrogenase; Region: iditol_2_DH_like; cd08235 350054003107 putative NAD(P) binding site [chemical binding]; other site 350054003108 catalytic Zn binding site [ion binding]; other site 350054003109 PTS system mannitol-specific transporter subunit IICBA; Provisional; Region: PRK15083 350054003110 PTS system, mannitol-specific IIC component; Region: mtlA; TIGR00851 350054003111 PTS_IIB_mannitol: subunit IIB of enzyme II (EII) of the mannitol-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII is a mannitol-specific permease with two cytoplasmic domains (IIA and IIB) and a transmembrane...; Region: PTS_IIB_mannitol; cd05567 350054003112 active site 350054003113 P-loop; other site 350054003114 phosphorylation site [posttranslational modification] 350054003115 PTS_IIA, PTS system, fructose/mannitol specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_fru; cd00211 350054003116 active site 350054003117 phosphorylation site [posttranslational modification] 350054003118 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 350054003119 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 350054003120 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 350054003121 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 350054003122 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 350054003123 FMN binding site [chemical binding]; other site 350054003124 substrate binding site [chemical binding]; other site 350054003125 putative catalytic residue [active] 350054003126 Uncharacterized conserved protein related to dihydrodipicolinate reductase [Function unknown]; Region: COG3804 350054003127 Protein of unknown function (DUF732); Region: DUF732; pfam05305 350054003128 Mycobacterium 19 kDa lipoprotein antigen; Region: Myco_19_kDa; pfam05481 350054003129 Mycobacterium 19 kDa lipoprotein antigen; Region: Myco_19_kDa; pfam05481 350054003130 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 350054003131 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; cl00409 350054003132 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 350054003133 Cytochrome P450; Region: p450; cl12078 350054003134 Monoamine oxidase [Amino acid transport and metabolism]; Region: COG1231 350054003135 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 350054003136 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 350054003137 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 350054003138 Walker A/P-loop; other site 350054003139 ATP binding site [chemical binding]; other site 350054003140 Q-loop/lid; other site 350054003141 ABC transporter signature motif; other site 350054003142 Walker B; other site 350054003143 D-loop; other site 350054003144 H-loop/switch region; other site 350054003145 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 350054003146 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 350054003147 substrate binding pocket [chemical binding]; other site 350054003148 membrane-bound complex binding site; other site 350054003149 hinge residues; other site 350054003150 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 350054003151 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 350054003152 dimer interface [polypeptide binding]; other site 350054003153 conserved gate region; other site 350054003154 putative PBP binding loops; other site 350054003155 ABC-ATPase subunit interface; other site 350054003156 glutamyl-Q tRNA(Asp) synthetase; Reviewed; Region: PRK05710 350054003157 active site 350054003158 HIGH motif; other site 350054003159 nucleotide binding site [chemical binding]; other site 350054003160 active site 350054003161 KMSKS motif; other site 350054003162 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 350054003163 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 350054003164 DNA-binding site [nucleotide binding]; DNA binding site 350054003165 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 350054003166 short chain dehydrogenase; Provisional; Region: PRK12829 350054003167 classical (c) SDRs; Region: SDR_c; cd05233 350054003168 NAD(P) binding site [chemical binding]; other site 350054003169 active site 350054003170 Phosphotransferase enzyme family; Region: APH; pfam01636 350054003171 Bacterial Micro-Compartment (BMC) domain; Region: BMC; cl01982 350054003172 Hexamer interface [polypeptide binding]; other site 350054003173 Hexagonal pore residue; other site 350054003174 Bacterial Micro-Compartment (BMC) domain; Region: BMC; cl01982 350054003175 Hexamer interface [polypeptide binding]; other site 350054003176 Hexagonal pore residue; other site 350054003177 Carbon dioxide concentrating mechanism/carboxysome shell protein [Secondary metabolites biosynthesis, transport, and catabolism / Energy production and conversion]; Region: CcmK; COG4577 350054003178 Carbon dioxide concentrating mechanism K (CcmK)-like proteins, Bacterial Micro-Compartment (BMC) domain; Region: BMC_CcmK_like; cd07045 350054003179 Hexamer interface [polypeptide binding]; other site 350054003180 Hexagonal pore residue; other site 350054003181 Ethanolamine utilisation protein and carboxysome structural protein domain family; Region: EutN_CcmL; cd01614 350054003182 Hexamer/Pentamer interface [polypeptide binding]; other site 350054003183 central pore; other site 350054003184 Bacterial Micro-Compartment (BMC)-like domain 1 repeat 1; Region: BMC_like_1_repeat1; cd07051 350054003185 putative hexamer interface [polypeptide binding]; other site 350054003186 putative hexagonal pore; other site 350054003187 Bacterial Micro-Compartment (BMC)-like domain 1 repeat 2; Region: BMC_like_1_repeat2; cd07052 350054003188 putative hexamer interface [polypeptide binding]; other site 350054003189 putative hexagonal pore; other site 350054003190 Coenzyme A acylating aldehyde dehydrogenase (ACDH), ALDH family 20-like; Region: ALDH_F20_ACDH; cd07122 350054003191 putative catalytic cysteine [active] 350054003192 Ornithine/acetylornithine aminotransferase [Amino acid transport and metabolism]; Region: ArgD; COG4992 350054003193 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 350054003194 inhibitor-cofactor binding pocket; inhibition site 350054003195 pyridoxal 5'-phosphate binding site [chemical binding]; other site 350054003196 catalytic residue [active] 350054003197 Amino acid permease; Region: AA_permease; pfam00324 350054003198 Propanediol dehydratase, large subunit [Secondary metabolites biosynthesis, transport, and catabolism]; Region: PduC; COG4909 350054003199 Dehydratase large subunit. This family contains the large (alpha) subunit of B12-dependent glycerol dehydratases (GDHs) and B12-dependent diol dehydratases (DDHs). GDH is isofunctional with DDH. These enzymes can each catalyze the conversion of 1; Region: Dehydratase_LU; cd03687 350054003200 alpha-alpha subunit/dimer interface [polypeptide binding]; other site 350054003201 alpha-beta subunit interface [polypeptide binding]; other site 350054003202 alpha-gamma subunit interface [polypeptide binding]; other site 350054003203 active site 350054003204 substrate and K+ binding site; other site 350054003205 K+ binding site [ion binding]; other site 350054003206 cobalamin binding site [chemical binding]; other site 350054003207 Dehydratase medium subunit; Region: Dehydratase_MU; cl17703 350054003208 propanediol dehydratase small subunit; Provisional; Region: pduE; PRK15443 350054003209 Diol dehydratase reactivase ATPase-like domain; Region: DDR; pfam08841 350054003210 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 350054003211 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 350054003212 Prokaryotic Cytochrome C oxidase subunit IV; Region: COX4_pro; pfam03626 350054003213 NorE_like subfamily of heme-copper oxidase subunit III. Heme-copper oxidases include cytochrome c and ubiquinol oxidases. Alcaligenes faecalis norE is found in a gene cluster containing norCB. norCB encodes the cytochrome c and cytochrome b subunits of...; Region: NorE_like; cd02862 350054003214 Subunit I/III interface [polypeptide binding]; other site 350054003215 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 350054003216 ATP-dependent DNA ligase; Reviewed; Region: ligC; PRK08224 350054003217 Adenylation domain of Mycobacterium tuberculosis LigC-like ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_LigC; cd07905 350054003218 active site 350054003219 DNA binding site [nucleotide binding] 350054003220 The Oligonucleotide/oligosaccharide binding (OB)-fold domain of ATP-dependent DNA ligase LigC is a DNA-binding module that is part of the catalytic core unit; Region: OBF_DNA_ligase_LigC; cd07970 350054003221 DNA binding site [nucleotide binding] 350054003222 choline dehydrogenase; Validated; Region: PRK02106 350054003223 lycopene cyclase; Region: lycopene_cycl; TIGR01789 350054003224 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 350054003225 oxidoreductase, SDR family; Region: SDR_subfam_1; TIGR03971 350054003226 classical (c) SDRs; Region: SDR_c; cd05233 350054003227 NAD(P) binding site [chemical binding]; other site 350054003228 active site 350054003229 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 350054003230 Cytochrome P450; Region: p450; cl12078 350054003231 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 350054003232 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 350054003233 NAD(P) binding site [chemical binding]; other site 350054003234 active site 350054003235 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 350054003236 Cytochrome P450; Region: p450; cl12078 350054003237 short chain dehydrogenase; Provisional; Region: PRK08303 350054003238 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 350054003239 NAD(P) binding site [chemical binding]; other site 350054003240 active site 350054003241 F420-dependent oxidoreductase, MSMEG_4879 family; Region: F420_MSMEG_4879; TIGR03564 350054003242 N5,N10-methylenetetrahydromethanopterin reductase (Mer) catalyzes the reduction of N5,N10-methylenetetrahydromethanopterin with reduced coenzyme F420 to N5-methyltetrahydromethanopterin and oxidized coenzyme F420; Region: Tetrahydromethanopterin_reductase; cd01097 350054003243 Proteins of this family catalyze the reduction of flavin or nitrocompounds using NAD(P)H as electron donor in a obligatory two-electron transfer, utilizing FMN or FAD as cofactor. They are often found to be homodimers. Enzymes of this family are...; Region: Nitro_FMN_reductase; cd02062 350054003244 FMN binding site [chemical binding]; other site 350054003245 dimer interface [polypeptide binding]; other site 350054003246 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 350054003247 classical (c) SDRs; Region: SDR_c; cd05233 350054003248 NAD(P) binding site [chemical binding]; other site 350054003249 active site 350054003250 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 350054003251 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 350054003252 active site 350054003253 metal binding site [ion binding]; metal-binding site 350054003254 probable F420-dependent oxidoreductase, Rv2161c family; Region: F420_Rv2161c; TIGR03619 350054003255 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 350054003256 Cytochrome P450; Region: p450; cl12078 350054003257 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 350054003258 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 350054003259 NAD(P) binding site [chemical binding]; other site 350054003260 active site 350054003261 SnoaL-like domain; Region: SnoaL_4; pfam13577 350054003262 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 350054003263 nitrilotriacetate monoxygenase oxidizes nitrilotriacetate utilizing reduced flavin mononucleotide (FMNH2) and oxygen. The FMNH2 is provided by an NADH:flavin mononucleotide (FMN) oxidorductase that uses NADH to reduce FMN to FMNH2; Region: Nitrilotriacetate_monoxgenase; cd01095 350054003264 active site 350054003265 non-prolyl cis peptide bond; other site 350054003266 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 350054003267 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350054003268 Helix-turn-helix domain of transposase family ISL3; Region: HTH_Tnp_ISL3; pfam13542 350054003269 Transposase; Region: DDE_Tnp_ISL3; pfam01610 350054003270 Domain of unknown function (DUF222); Region: DUF222; pfam02720 350054003271 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cd00085 350054003272 active site 350054003273 ATP-dependent DNA ligase; Reviewed; Region: ligC; PRK08224 350054003274 Adenylation domain of Mycobacterium tuberculosis LigC-like ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_LigC; cd07905 350054003275 active site 350054003276 DNA binding site [nucleotide binding] 350054003277 The Oligonucleotide/oligosaccharide binding (OB)-fold domain of ATP-dependent DNA ligase LigC is a DNA-binding module that is part of the catalytic core unit; Region: OBF_DNA_ligase_LigC; cd07970 350054003278 DNA binding site [nucleotide binding] 350054003279 LigD_Pol_like_2: Polymerase (Pol) domain of bacterial LigD proteins similar to Pseudomonas aeruginosa (Pae) LigD, subgroup 2. The LigD Pol domain belongs to the archaeal/eukaryal primase (AEP) superfamily. In prokaryotes, LigD along with Ku is required...; Region: LigD_Pol_like_2; cd04865 350054003280 nucleotide binding site [chemical binding]; other site 350054003281 Predicted thioesterase involved in non-ribosomal peptide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: GrsT; COG3208 350054003282 Lipase. Lipases are esterases that can hydrolyze long-chain acyl-triglycerides into di- and monoglycerides, glycerol, and free fatty acids at a water/lipid interface. A typical feature of lipases is "interfacial activation", the process of...; Region: Lipase; cl14883 350054003283 nucleophilic elbow; other site 350054003284 catalytic triad; other site 350054003285 Uncharacterized conserved protein related to dihydrodipicolinate reductase [Function unknown]; Region: COG3804 350054003286 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 350054003287 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 350054003288 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 350054003289 Alanine-glyoxylate amino-transferase; Region: Aminotran_MocR; pfam12897 350054003290 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 350054003291 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 350054003292 catalytic residue [active] 350054003293 DNA polymerase III, subunit gamma and tau; Region: dnaX_nterm; TIGR02397 350054003294 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 350054003295 Walker A motif; other site 350054003296 ATP binding site [chemical binding]; other site 350054003297 Walker B motif; other site 350054003298 arginine finger; other site 350054003299 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 350054003300 Mycolic acid cyclopropane synthetase; Region: CMAS; pfam02353 350054003301 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 350054003302 S-adenosylmethionine binding site [chemical binding]; other site 350054003303 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 350054003304 FAD binding domain; Region: FAD_binding_4; pfam01565 350054003305 Polyketide cyclase / dehydrase and lipid transport; Region: Polyketide_cyc2; pfam10604 350054003306 hydrophobic ligand binding site; other site 350054003307 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 350054003308 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 350054003309 active site 350054003310 metal binding site [ion binding]; metal-binding site 350054003311 hypothetical protein; Validated; Region: PRK00153 350054003312 recombination protein RecR; Reviewed; Region: recR; PRK00076 350054003313 RecR protein; Region: RecR; pfam02132 350054003314 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 350054003315 putative active site [active] 350054003316 putative metal-binding site [ion binding]; other site 350054003317 tetramer interface [polypeptide binding]; other site 350054003318 Domain of unknown function (DUF4095); Region: DUF4095; pfam13338 350054003319 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 350054003320 catalytic triad [active] 350054003321 UDP-N-acetylmuramyl tripeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurE; COG0769 350054003322 Domain of unknown function (DUF1727); Region: DUF1727; pfam08353 350054003323 DNA polymerase III subunit epsilon; Provisional; Region: PRK06063 350054003324 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 350054003325 active site 350054003326 catalytic site [active] 350054003327 substrate binding site [chemical binding]; other site 350054003328 2-isopropylmalate synthase; Validated; Region: PRK03739 350054003329 Mycobacterium tuberculosis LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA; cd07942 350054003330 active site 350054003331 catalytic residues [active] 350054003332 metal binding site [ion binding]; metal-binding site 350054003333 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 350054003334 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 350054003335 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 350054003336 non-specific DNA binding site [nucleotide binding]; other site 350054003337 salt bridge; other site 350054003338 sequence-specific DNA binding site [nucleotide binding]; other site 350054003339 Cupin domain; Region: Cupin_2; pfam07883 350054003340 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 350054003341 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 350054003342 Conserved region in glutamate synthase; Region: Glu_synthase; pfam01645 350054003343 active site 350054003344 FMN binding site [chemical binding]; other site 350054003345 substrate binding site [chemical binding]; other site 350054003346 3Fe-4S cluster binding site [ion binding]; other site 350054003347 GXGXG domain. This domain of unknown function is found at the C-terminus of the large subunit (gltB) of glutamate synthase (GltS), in subunit C of tungsten formylmethanofuran dehydrogenase (FwdC) and in subunit C of molybdenum formylmethanofuran...; Region: GXGXG; cd00504 350054003348 domain_subunit interface; other site 350054003349 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 350054003350 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 350054003351 active site 350054003352 glutamine synthetase, type III; Region: gln_synth_III; TIGR03105 350054003353 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 350054003354 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 350054003355 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 350054003356 Choloylglycine hydrolase (CGH) is a bile salt-modifying enzyme that hydrolyzes non-peptide carbon-nitrogen bonds in choloylglycine and choloyltaurine, both of which are present in bile. CGH is present in a number of probiotic microbial organisms that...; Region: Ntn_CGH; cd01902 350054003357 Linear amide C-N hydrolases, choloylglycine hydrolase family; Region: CBAH; pfam02275 350054003358 Nitroreductase-like family 2. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes, nitrofurans and...; Region: Nitroreductase_2; cd02138 350054003359 putative FMN binding site [chemical binding]; other site 350054003360 aspartate kinase; Reviewed; Region: PRK06635 350054003361 AAK_AKii-LysC-BS: Amino Acid Kinase Superfamily (AAK), AKii; this CD includes the N-terminal catalytic aspartokinase (AK) domain of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis 168, and the lysine plus threonine-sensitive...; Region: AAK_AKii-LysC-BS; cd04261 350054003362 putative nucleotide binding site [chemical binding]; other site 350054003363 putative catalytic residues [active] 350054003364 putative Mg ion binding site [ion binding]; other site 350054003365 putative aspartate binding site [chemical binding]; other site 350054003366 ACT domains of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related proteins; Region: ACT_AKii-LysC-BS-like_1; cd04913 350054003367 putative allosteric regulatory site; other site 350054003368 ACT domains of the lysine-sensitive, aspartokinase (AK) isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related domains; Region: ACT_AKii-LysC-BS-like_2; cd04936 350054003369 putative allosteric regulatory residue; other site 350054003370 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 350054003371 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 350054003372 Domain of unknown function (DUF4185); Region: DUF4185; pfam13810 350054003373 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 350054003374 Clade 3 of the heme-binding enzyme catalase; Region: catalase_clade_3; cd08156 350054003375 tetramer interface [polypeptide binding]; other site 350054003376 heme binding pocket [chemical binding]; other site 350054003377 NADPH binding site [chemical binding]; other site 350054003378 30S ribosomal protein S18; Provisional; Region: PRK13401 350054003379 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 350054003380 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 350054003381 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 350054003382 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 350054003383 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; smart00833 350054003384 PknH-like extracellular domain; Region: PknH_C; pfam14032 350054003385 ergothioneine biosynthesis glutamate--cysteine ligase EgtA; Region: EgtA_Cys_ligase; TIGR03444 350054003386 ergothioneine biosynthesis protein EgtB; Region: egtB_TIGR03440 350054003387 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 350054003388 ergothioneine biosynthesis protein EgtC; Region: TIGR03442 350054003389 Glutamine amidotransferases class-II (Gn-AT)_YafJ-type. YafJ is a glutamine amidotransferase-like protein of unknown function found in prokaryotes, eukaryotes and archaea. YafJ has a conserved structural fold similar to those of other class II...; Region: YafJ; cd01908 350054003390 putative active site [active] 350054003391 putative dimer interface [polypeptide binding]; other site 350054003392 Uncharacterized conserved protein [Function unknown]; Region: COG4301 350054003393 Uncharacterized conserved protein (DUF2260); Region: DUF2260; pfam10017 350054003394 ergothioneine biosynthesis PLP-dependent enzyme EgtE; Region: egtE_PLP_lyase; TIGR04343 350054003395 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 350054003396 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 350054003397 catalytic residue [active] 350054003398 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 350054003399 Sensory domain found in DIguanylate Cyclases & Two-component systems; Region: DICT; pfam10069 350054003400 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 350054003401 Cytochrome P450; Region: p450; cl12078 350054003402 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350054003403 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 350054003404 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 350054003405 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 350054003406 S-adenosylmethionine binding site [chemical binding]; other site 350054003407 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 350054003408 S-adenosylmethionine binding site [chemical binding]; other site 350054003409 glycerol kinase; Provisional; Region: glpK; PRK00047 350054003410 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 350054003411 nucleotide binding site [chemical binding]; other site 350054003412 Peptide chain release factor RF-3 [Translation, ribosomal structure and biogenesis]; Region: PrfC; COG4108 350054003413 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 350054003414 G1 box; other site 350054003415 putative GEF interaction site [polypeptide binding]; other site 350054003416 GTP/Mg2+ binding site [chemical binding]; other site 350054003417 Switch I region; other site 350054003418 G2 box; other site 350054003419 G3 box; other site 350054003420 Switch II region; other site 350054003421 G4 box; other site 350054003422 G5 box; other site 350054003423 Translation_Factor_II_like: Elongation factor Tu (EF-Tu) domain II-like proteins. Elongation factor Tu consists of three structural domains, this family represents the second domain. Domain II adopts a beta barrel structure and is involved in binding to...; Region: Translation_Factor_II_like; cl02787 350054003424 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 350054003425 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 350054003426 active site 350054003427 catalytic tetrad [active] 350054003428 Predicted transcriptional regulators [Transcription]; Region: COG1695 350054003429 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 350054003430 Predicted transcriptional regulators [Transcription]; Region: COG1695 350054003431 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 350054003432 Virulence activator alpha C-term; Region: Vir_act_alpha_C; pfam10400 350054003433 Lignostilbene-alpha,beta-dioxygenase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3670 350054003434 Retinal pigment epithelial membrane protein; Region: RPE65; pfam03055 350054003435 Predicted membrane protein/domain [Function unknown]; Region: COG1714 350054003436 Uncharacterized membrane protein [Function unknown]; Region: SpoIIM; COG1300 350054003437 Domain of unknown function (DUF4095); Region: DUF4095; pfam13338 350054003438 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 350054003439 Protein of unknown function DUF58; Region: DUF58; pfam01882 350054003440 MoxR-like ATPases [General function prediction only]; Region: COG0714 350054003441 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 350054003442 Walker A motif; other site 350054003443 ATP binding site [chemical binding]; other site 350054003444 Walker B motif; other site 350054003445 arginine finger; other site 350054003446 Domain of unknown function (DUF4350); Region: DUF4350; pfam14258 350054003447 Domain of unknown function (DUF4129); Region: DUF4129; pfam13559 350054003448 N5,N10-methylenetetrahydromethanopterin reductase (Mer) catalyzes the reduction of N5,N10-methylenetetrahydromethanopterin with reduced coenzyme F420 to N5-methyltetrahydromethanopterin and oxidized coenzyme F420; Region: Tetrahydromethanopterin_reductase; cd01097 350054003449 F420-dependent oxidoreductase, G6PDH family; Region: F420_G6P_family; TIGR03557 350054003450 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 350054003451 active site 350054003452 Methyltransferase domain; Region: Methyltransf_26; pfam13659 350054003453 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 350054003454 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 350054003455 The C-terminal substrate binding domain of LysR-type transcriptional regulators involved in the catabolism of aromatic compounds and that of other related regulators, contains type 2 periplasmic binding fold; Region: PBP2_LTTR_aromatics_like; cd08414 350054003456 dimerization interface [polypeptide binding]; other site 350054003457 substrate binding pocket [chemical binding]; other site 350054003458 acetyl-CoA acetyltransferase; Provisional; Region: PRK06205 350054003459 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 350054003460 dimer interface [polypeptide binding]; other site 350054003461 active site 350054003462 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 350054003463 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 350054003464 TAP-like protein; Region: Abhydrolase_4; pfam08386 350054003465 Acyl CoA:acetate/3-ketoacid CoA transferase, alpha subunit [Lipid metabolism]; Region: AtoD; COG1788 350054003466 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 350054003467 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 350054003468 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 350054003469 DNA binding residues [nucleotide binding] 350054003470 dimerization interface [polypeptide binding]; other site 350054003471 AAA ATPase domain; Region: AAA_16; pfam13191 350054003472 AAA domain; Region: AAA_22; pfam13401 350054003473 anthranilate dioxygenase reductase; Provisional; Region: antC; PRK11872 350054003474 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 350054003475 catalytic loop [active] 350054003476 iron binding site [ion binding]; other site 350054003477 Benzoate dioxygenase reductase (BenDO) FAD/NAD binding domain. Oxygenases oxidize hydrocarbons using dioxygen as the oxidant. As a Class I bacterial dioxygenases, benzoate dioxygenase like proteins combine an [2Fe-2S] cluster containing N-terminal...; Region: BenDO_FAD_NAD; cd06209 350054003478 FAD binding pocket [chemical binding]; other site 350054003479 FAD binding motif [chemical binding]; other site 350054003480 phosphate binding motif [ion binding]; other site 350054003481 beta-alpha-beta structure motif; other site 350054003482 NAD binding pocket [chemical binding]; other site 350054003483 Transcriptional regulators [Transcription]; Region: GntR; COG1802 350054003484 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 350054003485 1,6-dihydroxycyclohexa-2,4-diene-1-carboxylate dehydrogenase; Provisional; Region: benD; PRK12823 350054003486 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 350054003487 NAD(P) binding site [chemical binding]; other site 350054003488 active site 350054003489 Ring hydroxylating dioxygenase beta subunit. This subunit has a similar structure to NTF-2, Ketosteroid isomerase and scytalone dehydratase.The degradation of aromatic compounds by aerobic bacteria frequently begins with the dihydroxylation of the...; Region: ring_hydroxylating_dioxygenases_beta; cd00667 350054003490 inter-subunit interface; other site 350054003491 benzoate 1,2-dioxygenase, large subunit; Region: benzo_1_2_benA; TIGR03229 350054003492 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 350054003493 iron-sulfur cluster [ion binding]; other site 350054003494 [2Fe-2S] cluster binding site [ion binding]; other site 350054003495 C-terminal catalytic domain of the oxygenase alpha subunit of Pseudomonas resinovorans strain CA10 anthranilate 1,2-dioxygenase and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_AntDO-like; cd08879 350054003496 putative alpha subunit interface [polypeptide binding]; other site 350054003497 putative active site [active] 350054003498 putative substrate binding site [chemical binding]; other site 350054003499 Fe binding site [ion binding]; other site 350054003500 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 350054003501 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 350054003502 The C-terminal substrate binding domain of LysR-type transcriptional regulators involved in the catabolism of aromatic compounds and that of other related regulators, contains type 2 periplasmic binding fold; Region: PBP2_LTTR_aromatics_like; cd08414 350054003503 dimerization interface [polypeptide binding]; other site 350054003504 substrate binding pocket [chemical binding]; other site 350054003505 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 350054003506 Muconate lactonizing enzyme (MLE) like subgroup of the enolase superfamily. Enzymes of this subgroup share three conserved carboxylate ligands for the essential divalent metal ion (usually Mg2+), two aspartates and a glutamate, and residues that can...; Region: MLE_like; cd03315 350054003507 active site 350054003508 catechol 1,2-dioxygenase, Actinobacterial; Region: catachol_actin; TIGR02438 350054003509 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 350054003510 active site 350054003511 muconolactone delta-isomerase; Region: muco_delta; TIGR03221 350054003512 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 350054003513 PPOX class probable F420-dependent enzyme; Region: Rv1155_F420; TIGR03618 350054003514 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 350054003515 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 350054003516 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 350054003517 catalytic residue [active] 350054003518 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 350054003519 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 350054003520 putative active site [active] 350054003521 putative metal binding site [ion binding]; other site 350054003522 Membrane carboxypeptidase (penicillin-binding protein) [Cell envelope biogenesis, outer membrane]; Region: MrcB; COG0744 350054003523 Transglycosylase; Region: Transgly; pfam00912 350054003524 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 350054003525 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 350054003526 Transcription factor WhiB; Region: Whib; pfam02467 350054003527 Predicted ATPase involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: ArsA; COG0003 350054003528 ArsA ATPase functionas as an efflux pump located on the inner membrane of the cell. This ATP-driven oxyanion pump catalyzes the extrusion of arsenite, antimonite and arsenate. Maintenance of a low intracellular concentration of oxyanion produces...; Region: ArsA; cd02035 350054003529 DTAP/Switch II; other site 350054003530 Switch I; other site 350054003531 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 350054003532 Predicted ATPase involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: ArsA; COG0003 350054003533 ArsA ATPase functionas as an efflux pump located on the inner membrane of the cell. This ATP-driven oxyanion pump catalyzes the extrusion of arsenite, antimonite and arsenate. Maintenance of a low intracellular concentration of oxyanion produces...; Region: ArsA; cd02035 350054003534 P loop; other site 350054003535 Nucleotide binding site [chemical binding]; other site 350054003536 DTAP/Switch II; other site 350054003537 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 350054003538 homotrimer interaction site [polypeptide binding]; other site 350054003539 putative active site [active] 350054003540 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 350054003541 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 350054003542 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 350054003543 ligand binding site [chemical binding]; other site 350054003544 flexible hinge region; other site 350054003545 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 350054003546 putative switch regulator; other site 350054003547 non-specific DNA interactions [nucleotide binding]; other site 350054003548 DNA binding site [nucleotide binding] 350054003549 sequence specific DNA binding site [nucleotide binding]; other site 350054003550 putative cAMP binding site [chemical binding]; other site 350054003551 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 350054003552 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 350054003553 minor groove reading motif; other site 350054003554 helix-hairpin-helix signature motif; other site 350054003555 substrate binding pocket [chemical binding]; other site 350054003556 active site 350054003557 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 350054003558 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 350054003559 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 350054003560 catalytic residues [active] 350054003561 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 350054003562 putative active site [active] 350054003563 putative CoA binding site [chemical binding]; other site 350054003564 nudix motif; other site 350054003565 metal binding site [ion binding]; metal-binding site 350054003566 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 350054003567 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 350054003568 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 350054003569 Protein of unknown function (DUF1469); Region: DUF1469; pfam07332 350054003570 acetyl-CoA synthetase; Provisional; Region: PRK00174 350054003571 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 350054003572 active site 350054003573 CoA binding site [chemical binding]; other site 350054003574 acyl-activating enzyme (AAE) consensus motif; other site 350054003575 AMP binding site [chemical binding]; other site 350054003576 acetate binding site [chemical binding]; other site 350054003577 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 350054003578 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 350054003579 motif II; other site 350054003580 helicase/secretion neighborhood CpaE-like protein; Region: CpaE_hom_Actino; TIGR03815 350054003581 Type II/IV secretion system protein; Region: T2SE; pfam00437 350054003582 Type IV secretory pathway component VirB11, and related ATPases. The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to...; Region: VirB11-like_ATPase; cd01130 350054003583 ATP binding site [chemical binding]; other site 350054003584 Walker A motif; other site 350054003585 hexamer interface [polypeptide binding]; other site 350054003586 Walker B motif; other site 350054003587 Flp pilus assembly protein TadB [Intracellular trafficking and secretion]; Region: TadB; COG4965 350054003588 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 350054003589 Catalytic domain of Protein Kinases; Region: PKc; cd00180 350054003590 active site 350054003591 ATP binding site [chemical binding]; other site 350054003592 substrate binding site [chemical binding]; other site 350054003593 activation loop (A-loop); other site 350054003594 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 350054003595 helicase/secretion neighborhood putative DEAH-box helicase; Region: DECH_helic; TIGR03817 350054003596 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 350054003597 ATP binding site [chemical binding]; other site 350054003598 putative Mg++ binding site [ion binding]; other site 350054003599 Domain of unknown function (DUF1998); Region: DUF1998; pfam09369 350054003600 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 350054003601 DNA-binding site [nucleotide binding]; DNA binding site 350054003602 RNA-binding motif; other site 350054003603 DNA topoisomerase I subunit omega; Validated; Region: PRK07561 350054003604 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 350054003605 active site 350054003606 interdomain interaction site; other site 350054003607 putative metal-binding site [ion binding]; other site 350054003608 nucleotide binding site [chemical binding]; other site 350054003609 Bacterial DNA topoisomeraes I ATP-binding domain; Region: TOP1Bc; smart00436 350054003610 domain I; other site 350054003611 phosphate binding site [ion binding]; other site 350054003612 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 350054003613 domain II; other site 350054003614 domain III; other site 350054003615 nucleotide binding site [chemical binding]; other site 350054003616 DNA binding groove [nucleotide binding] 350054003617 catalytic site [active] 350054003618 domain IV; other site 350054003619 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 350054003620 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 350054003621 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 350054003622 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 350054003623 dimerization interface [polypeptide binding]; other site 350054003624 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 350054003625 cyclase homology domain; Region: CHD; cd07302 350054003626 nucleotidyl binding site; other site 350054003627 metal binding site [ion binding]; metal-binding site 350054003628 dimer interface [polypeptide binding]; other site 350054003629 DNA polymerase III subunit delta'; Validated; Region: PRK07940 350054003630 DNA polymerase III subunit delta'; Validated; Region: PRK08485 350054003631 DNA polymerase III, delta subunit, C terminal; Region: DNApol3-delta_C; pfam09115 350054003632 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 350054003633 IgD-like repeat domain of mycobacterial L,D-transpeptidases; Region: LDT_IgD_like_2; cd13432 350054003634 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 350054003635 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 350054003636 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 350054003637 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 350054003638 NAD(P) binding site [chemical binding]; other site 350054003639 active site 350054003640 Peptidase M1 family Aminopeptidase N; Region: M1_APN_4; cd09603 350054003641 Zn binding site [ion binding]; other site 350054003642 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 350054003643 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 350054003644 acyl-activating enzyme (AAE) consensus motif; other site 350054003645 AMP binding site [chemical binding]; other site 350054003646 active site 350054003647 CoA binding site [chemical binding]; other site 350054003648 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 350054003649 non-ribosomal peptide synthetase terminal domain of unknown function; Region: NRPS_term_dom; TIGR02353 350054003650 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 350054003651 putative trimer interface [polypeptide binding]; other site 350054003652 putative CoA binding site [chemical binding]; other site 350054003653 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 350054003654 putative trimer interface [polypeptide binding]; other site 350054003655 putative CoA binding site [chemical binding]; other site 350054003656 integral membrane protein, TerC family; Region: R_switched_Alx; TIGR03718 350054003657 putative OHCU decarboxylase; Provisional; Region: PRK13798 350054003658 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 350054003659 dimer interface [polypeptide binding]; other site 350054003660 substrate binding site [chemical binding]; other site 350054003661 metal binding sites [ion binding]; metal-binding site 350054003662 D-Ala-D-Ala carboxypeptidase 3 (S13) family; Region: Peptidase_S13; cl17429 350054003663 D-alanyl-D-alanine carboxypeptidase, serine-type, PBP4 family; Region: PBP4; TIGR00666 350054003664 uncharacterized protein, coenzyme F420 biosynthesis associated; Region: DUF2342_F420; TIGR03883 350054003665 Uncharacterized conserved protein (DUF2342); Region: DUF2342; pfam10103 350054003666 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 350054003667 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 350054003668 Ligand Binding Site [chemical binding]; other site 350054003669 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 350054003670 active site 350054003671 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 350054003672 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 350054003673 molybdopterin cofactor binding site; other site 350054003674 Molybdopterin-Binding, C-terminal (MopB_CT) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum-...; Region: MopB_CT; cl09929 350054003675 molybdopterin cofactor binding site; other site 350054003676 Uncharacterized conserved protein [Function unknown]; Region: COG2968 350054003677 Protein of unknown function (DUF541); Region: SIMPL; pfam04402 350054003678 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 350054003679 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 350054003680 FtsH Extracellular; Region: FtsH_ext; pfam06480 350054003681 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 350054003682 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 350054003683 Walker A motif; other site 350054003684 ATP binding site [chemical binding]; other site 350054003685 Walker B motif; other site 350054003686 arginine finger; other site 350054003687 Peptidase family M41; Region: Peptidase_M41; pfam01434 350054003688 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 350054003689 homodecamer interface [polypeptide binding]; other site 350054003690 GTP cyclohydrolase I; Provisional; Region: PLN03044 350054003691 active site 350054003692 putative catalytic site residues [active] 350054003693 zinc binding site [ion binding]; other site 350054003694 GTP-CH-I/GFRP interaction surface; other site 350054003695 dihydropteroate synthase; Region: DHPS; TIGR01496 350054003696 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 350054003697 substrate binding pocket [chemical binding]; other site 350054003698 dimer interface [polypeptide binding]; other site 350054003699 inhibitor binding site; inhibition site 350054003700 Dihydroneopterin aldolase (DHNA) and 7,8-dihydroneopterin triphosphate epimerase domain (DHNTPE); these enzymes have been designated folB and folX, respectively. Folate derivatives are essential cofactors in the biosynthesis of purines, pyrimidines, and...; Region: DHNA_DHNTPE; cd00534 350054003701 homooctamer interface [polypeptide binding]; other site 350054003702 active site 350054003703 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 350054003704 catalytic center binding site [active] 350054003705 ATP binding site [chemical binding]; other site 350054003706 Protein of unknown function (DUF3180); Region: DUF3180; pfam11377 350054003707 Uncharacterized conserved protein [Function unknown]; Region: COG5495 350054003708 Rossmann-like domain; Region: Rossmann-like; pfam10727 350054003709 Domain of unknown function (DUF2520); Region: DUF2520; pfam10728 350054003710 Pantoate-beta-alanine ligase; Region: PanC; cd00560 350054003711 pantoate--beta-alanine ligase; Region: panC; TIGR00018 350054003712 active site 350054003713 ATP-binding site [chemical binding]; other site 350054003714 pantoate-binding site; other site 350054003715 HXXH motif; other site 350054003716 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 350054003717 tetramerization interface [polypeptide binding]; other site 350054003718 active site 350054003719 pantothenate kinase; Reviewed; Region: PRK13318 350054003720 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Bacterial Cryptic D-Serine Dehydratase; Region: PLPDE_III_cryptic_DSD; cd06818 350054003721 Predicted amino acid aldolase or racemase [Amino acid transport and metabolism]; Region: COG3616 350054003722 active site 350054003723 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 350054003724 dimer interface [polypeptide binding]; other site 350054003725 substrate binding site [chemical binding]; other site 350054003726 catalytic residue [active] 350054003727 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 350054003728 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 350054003729 dimer interface [polypeptide binding]; other site 350054003730 putative anticodon binding site; other site 350054003731 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 350054003732 motif 1; other site 350054003733 dimer interface [polypeptide binding]; other site 350054003734 active site 350054003735 motif 2; other site 350054003736 motif 3; other site 350054003737 Lsr2; Region: Lsr2; pfam11774 350054003738 ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]; Region: clpA; COG0542 350054003739 Clp amino terminal domain; Region: Clp_N; pfam02861 350054003740 Clp amino terminal domain; Region: Clp_N; pfam02861 350054003741 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 350054003742 Walker A motif; other site 350054003743 ATP binding site [chemical binding]; other site 350054003744 Walker B motif; other site 350054003745 arginine finger; other site 350054003746 UvrB/uvrC motif; Region: UVR; pfam02151 350054003747 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 350054003748 Walker A motif; other site 350054003749 ATP binding site [chemical binding]; other site 350054003750 Walker B motif; other site 350054003751 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 350054003752 Probable cobalt transporter subunit (CbtA); Region: CbtA; cl02266 350054003753 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 350054003754 catalytic core [active] 350054003755 Beta-lactamase class A [Defense mechanisms]; Region: PenP; COG2367 350054003756 Beta-lactamase enzyme family; Region: Beta-lactamase2; pfam13354 350054003757 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 350054003758 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 350054003759 catalytic site [active] 350054003760 transcriptional activator FtrA; Provisional; Region: ftrA; PRK09393 350054003761 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 350054003762 conserved cys residue [active] 350054003763 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 350054003764 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 350054003765 A/G-specific DNA glycosylase [DNA replication, recombination, and repair]; Region: MutY; COG1194 350054003766 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 350054003767 minor groove reading motif; other site 350054003768 helix-hairpin-helix signature motif; other site 350054003769 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; cl15304 350054003770 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 350054003771 active site clefts [active] 350054003772 zinc binding site [ion binding]; other site 350054003773 dimer interface [polypeptide binding]; other site 350054003774 DNA integrity scanning protein DisA; Provisional; Region: PRK13482 350054003775 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 350054003776 DisA bacterial checkpoint controller linker region; Region: DisA-linker; pfam10635 350054003777 DNA repair protein RadA; Provisional; Region: PRK11823 350054003778 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 350054003779 Walker A motif; other site 350054003780 ATP binding site [chemical binding]; other site 350054003781 Walker B motif; other site 350054003782 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 350054003783 Transcriptional regulators, similar to M. xanthus CarD [Transcription]; Region: COG1329 350054003784 MECDP_synthase (2-C-methyl-D-erythritol-2,4-cyclodiphosphate synthase), encoded by the ispF gene, catalyzes the formation of 2-C-methyl-D-erythritol 2,4-cyclodiphosphate (MEC) in the non-mevalonate deoxyxylulose (DOXP) pathway for isoprenoid biosynthesis; Region: MECDP_synthase; cd00554 350054003785 homotrimer interaction site [polypeptide binding]; other site 350054003786 zinc binding site [ion binding]; other site 350054003787 CDP-binding sites; other site 350054003788 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 350054003789 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 350054003790 active site 350054003791 HIGH motif; other site 350054003792 nucleotide binding site [chemical binding]; other site 350054003793 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 350054003794 KMSKS motif; other site 350054003795 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 350054003796 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 350054003797 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 350054003798 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 350054003799 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 350054003800 transmembrane helices; other site 350054003801 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 350054003802 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 350054003803 LamB/YcsF family of lactam utilization protein; Region: LamB_YcsF_like; cd10787 350054003804 putative active site [active] 350054003805 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 350054003806 Thiosulfate sulfurtransferase (TST), N-terminal, inactive domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the 1st repeat, which does not contain the catalytically active Cys residue. The role of the 1st repeat is uncertain, but it...; Region: TST_Repeat_1; cd01448 350054003807 active site residue [active] 350054003808 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cl00125 350054003809 active site residue [active] 350054003810 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 350054003811 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 350054003812 metal binding site [ion binding]; metal-binding site 350054003813 active site 350054003814 I-site; other site 350054003815 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 350054003816 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 350054003817 intersubunit interface [polypeptide binding]; other site 350054003818 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 350054003819 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 350054003820 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 350054003821 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 350054003822 ABC-ATPase subunit interface; other site 350054003823 dimer interface [polypeptide binding]; other site 350054003824 putative PBP binding regions; other site 350054003825 Transcriptional regulators [Transcription]; Region: PurR; COG1609 350054003826 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 350054003827 DNA binding site [nucleotide binding] 350054003828 domain linker motif; other site 350054003829 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors; Region: PBP1_LacI_like_3; cd06279 350054003830 putative dimerization interface [polypeptide binding]; other site 350054003831 putative ligand binding site [chemical binding]; other site 350054003832 Trehalose-6-phosphatase [Carbohydrate transport and metabolism]; Region: OtsB; COG1877 350054003833 trehalose-6-phosphate phosphatase; Provisional; Region: PRK10187; cl17105 350054003834 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 350054003835 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350054003836 pimeloyl-CoA dehydrogenase, small subunit; Region: pimD_small; TIGR03203 350054003837 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 350054003838 active site 350054003839 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 350054003840 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 350054003841 active site 350054003842 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 350054003843 phenylacetate-CoA oxygenase/reductase, PaaK subunit; Region: PA_CoA_Oxy5; TIGR02160 350054003844 FAD binding pocket [chemical binding]; other site 350054003845 FAD binding motif [chemical binding]; other site 350054003846 phosphate binding motif [ion binding]; other site 350054003847 beta-alpha-beta structure motif; other site 350054003848 NAD(p) ribose binding residues [chemical binding]; other site 350054003849 NAD binding pocket [chemical binding]; other site 350054003850 NAD(P)-pyrophosphate-nicotinamide binding residues [chemical binding]; other site 350054003851 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 350054003852 catalytic loop [active] 350054003853 iron binding site [ion binding]; other site 350054003854 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 350054003855 Naphthocyclinone hydroxylase; Region: NcnH; cd01159 350054003856 Flavin binding site [chemical binding]; other site 350054003857 2-hydroxy-6-oxo-6-phenylhexa-2,4-dienoate hydrolase; Region: biphenyl_bphD; TIGR03343 350054003858 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 350054003859 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 350054003860 2,3-dihydroxybiphenyl 1,2-dioxygenase; Region: 23dbph12diox; TIGR03213 350054003861 N-terminal domain of 2,3-dihydroxybiphenyl 1,2-dioxygenase (BphC, EC 1.13.11.39) 1 from Rhodococcus globerulus P6 (BphC1-RGP6) and similar proteins; Region: BphC1-RGP6_N_like; cd07252 350054003862 C-terminal domain of 2,3-dihydroxybiphenyl 1,2-dioxygenase (BphC, EC 1.13.11.39) 1 from Rhodococcus globerulus P6 (BphC1-RGP6) and similar proteins; Region: BphC1-RGP6_C_like; cd07237 350054003863 active site 350054003864 Fe binding site [ion binding]; other site 350054003865 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 350054003866 Protein of unknown function (DUF2867); Region: DUF2867; pfam11066 350054003867 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 350054003868 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350054003869 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 350054003870 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 350054003871 Transcriptional regulator [Transcription]; Region: LysR; COG0583 350054003872 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 350054003873 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 350054003874 dimerization interface [polypeptide binding]; other site 350054003875 metabolite-proton symporter; Region: 2A0106; TIGR00883 350054003876 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 350054003877 putative substrate translocation pore; other site 350054003878 3-hydroxybutyrate dehydrogenase; Region: PHB_DH; TIGR01963 350054003879 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 350054003880 NAD(P) binding site [chemical binding]; other site 350054003881 active site 350054003882 acetoacetyl-CoA synthetase; Provisional; Region: PRK03584 350054003883 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 350054003884 acyl-activating enzyme (AAE) consensus motif; other site 350054003885 AMP binding site [chemical binding]; other site 350054003886 active site 350054003887 CoA binding site [chemical binding]; other site 350054003888 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 350054003889 Major Facilitator Superfamily; Region: MFS_1; pfam07690 350054003890 aspartate aminotransferase; Provisional; Region: PRK05764 350054003891 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 350054003892 pyridoxal 5'-phosphate binding site [chemical binding]; other site 350054003893 homodimer interface [polypeptide binding]; other site 350054003894 catalytic residue [active] 350054003895 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 350054003896 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 350054003897 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 350054003898 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 350054003899 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 350054003900 active site 350054003901 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 350054003902 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 350054003903 active site 350054003904 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07656 350054003905 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 350054003906 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_2; cd05917 350054003907 acyl-activating enzyme (AAE) consensus motif; other site 350054003908 putative AMP binding site [chemical binding]; other site 350054003909 putative active site [active] 350054003910 putative CoA binding site [chemical binding]; other site 350054003911 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 350054003912 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 350054003913 active site 350054003914 short chain dehydrogenase; Provisional; Region: PRK07831 350054003915 classical (c) SDRs; Region: SDR_c; cd05233 350054003916 NAD(P) binding site [chemical binding]; other site 350054003917 active site 350054003918 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 350054003919 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350054003920 acetyl-CoA acetyltransferase; Provisional; Region: PRK07801 350054003921 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 350054003922 dimer interface [polypeptide binding]; other site 350054003923 active site 350054003924 oxidoreductase, Rxyl_3153 family; Region: Rxyl_3153; TIGR03989 350054003925 Class III alcohol dehydrogenase; Region: Zn_ADH_class_III; cd08279 350054003926 NAD binding site [chemical binding]; other site 350054003927 catalytic Zn binding site [ion binding]; other site 350054003928 substrate binding site [chemical binding]; other site 350054003929 structural Zn binding site [ion binding]; other site 350054003930 Nitronate monooxygenase; Region: NMO; pfam03060 350054003931 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 350054003932 FMN binding site [chemical binding]; other site 350054003933 substrate binding site [chemical binding]; other site 350054003934 putative catalytic residue [active] 350054003935 Coenzyme A transferase; Region: CoA_trans; cl17247 350054003936 Acyl CoA:acetate/3-ketoacid CoA transferase, alpha subunit [Lipid metabolism]; Region: AtoD; COG1788 350054003937 enoyl-CoA hydratase; Provisional; Region: PRK06495 350054003938 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 350054003939 substrate binding site [chemical binding]; other site 350054003940 oxyanion hole (OAH) forming residues; other site 350054003941 trimer interface [polypeptide binding]; other site 350054003942 short chain dehydrogenase; Provisional; Region: PRK07856 350054003943 classical (c) SDRs; Region: SDR_c; cd05233 350054003944 NAD(P) binding site [chemical binding]; other site 350054003945 active site 350054003946 short chain dehydrogenase; Provisional; Region: PRK07791 350054003947 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 350054003948 NAD(P) binding site [chemical binding]; other site 350054003949 active site 350054003950 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 350054003951 GAF domain; Region: GAF; pfam01590 350054003952 Glycosyl transferases group 1; Region: Glyco_trans_1_4; pfam13692 350054003953 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_tuaB_like; cd13127 350054003954 colanic acid exporter; Provisional; Region: PRK10459 350054003955 O-Antigen ligase; Region: Wzy_C; pfam04932 350054003956 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 350054003957 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 350054003958 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 350054003959 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 350054003960 This is a family of GT1 glycosyltransferases found specifically in certain bacteria. amsK in Erwinia amylovora, has been reported to be involved in the biosynthesis of amylovoran, a exopolysaccharide acting as a virulence factor; Region: GT1_amsK_like; cd03799 350054003961 colanic acid biosynthesis glycosyltransferase WcaL; Provisional; Region: PRK15427 350054003962 putative ADP-binding pocket [chemical binding]; other site 350054003963 Bacterial cellulose synthase subunit; Region: BcsB; cl15851 350054003964 Domain of unknown function (DUF385); Region: DUF385; pfam04075 350054003965 acetyl-CoA acetyltransferase; Provisional; Region: PRK07850 350054003966 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 350054003967 dimer interface [polypeptide binding]; other site 350054003968 active site 350054003969 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 350054003970 Cytochrome P450; Region: p450; cl12078 350054003971 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 350054003972 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 350054003973 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 350054003974 active site 350054003975 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 350054003976 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 350054003977 active site 350054003978 (R)-hydratase [(R)-specific enoyl-CoA hydratase]. Catalyzes the hydration of trans-2-enoyl CoA to (R)-3-hydroxyacyl-CoA as part of the PHA (polyhydroxyalkanoate) biosynthetic pathway. The structure of the monomer includes a five-strand antiparallel...; Region: R_hydratase_like; cd03441 350054003979 active site 350054003980 catalytic site [active] 350054003981 Predicted nucleic-acid-binding protein containing a Zn-ribbon [General function prediction only]; Region: COG1545 350054003982 DUF35 OB-fold domain; Region: DUF35; pfam01796 350054003983 SAV4209 is a Streptomyces avermitilis protein with a hot dog fold that is similar to those of (R)-specific enoyl-CoA hydratase, the peroxisomal Hydratase-Dehydrogenase-Epimerase (HDE) protein, and the fatty acid synthase beta subunit. The alpha- and...; Region: SAV4209; cd03455 350054003984 putative active site [active] 350054003985 putative catalytic site [active] 350054003986 lipid-transfer protein; Provisional; Region: PRK07855 350054003987 Thiolase domain associated with sterol carrier protein (SCP)-x isoform and related proteins; SCP-2 has multiple roles in intracellular lipid circulation and metabolism. The N-terminal presequence in the SCP-x isoform represents a peroxisomal...; Region: SCP-x_thiolase; cd00829 350054003988 active site 350054003989 Domain of unknown function (DUF1942); Region: DUF1942; pfam09167 350054003990 enoyl-CoA hydratase; Region: PLN02864 350054003991 Metal-binding domain of MaoC dehydratase; Region: zf-MaoC; pfam13452 350054003992 HDE_HSD The R-hydratase-like hot dog fold of the 17-beta-hydroxysteriod dehydrogenase (HSD), and Hydratase-Dehydrogenase-Epimerase (HDE) proteins. Other enzymes with this fold include MaoC dehydratase, and the fatty acid synthase beta subunit; Region: HDE_HSD; cd03448 350054003993 dimer interaction site [polypeptide binding]; other site 350054003994 substrate-binding tunnel; other site 350054003995 active site 350054003996 catalytic site [active] 350054003997 substrate binding site [chemical binding]; other site 350054003998 3-ketosteroid-delta-1-dehydrogenase; Reviewed; Region: PRK07843 350054003999 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 350054004000 2-keto-4-pentenoate hydratase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3971 350054004001 acetaldehyde dehydrogenase; Validated; Region: PRK08300 350054004002 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 350054004003 Prokaryotic acetaldehyde dehydrogenase, dimerisation; Region: AcetDehyd-dimer; pfam09290 350054004004 4-hyroxy-2-oxovalerate/4-hydroxy-2-oxopentanoic acid aldolase,; Validated; Region: PRK08195 350054004005 4-hydroxy-2-oxovalerate aldolase, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_HOA; cd07943 350054004006 active site 350054004007 catalytic residues [active] 350054004008 metal binding site [ion binding]; metal-binding site 350054004009 DmpG-like communication domain; Region: DmpG_comm; pfam07836 350054004010 Predicted membrane protein, hemolysin III homolog [General function prediction only]; Region: COG1272 350054004011 Superfamily II DNA helicase [DNA replication, recombination, and repair]; Region: RecQ; COG0514 350054004012 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 350054004013 ATP binding site [chemical binding]; other site 350054004014 putative Mg++ binding site [ion binding]; other site 350054004015 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 350054004016 nucleotide binding region [chemical binding]; other site 350054004017 ATP-binding site [chemical binding]; other site 350054004018 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 350054004019 Cytochrome P450; Region: p450; cl12078 350054004020 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 350054004021 putative DNA binding site [nucleotide binding]; other site 350054004022 Transcriptional regulator [Transcription]; Region: IclR; COG1414 350054004023 putative Zn2+ binding site [ion binding]; other site 350054004024 short chain dehydrogenase; Provisional; Region: PRK07890 350054004025 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 350054004026 NAD(P) binding site [chemical binding]; other site 350054004027 active site 350054004028 Sulfotransferase family; Region: Sulfotransfer_3; pfam13469 350054004029 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 350054004030 The alignment model represents the N-terminal rieske iron-sulfur domain of KshA, the oxygenase component of 3-ketosteroid 9-alpha-hydroxylase (KSH). The terminal oxygenase component of KSH is a key enzyme in the microbial steroid degradation pathway; Region: Rieske_RO_Alpha_KSH; cd03531 350054004031 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 350054004032 hydrophobic ligand binding site; other site 350054004033 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cl17904 350054004034 acetyl-CoA acetyltransferase; Provisional; Region: PRK08313 350054004035 Thiolase domain associated with sterol carrier protein (SCP)-x isoform and related proteins; SCP-2 has multiple roles in intracellular lipid circulation and metabolism. The N-terminal presequence in the SCP-x isoform represents a peroxisomal...; Region: SCP-x_thiolase; cd00829 350054004036 active site 350054004037 lipid-transfer protein; Provisional; Region: PRK07937 350054004038 Thiolase domain associated with sterol carrier protein (SCP)-x isoform and related proteins; SCP-2 has multiple roles in intracellular lipid circulation and metabolism. The N-terminal presequence in the SCP-x isoform represents a peroxisomal...; Region: SCP-x_thiolase; cd00829 350054004039 active site 350054004040 Predicted nucleic-acid-binding protein containing a Zn-ribbon [General function prediction only]; Region: COG1545 350054004041 DUF35 OB-fold domain; Region: DUF35; pfam01796 350054004042 Predicted nucleic-acid-binding protein containing a Zn-ribbon [General function prediction only]; Region: COG1545 350054004043 DUF35 OB-fold domain; Region: DUF35; pfam01796 350054004044 N5,N10-methylenetetrahydromethanopterin reductase (Mer) catalyzes the reduction of N5,N10-methylenetetrahydromethanopterin with reduced coenzyme F420 to N5-methyltetrahydromethanopterin and oxidized coenzyme F420; Region: Tetrahydromethanopterin_reductase; cd01097 350054004045 probable F420-dependent oxidoreductase, Rv3520c family; Region: F420_Rv3520c; TIGR03559 350054004046 Acetoacetate decarboxylase (ADC); Region: ADC; pfam06314 350054004047 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 350054004048 Cytochrome P450; Region: p450; cl12078 350054004049 enoyl-CoA hydratase; Provisional; Region: PRK07799 350054004050 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 350054004051 substrate binding site [chemical binding]; other site 350054004052 oxyanion hole (OAH) forming residues; other site 350054004053 trimer interface [polypeptide binding]; other site 350054004054 acyl-CoA synthetase; Validated; Region: PRK07798 350054004055 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 350054004056 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_5; cd05924 350054004057 acyl-activating enzyme (AAE) consensus motif; other site 350054004058 acyl-activating enzyme (AAE) consensus motif; other site 350054004059 putative AMP binding site [chemical binding]; other site 350054004060 putative active site [active] 350054004061 putative CoA binding site [chemical binding]; other site 350054004062 Nitronate monooxygenase; Region: NMO; pfam03060 350054004063 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 350054004064 FMN binding site [chemical binding]; other site 350054004065 substrate binding site [chemical binding]; other site 350054004066 putative catalytic residue [active] 350054004067 hypothetical protein; Validated; Region: PRK07586 350054004068 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 350054004069 PYR/PP interface [polypeptide binding]; other site 350054004070 dimer interface [polypeptide binding]; other site 350054004071 TPP binding site [chemical binding]; other site 350054004072 Thiamine pyrophosphate (TPP) family, BFDC subfamily, TPP-binding module; composed of proteins similar to Pseudomonas putida benzoylformate decarboxylase (BFDC). P. putida BFDC plays a role in the mandelate pathway, catalyzing the conversion of...; Region: TPP_BFDC; cd02002 350054004073 TPP-binding site [chemical binding]; other site 350054004074 dimer interface [polypeptide binding]; other site 350054004075 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 350054004076 The alignment model represents the N-terminal rieske iron-sulfur domain of KshA, the oxygenase component of 3-ketosteroid 9-alpha-hydroxylase (KSH). The terminal oxygenase component of KSH is a key enzyme in the microbial steroid degradation pathway; Region: Rieske_RO_Alpha_KSH; cd03531 350054004077 3-ketosteroid-delta-1-dehydrogenase; Provisional; Region: PRK12837 350054004078 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 350054004079 acyl-CoA synthetase; Provisional; Region: PRK13388 350054004080 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 350054004081 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 350054004082 active site 350054004083 CoA binding site [chemical binding]; other site 350054004084 AMP binding site [chemical binding]; other site 350054004085 acyl-CoA synthetase; Validated; Region: PRK07867 350054004086 Fatty acid transport proteins (FATP) play dual roles as fatty acid transporters and its activation enzymes; Region: FATP_FACS; cd05940 350054004087 acyl-activating enzyme (AAE) consensus motif; other site 350054004088 putative AMP binding site [chemical binding]; other site 350054004089 putative active site [active] 350054004090 putative CoA binding site [chemical binding]; other site 350054004091 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 350054004092 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 350054004093 active site 350054004094 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 350054004095 Putative acyl-CoA dehydrogenases similar to fadE6, fadE17, and fadE26; Region: ACAD_fadE6_17_26; cd01152 350054004096 FAD binding site [chemical binding]; other site 350054004097 substrate binding site [chemical binding]; other site 350054004098 catalytic base [active] 350054004099 Protein of unknown function (DUF1271); Region: DUF1271; cl01443 350054004100 Ferredoxin [Energy production and conversion]; Region: Fer; COG1141 350054004101 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07792 350054004102 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 350054004103 NAD(P) binding site [chemical binding]; other site 350054004104 active site 350054004105 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 350054004106 Permease; Region: Permease; pfam02405 350054004107 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 350054004108 Permease; Region: Permease; pfam02405 350054004109 virulence factor Mce family protein; Region: Mtu_fam_mce; TIGR00996 350054004110 mce related protein; Region: MCE; pfam02470 350054004111 Protein of unknown function (DUF3407); Region: DUF3407; pfam11887 350054004112 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 350054004113 mce related protein; Region: MCE; pfam02470 350054004114 virulence factor Mce family protein; Region: Mtu_fam_mce; TIGR00996 350054004115 mce related protein; Region: MCE; pfam02470 350054004116 Protein of unknown function (DUF3407); Region: DUF3407; pfam11887 350054004117 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 350054004118 mce related protein; Region: MCE; pfam02470 350054004119 Protein of unknown function (DUF3407); Region: DUF3407; pfam11887 350054004120 virulence factor Mce family protein; Region: Mtu_fam_mce; TIGR00996 350054004121 mce related protein; Region: MCE; pfam02470 350054004122 virulence factor Mce family protein; Region: Mtu_fam_mce; TIGR00996 350054004123 mce related protein; Region: MCE; pfam02470 350054004124 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 350054004125 hopanoid-associated sugar epimerase; Region: HpnA; TIGR03466 350054004126 NAD(P) binding site [chemical binding]; other site 350054004127 active site 350054004128 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 350054004129 NAD(P) binding site [chemical binding]; other site 350054004130 active site 350054004131 Trehalose-6-phosphate synthase [Carbohydrate transport and metabolism]; Region: OtsA; COG0380 350054004132 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 350054004133 active site 350054004134 homotetramer interface [polypeptide binding]; other site 350054004135 enoyl-CoA hydratase; Provisional; Region: PRK08290 350054004136 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 350054004137 substrate binding site [chemical binding]; other site 350054004138 oxyanion hole (OAH) forming residues; other site 350054004139 trimer interface [polypeptide binding]; other site 350054004140 short chain dehydrogenase; Provisional; Region: PRK05875 350054004141 classical (c) SDRs; Region: SDR_c; cd05233 350054004142 NAD(P) binding site [chemical binding]; other site 350054004143 active site 350054004144 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 350054004145 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 350054004146 catalytic loop [active] 350054004147 iron binding site [ion binding]; other site 350054004148 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 350054004149 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 350054004150 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; pfam03450 350054004151 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_5; cd07823 350054004152 putative hydrophobic ligand binding site [chemical binding]; other site 350054004153 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 350054004154 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 350054004155 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 350054004156 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 350054004157 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 350054004158 XdhC Rossmann domain; Region: XdhC_C; pfam13478 350054004159 D-ala-D-ala dipeptidase; Region: Peptidase_M15; cl00813 350054004160 Domain of unknown function (DUF4185); Region: DUF4185; pfam13810 350054004161 trehalose synthase, Pseudomonas stutzeri type; Region: TreS_stutzeri; TIGR02455 350054004162 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cd00085 350054004163 active site 350054004164 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cd00085 350054004165 active site 350054004166 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 350054004167 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 350054004168 active site 350054004169 phosphorylation site [posttranslational modification] 350054004170 intermolecular recognition site; other site 350054004171 dimerization interface [polypeptide binding]; other site 350054004172 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 350054004173 DNA binding site [nucleotide binding] 350054004174 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 350054004175 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 350054004176 dimerization interface [polypeptide binding]; other site 350054004177 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 350054004178 dimer interface [polypeptide binding]; other site 350054004179 phosphorylation site [posttranslational modification] 350054004180 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 350054004181 ATP binding site [chemical binding]; other site 350054004182 Mg2+ binding site [ion binding]; other site 350054004183 G-X-G motif; other site 350054004184 Diadenosine tetraphosphate (Ap4A) hydrolase and other HIT family hydrolases [Nucleotide transport and metabolism / Carbohydrate transport and metabolism / General function prediction only]; Region: Hit; COG0537 350054004185 nucleotide binding site/active site [active] 350054004186 HIT family signature motif; other site 350054004187 catalytic residue [active] 350054004188 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07008 350054004189 Fatty acyl-CoA synthetases similar to LC-FACS from Thermus thermophiles; Region: ttLC_FACS_AlkK_like; cd12119 350054004190 dimer interface [polypeptide binding]; other site 350054004191 acyl-activating enzyme (AAE) consensus motif; other site 350054004192 putative active site [active] 350054004193 AMP binding site [chemical binding]; other site 350054004194 putative CoA binding site [chemical binding]; other site 350054004195 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 350054004196 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 350054004197 NAD(P) binding site [chemical binding]; other site 350054004198 active site 350054004199 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 350054004200 Cytochrome P450; Region: p450; cl12078 350054004201 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 350054004202 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350054004203 oxidoreductase, SDR family; Region: SDR_subfam_1; TIGR03971 350054004204 classical (c) SDRs; Region: SDR_c; cd05233 350054004205 NAD(P) binding site [chemical binding]; other site 350054004206 active site 350054004207 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 350054004208 probable F420-dependent oxidoreductase, Rv2161c family; Region: F420_Rv2161c; TIGR03619 350054004209 classical (c) SDRs; Region: SDR_c; cd05233 350054004210 NAD(P) binding site [chemical binding]; other site 350054004211 active site 350054004212 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 350054004213 oxidoreductase, Rxyl_3153 family; Region: Rxyl_3153; TIGR03989 350054004214 Class III alcohol dehydrogenase; Region: Zn_ADH_class_III; cd08279 350054004215 NAD binding site [chemical binding]; other site 350054004216 catalytic Zn binding site [ion binding]; other site 350054004217 substrate binding site [chemical binding]; other site 350054004218 structural Zn binding site [ion binding]; other site 350054004219 Ferredoxin [Energy production and conversion]; Region: Fer; COG1141 350054004220 Protein of unknown function (DUF1271); Region: DUF1271; cl01443 350054004221 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 350054004222 Cytochrome P450; Region: p450; cl12078 350054004223 short chain dehydrogenase; Provisional; Region: PRK07775 350054004224 classical (c) SDRs; Region: SDR_c; cd05233 350054004225 NAD(P) binding site [chemical binding]; other site 350054004226 active site 350054004227 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 350054004228 Cytochrome P450; Region: p450; cl12078 350054004229 aldehyde dehydrogenase, Rv0768 family; Region: aldehy_Rv0768; TIGR04284 350054004230 Rhodococcus ruber 6-oxolauric acid dehydrogenase-like and related proteins; Region: ALDH_CddD-AldA-like; cd07089 350054004231 NAD binding site [chemical binding]; other site 350054004232 catalytic residues [active] 350054004233 short chain dehydrogenase; Provisional; Region: PRK07774 350054004234 classical (c) SDRs; Region: SDR_c; cd05233 350054004235 NAD(P) binding site [chemical binding]; other site 350054004236 active site 350054004237 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 350054004238 NAD binding domain of 6-phosphogluconate dehydrogenase; Region: NAD_binding_2; pfam03446 350054004239 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 350054004240 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 350054004241 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350054004242 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 350054004243 Cytochrome P450; Region: p450; cl12078 350054004244 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 350054004245 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 350054004246 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 350054004247 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 350054004248 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3226 350054004249 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 350054004250 Predicted nuclease (RNAse H fold) [General function prediction only]; Region: COG4328 350054004251 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 350054004252 synthetase active site [active] 350054004253 NTP binding site [chemical binding]; other site 350054004254 metal binding site [ion binding]; metal-binding site 350054004255 adenylosuccinate lyase; Region: purB; TIGR00928 350054004256 Lyase class I_like superfamily: contains the lyase class I family, histidine ammonia-lyase and phenylalanine ammonia-lyase, which catalyze similar beta-elimination reactions; Region: Lyase_I_like; cl00013 350054004257 tetramer interface [polypeptide binding]; other site 350054004258 Domain of unknown function (DUF1707); Region: DUF1707; pfam08044 350054004259 non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_Sc; cd01414 350054004260 ATP binding site [chemical binding]; other site 350054004261 active site 350054004262 substrate binding site [chemical binding]; other site 350054004263 Protease II [Amino acid transport and metabolism]; Region: PtrB; COG1770 350054004264 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 350054004265 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 350054004266 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350054004267 WHG domain; Region: WHG; pfam13305 350054004268 Glutathione (GSH) peroxidase family; tetrameric selenoenzymes that catalyze the reduction of a variety of hydroperoxides including lipid peroxidases, using GSH as a specific electron donor substrate. GSH peroxidase contains one selenocysteine residue per...; Region: GSH_Peroxidase; cd00340 350054004269 catalytic residues [active] 350054004270 dimer interface [polypeptide binding]; other site 350054004271 Putative catalytic domain of uncharacterized bacterial proteins from the carbohydrate esterase 4 superfamily; Region: CE4_u10; cd11374 350054004272 Predicted deacetylase [General function prediction only]; Region: COG3233 350054004273 putative active site [active] 350054004274 putative Zn binding site [ion binding]; other site 350054004275 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 350054004276 FAD binding domain; Region: FAD_binding_2; pfam00890 350054004277 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 350054004278 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 350054004279 phosphoribosylformylglycinamidine synthase subunit PurS; Reviewed; Region: PRK05974 350054004280 phosphoribosylformylglycinamidine synthase I; Provisional; Region: PRK03619 350054004281 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 350054004282 putative active site [active] 350054004283 catalytic triad [active] 350054004284 Encapsulating protein for peroxidase; Region: Linocin_M18; cl17804 350054004285 Dyp-type peroxidase family; Region: Dyp_perox; pfam04261 350054004286 M18 Peptidase Aspartyl aminopeptidase; Region: M18_DAP; cd05658 350054004287 Aminopeptidase I zinc metalloprotease (M18); Region: Peptidase_M18; pfam02127 350054004288 active site 350054004289 metal binding site [ion binding]; metal-binding site 350054004290 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 350054004291 active site 350054004292 phosphoribosylformylglycinamidine synthase II; Provisional; Region: PRK01213 350054004293 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 350054004294 dimerization interface [polypeptide binding]; other site 350054004295 ATP binding site [chemical binding]; other site 350054004296 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 350054004297 dimerization interface [polypeptide binding]; other site 350054004298 ATP binding site [chemical binding]; other site 350054004299 Predicted membrane protein [Function unknown]; Region: COG4425 350054004300 Predicted membrane protein (DUF2319); Region: DUF2319; pfam10081 350054004301 CAAX protease self-immunity; Region: Abi; pfam02517 350054004302 amidophosphoribosyltransferase; Provisional; Region: PRK07847 350054004303 Glutamine amidotransferases class-II (GN-AT)_GPAT- type. This domain is found at the N-terminus of glutamine phosphoribosylpyrophosphate (Prpp) amidotransferase (GPATase) . The glutaminase domain catalyzes amide nitrogen transfer from glutamine to the...; Region: GPATase_N; cd00715 350054004304 active site 350054004305 tetramer interface [polypeptide binding]; other site 350054004306 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 350054004307 active site 350054004308 atypical (a) SDRs, subgroup 2; Region: SDR_a2; cd05245 350054004309 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 350054004310 putative NAD(P) binding site [chemical binding]; other site 350054004311 putative active site [active] 350054004312 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 350054004313 PurM (Aminoimidazole Ribonucleotide [AIR] synthetase), one of eleven enzymes required for purine biosynthesis, catalyzes the conversion of formylglycinamide ribonucleotide (FGAM) and ATP to AIR, ADP, and Pi, the fifth step in de novo purine biosynthesis; Region: PurM; cd02196 350054004314 dimerization interface [polypeptide binding]; other site 350054004315 putative ATP binding site [chemical binding]; other site 350054004316 Protein of unknown function (DUF3073); Region: DUF3073; pfam11273 350054004317 Predicted aminomethyltransferase related to GcvT [General function prediction only]; Region: COG0354 350054004318 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 350054004319 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 350054004320 ADCL_like: 4-Amino-4-deoxychorismate lyase: is a member of the fold-type IV of PLP dependent enzymes that converts 4-amino-4-deoxychorismate (ADC) to p-aminobenzoate and pyruvate. Based on the information available from the crystal structure, most...; Region: ADCL_like; cd01559 350054004321 pyridoxal 5'-phosphate binding site [chemical binding]; other site 350054004322 catalytic residue [active] 350054004323 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 350054004324 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350054004325 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 350054004326 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350054004327 nitrobindin heme-binding domain; Region: nitrobindin; cd07828 350054004328 heme-binding site [chemical binding]; other site 350054004329 Protein of unknown function (DUF732); Region: DUF732; pfam05305 350054004330 Protein of unknown function (DUF1416); Region: DUF1416; pfam07210 350054004331 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 350054004332 Thiosulfate sulfurtransferase (TST), N-terminal, inactive domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the 1st repeat, which does not contain the catalytically active Cys residue. The role of the 1st repeat is uncertain, but it...; Region: TST_Repeat_1; cd01448 350054004333 active site residue [active] 350054004334 Thiosulfate sulfurtransferase (TST), C-terminal, catalytic domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the second repeat. Only the second repeat contains the catalytically active Cys residue; Region: TST_Repeat_2; cd01449 350054004335 active site residue [active] 350054004336 Domain of unknown function (DUF4395); Region: DUF4395; pfam14340 350054004337 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 350054004338 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 350054004339 catalytic residues [active] 350054004340 Protein of unknown function (DUF2993); Region: DUF2993; pfam11209 350054004341 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 350054004342 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 350054004343 DNA binding site [nucleotide binding] 350054004344 mycothiol synthase; Region: mycothiol_MshD; TIGR03448 350054004345 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 350054004346 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 350054004347 dimerization interface [polypeptide binding]; other site 350054004348 putative DNA binding site [nucleotide binding]; other site 350054004349 putative Zn2+ binding site [ion binding]; other site 350054004350 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_20; cd07254 350054004351 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 350054004352 putative metal binding site [ion binding]; other site 350054004353 arsenical pump-driving ATPase; Region: arsen_driv_ArsA; TIGR04291 350054004354 ArsA ATPase functionas as an efflux pump located on the inner membrane of the cell. This ATP-driven oxyanion pump catalyzes the extrusion of arsenite, antimonite and arsenate. Maintenance of a low intracellular concentration of oxyanion produces...; Region: ArsA; cd02035 350054004355 P loop; other site 350054004356 Nucleotide binding site [chemical binding]; other site 350054004357 DTAP/Switch II; other site 350054004358 Switch I; other site 350054004359 ArsA ATPase functionas as an efflux pump located on the inner membrane of the cell. This ATP-driven oxyanion pump catalyzes the extrusion of arsenite, antimonite and arsenate. Maintenance of a low intracellular concentration of oxyanion produces...; Region: ArsA; cd02035 350054004360 P loop; other site 350054004361 Nucleotide binding site [chemical binding]; other site 350054004362 DTAP/Switch II; other site 350054004363 Switch I; other site 350054004364 Arsenical resistance operon trans-acting repressor ArsD; Region: ArsD; pfam06953 350054004365 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 350054004366 Low molecular weight phosphatase family; Region: LMWPc; cl00105 350054004367 active site 350054004368 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 350054004369 arsenical-resistance protein; Region: acr3; TIGR00832 350054004370 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 350054004371 dimerization interface [polypeptide binding]; other site 350054004372 putative DNA binding site [nucleotide binding]; other site 350054004373 putative Zn2+ binding site [ion binding]; other site 350054004374 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 350054004375 Low molecular weight phosphatase family; Region: LMWPc; cd00115 350054004376 active site 350054004377 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 350054004378 dimerization interface [polypeptide binding]; other site 350054004379 putative DNA binding site [nucleotide binding]; other site 350054004380 putative Zn2+ binding site [ion binding]; other site 350054004381 Low molecular weight phosphatase family; Region: LMWPc; cl00105 350054004382 active site 350054004383 PBP superfamily domain; Region: PBP_like_2; cl17296 350054004384 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstC; COG0573 350054004385 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 350054004386 dimer interface [polypeptide binding]; other site 350054004387 conserved gate region; other site 350054004388 ABC-ATPase subunit interface; other site 350054004389 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 350054004390 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 350054004391 dimer interface [polypeptide binding]; other site 350054004392 conserved gate region; other site 350054004393 putative PBP binding loops; other site 350054004394 ABC-ATPase subunit interface; other site 350054004395 phosphate transporter ATP-binding protein; Provisional; Region: PRK14241 350054004396 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 350054004397 Walker A/P-loop; other site 350054004398 ATP binding site [chemical binding]; other site 350054004399 Q-loop/lid; other site 350054004400 ABC transporter signature motif; other site 350054004401 Walker B; other site 350054004402 D-loop; other site 350054004403 H-loop/switch region; other site 350054004404 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 350054004405 PhoU domain; Region: PhoU; pfam01895 350054004406 PhoU domain; Region: PhoU; pfam01895 350054004407 Cell envelope-related transcriptional attenuator domain; Region: LytR_cpsA_psr; cl00581 350054004408 LytR cell envelope-related transcriptional attenuator; Region: LytR_C; pfam13399 350054004409 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 350054004410 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 350054004411 FMN binding site [chemical binding]; other site 350054004412 active site 350054004413 catalytic residues [active] 350054004414 substrate binding site [chemical binding]; other site 350054004415 Acyl ACP desaturase, ferritin-like diiron-binding domain; Region: Acyl_ACP_Desat; cd01050 350054004416 homodimer interface [polypeptide binding]; other site 350054004417 putative substrate binding pocket [chemical binding]; other site 350054004418 diiron center [ion binding]; other site 350054004419 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 350054004420 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3662 350054004421 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 350054004422 Catalytic domain of Protein Kinases; Region: PKc; cd00180 350054004423 active site 350054004424 ATP binding site [chemical binding]; other site 350054004425 substrate binding site [chemical binding]; other site 350054004426 activation loop (A-loop); other site 350054004427 chorismate mutase; Provisional; Region: PRK09269 350054004428 Chorismate mutase type II; Region: CM_2; cl00693 350054004429 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 350054004430 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350054004431 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 350054004432 mycofactocin system transcriptional regulator; Region: mycofact_TetR; TIGR03968 350054004433 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350054004434 Phytoene dehydrogenase and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG1233 350054004435 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_2; cd07819 350054004436 putative hydrophobic ligand binding site [chemical binding]; other site 350054004437 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_2; cd07819 350054004438 putative hydrophobic ligand binding site [chemical binding]; other site 350054004439 aminotransferase; Validated; Region: PRK07777 350054004440 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 350054004441 pyridoxal 5'-phosphate binding site [chemical binding]; other site 350054004442 homodimer interface [polypeptide binding]; other site 350054004443 catalytic residue [active] 350054004444 Urease accessory protein UreF [Posttranslational modification, protein turnover, chaperones]; Region: UreF; COG0830 350054004445 UreF; Region: UreF; pfam01730 350054004446 UreE urease accessory protein. UreE is a metallochaperone assisting the insertion of a Ni2+ ion in the active site of urease, an important step in the in vivo assembly of urease, an enzyme that hydrolyses urea into ammonia and carbamic acid. The...; Region: UreE; cl03727 350054004447 urease accessory protein UreE; Provisional; Region: ureE; PRK13261 350054004448 dimer interface [polypeptide binding]; other site 350054004449 catalytic residues [active] 350054004450 UreD urease accessory protein; Region: UreD; pfam01774 350054004451 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 350054004452 urease subunit alpha; Reviewed; Region: ureC; PRK13308 350054004453 Urease alpha-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, fungi and plants. Their primary role is to allow the use of...; Region: Urease_alpha; cd00375 350054004454 subunit interactions [polypeptide binding]; other site 350054004455 active site 350054004456 flap region; other site 350054004457 bifunctional urease subunit gamma/beta; Reviewed; Region: PRK13192 350054004458 Urease gamma-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, archaea, fungi and plants. Their primary role is to allow the use...; Region: Urease_gamma; cd00390 350054004459 alpha-gamma subunit interface [polypeptide binding]; other site 350054004460 beta-gamma subunit interface [polypeptide binding]; other site 350054004461 Urease beta-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, archaea, fungi and plants. Their primary role is to allow the use of...; Region: Urease_beta; cd00407 350054004462 gamma-beta subunit interface [polypeptide binding]; other site 350054004463 alpha-beta subunit interface [polypeptide binding]; other site 350054004464 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 350054004465 Periplasmic component (FmdD) of an active transport system for short-chain amides and urea (FmdDEF); Region: PBP1_FmdD_like; cd06355 350054004466 putative ligand binding site [chemical binding]; other site 350054004467 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 350054004468 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 350054004469 DNA binding residues [nucleotide binding] 350054004470 dimerization interface [polypeptide binding]; other site 350054004471 Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a...; Region: OYE_like_FMN; cd02933 350054004472 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 350054004473 FMN binding site [chemical binding]; other site 350054004474 active site 350054004475 substrate binding site [chemical binding]; other site 350054004476 catalytic residue [active] 350054004477 acetyl-CoA acetyltransferase; Validated; Region: PRK08242 350054004478 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 350054004479 dimer interface [polypeptide binding]; other site 350054004480 active site 350054004481 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 350054004482 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 350054004483 substrate binding site [chemical binding]; other site 350054004484 oxyanion hole (OAH) forming residues; other site 350054004485 trimer interface [polypeptide binding]; other site 350054004486 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 350054004487 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 350054004488 transcriptional activator FtrA; Provisional; Region: ftrA; PRK09393 350054004489 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 350054004490 conserved cys residue [active] 350054004491 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 350054004492 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 350054004493 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 350054004494 Adenylate forming domain, Class I; Region: AFD_class_I; cd04433 350054004495 acyl-activating enzyme (AAE) consensus motif; other site 350054004496 AMP binding site [chemical binding]; other site 350054004497 active site 350054004498 CoA binding site [chemical binding]; other site 350054004499 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 350054004500 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 350054004501 probable F420-dependent oxidoreductase, Rv1855c family; Region: F420_Rv1855c; TIGR03560 350054004502 Helicase conserved C-terminal domain; Region: Helicase_C_3; pfam13625 350054004503 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 350054004504 Type III restriction enzyme, res subunit; Region: ResIII; pfam04851 350054004505 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 350054004506 ATP binding site [chemical binding]; other site 350054004507 putative Mg++ binding site [ion binding]; other site 350054004508 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 350054004509 nucleotide binding region [chemical binding]; other site 350054004510 ATP-binding site [chemical binding]; other site 350054004511 Helicase conserved C-terminal domain; Region: Helicase_C_3; pfam13625 350054004512 WYL domain; Region: WYL; pfam13280 350054004513 molybdenum cofactor biosynthesis protein MoaC; Provisional; Region: moaC; PRK09364 350054004514 trimer interface [polypeptide binding]; other site 350054004515 dimer interface [polypeptide binding]; other site 350054004516 putative active site [active] 350054004517 MogA_MoaB family. Members of this family are involved in biosynthesis of the molybdenum cofactor (MoCF) an essential cofactor of a diverse group of redox enzymes. MoCF biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea; Region: MogA_MoaB; cd00886 350054004518 MPT binding site; other site 350054004519 trimer interface [polypeptide binding]; other site 350054004520 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 350054004521 MoaE homodimer interface [polypeptide binding]; other site 350054004522 MoaD interaction [polypeptide binding]; other site 350054004523 active site residues [active] 350054004524 Transglycosylase-like domain; Region: Transglycosylas; pfam06737 350054004525 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 350054004526 MoaE interaction surface [polypeptide binding]; other site 350054004527 MoeB interaction surface [polypeptide binding]; other site 350054004528 thiocarboxylated glycine; other site 350054004529 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 350054004530 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 350054004531 FeS/SAM binding site; other site 350054004532 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 350054004533 hypothetical protein; Provisional; Region: PRK11770 350054004534 Domain of unknown function (DUF307); Region: DUF307; pfam03733 350054004535 Domain of unknown function (DUF307); Region: DUF307; pfam03733 350054004536 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 350054004537 DNA-binding site [nucleotide binding]; DNA binding site 350054004538 RNA-binding motif; other site 350054004539 Predicted glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: ECM4; COG0435 350054004540 C-terminal, alpha helical domain of Class Omega-like Glutathione S-transferases; Region: GST_C_Omega_like; cd03190 350054004541 putative dimer interface [polypeptide binding]; other site 350054004542 N-terminal domain interface [polypeptide binding]; other site 350054004543 putative substrate binding pocket (H-site) [chemical binding]; other site 350054004544 Protein of unknown function (DUF2771); Region: DUF2771; pfam10969 350054004545 H+ Antiporter protein; Region: 2A0121; TIGR00900 350054004546 Protein of unknown function (DUF3027); Region: DUF3027; pfam11228 350054004547 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cd07812 350054004548 hydrophobic ligand binding site; other site 350054004549 Protein of unknown function (DUF2530); Region: DUF2530; pfam10745 350054004550 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 350054004551 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 350054004552 Protein of unknown function (DUF2537); Region: DUF2537; pfam10801 350054004553 Protein of unknown function (DUF3071); Region: DUF3071; pfam11268 350054004554 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 350054004555 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 350054004556 catalytic residue [active] 350054004557 P-aminobenzoate N-oxygenase AurF; Region: AurF; pfam11583 350054004558 Ferredoxin [Energy production and conversion]; Region: COG1146 350054004559 4Fe-4S binding domain; Region: Fer4; pfam00037 350054004560 ferredoxin-NADP+ reductase; Region: PLN02852 350054004561 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 350054004562 Protein of unknown function (DUF4239); Region: DUF4239; pfam14023 350054004563 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; COG2723 350054004564 beta-galactosidase; Region: BGL; TIGR03356 350054004565 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_8; cd07246 350054004566 putative dimer interface [polypeptide binding]; other site 350054004567 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 350054004568 citrate synthase 2; Provisional; Region: PRK12350 350054004569 Citrate synthase; Region: Citrate_synt; pfam00285 350054004570 oxalacetate binding site [chemical binding]; other site 350054004571 citrylCoA binding site [chemical binding]; other site 350054004572 coenzyme A binding site [chemical binding]; other site 350054004573 catalytic triad [active] 350054004574 pyridoxamine 5'-phosphate oxidase; Provisional; Region: PRK05679 350054004575 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 350054004576 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 350054004577 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 350054004578 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350054004579 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 350054004580 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 350054004581 dimer interface [polypeptide binding]; other site 350054004582 active site 350054004583 citrylCoA binding site [chemical binding]; other site 350054004584 NADH binding [chemical binding]; other site 350054004585 cationic pore residues; other site 350054004586 oxalacetate/citrate binding site [chemical binding]; other site 350054004587 coenzyme A binding site [chemical binding]; other site 350054004588 catalytic triad [active] 350054004589 Major Facilitator Superfamily; Region: MFS_1; pfam07690 350054004590 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 350054004591 putative substrate translocation pore; other site 350054004592 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 350054004593 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 350054004594 MarR family; Region: MarR_2; pfam12802 350054004595 Phytoene dehydrogenase and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG1233 350054004596 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 350054004597 MspA; Region: MspA; pfam09203 350054004598 MspA; Region: MspA; pfam09203 350054004599 Transposase; Region: DEDD_Tnp_IS110; pfam01548 350054004600 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 350054004601 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 350054004602 Protein of unknown function (DUF2630); Region: DUF2630; pfam10944 350054004603 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 350054004604 Integrase core domain; Region: rve; pfam00665 350054004605 Integrase core domain; Region: rve_3; pfam13683 350054004606 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 350054004607 HAMP domain; Region: HAMP; pfam00672 350054004608 dimerization interface [polypeptide binding]; other site 350054004609 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 350054004610 dimer interface [polypeptide binding]; other site 350054004611 phosphorylation site [posttranslational modification] 350054004612 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 350054004613 ATP binding site [chemical binding]; other site 350054004614 Mg2+ binding site [ion binding]; other site 350054004615 G-X-G motif; other site 350054004616 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 350054004617 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 350054004618 active site 350054004619 phosphorylation site [posttranslational modification] 350054004620 intermolecular recognition site; other site 350054004621 dimerization interface [polypeptide binding]; other site 350054004622 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 350054004623 DNA binding site [nucleotide binding] 350054004624 Ion channel; Region: Ion_trans_2; pfam07885 350054004625 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 350054004626 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 350054004627 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 350054004628 Walker A/P-loop; other site 350054004629 ATP binding site [chemical binding]; other site 350054004630 Q-loop/lid; other site 350054004631 ABC transporter signature motif; other site 350054004632 Walker B; other site 350054004633 D-loop; other site 350054004634 H-loop/switch region; other site 350054004635 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 350054004636 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 350054004637 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 350054004638 Walker A/P-loop; other site 350054004639 ATP binding site [chemical binding]; other site 350054004640 Q-loop/lid; other site 350054004641 ABC transporter signature motif; other site 350054004642 Walker B; other site 350054004643 D-loop; other site 350054004644 H-loop/switch region; other site 350054004645 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 350054004646 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 350054004647 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 350054004648 Walker A/P-loop; other site 350054004649 ATP binding site [chemical binding]; other site 350054004650 Q-loop/lid; other site 350054004651 ABC transporter signature motif; other site 350054004652 Walker B; other site 350054004653 D-loop; other site 350054004654 H-loop/switch region; other site 350054004655 Epoxide hydrolase N terminus; Region: EHN; pfam06441 350054004656 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 350054004657 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 350054004658 Walker A/P-loop; other site 350054004659 ATP binding site [chemical binding]; other site 350054004660 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 350054004661 Predicted membrane protein [Function unknown]; Region: COG1511 350054004662 YhgE/Pip C-terminal domain; Region: pip_yhgE_Cterm; TIGR03062 350054004663 Carboxyl transferase domain; Region: Carboxyl_trans; pfam01039 350054004664 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 350054004665 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 350054004666 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 350054004667 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 350054004668 substrate binding site [chemical binding]; other site 350054004669 oxyanion hole (OAH) forming residues; other site 350054004670 trimer interface [polypeptide binding]; other site 350054004671 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 350054004672 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 350054004673 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 350054004674 Beta-lactamase; Region: Beta-lactamase; pfam00144 350054004675 Domain of unknown function (DUF3471); Region: DUF3471; pfam11954 350054004676 ATPase, P-type (transporting), HAD superfamily, subfamily IC; Region: ATPase_P-type; TIGR01494 350054004677 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 350054004678 Soluble P-type ATPase [General function prediction only]; Region: COG4087 350054004679 MT0933-like antitoxin protein; Region: MT0933_antitox; pfam14013 350054004680 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cd07812 350054004681 hydrophobic ligand binding site; other site 350054004682 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 350054004683 NADH(P)-binding; Region: NAD_binding_10; pfam13460 350054004684 NAD(P) binding site [chemical binding]; other site 350054004685 active site 350054004686 ERG2 and Sigma1 receptor like protein; Region: ERG2_Sigma1R; pfam04622 350054004687 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 350054004688 Cytochrome P450; Region: p450; cl12078 350054004689 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 350054004690 Cytochrome P450; Region: p450; cl12078 350054004691 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 350054004692 active site 350054004693 Uncharacterized conserved protein related to dihydrodipicolinate reductase [Function unknown]; Region: COG3804 350054004694 Uncharacterized conserved protein related to dihydrodipicolinate reductase [Function unknown]; Region: COG3804 350054004695 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 350054004696 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 350054004697 Cytochrome P450; Region: p450; cl12078 350054004698 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 350054004699 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 350054004700 Walker A motif; other site 350054004701 ATP binding site [chemical binding]; other site 350054004702 CbbQ/NirQ/NorQ C-terminal; Region: CbbQ_C; pfam08406 350054004703 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 350054004704 metal ion-dependent adhesion site (MIDAS); other site 350054004705 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 350054004706 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350054004707 short chain dehydrogenase; Provisional; Region: PRK07814 350054004708 classical (c) SDRs; Region: SDR_c; cd05233 350054004709 NAD(P) binding site [chemical binding]; other site 350054004710 active site 350054004711 Uncharacterized conserved protein related to dihydrodipicolinate reductase [Function unknown]; Region: COG3804 350054004712 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 350054004713 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 350054004714 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 350054004715 molybdopterin cofactor binding site; other site 350054004716 Molybdopterin-Binding, C-terminal (MopB_CT) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum-...; Region: MopB_CT; cl09929 350054004717 molybdopterin cofactor binding site; other site 350054004718 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 350054004719 cyclase homology domain; Region: CHD; cd07302 350054004720 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 350054004721 cyclase homology domain; Region: CHD; cd07302 350054004722 nucleotidyl binding site; other site 350054004723 metal binding site [ion binding]; metal-binding site 350054004724 dimer interface [polypeptide binding]; other site 350054004725 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 350054004726 metal binding site [ion binding]; metal-binding site 350054004727 active site 350054004728 I-site; other site 350054004729 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 350054004730 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 350054004731 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 350054004732 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 350054004733 acyl-activating enzyme (AAE) consensus motif; other site 350054004734 acyl-activating enzyme (AAE) consensus motif; other site 350054004735 putative AMP binding site [chemical binding]; other site 350054004736 putative active site [active] 350054004737 putative CoA binding site [chemical binding]; other site 350054004738 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 350054004739 classical (c) SDRs; Region: SDR_c; cd05233 350054004740 NAD(P) binding site [chemical binding]; other site 350054004741 active site 350054004742 cyclohexanecarboxylate-CoA ligase; Reviewed; Region: PRK13295 350054004743 Cyclohexanecarboxylate-CoA ligase (also called cyclohex-1-ene-1-carboxylate:CoA ligase); Region: CHC_CoA_lg; cd05903 350054004744 acyl-activating enzyme (AAE) consensus motif; other site 350054004745 putative AMP binding site [chemical binding]; other site 350054004746 putative active site [active] 350054004747 putative CoA binding site [chemical binding]; other site 350054004748 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 350054004749 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 350054004750 DNA-binding site [nucleotide binding]; DNA binding site 350054004751 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 350054004752 Gluconolactonase [Carbohydrate transport and metabolism]; Region: COG3386 350054004753 Streptogramin lyase [Defense mechanisms]; Region: Vgb; COG4257 350054004754 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 350054004755 classical (c) SDRs; Region: SDR_c; cd05233 350054004756 NAD(P) binding site [chemical binding]; other site 350054004757 active site 350054004758 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 350054004759 Rieske non-heme iron oxygenase (RO) family, N-terminal Rieske domain of the oxygenase alpha subunit; The RO family comprise a large class of aromatic ring-hydroxylating dioxygenases found predominantly in microorganisms. These enzymes enable...; Region: Rieske_RO_Alpha_N; cd03469 350054004760 [2Fe-2S] cluster binding site [ion binding]; other site 350054004761 C-terminal catalytic domain of Pseudomonas fluorescens MupW and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_MupW-like; cd08882 350054004762 putative alpha subunit interface [polypeptide binding]; other site 350054004763 putative active site [active] 350054004764 putative substrate binding site [chemical binding]; other site 350054004765 Fe binding site [ion binding]; other site 350054004766 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 350054004767 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 350054004768 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 350054004769 NAD(P) binding site [chemical binding]; other site 350054004770 active site 350054004771 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 350054004772 CoA-transferase family III; Region: CoA_transf_3; pfam02515 350054004773 pimeloyl-CoA dehydrogenase, large subunit; Region: pimC_large; TIGR03204 350054004774 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 350054004775 active site 350054004776 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 350054004777 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 350054004778 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 350054004779 pimeloyl-CoA dehydrogenase, large subunit; Region: pimC_large; TIGR03204 350054004780 active site 350054004781 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 350054004782 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 350054004783 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 350054004784 active site 350054004785 Thiamine pyrophosphate-requiring enzymes [acetolactate synthase, pyruvate dehydrogenase (cytochrome), glyoxylate carboligase, phosphonopyruvate decarboxylase] [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvB; COG0028 350054004786 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 350054004787 PYR/PP interface [polypeptide binding]; other site 350054004788 dimer interface [polypeptide binding]; other site 350054004789 TPP binding site [chemical binding]; other site 350054004790 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 350054004791 Thiamine pyrophosphate (TPP) family, BZL_OCoD_HPCL subfamily, TPP-binding module; composed of proteins similar to benzaldehyde lyase (BZL), oxalyl-CoA decarboxylase (OCoD) and 2-hydroxyphytanoyl-CoA lyase (2-HPCL). Pseudomonas fluorescens biovar I BZL...; Region: TPP_BZL_OCoD_HPCL; cd02004 350054004792 TPP-binding site; other site 350054004793 dimer interface [polypeptide binding]; other site 350054004794 Rhodococcus ruber 6-oxolauric acid dehydrogenase-like; Region: ALDH_CddD_SSP0762; cd07138 350054004795 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 350054004796 NAD binding site [chemical binding]; other site 350054004797 catalytic residues [active] 350054004798 Protein of unknown function (DUF2945); Region: DUF2945; pfam11160 350054004799 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK07910 350054004800 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 350054004801 dimer interface [polypeptide binding]; other site 350054004802 active site 350054004803 Mycolic acid cyclopropane synthetase; Region: CMAS; pfam02353 350054004804 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 350054004805 S-adenosylmethionine binding site [chemical binding]; other site 350054004806 Mycolic acid cyclopropane synthetase; Region: CMAS; pfam02353 350054004807 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 350054004808 S-adenosylmethionine binding site [chemical binding]; other site 350054004809 Prokaryotic protein of unknown function (DUF849); Region: DUF849; cl15827 350054004810 Cupin superfamily (DUF985); Region: Cupin_5; pfam06172 350054004811 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 350054004812 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 350054004813 putative dimer interface [polypeptide binding]; other site 350054004814 Predicted transcriptional regulators [Transcription]; Region: COG1733 350054004815 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 350054004816 Predicted transcriptional regulators [Transcription]; Region: COG1733 350054004817 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 350054004818 Lignostilbene-alpha,beta-dioxygenase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3670 350054004819 Retinal pigment epithelial membrane protein; Region: RPE65; pfam03055 350054004820 acetyl-CoA acetyltransferase; Provisional; Region: PRK06289 350054004821 Thiolase domain associated with sterol carrier protein (SCP)-x isoform and related proteins; SCP-2 has multiple roles in intracellular lipid circulation and metabolism. The N-terminal presequence in the SCP-x isoform represents a peroxisomal...; Region: SCP-x_thiolase; cd00829 350054004822 active site 350054004823 ANTAR domain; Region: ANTAR; pfam03861 350054004824 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 350054004825 Subunit I/III interface [polypeptide binding]; other site 350054004826 probable F420-dependent oxidoreductase, MSMEG_2516 family; Region: F420_MSMEG_2516; TIGR03621 350054004827 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 350054004828 carboxylate-amine ligase; Provisional; Region: PRK13517 350054004829 carboxylate-amine ligase, YbdK family; Region: gshA_cyan_rel; TIGR02050 350054004830 Anti-sigma-K factor rskA; Region: RskA; pfam10099 350054004831 RNA polymerase sigma factor SigK; Reviewed; Region: PRK09646 350054004832 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 350054004833 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 350054004834 DNA binding residues [nucleotide binding] 350054004835 Protein of unknown function (DUF1365); Region: DUF1365; pfam07103 350054004836 GGCT-like domains, also called AIG2-like family. Gamma-glutamyl cyclotransferase (GGCT) catalyzes the formation of pyroglutamic acid (5-oxoproline) from dipeptides containing gamma-glutamyl, and is a dimeric protein. In Homo sapiens, the protein is...; Region: GGCT_like; cd06661 350054004837 putative active site pocket [active] 350054004838 dimerization interface [polypeptide binding]; other site 350054004839 putative catalytic residue [active] 350054004840 Protein of unknown function (DUF867); Region: DUF867; pfam05908 350054004841 manganese transport protein MntH; Reviewed; Region: PRK00701 350054004842 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 350054004843 Uncharacterized conserved protein related to dihydrodipicolinate reductase [Function unknown]; Region: COG3804 350054004844 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 350054004845 short chain dehydrogenase; Provisional; Region: PRK07814 350054004846 classical (c) SDRs; Region: SDR_c; cd05233 350054004847 NAD(P) binding site [chemical binding]; other site 350054004848 active site 350054004849 Ku protein, prokaryotic; Region: Ku_bact; TIGR02772 350054004850 Ku-core domain, Ku-like subfamily; composed of prokaryotic homologs of the eukaryotic DNA binding protein Ku. The alignment includes the core domain shared by the prokaryotic YkoV-like proteins and the eukaryotic Ku70 and Ku80. The prokaryotic Ku...; Region: KU_like; cd00789 350054004851 putative DNA binding site [nucleotide binding]; other site 350054004852 putative homodimer interface [polypeptide binding]; other site 350054004853 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 350054004854 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 350054004855 putative substrate binding site [chemical binding]; other site 350054004856 putative ATP binding site [chemical binding]; other site 350054004857 ATP-dependent DNA ligase; Reviewed; Region: PRK09632 350054004858 MtLigD_Pol_like: Polymerase (Pol) domain of bacterial LigD proteins similar to Mycobacterium tuberculosis (Mt)LigD. The LigD Pol domain belongs to the archaeal/eukaryal primase (AEP) superfamily. In prokaryotes, LigD along with Ku is required for...; Region: MtLigD_Pol_like; cd04863 350054004859 nucleotide binding site [chemical binding]; other site 350054004860 DNA polymerase Ligase (LigD); Region: LigD_N; cl11819 350054004861 Adenylation domain of Mycobacterium tuberculosis LigD and LigC-like ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_LigD_LigC; cd07906 350054004862 active site 350054004863 DNA binding site [nucleotide binding] 350054004864 The Oligonucleotide/oligosaccharide binding (OB)-fold domain of ATP-dependent DNA ligase LigD is a DNA-binding module that is part of the catalytic core unit; Region: OBF_DNA_ligase_LigD; cd07971 350054004865 DNA binding site [nucleotide binding] 350054004866 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 350054004867 classical (c) SDRs; Region: SDR_c; cd05233 350054004868 NAD(P) binding site [chemical binding]; other site 350054004869 active site 350054004870 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 350054004871 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 350054004872 NAD(P) binding site [chemical binding]; other site 350054004873 active site 350054004874 Transcriptional regulator [Transcription]; Region: LysR; COG0583 350054004875 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 350054004876 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 350054004877 dimerization interface [polypeptide binding]; other site 350054004878 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 350054004879 Transposase; Region: DDE_Tnp_ISL3; pfam01610 350054004880 Domain of unknown function (DUF222); Region: DUF222; pfam02720 350054004881 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cd00085 350054004882 active site 350054004883 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 350054004884 RNA/DNA hybrid binding site [nucleotide binding]; other site 350054004885 active site 350054004886 Glyoxalase-like domain; Region: Glyoxalase_3; pfam13468 350054004887 Domain of unknown function (DUF385); Region: DUF385; pfam04075 350054004888 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 350054004889 Major Facilitator Superfamily; Region: MFS_1; pfam07690 350054004890 putative substrate translocation pore; other site 350054004891 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 350054004892 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 350054004893 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 350054004894 nucleotide binding site [chemical binding]; other site 350054004895 Isopentenyldiphosphate isomerase [Lipid metabolism]; Region: Idi; COG1443 350054004896 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 350054004897 active site 350054004898 metal binding site [ion binding]; metal-binding site 350054004899 nudix motif; other site 350054004900 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 350054004901 iron-sulfur cluster [ion binding]; other site 350054004902 [2Fe-2S] cluster binding site [ion binding]; other site 350054004903 Uncharacterized conserved protein [Function unknown]; Region: COG3349 350054004904 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 350054004905 Methyltransferase domain; Region: Methyltransf_31; pfam13847 350054004906 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 350054004907 S-adenosylmethionine binding site [chemical binding]; other site 350054004908 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 350054004909 active site lid residues [active] 350054004910 substrate binding pocket [chemical binding]; other site 350054004911 catalytic residues [active] 350054004912 substrate-Mg2+ binding site; other site 350054004913 aspartate-rich region 1; other site 350054004914 aspartate-rich region 2; other site 350054004915 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 350054004916 phytoene desaturase; Region: crtI_fam; TIGR02734 350054004917 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 350054004918 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 350054004919 substrate binding pocket [chemical binding]; other site 350054004920 chain length determination region; other site 350054004921 substrate-Mg2+ binding site; other site 350054004922 catalytic residues [active] 350054004923 aspartate-rich region 1; other site 350054004924 active site lid residues [active] 350054004925 Isoprenoid Biosynthesis enzymes, Class 1; Region: Isoprenoid_Biosyn_C1; cl00210 350054004926 aspartate-rich region 2; other site 350054004927 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 350054004928 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 350054004929 probable F420-dependent oxidoreductase, Rv2161c family; Region: F420_Rv2161c; TIGR03619 350054004930 Predicted membrane protein [Function unknown]; Region: COG1950 350054004931 Formamidopyrimidine-DNA glycosylase [DNA replication, recombination, and repair]; Region: Nei; COG0266 350054004932 Uncharacterized bacterial subgroup of the N-terminal domain of Fpg (formamidopyrimidine-DNA glycosylase, MutM)_Nei (endonuclease VIII) base-excision repair DNA glycosylases; Region: BaFpgNei_N_1; cd08973 350054004933 putative DNA binding site [nucleotide binding]; other site 350054004934 catalytic residue [active] 350054004935 putative H2TH interface [polypeptide binding]; other site 350054004936 putative catalytic residues [active] 350054004937 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 350054004938 short chain dehydrogenase; Provisional; Region: PRK08251 350054004939 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 350054004940 NAD(P) binding site [chemical binding]; other site 350054004941 active site 350054004942 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 350054004943 Cytochrome P450; Region: p450; cl12078 350054004944 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 350054004945 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 350054004946 non-specific DNA binding site [nucleotide binding]; other site 350054004947 salt bridge; other site 350054004948 sequence-specific DNA binding site [nucleotide binding]; other site 350054004949 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 350054004950 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 350054004951 active site 350054004952 dimer interface [polypeptide binding]; other site 350054004953 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 350054004954 dimer interface [polypeptide binding]; other site 350054004955 active site 350054004956 succinic semialdehyde dehydrogenase; Region: PLN02278 350054004957 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 350054004958 tetramerization interface [polypeptide binding]; other site 350054004959 NAD(P) binding site [chemical binding]; other site 350054004960 catalytic residues [active] 350054004961 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 350054004962 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 350054004963 active site 350054004964 catalytic triad [active] 350054004965 oxyanion hole [active] 350054004966 hypothetical protein; Provisional; Region: PRK07857 350054004967 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 350054004968 Part of AAA domain; Region: AAA_19; pfam13245 350054004969 Family description; Region: UvrD_C_2; pfam13538 350054004970 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 350054004971 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 350054004972 Peptidase family M23; Region: Peptidase_M23; pfam01551 350054004973 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 350054004974 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 350054004975 CoA-ligase; Region: Ligase_CoA; pfam00549 350054004976 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 350054004977 CoA binding domain; Region: CoA_binding; smart00881 350054004978 CoA-ligase; Region: Ligase_CoA; pfam00549 350054004979 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl17189 350054004980 Walker A motif; other site 350054004981 ATP binding site [chemical binding]; other site 350054004982 MarR family; Region: MarR_2; cl17246 350054004983 acetyl-CoA acetyltransferase; Validated; Region: PRK08257 350054004984 Thiolase domain associated with sterol carrier protein (SCP)-x isoform and related proteins; SCP-2 has multiple roles in intracellular lipid circulation and metabolism. The N-terminal presequence in the SCP-x isoform represents a peroxisomal...; Region: SCP-x_thiolase; cd00829 350054004985 active site 350054004986 Transposase; Region: DEDD_Tnp_IS110; pfam01548 350054004987 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 350054004988 probable F420-dependent oxidoreductase, Rv2161c family; Region: F420_Rv2161c; TIGR03619 350054004989 N5,N10-methylenetetrahydromethanopterin reductase (Mer) catalyzes the reduction of N5,N10-methylenetetrahydromethanopterin with reduced coenzyme F420 to N5-methyltetrahydromethanopterin and oxidized coenzyme F420; Region: Tetrahydromethanopterin_reductase; cd01097 350054004990 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 350054004991 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 350054004992 active site 350054004993 cosubstrate binding site; other site 350054004994 substrate binding site [chemical binding]; other site 350054004995 catalytic site [active] 350054004996 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 350054004997 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 350054004998 purine monophosphate binding site [chemical binding]; other site 350054004999 dimer interface [polypeptide binding]; other site 350054005000 putative catalytic residues [active] 350054005001 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 350054005002 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 350054005003 Mg-chelatase subunit ChlI [Coenzyme metabolism]; Region: ChlI; COG1239 350054005004 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 350054005005 Uncharacterized protein with a von Willebrand factor type A (vWA) domain [General function prediction only]; Region: COG4867 350054005006 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 350054005007 metal ion-dependent adhesion site (MIDAS); other site 350054005008 Domain of unknown function (DUF1707); Region: DUF1707; pfam08044 350054005009 Cell wall-active antibiotics response protein (DUF2154); Region: DUF2154; pfam09922 350054005010 enoyl-CoA hydratase; Provisional; Region: PRK07827 350054005011 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 350054005012 substrate binding site [chemical binding]; other site 350054005013 oxyanion hole (OAH) forming residues; other site 350054005014 trimer interface [polypeptide binding]; other site 350054005015 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 350054005016 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 350054005017 active site 350054005018 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 350054005019 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 350054005020 ATP-grasp domain; Region: ATP-grasp_4; cl17255 350054005021 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 350054005022 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 350054005023 carboxyltransferase (CT) interaction site; other site 350054005024 biotinylation site [posttranslational modification]; other site 350054005025 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 350054005026 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 350054005027 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 350054005028 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 350054005029 active site 350054005030 Protein of unknown function (DUF1446); Region: DUF1446; pfam07287 350054005031 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 350054005032 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 350054005033 active site 350054005034 phosphorylation site [posttranslational modification] 350054005035 intermolecular recognition site; other site 350054005036 dimerization interface [polypeptide binding]; other site 350054005037 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 350054005038 DNA binding site [nucleotide binding] 350054005039 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 350054005040 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 350054005041 dimerization interface [polypeptide binding]; other site 350054005042 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 350054005043 dimer interface [polypeptide binding]; other site 350054005044 phosphorylation site [posttranslational modification] 350054005045 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 350054005046 ATP binding site [chemical binding]; other site 350054005047 Mg2+ binding site [ion binding]; other site 350054005048 G-X-G motif; other site 350054005049 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 350054005050 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 350054005051 MogA_MoaB family. Members of this family are involved in biosynthesis of the molybdenum cofactor (MoCF) an essential cofactor of a diverse group of redox enzymes. MoCF biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea; Region: MogA_MoaB; cd00886 350054005052 MPT binding site; other site 350054005053 trimer interface [polypeptide binding]; other site 350054005054 MspA; Region: MspA; pfam09203 350054005055 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 350054005056 Large-conductance mechanosensitive channel, MscL; Region: MscL; cl00860 350054005057 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 350054005058 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; cl00993 350054005059 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 350054005060 5,10-methenyltetrahydrofolate synthetase; Region: MTHFS_bact; TIGR02727 350054005061 UDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: GalU; COG1210 350054005062 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 350054005063 active site 350054005064 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 350054005065 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 350054005066 dimer interface [polypeptide binding]; other site 350054005067 putative functional site; other site 350054005068 putative MPT binding site; other site 350054005069 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 350054005070 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 350054005071 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 350054005072 dimerization interface [polypeptide binding]; other site 350054005073 putative DNA binding site [nucleotide binding]; other site 350054005074 putative Zn2+ binding site [ion binding]; other site 350054005075 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 350054005076 cation diffusion facilitator family transporter; Region: CDF; TIGR01297 350054005077 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 350054005078 short chain dehydrogenase; Provisional; Region: PRK12827 350054005079 classical (c) SDRs; Region: SDR_c; cd05233 350054005080 NAD(P) binding site [chemical binding]; other site 350054005081 active site 350054005082 oxidoreductase, SDR family; Region: SDR_subfam_1; TIGR03971 350054005083 classical (c) SDRs; Region: SDR_c; cd05233 350054005084 NAD(P) binding site [chemical binding]; other site 350054005085 active site 350054005086 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 350054005087 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 350054005088 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 350054005089 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 350054005090 NAD(P) binding site [chemical binding]; other site 350054005091 catalytic residues [active] 350054005092 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 350054005093 Cytochrome P450; Region: p450; cl12078 350054005094 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 350054005095 MarR family; Region: MarR; pfam01047 350054005096 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 350054005097 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 350054005098 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 350054005099 Cupin domain; Region: Cupin_2; cl17218 350054005100 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 350054005101 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 350054005102 metal binding site [ion binding]; metal-binding site 350054005103 active site 350054005104 I-site; other site 350054005105 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 350054005106 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 350054005107 ligand binding site [chemical binding]; other site 350054005108 flexible hinge region; other site 350054005109 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 350054005110 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 350054005111 shikimate 5-dehydrogenase; Reviewed; Region: PRK12550 350054005112 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 350054005113 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 350054005114 shikimate binding site; other site 350054005115 NAD(P) binding site [chemical binding]; other site 350054005116 Probable lipoprotein LpqN; Region: Lpp-LpqN; pfam10738 350054005117 PE-PPE domain; Region: PE-PPE; pfam08237 350054005118 Alkylated DNA repair protein [DNA replication, recombination, and repair]; Region: AlkB; COG3145 350054005119 Helix-Turn-Helix DNA binding domain of the SoxR transcription regulator; Region: HTH_SoxR; cd01110 350054005120 redox-sensitive transcriptional activator SoxR; Region: SoxR; TIGR01950 350054005121 DNA binding residues [nucleotide binding] 350054005122 dimer interface [polypeptide binding]; other site 350054005123 [2Fe-2S] cluster binding site [ion binding]; other site 350054005124 arginine deiminase; Provisional; Region: PRK01388 350054005125 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl17364 350054005126 Predicted methyltransferases [General function prediction only]; Region: COG0313 350054005127 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 350054005128 putative SAM binding site [chemical binding]; other site 350054005129 putative homodimer interface [polypeptide binding]; other site 350054005130 aminodeoxychorismate synthase component I; Provisional; Region: PRK05877 350054005131 chorismate binding enzyme; Region: Chorismate_bind; cl10555 350054005132 RNA polymerase sigma-70 factor, TIGR02957 family; Region: SigX4 350054005133 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 350054005134 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 350054005135 DNA binding residues [nucleotide binding] 350054005136 SnoaL-like domain; Region: SnoaL_2; pfam12680 350054005137 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 350054005138 glutamate dehydrogenase; Provisional; Region: PRK09414 350054005139 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 350054005140 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 350054005141 NAD(P) binding site [chemical binding]; other site 350054005142 methionyl-tRNA synthetase; Reviewed; Region: PRK11893 350054005143 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 350054005144 active site 350054005145 HIGH motif; other site 350054005146 KMSKS motif; other site 350054005147 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 350054005148 tRNA binding surface [nucleotide binding]; other site 350054005149 anticodon binding site; other site 350054005150 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 350054005151 active site 350054005152 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3583 350054005153 Domain of unknown function (DUF348); Region: DUF348; pfam03990 350054005154 Domain of unknown function (DUF348); Region: DUF348; pfam03990 350054005155 Domain of unknown function (DUF348); Region: DUF348; pfam03990 350054005156 G5 domain; Region: G5; pfam07501 350054005157 Transglycosylase-like domain; Region: Transglycosylas; pfam06737 350054005158 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 350054005159 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 350054005160 S-adenosylmethionine binding site [chemical binding]; other site 350054005161 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: PRK03188 350054005162 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07768 350054005163 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 350054005164 acyl-activating enzyme (AAE) consensus motif; other site 350054005165 AMP binding site [chemical binding]; other site 350054005166 active site 350054005167 CoA binding site [chemical binding]; other site 350054005168 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 350054005169 daunorubicin resistance ABC transporter ATP-binding subunit; Region: drrA; TIGR01188 350054005170 Walker A/P-loop; other site 350054005171 ATP binding site [chemical binding]; other site 350054005172 Q-loop/lid; other site 350054005173 ABC transporter signature motif; other site 350054005174 Walker B; other site 350054005175 D-loop; other site 350054005176 H-loop/switch region; other site 350054005177 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 350054005178 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 350054005179 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 350054005180 putative active site [active] 350054005181 catalytic residue [active] 350054005182 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 350054005183 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 350054005184 5S rRNA interface [nucleotide binding]; other site 350054005185 CTC domain interface [polypeptide binding]; other site 350054005186 L16 interface [polypeptide binding]; other site 350054005187 short chain dehydrogenase; Provisional; Region: PRK06197 350054005188 retinol dehydrogenase (retinol-DH), Light dependent Protochlorophyllide (Pchlide) OxidoReductase (LPOR) and related proteins, classical (c) SDRs; Region: retinol-DH_like_SDR_c_like; cd05327 350054005189 putative NAD(P) binding site [chemical binding]; other site 350054005190 active site 350054005191 Probable lipoprotein LpqN; Region: Lpp-LpqN; pfam10738 350054005192 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 350054005193 ArsC family; Region: ArsC; pfam03960 350054005194 catalytic residues [active] 350054005195 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 350054005196 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK03092 350054005197 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 350054005198 active site 350054005199 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK14352 350054005200 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 350054005201 Substrate binding site; other site 350054005202 Mg++ binding site; other site 350054005203 N-acetyl-glucosamine-1-phosphate uridyltransferase (GlmU), C-terminal left-handed beta-helix (LbH) acetyltransferase domain: GlmU is also known as UDP-N-acetylglucosamine pyrophosphorylase. It is a bifunctional bacterial enzyme that catalyzes two...; Region: LbH_GlmU_C; cd03353 350054005204 active site 350054005205 substrate binding site [chemical binding]; other site 350054005206 CoA binding site [chemical binding]; other site 350054005207 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 350054005208 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 350054005209 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 350054005210 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 350054005211 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350054005212 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 350054005213 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 350054005214 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 350054005215 ATP binding site [chemical binding]; other site 350054005216 putative Mg++ binding site [ion binding]; other site 350054005217 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 350054005218 nucleotide binding region [chemical binding]; other site 350054005219 ATP-binding site [chemical binding]; other site 350054005220 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 350054005221 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: PRK12334 350054005222 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 350054005223 homodimer interface [polypeptide binding]; other site 350054005224 metal binding site [ion binding]; metal-binding site 350054005225 Dyp-type peroxidase family; Region: Dyp_perox; cl01067 350054005226 Predicted periplasmic lipoprotein involved in iron transport [Inorganic ion transport and metabolism]; Region: COG2822 350054005227 Cupredoxin-like domain; Region: Cupredoxin_1; cl17234 350054005228 Imelysin; Region: Peptidase_M75; pfam09375 350054005229 Iron permease FTR1 family; Region: FTR1; cl00475 350054005230 Membrane-bound lytic murein transglycosylase B [Cell envelope biogenesis, outer membrane]; Region: MltB; COG2951 350054005231 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 350054005232 N-acetyl-D-glucosamine binding site [chemical binding]; other site 350054005233 enolase; Provisional; Region: eno; PRK00077 350054005234 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 350054005235 dimer interface [polypeptide binding]; other site 350054005236 metal binding site [ion binding]; metal-binding site 350054005237 substrate binding pocket [chemical binding]; other site 350054005238 Septum formation initiator; Region: DivIC; pfam04977 350054005239 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 350054005240 Uncharacterized conserved protein [Function unknown]; Region: COG1507 350054005241 exopolyphosphatase; Region: exo_poly_only; TIGR03706 350054005242 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 350054005243 Domain of unknown function (DUF4383); Region: DUF4383; pfam14325 350054005244 propionyl-CoA synthetase; Provisional; Region: prpE; PRK10524 350054005245 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 350054005246 acyl-activating enzyme (AAE) consensus motif; other site 350054005247 AMP binding site [chemical binding]; other site 350054005248 active site 350054005249 CoA binding site [chemical binding]; other site 350054005250 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 350054005251 Protein of unknown function (DUF4235); Region: DUF4235; pfam14019 350054005252 oxidoreductase; Provisional; Region: PRK06128 350054005253 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 350054005254 NAD(P) binding site [chemical binding]; other site 350054005255 active site 350054005256 hypothetical protein; Provisional; Region: PRK14059 350054005257 Pyrimidine reductase, riboflavin biosynthesis [Coenzyme metabolism]; Region: RibD; COG1985 350054005258 Flavin reductase like domain; Region: Flavin_Reduct; pfam01613 350054005259 Glutathione-dependent formaldehyde dehydrogenase related proteins, child 1; Region: FDH_like_1; cd08283 350054005260 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 350054005261 NAD binding site [chemical binding]; other site 350054005262 catalytic Zn binding site [ion binding]; other site 350054005263 structural Zn binding site [ion binding]; other site 350054005264 Topoisomerase IB [DNA replication, recombination, and repair]; Region: COG3569 350054005265 Eukaryotic DNA topoisomerase I, catalytic core; Region: Topoisom_I; pfam01028 350054005266 active site 350054005267 DNA binding site [nucleotide binding] 350054005268 Int/Topo IB signature motif; other site 350054005269 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 350054005270 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 350054005271 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 350054005272 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like6; cd05664 350054005273 metal binding site [ion binding]; metal-binding site 350054005274 putative dimer interface [polypeptide binding]; other site 350054005275 NTF2-like N-terminal transpeptidase domain; Region: MecA_N; pfam05223 350054005276 AAA domain; Region: AAA_25; pfam13481 350054005277 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 350054005278 ATP binding site [chemical binding]; other site 350054005279 Walker A motif; other site 350054005280 Walker B motif; other site 350054005281 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cl01709 350054005282 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 350054005283 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cd00338 350054005284 catalytic residues [active] 350054005285 catalytic nucleophile [active] 350054005286 Recombinase; Region: Recombinase; pfam07508 350054005287 NapD protein; Region: NapD; cl01163 350054005288 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 350054005289 active site 350054005290 DNA binding site [nucleotide binding] 350054005291 Int/Topo IB signature motif; other site 350054005292 Domain of unknown function (DUF222); Region: DUF222; pfam02720 350054005293 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cd00085 350054005294 active site 350054005295 Copper/zinc superoxide dismutase (SODC); Region: Sod_Cu; pfam00080 350054005296 E-class dimer interface [polypeptide binding]; other site 350054005297 P-class dimer interface [polypeptide binding]; other site 350054005298 active site 350054005299 Cu2+ binding site [ion binding]; other site 350054005300 Zn2+ binding site [ion binding]; other site 350054005301 Uncharacterized protein conserved in bacteria (DUF2236); Region: DUF2236; pfam09995 350054005302 Domain of unknown function (DUF385); Region: DUF385; cl04387 350054005303 acyl-CoA synthetase; Validated; Region: PRK07788 350054005304 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 350054005305 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 350054005306 acyl-activating enzyme (AAE) consensus motif; other site 350054005307 acyl-activating enzyme (AAE) consensus motif; other site 350054005308 AMP binding site [chemical binding]; other site 350054005309 active site 350054005310 CoA binding site [chemical binding]; other site 350054005311 Uncharacterized protein conserved in bacteria (DUF2236); Region: DUF2236; pfam09995 350054005312 Formate/nitrite transporter; Region: Form_Nir_trans; pfam01226 350054005313 cyanate hydratase; Validated; Region: PRK02866 350054005314 Cyanase C-terminal domain. Cyanase (Cyanate lyase) is responsible for the hydrolysis of cyanate. It catalyzes the reaction of cyanate with bicarbonate to produce ammonia and carbon dioxide. This allows organisms that possess the enzyme to overcome the...; Region: Cyanase_C; cd00559 350054005315 oligomer interface [polypeptide binding]; other site 350054005316 active site 350054005317 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 350054005318 Spore germination protein; Region: Spore_permease; cl17796 350054005319 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 350054005320 Ligand Binding Site [chemical binding]; other site 350054005321 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 350054005322 Ligand Binding Site [chemical binding]; other site 350054005323 Secretory lipase; Region: LIP; pfam03583 350054005324 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 350054005325 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 350054005326 classical (c) SDRs; Region: SDR_c; cd05233 350054005327 NAD(P) binding site [chemical binding]; other site 350054005328 active site 350054005329 Predicted glutamine amidotransferase [General function prediction only]; Region: COG0121 350054005330 Glutamine amidotransferases class-II (Gn-AT)_YafJ-type. YafJ is a glutamine amidotransferase-like protein of unknown function found in prokaryotes, eukaryotes and archaea. YafJ has a conserved structural fold similar to those of other class II...; Region: YafJ; cd01908 350054005331 putative active site [active] 350054005332 putative dimer interface [polypeptide binding]; other site 350054005333 acyltransferase, WS/DGAT/MGAT; Region: acyl_WS_DGAT; TIGR02946 350054005334 Wax ester synthase-like Acyl-CoA acyltransferase domain; Region: WES_acyltransf; pfam03007 350054005335 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 350054005336 Coenzyme A binding pocket [chemical binding]; other site 350054005337 ClC chloride channel EriC. This domain is found in the EriC chloride transporters that mediate the extreme acid resistance response in eubacteria and archaea. This response allows bacteria to survive in the acidic environments by decarboxylation-linked...; Region: EriC; cd01031 350054005338 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 350054005339 Cl- selectivity filter; other site 350054005340 Cl- binding residues [ion binding]; other site 350054005341 pore gating glutamate residue; other site 350054005342 dimer interface [polypeptide binding]; other site 350054005343 H+/Cl- coupling transport residue; other site 350054005344 Interferon-induced transmembrane protein; Region: CD225; pfam04505 350054005345 Protein of unknown function (DUF2752); Region: DUF2752; pfam10825 350054005346 Protein of unknown function (DUF732); Region: DUF732; pfam05305 350054005347 Predicted acetamidase/formamidase [Energy production and conversion]; Region: COG2421 350054005348 Predicted membrane protein [Function unknown]; Region: COG2119 350054005349 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 350054005350 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 350054005351 putative transporter; Provisional; Region: PRK10504 350054005352 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 350054005353 Protein of unknown function (DUF732); Region: DUF732; pfam05305 350054005354 Sulphate Transporter and Anti-Sigma factor antagonist) domain of anti-anti-sigma factors, key regulators of anti-sigma factors by phosphorylation; Region: STAS_anti-anti-sigma_factors; cd07043 350054005355 anti sigma factor interaction site; other site 350054005356 regulatory phosphorylation site [posttranslational modification]; other site 350054005357 Sulphate Transporter and Anti-Sigma factor antagonist) domain of anti-anti-sigma factors, key regulators of anti-sigma factors by phosphorylation; Region: STAS_anti-anti-sigma_factors; cd07043 350054005358 anti sigma factor interaction site; other site 350054005359 regulatory phosphorylation site [posttranslational modification]; other site 350054005360 lipid-transfer protein; Provisional; Region: PRK08256 350054005361 Thiolase domain associated with sterol carrier protein (SCP)-x isoform and related proteins; SCP-2 has multiple roles in intracellular lipid circulation and metabolism. The N-terminal presequence in the SCP-x isoform represents a peroxisomal...; Region: SCP-x_thiolase; cd00829 350054005362 active site 350054005363 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 350054005364 Catalytic domain of Protein Kinases; Region: PKc; cd00180 350054005365 active site 350054005366 ATP binding site [chemical binding]; other site 350054005367 substrate binding site [chemical binding]; other site 350054005368 activation loop (A-loop); other site 350054005369 Uncharacterized conserved protein related to dihydrodipicolinate reductase [Function unknown]; Region: COG3804 350054005370 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 350054005371 Polyketide cyclase / dehydrase and lipid transport; Region: Polyketide_cyc2; pfam10604 350054005372 hydrophobic ligand binding site; other site 350054005373 Patatin-like phospholipase; Region: Patatin; pfam01734 350054005374 nucleophile elbow; other site 350054005375 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 350054005376 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 350054005377 active site 350054005378 nucleophile elbow; other site 350054005379 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 350054005380 dimerization interface [polypeptide binding]; other site 350054005381 putative DNA binding site [nucleotide binding]; other site 350054005382 putative Zn2+ binding site [ion binding]; other site 350054005383 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; some contain an N-terminal GntR family winged HTH DNA-binding domain; Region: SRPBCC_CalC_Aha1-like_GntR-HTH; cd08893 350054005384 putative hydrophobic ligand binding site [chemical binding]; other site 350054005385 Cysteine dioxygenase type I; Region: CDO_I; pfam05995 350054005386 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cl00125 350054005387 active site residue [active] 350054005388 Predicted membrane protein [Function unknown]; Region: COG4425 350054005389 Predicted membrane protein (DUF2319); Region: DUF2319; pfam10081 350054005390 enoyl-CoA hydratase; Provisional; Region: PRK05862 350054005391 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 350054005392 substrate binding site [chemical binding]; other site 350054005393 oxyanion hole (OAH) forming residues; other site 350054005394 trimer interface [polypeptide binding]; other site 350054005395 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 350054005396 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 350054005397 substrate binding site [chemical binding]; other site 350054005398 oxyanion hole (OAH) forming residues; other site 350054005399 trimer interface [polypeptide binding]; other site 350054005400 2-enoyl-CoA Hydratase C-terminal region; Region: ECH_C; pfam13766 350054005401 Bax inhibitor 1 like; Region: BaxI_1; cl17691 350054005402 phosphoribosylglycinamide formyltransferase 2; Validated; Region: purT; PRK09288 350054005403 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 350054005404 ATP-grasp domain; Region: ATP-grasp; pfam02222 350054005405 acetyl-CoA acetyltransferase; Provisional; Region: PRK07851 350054005406 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 350054005407 dimer interface [polypeptide binding]; other site 350054005408 active site 350054005409 SGNH_hydrolase subfamily, FeeA, FeeB and similar esterases/lipases. FeeA and FeeB are part of a biosynthetic gene cluster and may participate in the biosynthesis of long-chain N-acyltyrosines by providing saturated and unsaturated fatty acids, which it...; Region: FeeA_FeeB_like; cd01836 350054005410 active site 350054005411 catalytic triad [active] 350054005412 oxyanion hole [active] 350054005413 Esterase/lipase [Lipid metabolism]; Region: Aes; COG0657 350054005414 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 350054005415 substrate binding pocket [chemical binding]; other site 350054005416 cystathionine beta-synthase; Region: cysta_beta; TIGR01137 350054005417 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 350054005418 dimer interface [polypeptide binding]; other site 350054005419 pyridoxal 5'-phosphate binding site [chemical binding]; other site 350054005420 catalytic residue [active] 350054005421 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the pyridoxal-phosphate (PALP) dependent enzyme domain upstream. The vitamin B6 complex comprises pyridoxine, pyridoxal, and pyridoxamine, as well...; Region: CBS_pair_PALP_assoc2; cd04609 350054005422 Predicted integral membrane protein (DUF2189); Region: DUF2189; cl02291 350054005423 RDD family; Region: RDD; pfam06271 350054005424 cystathionine gamma-synthase; Provisional; Region: PRK07811 350054005425 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 350054005426 homodimer interface [polypeptide binding]; other site 350054005427 substrate-cofactor binding pocket; other site 350054005428 pyridoxal 5'-phosphate binding site [chemical binding]; other site 350054005429 catalytic residue [active] 350054005430 Golgi phosphoprotein 3 (GPP34); Region: GPP34; pfam05719 350054005431 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 350054005432 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 350054005433 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 350054005434 Domain of unknown function (DUF4307); Region: DUF4307; pfam14155 350054005435 mycothiol conjugate amidase Mca; Region: mycothiol_Mca; TIGR03446 350054005436 Highly conserved protein containing a thioredoxin domain [Posttranslational modification, protein turnover, chaperones]; Region: COG1331 350054005437 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 350054005438 catalytic residues [active] 350054005439 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 350054005440 Predicted membrane protein, hemolysin III homolog [General function prediction only]; Region: COG1272 350054005441 channel protein, hemolysin III family; Region: hlyIII; TIGR01065 350054005442 Cis (Z)-Isoprenyl Diphosphate Synthases (cis-IPPS); homodimers which catalyze the successive 1'-4 condensation of the isopentenyl diphosphate (IPP) molecule to trans,trans-farnesyl diphosphate (FPP) or to cis,trans-FPP to form long-chain polyprenyl...; Region: CIS_IPPS; cl00230 350054005443 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 350054005444 catalytic residue [active] 350054005445 putative FPP diphosphate binding site; other site 350054005446 putative FPP binding hydrophobic cleft; other site 350054005447 dimer interface [polypeptide binding]; other site 350054005448 putative IPP diphosphate binding site; other site 350054005449 pantothenate kinase; Provisional; Region: PRK05439 350054005450 Pantothenate kinase (PanK) catalyzes the phosphorylation of pantothenic acid to form 4'-phosphopantothenic, which is the first of five steps in coenzyme A (CoA) biosynthetic pathway. The reaction carried out by this enzyme is a key regulatory point...; Region: PanK; cd02025 350054005451 ATP-binding site [chemical binding]; other site 350054005452 CoA-binding site [chemical binding]; other site 350054005453 Mg2+-binding site [ion binding]; other site 350054005454 Bacterial protein of unknown function (DUF885); Region: DUF885; pfam05960 350054005455 serine hydroxymethyltransferase; Provisional; Region: PRK13580 350054005456 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 350054005457 dimer interface [polypeptide binding]; other site 350054005458 active site 350054005459 glycine-pyridoxal phosphate binding site [chemical binding]; other site 350054005460 folate binding site [chemical binding]; other site 350054005461 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 350054005462 dinuclear metal binding motif [ion binding]; other site 350054005463 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]; Region: COG1875 350054005464 PIN domain of bacterial Smg6-like homologs with PhoH-like ATPase domains; Region: PIN_PhoHL-ATPase; cd09883 350054005465 putative active site [active] 350054005466 PhoH-like protein; Region: PhoH; pfam02562 350054005467 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 350054005468 Catalytic NodB homology domain of rhizobial NodB-like proteins; Region: CE4_NodB_like_6s_7s; cd10917 350054005469 NodB motif; other site 350054005470 active site 350054005471 catalytic site [active] 350054005472 metal binding site [ion binding]; metal-binding site 350054005473 fumarate hydratase; Reviewed; Region: fumC; PRK00485 350054005474 Class II fumarases; Region: Fumarase_classII; cd01362 350054005475 active site 350054005476 tetramer interface [polypeptide binding]; other site 350054005477 Bacterial fructose-1,6-bisphosphatase, glpX-encoded. A dimeric enzyme dependent on Mg(2+). glpX-encoded FPBase (FBPase class II) differs from other members of the inositol-phosphatase superfamily by permutation of secondary structure elements. The core...; Region: FBPase_glpX; cd01516 350054005478 Bacterial fructose-1,6-bisphosphatase, glpX-encoded; Region: FBPase_glpX; pfam03320 350054005479 putative active site [active] 350054005480 Protein of unknown function (DUF4245); Region: DUF4245; pfam14030 350054005481 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 350054005482 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 350054005483 Domain of unknown function DUF20; Region: UPF0118; pfam01594 350054005484 short chain dehydrogenase; Provisional; Region: PRK07825 350054005485 classical (c) SDRs; Region: SDR_c; cd05233 350054005486 NAD(P) binding site [chemical binding]; other site 350054005487 active site 350054005488 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 350054005489 classical (c) SDRs; Region: SDR_c; cd05233 350054005490 NAD(P) binding site [chemical binding]; other site 350054005491 active site 350054005492 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cd07812 350054005493 hydrophobic ligand binding site; other site 350054005494 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 350054005495 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 350054005496 metal binding site [ion binding]; metal-binding site 350054005497 active site 350054005498 I-site; other site 350054005499 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 350054005500 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 350054005501 3beta-hydroxysteroid dehydrogenases (3b-HSD)-like, extended (e) SDRs; Region: 3b-HSD-like_SDR_e; cd05241 350054005502 3-beta hydroxysteroid dehydrogenase/isomerase family; Region: 3Beta_HSD; pfam01073 350054005503 putative NAD(P) binding site [chemical binding]; other site 350054005504 active site 350054005505 putative substrate binding site [chemical binding]; other site 350054005506 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 350054005507 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 350054005508 ExoVII_LU_OBF: A subfamily of OB folds corresponding to the N-terminal OB-fold domain of Escherichia coli exodeoxyribonuclease VII (ExoVII) large subunit. E. coli ExoVII is composed of two non-identical subunits. E. coli ExoVII is a...; Region: ExoVII_LU_OBF; cd04489 350054005509 generic binding surface II; other site 350054005510 generic binding surface I; other site 350054005511 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 350054005512 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 350054005513 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 350054005514 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 350054005515 GTP-binding protein YchF; Reviewed; Region: PRK09601 350054005516 YchF GTPase; Region: YchF; cd01900 350054005517 G1 box; other site 350054005518 GTP/Mg2+ binding site [chemical binding]; other site 350054005519 Switch I region; other site 350054005520 G2 box; other site 350054005521 Switch II region; other site 350054005522 G3 box; other site 350054005523 G4 box; other site 350054005524 G5 box; other site 350054005525 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 350054005526 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 350054005527 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 350054005528 Domain of unknown function (DUF4344); Region: DUF4344; pfam14247 350054005529 deazaflavin-dependent oxidoreductase, nitroreductase family; Region: hi_GC_TIGR00026 350054005530 Orthopoxvirus protein of unknown function (DUF830); Region: DUF830; cl13998 350054005531 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 350054005532 cyclase homology domain; Region: CHD; cd07302 350054005533 nucleotidyl binding site; other site 350054005534 metal binding site [ion binding]; metal-binding site 350054005535 dimer interface [polypeptide binding]; other site 350054005536 Transposase domain (DUF772); Region: DUF772; pfam05598 350054005537 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 350054005538 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 350054005539 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 350054005540 hypothetical protein; Provisional; Region: PRK06149 350054005541 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 350054005542 active site 350054005543 ATP binding site [chemical binding]; other site 350054005544 substrate binding site [chemical binding]; other site 350054005545 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 350054005546 inhibitor-cofactor binding pocket; inhibition site 350054005547 pyridoxal 5'-phosphate binding site [chemical binding]; other site 350054005548 catalytic residue [active] 350054005549 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 350054005550 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 350054005551 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350054005552 Escherichia coli PhnB and similar proteins; the E. coli phnB gene is found next to an operon involved in the cleavage of carbon-phosphorus bonds in unactivated alkylphosphonates; Region: PhnB_like; cd06588 350054005553 dimer interface [polypeptide binding]; other site 350054005554 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 350054005555 Permease; Region: Permease; pfam02405 350054005556 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 350054005557 Permease; Region: Permease; pfam02405 350054005558 mce related protein; Region: MCE; pfam02470 350054005559 Protein of unknown function (DUF3407); Region: DUF3407; pfam11887 350054005560 virulence factor Mce family protein; Region: Mtu_fam_mce; TIGR00996 350054005561 mce related protein; Region: MCE; pfam02470 350054005562 Protein of unknown function (DUF3407); Region: DUF3407; pfam11887 350054005563 virulence factor Mce family protein; Region: Mtu_fam_mce; TIGR00996 350054005564 mce related protein; Region: MCE; pfam02470 350054005565 virulence factor Mce family protein; Region: Mtu_fam_mce; TIGR00996 350054005566 mce related protein; Region: MCE; pfam02470 350054005567 virulence factor Mce family protein; Region: Mtu_fam_mce; TIGR00996 350054005568 mce related protein; Region: MCE; pfam02470 350054005569 Protein of unknown function (DUF3407); Region: DUF3407; pfam11887 350054005570 virulence factor Mce family protein; Region: Mtu_fam_mce; TIGR00996 350054005571 mce related protein; Region: MCE; pfam02470 350054005572 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 350054005573 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350054005574 WHG domain; Region: WHG; pfam13305 350054005575 Lignostilbene-alpha,beta-dioxygenase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3670 350054005576 Retinal pigment epithelial membrane protein; Region: RPE65; pfam03055 350054005577 Predicted membrane protein [Function unknown]; Region: COG2259 350054005578 Transmembrane protein of unknown function (DUF3556); Region: DUF3556; pfam12077 350054005579 Transcriptional regulators [Transcription]; Region: FadR; COG2186 350054005580 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 350054005581 FCD domain; Region: FCD; pfam07729 350054005582 butyryl-CoA:acetate CoA-transferase; Region: butyr_acet_CoA; TIGR03948 350054005583 Coenzyme A transferase; Region: CoA_trans; cl17247 350054005584 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 350054005585 acetyl-CoA acetyltransferase; Provisional; Region: PRK06504 350054005586 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 350054005587 dimer interface [polypeptide binding]; other site 350054005588 active site 350054005589 enoyl-CoA hydratase; Provisional; Region: PRK08252 350054005590 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 350054005591 substrate binding site [chemical binding]; other site 350054005592 oxyanion hole (OAH) forming residues; other site 350054005593 trimer interface [polypeptide binding]; other site 350054005594 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 350054005595 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 350054005596 active site 350054005597 Secreted and surface protein containing fasciclin-like repeats [Cell envelope biogenesis, outer membrane]; Region: COG2335 350054005598 Fasciclin domain; Region: Fasciclin; pfam02469 350054005599 oxidoreductase; Provisional; Region: PRK06196 350054005600 retinol dehydrogenase (retinol-DH), Light dependent Protochlorophyllide (Pchlide) OxidoReductase (LPOR) and related proteins, classical (c) SDRs; Region: retinol-DH_like_SDR_c_like; cd05327 350054005601 putative NAD(P) binding site [chemical binding]; other site 350054005602 active site 350054005603 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 350054005604 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 350054005605 trimer interface [polypeptide binding]; other site 350054005606 putative metal binding site [ion binding]; other site 350054005607 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 350054005608 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 350054005609 NAD(P) binding site [chemical binding]; other site 350054005610 active site 350054005611 CAAX protease self-immunity; Region: Abi; pfam02517 350054005612 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR6; cd08272 350054005613 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 350054005614 putative NAD(P) binding site [chemical binding]; other site 350054005615 enoyl-CoA hydratase; Provisional; Region: PRK06688 350054005616 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 350054005617 substrate binding site [chemical binding]; other site 350054005618 oxyanion hole (OAH) forming residues; other site 350054005619 trimer interface [polypeptide binding]; other site 350054005620 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cl15762 350054005621 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 350054005622 CoA-transferase family III; Region: CoA_transf_3; pfam02515 350054005623 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK08217 350054005624 17hydroxysteroid dehydrogenase type 10 (HSD10)-like, classical (c) SDRs; Region: HSD10-like_SDR_c; cd05371 350054005625 NAD binding site [chemical binding]; other site 350054005626 homodimer interface [polypeptide binding]; other site 350054005627 homotetramer interface [polypeptide binding]; other site 350054005628 active site 350054005629 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 350054005630 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 350054005631 FMN binding site [chemical binding]; other site 350054005632 substrate binding site [chemical binding]; other site 350054005633 putative catalytic residue [active] 350054005634 DoxX; Region: DoxX; pfam07681 350054005635 Predicted drug exporters of the RND superfamily [General function prediction only]; Region: COG2409 350054005636 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 350054005637 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350054005638 WHG domain; Region: WHG; pfam13305 350054005639 Methyltransferase domain; Region: Methyltransf_23; pfam13489 350054005640 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 350054005641 S-adenosylmethionine binding site [chemical binding]; other site 350054005642 NAD-dependent deacetylase; Provisional; Region: PRK00481 350054005643 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 350054005644 NAD+ binding site [chemical binding]; other site 350054005645 substrate binding site [chemical binding]; other site 350054005646 Zn binding site [ion binding]; other site 350054005647 Predicted transcriptional regulators [Transcription]; Region: COG1725 350054005648 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 350054005649 DNA-binding site [nucleotide binding]; DNA binding site 350054005650 O-Methyltransferase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3315 350054005651 Leucine carboxyl methyltransferase; Region: LCM; pfam04072 350054005652 PPOX class probable F420-dependent enzyme; Region: Rv1155_F420; TIGR03618 350054005653 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 350054005654 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 350054005655 Na binding site [ion binding]; other site 350054005656 Protein of unknown function, DUF485; Region: DUF485; pfam04341 350054005657 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 350054005658 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 350054005659 Na binding site [ion binding]; other site 350054005660 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 350054005661 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 350054005662 active site 350054005663 phosphorylation site [posttranslational modification] 350054005664 intermolecular recognition site; other site 350054005665 dimerization interface [polypeptide binding]; other site 350054005666 LytTr DNA-binding domain; Region: LytTR; smart00850 350054005667 Histidine kinase; Region: His_kinase; pfam06580 350054005668 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 350054005669 ATP binding site [chemical binding]; other site 350054005670 Mg2+ binding site [ion binding]; other site 350054005671 G-X-G motif; other site 350054005672 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 350054005673 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 350054005674 minor groove reading motif; other site 350054005675 helix-hairpin-helix signature motif; other site 350054005676 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 350054005677 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 350054005678 Presynaptic Site I dimer interface [polypeptide binding]; other site 350054005679 catalytic residues [active] 350054005680 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 350054005681 Synaptic Flat tetramer interface [polypeptide binding]; other site 350054005682 Synaptic Site I dimer interface [polypeptide binding]; other site 350054005683 Proteins of this family catalyze the reduction of flavin or nitrocompounds using NAD(P)H as electron donor in a obligatory two-electron transfer, utilizing FMN or FAD as cofactor. They are often found to be homodimers. Enzymes of this family are...; Region: Nitro_FMN_reductase; cd02062 350054005684 FMN binding site [chemical binding]; other site 350054005685 Proteins of this family catalyze the reduction of flavin or nitrocompounds using NAD(P)H as electron donor in a obligatory two-electron transfer, utilizing FMN or FAD as cofactor. They are often found to be homodimers. Enzymes of this family are...; Region: Nitro_FMN_reductase; cd02062 350054005686 dimer interface [polypeptide binding]; other site 350054005687 mannosyltransferase; Provisional; Region: pimE; PRK13375 350054005688 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 350054005689 active site 350054005690 8-oxo-dGMP binding site [chemical binding]; other site 350054005691 nudix motif; other site 350054005692 metal binding site [ion binding]; metal-binding site 350054005693 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 350054005694 nitrite extrusion protein (nitrite facilitator); Region: 2A0108; TIGR00886 350054005695 putative substrate translocation pore; other site 350054005696 Nitrate reductase alpha subunit [Energy production and conversion]; Region: NarG; COG5013 350054005697 Respiratory nitrate reductase A (NarGHI), alpha chain (NarG) and related proteins. Under anaerobic conditions in the presence of nitrate, E. coli synthesizes the cytoplasmic membrane-bound quinol-nitrate oxidoreductase (NarGHI), which reduces nitrate to...; Region: MopB_Nitrate-R-NarG-like; cd02750 350054005698 [4Fe-4S] binding site [ion binding]; other site 350054005699 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 350054005700 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 350054005701 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 350054005702 Respiratory nitrate reductase A (NarGHI), alpha chain (NarG) and related proteins. Under anaerobic conditions in the presence of nitrate, E. coli synthesizes the cytoplasmic membrane-bound quinol-nitrate oxidoreductase (NarGHI), which reduces nitrate to...; Region: MopB_CT_Nitrate-R-NarG-like; cd02776 350054005703 molybdopterin cofactor binding site; other site 350054005704 Nitrate reductase beta subunit [Energy production and conversion]; Region: NarY; COG1140 350054005705 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 350054005706 Nitrate reductase gamma subunit; Region: Nitrate_red_gam; pfam02665 350054005707 Protein of unknown function, DUF488; Region: DUF488; pfam04343 350054005708 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 350054005709 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 350054005710 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 350054005711 G1 box; other site 350054005712 putative GEF interaction site [polypeptide binding]; other site 350054005713 GTP/Mg2+ binding site [chemical binding]; other site 350054005714 Switch I region; other site 350054005715 G2 box; other site 350054005716 G3 box; other site 350054005717 Switch II region; other site 350054005718 G4 box; other site 350054005719 G5 box; other site 350054005720 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 350054005721 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 350054005722 The substrate-binding domain of mycobacterial lipoprotein Lpqw contains type 2 periplasmic binding fold; Region: PBP2_Lpqw; cd08501 350054005723 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 350054005724 N-acetyl-1-D-myo-inositol-2-amino-2-deoxy-alpha-D- glucopyranoside deacetylase; Region: mycothiol_MshB; TIGR03445 350054005725 FO synthase; Reviewed; Region: fbiC; PRK09234 350054005726 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 350054005727 FeS/SAM binding site; other site 350054005728 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 350054005729 FeS/SAM binding site; other site 350054005730 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 350054005731 YceI-like domain; Region: YceI; smart00867 350054005732 Ferredoxin [Energy production and conversion]; Region: COG1146 350054005733 4Fe-4S binding domain; Region: Fer4; pfam00037 350054005734 N-succinyldiaminopimelate aminotransferase; Reviewed; Region: PRK07865 350054005735 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 350054005736 pyridoxal 5'-phosphate binding site [chemical binding]; other site 350054005737 homodimer interface [polypeptide binding]; other site 350054005738 catalytic residue [active] 350054005739 Proline dehydrogenase; Region: Pro_dh; cl03282 350054005740 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 350054005741 5-carboxymethyl-2-hydroxymuconate semialdehyde dehydrogenase; Region: HpaE; TIGR02299 350054005742 NAD(P) binding site [chemical binding]; other site 350054005743 catalytic residues [active] 350054005744 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 350054005745 dimer interface [polypeptide binding]; other site 350054005746 active site 350054005747 ADP-ribose binding site [chemical binding]; other site 350054005748 nudix motif; other site 350054005749 metal binding site [ion binding]; metal-binding site 350054005750 acyl-CoA synthetase; Validated; Region: PRK07787 350054005751 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 350054005752 acyl-activating enzyme (AAE) consensus motif; other site 350054005753 AMP binding site [chemical binding]; other site 350054005754 active site 350054005755 CoA binding site [chemical binding]; other site 350054005756 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 350054005757 active site 350054005758 D-alanyl-D-alanine carboxypeptidase; Region: VanY; pfam02557 350054005759 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate N-succinyltransferase; Region: DapD_actino; TIGR03535 350054005760 Putative 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate (THDP) N-succinyltransferase (THP succinyltransferase), C-terminal left-handed parallel alpha-helix (LbH) domain: This group is composed of mostly uncharacterized proteins containing an N-terminal...; Region: LbH_THP_succinylT_putative; cd04649 350054005761 putative trimer interface [polypeptide binding]; other site 350054005762 putative CoA binding site [chemical binding]; other site 350054005763 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13007 350054005764 M20 Peptidase actinobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_actinobac; cd05647 350054005765 metal binding site [ion binding]; metal-binding site 350054005766 putative dimer interface [polypeptide binding]; other site 350054005767 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 350054005768 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 350054005769 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 350054005770 Protein of unknown function (DUF2580); Region: DUF2580; pfam10824 350054005771 AAA domain; Region: AAA_22; pfam13401 350054005772 AAA domain; Region: AAA_17; pfam13207 350054005773 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 350054005774 long-chain-acyl-CoA synthetase; Validated; Region: PRK08279 350054005775 Protein of unknown function (DUF3866); Region: DUF3866; pfam12982 350054005776 Fatty acid transport proteins (FATP) play dual roles as fatty acid transporters and its activation enzymes; Region: FATP_FACS; cd05940 350054005777 acyl-activating enzyme (AAE) consensus motif; other site 350054005778 putative AMP binding site [chemical binding]; other site 350054005779 putative active site [active] 350054005780 putative CoA binding site [chemical binding]; other site 350054005781 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 350054005782 dihydropteroate synthase; Region: DHPS; TIGR01496 350054005783 substrate binding pocket [chemical binding]; other site 350054005784 dimer interface [polypeptide binding]; other site 350054005785 inhibitor binding site; inhibition site 350054005786 putative glucosyl-3-phosphoglycerate synthase; Provisional; Region: PRK13915 350054005787 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 350054005788 DivIVA domain; Region: DivI1A_domain; TIGR03544 350054005789 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 350054005790 Protein of unknown function (DUF3117); Region: DUF3117; pfam11314 350054005791 glycogen synthase, Corynebacterium family; Region: glgA_Coryne; TIGR02149 350054005792 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 350054005793 Insertion element 4 transposase N-terminal; Region: Nterm_IS4; pfam13006 350054005794 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 350054005795 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK00844 350054005796 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 350054005797 ligand binding site; other site 350054005798 oligomer interface; other site 350054005799 Glucose-1-phosphate adenylyltransferase, C-terminal Left-handed parallel beta helix (LbH) domain: Glucose-1-phosphate adenylyltransferase is also known as ADP-glucose synthase or ADP-glucose pyrophosphorylase. It catalyzes the first committed and...; Region: LbH_G1P_AT_C; cd04651 350054005800 dimer interface [polypeptide binding]; other site 350054005801 N-terminal domain interface [polypeptide binding]; other site 350054005802 sulfate 1 binding site; other site 350054005803 Domain of unknown function (DUF4126); Region: DUF4126; pfam13548 350054005804 Putative exporter of polyketide antibiotics [Cell envelope biogenesis, outer membrane]; Region: TnrB3; COG3559 350054005805 Putative exporter of polyketide antibiotics [Cell envelope biogenesis, outer membrane]; Region: TnrB3; COG3559 350054005806 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 350054005807 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 350054005808 Walker A/P-loop; other site 350054005809 ATP binding site [chemical binding]; other site 350054005810 Q-loop/lid; other site 350054005811 ABC transporter signature motif; other site 350054005812 Walker B; other site 350054005813 D-loop; other site 350054005814 H-loop/switch region; other site 350054005815 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 350054005816 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350054005817 Predicted O-methyltransferase [General function prediction only]; Region: COG4122 350054005818 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 350054005819 S-adenosylmethionine binding site [chemical binding]; other site 350054005820 RNA polymerase sigma factor SigE; Reviewed; Region: PRK09647 350054005821 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 350054005822 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 350054005823 DNA binding residues [nucleotide binding] 350054005824 mycothiol system anti-sigma-R factor; Region: antisig_RsrA; cl15806 350054005825 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 350054005826 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 350054005827 protein binding site [polypeptide binding]; other site 350054005828 sec-independent translocase; Provisional; Region: PRK03100 350054005829 Transposase domain (DUF772); Region: DUF772; pfam05598 350054005830 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 350054005831 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 350054005832 Predicted metal-sulfur cluster biosynthetic enzyme [General function prediction only]; Region: PaaD; COG2151 350054005833 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Mrp; COG0489 350054005834 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 350054005835 Membrane-bound lytic murein transglycosylase B [Cell envelope biogenesis, outer membrane]; Region: MltB; COG2951 350054005836 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 350054005837 N-acetyl-D-glucosamine binding site [chemical binding]; other site 350054005838 Protein of unknown function (DUF1003); Region: DUF1003; pfam06210 350054005839 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 350054005840 MgtE intracellular N domain; Region: MgtE_N; smart00924 350054005841 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 350054005842 Citrate lyase beta subunit [Carbohydrate transport and metabolism]; Region: CitE; COG2301 350054005843 Domain of unknown function (DUF4190); Region: DUF4190; pfam13828 350054005844 Suppressor of fused protein (SUFU); Region: SUFU; pfam05076 350054005845 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 350054005846 Mycobacterium tuberculosis CorA-like subfamily; Region: MtCorA-like; cd12830 350054005847 oligomer interface [polypeptide binding]; other site 350054005848 metal binding site [ion binding]; metal-binding site 350054005849 metal binding site [ion binding]; metal-binding site 350054005850 putative Cl binding site [ion binding]; other site 350054005851 basic sphincter; other site 350054005852 hydrophobic gate; other site 350054005853 periplasmic entrance; other site 350054005854 Malic enzyme [Energy production and conversion]; Region: SfcA; COG0281 350054005855 Malic enzyme, N-terminal domain; Region: malic; pfam00390 350054005856 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 350054005857 putative NAD(P) binding site [chemical binding]; other site 350054005858 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 350054005859 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 350054005860 short chain dehydrogenase; Provisional; Region: PRK08267 350054005861 NAD(P) binding site [chemical binding]; other site 350054005862 active site 350054005863 Protein of unknown function (DUF732); Region: DUF732; pfam05305 350054005864 alpha-ketoglutarate decarboxylase; Reviewed; Region: kgd; PRK12270 350054005865 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 350054005866 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 350054005867 TPP-binding site [chemical binding]; other site 350054005868 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 350054005869 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 350054005870 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 350054005871 putative substrate translocation pore; other site 350054005872 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 350054005873 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 350054005874 putative substrate translocation pore; other site 350054005875 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 350054005876 Predicted nuclease (RecB family) [General function prediction only]; Region: COG2251 350054005877 RNase_H superfamily; Region: RNase_H_2; pfam13482 350054005878 Superfamily I DNA and RNA helicases and helicase subunits [DNA replication, recombination, and repair]; Region: COG1112 350054005879 AAA domain; Region: AAA_12; pfam13087 350054005880 LppP/LprE lipoprotein; Region: Lipoprotein_21; pfam14041 350054005881 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 350054005882 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 350054005883 ATP binding site [chemical binding]; other site 350054005884 Mg++ binding site [ion binding]; other site 350054005885 motif III; other site 350054005886 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 350054005887 nucleotide binding region [chemical binding]; other site 350054005888 ATP-binding site [chemical binding]; other site 350054005889 RNA recognition motif in Escherichia coli cold-shock DEAD box protein A (CsdA) and similar proteins; Region: RRM_EcCsdA_like; cd12499 350054005890 putative RNA binding site [nucleotide binding]; other site 350054005891 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 350054005892 Siderophore-interacting protein [Inorganic ion transport and metabolism]; Region: ViuB; COG2375 350054005893 Siderophore interacting proteins share the domain structure of the ferredoxin reductase like family. Siderophores are produced in various bacteria (and some plants) to extract iron from hosts. Binding constants are high, so iron can be pilfered from...; Region: siderophore_interacting; cd06193 350054005894 FAD binding pocket [chemical binding]; other site 350054005895 FAD binding motif [chemical binding]; other site 350054005896 phosphate binding motif [ion binding]; other site 350054005897 NAD binding pocket [chemical binding]; other site 350054005898 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 350054005899 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350054005900 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 350054005901 Cytochrome P450; Region: p450; cl12078 350054005902 FAD binding domain; Region: FAD_binding_4; pfam01565 350054005903 glycolate oxidase, subunit GlcD; Region: glcD; TIGR00387 350054005904 Protein of unknown function (DUF3237); Region: DUF3237; pfam11578 350054005905 Predicted transcriptional regulators [Transcription]; Region: COG1733 350054005906 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 350054005907 H+ Antiporter protein; Region: 2A0121; TIGR00900 350054005908 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 350054005909 PknH-like extracellular domain; Region: PknH_C; pfam14032 350054005910 Family-5 Uracil-DNA glycosylases (UDG), found in thermophilic organisms; Region: UDG_F5_TTUDGB_like; cd10031 350054005911 Fe-S cluster binding site [ion binding]; other site 350054005912 DNA binding site [nucleotide binding] 350054005913 active site 350054005914 luciferase family oxidoreductase, group 1; Region: oxido_grp_1; TIGR03558 350054005915 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 350054005916 Domain of unknown function (DUF385); Region: DUF385; pfam04075 350054005917 HINT (histidine triad nucleotide-binding protein) subgroup: Members of this CD belong to the superfamily of histidine triad hydrolases that act on alpha-phosphate of ribonucleotides. This subgroup includes members from all three forms of cellular life; Region: HINT_subgroup; cd01277 350054005918 HIT family signature motif; other site 350054005919 catalytic residue [active] 350054005920 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_8; cd07246 350054005921 putative dimer interface [polypeptide binding]; other site 350054005922 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 350054005923 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 350054005924 MUG-like Uracil-DNA glycosylase enzyme family; Region: UDG_MUG_like; cd10032 350054005925 putative active site [active] 350054005926 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 350054005927 cyclase homology domain; Region: CHD; cd07302 350054005928 nucleotidyl binding site; other site 350054005929 metal binding site [ion binding]; metal-binding site 350054005930 dimer interface [polypeptide binding]; other site 350054005931 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 350054005932 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 350054005933 metal-binding site [ion binding] 350054005934 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 350054005935 Domain of unknown function (DUF305); Region: DUF305; pfam03713 350054005936 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 350054005937 putative active site [active] 350054005938 dimerization interface [polypeptide binding]; other site 350054005939 putative tRNAtyr binding site [nucleotide binding]; other site 350054005940 Protein of unknown function (DUF2510); Region: DUF2510; pfam10708 350054005941 Mitochondrial biogenesis AIM24; Region: AIM24; pfam01987 350054005942 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 350054005943 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 350054005944 molybdopterin cofactor binding site; other site 350054005945 Molybdopterin-Binding, C-terminal (MopB_CT) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum-...; Region: MopB_CT; cl09929 350054005946 molybdopterin cofactor binding site; other site 350054005947 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 350054005948 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 350054005949 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 350054005950 Walker A/P-loop; other site 350054005951 ATP binding site [chemical binding]; other site 350054005952 Q-loop/lid; other site 350054005953 ABC transporter signature motif; other site 350054005954 Walker B; other site 350054005955 D-loop; other site 350054005956 H-loop/switch region; other site 350054005957 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 350054005958 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 350054005959 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 350054005960 Walker A/P-loop; other site 350054005961 ATP binding site [chemical binding]; other site 350054005962 Q-loop/lid; other site 350054005963 ABC transporter signature motif; other site 350054005964 Walker B; other site 350054005965 D-loop; other site 350054005966 H-loop/switch region; other site 350054005967 Protein of unknown function (DUF3558); Region: DUF3558; pfam12079 350054005968 Protein of unknown function (DUF3558); Region: DUF3558; pfam12079 350054005969 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 350054005970 catalytic core [active] 350054005971 DNA repair exonuclease [DNA replication, recombination, and repair]; Region: SbcD; COG0420 350054005972 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 350054005973 active site 350054005974 metal binding site [ion binding]; metal-binding site 350054005975 DNA binding site [nucleotide binding] 350054005976 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 350054005977 Walker A/P-loop; other site 350054005978 ATP binding site [chemical binding]; other site 350054005979 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 350054005980 TAP-like protein; Region: Abhydrolase_4; pfam08386 350054005981 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 350054005982 The substrate-binding domain of mycobacterial lipoprotein Lpqw contains type 2 periplasmic binding fold; Region: PBP2_Lpqw; cd08501 350054005983 glutathione transporter ATP-binding protein; Provisional; Region: PRK10261 350054005984 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 350054005985 Walker A/P-loop; other site 350054005986 ATP binding site [chemical binding]; other site 350054005987 Q-loop/lid; other site 350054005988 ABC transporter signature motif; other site 350054005989 Walker B; other site 350054005990 D-loop; other site 350054005991 H-loop/switch region; other site 350054005992 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 350054005993 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 350054005994 Walker A/P-loop; other site 350054005995 ATP binding site [chemical binding]; other site 350054005996 Q-loop/lid; other site 350054005997 ABC transporter signature motif; other site 350054005998 Walker B; other site 350054005999 D-loop; other site 350054006000 H-loop/switch region; other site 350054006001 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 350054006002 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 350054006003 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 350054006004 dimer interface [polypeptide binding]; other site 350054006005 conserved gate region; other site 350054006006 putative PBP binding loops; other site 350054006007 ABC-ATPase subunit interface; other site 350054006008 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 350054006009 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 350054006010 dimer interface [polypeptide binding]; other site 350054006011 conserved gate region; other site 350054006012 putative PBP binding loops; other site 350054006013 ABC-ATPase subunit interface; other site 350054006014 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 350054006015 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 350054006016 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 350054006017 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 350054006018 active site 350054006019 phosphorylation site [posttranslational modification] 350054006020 intermolecular recognition site; other site 350054006021 dimerization interface [polypeptide binding]; other site 350054006022 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 350054006023 DNA binding site [nucleotide binding] 350054006024 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 350054006025 HAMP domain; Region: HAMP; pfam00672 350054006026 dimerization interface [polypeptide binding]; other site 350054006027 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 350054006028 dimer interface [polypeptide binding]; other site 350054006029 phosphorylation site [posttranslational modification] 350054006030 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 350054006031 ATP binding site [chemical binding]; other site 350054006032 Mg2+ binding site [ion binding]; other site 350054006033 G-X-G motif; other site 350054006034 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 350054006035 active site 350054006036 GtrA-like protein; Region: GtrA; pfam04138 350054006037 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 350054006038 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_cladeD; cd03379 350054006039 active site clefts [active] 350054006040 zinc binding site [ion binding]; other site 350054006041 dimer interface [polypeptide binding]; other site 350054006042 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 350054006043 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 350054006044 Active Sites [active] 350054006045 bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Provisional; Region: PRK05506 350054006046 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 350054006047 CysD dimerization site [polypeptide binding]; other site 350054006048 G1 box; other site 350054006049 putative GEF interaction site [polypeptide binding]; other site 350054006050 GTP/Mg2+ binding site [chemical binding]; other site 350054006051 Switch I region; other site 350054006052 G2 box; other site 350054006053 G3 box; other site 350054006054 Switch II region; other site 350054006055 G4 box; other site 350054006056 G5 box; other site 350054006057 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 350054006058 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 350054006059 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 350054006060 ligand-binding site [chemical binding]; other site 350054006061 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 350054006062 active site 350054006063 Isochorismatase family; Region: Isochorismatase; pfam00857 350054006064 Nicotinamidase_ related amidohydrolases. Cysteine hydrolases of unknown function that share the catalytic triad with other amidohydrolases, like nicotinamidase, which converts nicotinamide to nicotinic acid and ammonia; Region: nicotinamidase_related; cd01014 350054006065 catalytic triad [active] 350054006066 conserved cis-peptide bond; other site 350054006067 Rrf2 family protein; Region: rrf2_super; TIGR00738 350054006068 Transcriptional regulator; Region: Rrf2; pfam02082 350054006069 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 350054006070 Nitronate monooxygenase; Region: NMO; pfam03060 350054006071 FMN binding site [chemical binding]; other site 350054006072 substrate binding site [chemical binding]; other site 350054006073 putative catalytic residue [active] 350054006074 probable polyamine oxidase; Region: PLN02268 350054006075 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 350054006076 hydroxyglutarate oxidase; Provisional; Region: PRK11728 350054006077 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 350054006078 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 350054006079 active site 350054006080 phosphorylation site [posttranslational modification] 350054006081 intermolecular recognition site; other site 350054006082 dimerization interface [polypeptide binding]; other site 350054006083 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 350054006084 DNA binding residues [nucleotide binding] 350054006085 dimerization interface [polypeptide binding]; other site 350054006086 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 350054006087 Histidine kinase; Region: HisKA_3; pfam07730 350054006088 Tellurite resistance protein and related permeases [Inorganic ion transport and metabolism]; Region: TehA; COG1275 350054006089 The Tellurite-resistance/Dicarboxylate Transporter (TDT) family; Region: TDT_like_2; cd09320 350054006090 gating phenylalanine in ion channel; other site 350054006091 Luciferase-like monooxygenase; Region: Bac_luciferase; pfam00296 350054006092 Bacterial protein of unknown function (DUF899); Region: DUF899; pfam05988 350054006093 pimeloyl-CoA dehydrogenase, small subunit; Region: pimD_small; TIGR03203 350054006094 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 350054006095 active site 350054006096 pimeloyl-CoA dehydrogenase, large subunit; Region: pimC_large; TIGR03204 350054006097 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 350054006098 active site 350054006099 short chain dehydrogenase; Provisional; Region: PRK06197 350054006100 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 350054006101 NAD(P) binding site [chemical binding]; other site 350054006102 active site 350054006103 Protein of unknown function (DUF1460); Region: DUF1460; pfam07313 350054006104 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 350054006105 N-acetyl-D-glucosamine binding site [chemical binding]; other site 350054006106 catalytic residue [active] 350054006107 MspA; Region: MspA; pfam09203 350054006108 arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611 350054006109 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 350054006110 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 350054006111 active site 350054006112 HIGH motif; other site 350054006113 KMSK motif region; other site 350054006114 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 350054006115 tRNA binding surface [nucleotide binding]; other site 350054006116 anticodon binding site; other site 350054006117 diaminopimelate decarboxylase; Region: lysA; TIGR01048 350054006118 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 350054006119 active site 350054006120 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 350054006121 substrate binding site [chemical binding]; other site 350054006122 catalytic residues [active] 350054006123 dimer interface [polypeptide binding]; other site 350054006124 homoserine dehydrogenase; Provisional; Region: PRK06349 350054006125 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 350054006126 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 350054006127 ACT_HSDH_Hom CD includes the C-terminal ACT domain of the NAD(P)H-dependent, homoserine dehydrogenase (HSDH) and related domains; Region: ACT_HSDH-Hom; cd04881 350054006128 threonine synthase; Reviewed; Region: PRK06721 350054006129 Threonine synthase is a pyridoxal phosphate (PLP) dependent enzyme that catalyses the last reaction in the synthesis of threonine from aspartate. It proceeds by converting O-phospho-L-homoserine (OPH) into threonine and inorganic phosphate. In plants; Region: Thr-synth_1; cd01563 350054006130 homodimer interface [polypeptide binding]; other site 350054006131 pyridoxal 5'-phosphate binding site [chemical binding]; other site 350054006132 catalytic residue [active] 350054006133 Homoserine kinase [Amino acid transport and metabolism]; Region: ThrB; COG0083 350054006134 Rho termination factor, N-terminal domain; Region: Rho_N; smart00959 350054006135 transcription termination factor Rho; Provisional; Region: PRK12608 350054006136 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 350054006137 RNA binding site [nucleotide binding]; other site 350054006138 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 350054006139 multimer interface [polypeptide binding]; other site 350054006140 Walker A motif; other site 350054006141 ATP binding site [chemical binding]; other site 350054006142 Walker B motif; other site 350054006143 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 350054006144 MarR family; Region: MarR; pfam01047 350054006145 Mycothiol maleylpyruvate isomerase N-terminal domain; Region: MDMPI_N; pfam11716 350054006146 uncharacterized Actinobacterial protein TIGR03083; Region: TIGR03083 350054006147 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 350054006148 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350054006149 acyl-CoA synthetase; Provisional; Region: PRK13388 350054006150 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 350054006151 acyl-activating enzyme (AAE) consensus motif; other site 350054006152 AMP binding site [chemical binding]; other site 350054006153 active site 350054006154 CoA binding site [chemical binding]; other site 350054006155 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00019 350054006156 peptide chain release factor 1; Validated; Region: prfA; PRK00591 350054006157 This domain is found in peptide chain release factors; Region: PCRF; smart00937 350054006158 RF-1 domain; Region: RF-1; pfam00472 350054006159 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 350054006160 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 350054006161 S-adenosylmethionine binding site [chemical binding]; other site 350054006162 tRNA threonylcarbamoyl adenosine modification protein, Sua5/YciO/YrdC/YwlC family; Region: TIGR00057 350054006163 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 350054006164 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 350054006165 Mg++ binding site [ion binding]; other site 350054006166 putative catalytic motif [active] 350054006167 substrate binding site [chemical binding]; other site 350054006168 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 350054006169 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 350054006170 F0F1 ATP synthase subunit C; Validated; Region: PRK05880 350054006171 ATP synthase CF0 B' subunit; Validated; Region: atpG; CHL00118 350054006172 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 350054006173 F0F1 ATP synthase subunit delta; Provisional; Region: PRK13428 350054006174 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 350054006175 F0F1-type ATP synthase, delta subunit (mitochondrial oligomycin sensitivity protein) [Energy production and conversion]; Region: AtpH; cl17210 350054006176 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 350054006177 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 350054006178 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 350054006179 beta subunit interaction interface [polypeptide binding]; other site 350054006180 Walker A motif; other site 350054006181 ATP binding site [chemical binding]; other site 350054006182 Walker B motif; other site 350054006183 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 350054006184 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 350054006185 core domain interface [polypeptide binding]; other site 350054006186 delta subunit interface [polypeptide binding]; other site 350054006187 epsilon subunit interface [polypeptide binding]; other site 350054006188 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 350054006189 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 350054006190 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 350054006191 alpha subunit interaction interface [polypeptide binding]; other site 350054006192 Walker A motif; other site 350054006193 ATP binding site [chemical binding]; other site 350054006194 Walker B motif; other site 350054006195 inhibitor binding site; inhibition site 350054006196 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 350054006197 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 350054006198 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 350054006199 gamma subunit interface [polypeptide binding]; other site 350054006200 epsilon subunit interface [polypeptide binding]; other site 350054006201 LBP interface [polypeptide binding]; other site 350054006202 Protein of unknown function (DUF2550); Region: DUF2550; pfam10739 350054006203 cob(I)alamin adenosyltransferase [Coenzyme transport and metabolism]; Region: COG2096 350054006204 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 350054006205 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 350054006206 hinge; other site 350054006207 active site 350054006208 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 350054006209 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 350054006210 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 350054006211 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 350054006212 DNA binding site [nucleotide binding] 350054006213 active site 350054006214 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Ada; COG2169 350054006215 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 350054006216 AlkA N-terminal domain; Region: AlkA_N; pfam06029 350054006217 3-methyladenine DNA glycosylase/8-oxoguanine DNA glycosylase [DNA replication, recombination, and repair]; Region: AlkA; COG0122 350054006218 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 350054006219 minor groove reading motif; other site 350054006220 helix-hairpin-helix signature motif; other site 350054006221 substrate binding pocket [chemical binding]; other site 350054006222 active site 350054006223 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350054006224 SugarP_isomerase: Sugar Phosphate Isomerase family; includes type A ribose 5-phosphate isomerase (RPI_A), glucosamine-6-phosphate (GlcN6P) deaminase, and 6-phosphogluconolactonase (6PGL). RPI catalyzes the reversible conversion of ribose-5-phosphate to...; Region: SugarP_isomerase; cl00339 350054006225 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 350054006226 Rieske non-heme iron oxygenase (RO) family, N-terminal Rieske domain of the oxygenase alpha subunit; The RO family comprise a large class of aromatic ring-hydroxylating dioxygenases found predominantly in microorganisms. These enzymes enable...; Region: Rieske_RO_Alpha_N; cd03469 350054006227 [2Fe-2S] cluster binding site [ion binding]; other site 350054006228 C-terminal catalytic domain of Pseudomonas fluorescens MupW and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_MupW-like; cd08882 350054006229 putative alpha subunit interface [polypeptide binding]; other site 350054006230 putative active site [active] 350054006231 putative substrate binding site [chemical binding]; other site 350054006232 Fe binding site [ion binding]; other site 350054006233 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 350054006234 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 350054006235 glutaminase A; Region: Gln_ase; TIGR03814 350054006236 Glutaminase [Amino acid transport and metabolism]; Region: GlsA; COG2066 350054006237 Transcriptional regulator [Transcription]; Region: LysR; COG0583 350054006238 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 350054006239 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 350054006240 dimerization interface [polypeptide binding]; other site 350054006241 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 350054006242 CoA-transferase family III; Region: CoA_transf_3; pfam02515 350054006243 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 350054006244 CoA-transferase family III; Region: CoA_transf_3; pfam02515 350054006245 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 350054006246 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 350054006247 active site 350054006248 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 350054006249 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 350054006250 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 350054006251 active site 350054006252 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 350054006253 dimerization interface [polypeptide binding]; other site 350054006254 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 350054006255 cyclase homology domain; Region: CHD; cd07302 350054006256 nucleotidyl binding site; other site 350054006257 metal binding site [ion binding]; metal-binding site 350054006258 dimer interface [polypeptide binding]; other site 350054006259 Predicted nuclease of the RecB family [DNA replication, recombination, and repair]; Region: COG1637 350054006260 hypothetical protein; Provisional; Region: PRK03298 350054006261 Methylmalonyl-CoA epimerase (MMCE); Region: MMCE; cd07249 350054006262 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 350054006263 dimer interface [polypeptide binding]; other site 350054006264 substrate binding site [chemical binding]; other site 350054006265 metal binding site [ion binding]; metal-binding site 350054006266 putative acyltransferase; Provisional; Region: PRK05790 350054006267 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 350054006268 dimer interface [polypeptide binding]; other site 350054006269 active site 350054006270 Domain of unknown function (DUF3817); Region: DUF3817; pfam12823 350054006271 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]; Region: COG3118 350054006272 ybbN protein family; ybbN is a hypothetical protein containing a redox-inactive TRX-like domain. Its gene has been sequenced from several gammaproteobacteria and actinobacteria; Region: ybbN; cd02956 350054006273 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 350054006274 glycogen branching enzyme; Provisional; Region: PRK05402 350054006275 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 350054006276 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 350054006277 active site 350054006278 catalytic site [active] 350054006279 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 350054006280 Domain of unknown function (DUF3416); Region: DUF3416; pfam11896 350054006281 Alpha amylase catalytic domain found in GlgE-like proteins; Region: AmyAc_GlgE_like; cd11344 350054006282 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 350054006283 active site 350054006284 homodimer interface [polypeptide binding]; other site 350054006285 catalytic site [active] 350054006286 acceptor binding site [chemical binding]; other site 350054006287 This family is most closely related to the oligosaccharide phosphorylase domain family and other unidentified sequences. Oligosaccharide phosphorylase catalyzes the breakdown of oligosaccharides into glucose-1-phosphate units. They are important...; Region: GT1_Glycogen_Phosphorylase_like; cd04299 350054006288 putative homodimer interface [polypeptide binding]; other site 350054006289 putative active site pocket [active] 350054006290 alpha-glucan phosphorylases; Region: more_P_ylases; TIGR02094 350054006291 Putative neutral zinc metallopeptidase; Region: Zn_peptidase; pfam04228 350054006292 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 350054006293 DEAD/DEAH box helicase; Region: DEAD; pfam00270 350054006294 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 350054006295 nicotinate phosphoribosyltransferase; Validated; Region: PRK09243 350054006296 Nicotinate phosphoribosyltransferase (NAPRTase), subgroup A. Nicotinate phosphoribosyltransferase catalyses the formation of NAMN and PPi from 5-phosphoribosy -1-pyrophosphate (PRPP) and nicotinic acid, this is the first, and also rate limiting, reaction...; Region: NAPRTase_A; cd01570 350054006297 active site 350054006298 ATP-dependent Clp protease adaptor protein ClpS; Reviewed; Region: clpS; PRK00033 350054006299 Domain of unknown function (DUF2017); Region: DUF2017; pfam09438 350054006300 nylC-like family; composed of proteins with similarity to Flavobacterium endo-type 6-aminohexanoate-oligomer hydrolase (EIII), the product of the nylon oligomer degradation gene, nylC. EIII is an amide hydrolase that catalyzes the degradation of...; Region: nylC_like; cd02252 350054006301 putative active site pocket [active] 350054006302 cleavage site 350054006303 Mpr1p, Pad1p N-terminal (MPN) domains with catalytic isopeptidase activity (metal-binding); Region: MPN_like; cd08070 350054006304 MPN+ (JAMM) motif; other site 350054006305 Zinc-binding site [ion binding]; other site 350054006306 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 350054006307 MoaE interaction surface [polypeptide binding]; other site 350054006308 MoeB interaction surface [polypeptide binding]; other site 350054006309 thiocarboxylated glycine; other site 350054006310 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 350054006311 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 350054006312 dimer interface [polypeptide binding]; other site 350054006313 pyridoxal 5'-phosphate binding site [chemical binding]; other site 350054006314 catalytic residue [active] 350054006315 Rhomboid family; Region: Rhomboid; cl11446 350054006316 glutamate racemase; Provisional; Region: PRK00865 350054006317 Metal-dependent hydrolases of the beta-lactamase superfamily III [General function prediction only]; Region: ElaC; COG1234 350054006318 ribonuclease PH; Reviewed; Region: rph; PRK00173 350054006319 Ribonuclease PH; Region: RNase_PH_bact; cd11362 350054006320 hexamer interface [polypeptide binding]; other site 350054006321 active site 350054006322 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 350054006323 dimerization interface [polypeptide binding]; other site 350054006324 active site 350054006325 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 350054006326 Domain of unknown function (DUF3817); Region: DUF3817; pfam12823 350054006327 Glucitol operon activator protein (GutM); Region: GutM; cl01890 350054006328 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 350054006329 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 350054006330 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 350054006331 Cupin domain; Region: Cupin_2; cl17218 350054006332 Helix-turn-helix domain; Region: HTH_18; pfam12833 350054006333 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 350054006334 Amidohydrolase; Region: Amidohydro_2; pfam04909 350054006335 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 350054006336 Sulfatase; Region: Sulfatase; pfam00884 350054006337 Polyketide cyclase / dehydrase and lipid transport; Region: Polyketide_cyc2; pfam10604 350054006338 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 350054006339 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350054006340 hopanoid-associated sugar epimerase; Region: HpnA; TIGR03466 350054006341 uncharacterized subgroup of aldehyde reductase and flavonoid reductase related proteins, extended (e) SDRs; Region: AR_FR_like_1_SDR_e; cd05228 350054006342 putative NADP binding site [chemical binding]; other site 350054006343 putative substrate binding site [chemical binding]; other site 350054006344 active site 350054006345 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 350054006346 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 350054006347 active site 350054006348 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 350054006349 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 350054006350 active site 350054006351 Thiolase domain associated with sterol carrier protein (SCP)-x isoform and related proteins; SCP-2 has multiple roles in intracellular lipid circulation and metabolism. The N-terminal presequence in the SCP-x isoform represents a peroxisomal...; Region: SCP-x_thiolase; cd00829 350054006352 active site 350054006353 Rubredoxin-like zinc ribbon domain (DUF35_N); Region: DUF35_N; pfam12172 350054006354 DUF35 OB-fold domain; Region: DUF35; pfam01796 350054006355 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cd00531 350054006356 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 350054006357 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 350054006358 NAD(P) binding site [chemical binding]; other site 350054006359 active site 350054006360 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 350054006361 metabolite-proton symporter; Region: 2A0106; TIGR00883 350054006362 putative substrate translocation pore; other site 350054006363 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 350054006364 dimerization interface [polypeptide binding]; other site 350054006365 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 350054006366 cyclase homology domain; Region: CHD; cd07302 350054006367 nucleotidyl binding site; other site 350054006368 metal binding site [ion binding]; metal-binding site 350054006369 dimer interface [polypeptide binding]; other site 350054006370 metabolite-proton symporter; Region: 2A0106; TIGR00883 350054006371 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 350054006372 putative substrate translocation pore; other site 350054006373 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 350054006374 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 350054006375 acyl-activating enzyme (AAE) consensus motif; other site 350054006376 putative AMP binding site [chemical binding]; other site 350054006377 putative active site [active] 350054006378 putative CoA binding site [chemical binding]; other site 350054006379 short chain dehydrogenase; Provisional; Region: PRK08278 350054006380 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 350054006381 NAD(P) binding site [chemical binding]; other site 350054006382 active site 350054006383 Coenzyme B12-dependent-methylmalonyl coenzyme A (CoA) mutase (MCM)-like family; contains proteins similar to MCM, and the large subunit of Streptomyces coenzyme B12-dependent isobutyryl-CoA mutase (ICM). MCM catalyzes the isomerization of...; Region: MM_CoA_mutase; cl00817 350054006384 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 350054006385 B12 binding site [chemical binding]; other site 350054006386 cobalt ligand [ion binding]; other site 350054006387 F420-dependent oxidoreductase, MSMEG_4879 family; Region: F420_MSMEG_4879; TIGR03564 350054006388 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 350054006389 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 350054006390 CoA-transferase family III; Region: CoA_transf_3; pfam02515 350054006391 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 350054006392 catalytic loop [active] 350054006393 iron binding site [ion binding]; other site 350054006394 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 350054006395 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 350054006396 acyl-activating enzyme (AAE) consensus motif; other site 350054006397 AMP binding site [chemical binding]; other site 350054006398 active site 350054006399 CoA binding site [chemical binding]; other site 350054006400 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 350054006401 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 350054006402 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 350054006403 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 350054006404 active site 350054006405 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 350054006406 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 350054006407 substrate binding site [chemical binding]; other site 350054006408 oxyanion hole (OAH) forming residues; other site 350054006409 trimer interface [polypeptide binding]; other site 350054006410 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 350054006411 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 350054006412 NAD(P) binding site [chemical binding]; other site 350054006413 active site 350054006414 Putative periplasmic protein kinase ArgK and related GTPases of G3E family [Amino acid transport and metabolism]; Region: ArgK; COG1703 350054006415 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 350054006416 3-ketosteroid-delta-1-dehydrogenase; Reviewed; Region: PRK12844 350054006417 Transcriptional regulator [Transcription]; Region: IclR; COG1414 350054006418 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 350054006419 Bacterial transcriptional regulator; Region: IclR; pfam01614 350054006420 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 350054006421 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 350054006422 3-(3-hydroxyphenyl)propionate hydroxylase; Validated; Region: mhpA; PRK06183 350054006423 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 350054006424 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 350054006425 Subunit B of the Class III Extradiol ring-cleavage dioxygenase, 2,3-dihydroxyphenylpropionate 1,2-dioxygenase (MhpB), which catalyzes the oxidization and subsequent ring-opening of 2,3-dihydroxyphenylpropionate; Region: MhpB_like; cd07365 350054006426 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 350054006427 putative active site [active] 350054006428 Fe(II) binding site [ion binding]; other site 350054006429 putative dimer interface [polypeptide binding]; other site 350054006430 putative tetramer interface [polypeptide binding]; other site 350054006431 3-ketosteroid-delta-1-dehydrogenase; Reviewed; Region: PRK12835 350054006432 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 350054006433 probable oxidoreductase, LLM family; Region: LLM_2I7G; TIGR03858 350054006434 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 350054006435 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK06550 350054006436 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 350054006437 NAD(P) binding site [chemical binding]; other site 350054006438 3-alpha-hydroxysteroid dehydrogenase; Provisional; Region: PRK12428 350054006439 active site 350054006440 Putative cyclase; Region: Cyclase; pfam04199 350054006441 Predicted flavoprotein [General function prediction only]; Region: COG0431 350054006442 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 350054006443 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: HsdR; COG4096 350054006444 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 350054006445 ATP binding site [chemical binding]; other site 350054006446 putative Mg++ binding site [ion binding]; other site 350054006447 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 350054006448 nucleotide binding region [chemical binding]; other site 350054006449 ATP-binding site [chemical binding]; other site 350054006450 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 350054006451 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 350054006452 GIY-YIG domain of uncharacterized hypothetical protein found in bacteria and archaea; Region: GIY-YIG_unchar_2; cd10447 350054006453 GIY-YIG motif/motif A; other site 350054006454 putative active site [active] 350054006455 putative metal binding site [ion binding]; other site 350054006456 Domain of unknown function (DUF4357); Region: DUF4357; pfam14267 350054006457 PIN domain of ribonucleases (toxins), VapC and FitB, of prokaryotic toxin/antitoxin operons, Pyrococcus horikoshii protein PH0500, and other similar bacterial and archaeal homologs; Region: PIN_VapC-FitB; cd09881 350054006458 oligomeric interface; other site 350054006459 putative active site [active] 350054006460 homodimer interface [polypeptide binding]; other site 350054006461 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 350054006462 HsdM N-terminal domain; Region: HsdM_N; pfam12161 350054006463 Methyltransferase domain; Region: Methyltransf_26; pfam13659 350054006464 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 350054006465 short chain dehydrogenase; Provisional; Region: PRK07063 350054006466 classical (c) SDRs; Region: SDR_c; cd05233 350054006467 NAD(P) binding site [chemical binding]; other site 350054006468 active site 350054006469 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350054006470 Ferredoxin [Energy production and conversion]; Region: Fer; COG1141 350054006471 Protein of unknown function (DUF1271); Region: DUF1271; cl01443 350054006472 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 350054006473 Cytochrome P450; Region: p450; cl12078 350054006474 Amidohydrolase; Region: Amidohydro_2; pfam04909 350054006475 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 350054006476 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 350054006477 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 350054006478 active site 350054006479 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 350054006480 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 350054006481 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 350054006482 active site 350054006483 enoyl-CoA hydratase; Provisional; Region: PRK12478 350054006484 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 350054006485 substrate binding site [chemical binding]; other site 350054006486 oxyanion hole (OAH) forming residues; other site 350054006487 trimer interface [polypeptide binding]; other site 350054006488 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 350054006489 CoA-transferase family III; Region: CoA_transf_3; pfam02515 350054006490 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 350054006491 CoA-transferase family III; Region: CoA_transf_3; pfam02515 350054006492 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 350054006493 classical (c) SDRs; Region: SDR_c; cd05233 350054006494 NAD(P) binding site [chemical binding]; other site 350054006495 active site 350054006496 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 350054006497 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 350054006498 active site 350054006499 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 350054006500 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: MGAT-like; Region: LPLAT_MGAT-like; cd07987 350054006501 putative acyl-acceptor binding pocket; other site 350054006502 acyl-CoA synthetase; Provisional; Region: PRK13382 350054006503 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 350054006504 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 350054006505 acyl-activating enzyme (AAE) consensus motif; other site 350054006506 AMP binding site [chemical binding]; other site 350054006507 active site 350054006508 CoA binding site [chemical binding]; other site 350054006509 acyltransferase, WS/DGAT/MGAT; Region: acyl_WS_DGAT; TIGR02946 350054006510 Wax ester synthase-like Acyl-CoA acyltransferase domain; Region: WES_acyltransf; pfam03007 350054006511 Protein of unknown function (DUF1298); Region: DUF1298; pfam06974 350054006512 Ecdysteroid kinase; Region: EcKinase; cl17738 350054006513 oxidoreductase, SDR family; Region: SDR_subfam_1; TIGR03971 350054006514 classical (c) SDRs; Region: SDR_c; cd05233 350054006515 NAD(P) binding site [chemical binding]; other site 350054006516 active site 350054006517 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 350054006518 Cytochrome P450; Region: p450; cl12078 350054006519 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 350054006520 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350054006521 enoyl-CoA hydratase; Provisional; Region: PRK08290 350054006522 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 350054006523 substrate binding site [chemical binding]; other site 350054006524 oxyanion hole (OAH) forming residues; other site 350054006525 trimer interface [polypeptide binding]; other site 350054006526 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 350054006527 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 350054006528 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 350054006529 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 350054006530 active site 350054006531 SnoaL-like domain; Region: SnoaL_4; pfam13577 350054006532 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 350054006533 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 350054006534 Metallo-dependent hydrolases, subgroup A is part of the superfamily of metallo-dependent hydrolases, a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the...; Region: Met_dep_hydrolase_A; cd01299 350054006535 active site 350054006536 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 350054006537 Rieske non-heme iron oxygenase (RO) family, N-terminal Rieske domain of the oxygenase alpha subunit; The RO family comprise a large class of aromatic ring-hydroxylating dioxygenases found predominantly in microorganisms. These enzymes enable...; Region: Rieske_RO_Alpha_N; cd03469 350054006538 [2Fe-2S] cluster binding site [ion binding]; other site 350054006539 C-terminal catalytic domain of the oxygenase alpha subunit of Rieske-type non-heme iron aromatic ring-hydroxylating oxygenases; Region: RHO_alpha_C; cd00680 350054006540 alpha subunit interface [polypeptide binding]; other site 350054006541 active site 350054006542 substrate binding site [chemical binding]; other site 350054006543 Fe binding site [ion binding]; other site 350054006544 Uncharacterized conserved protein [Function unknown]; Region: COG2128 350054006545 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 350054006546 Amidohydrolase; Region: Amidohydro_2; pfam04909 350054006547 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 350054006548 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 350054006549 active site 350054006550 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 350054006551 CoA-transferase family III; Region: CoA_transf_3; pfam02515 350054006552 enoyl-CoA hydratase; Provisional; Region: PRK06688 350054006553 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 350054006554 substrate binding site [chemical binding]; other site 350054006555 oxyanion hole (OAH) forming residues; other site 350054006556 trimer interface [polypeptide binding]; other site 350054006557 acetyl-CoA acetyltransferase; Provisional; Region: PRK07801 350054006558 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 350054006559 dimer interface [polypeptide binding]; other site 350054006560 active site 350054006561 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 350054006562 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 350054006563 active site 350054006564 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 350054006565 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350054006566 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 350054006567 Quinone oxidoreductase (QOR); Region: QOR1; cd08241 350054006568 NAD(P) binding site [chemical binding]; other site 350054006569 Acyl-CoA dehydrogenase (ACAD) 10 and 11, N-terminal domain, and similar proteins. This subfamily is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs); Region: ACAD10_11_like; cd05154 350054006570 putative active site [active] 350054006571 putative substrate binding site [chemical binding]; other site 350054006572 ATP binding site [chemical binding]; other site 350054006573 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 350054006574 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 350054006575 active site 350054006576 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 350054006577 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350054006578 probable F420-dependent oxidoreductase, MSMEG_4141 family; Region: F420_MSMEG_4141; TIGR03620 350054006579 F420-dependent oxidoreductase, MSMEG_4879 family; Region: F420_MSMEG_4879; TIGR03564 350054006580 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 350054006581 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 350054006582 NAD(P) binding site [chemical binding]; other site 350054006583 active site 350054006584 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 350054006585 metal ion-dependent adhesion site (MIDAS); other site 350054006586 MoxR-like ATPases [General function prediction only]; Region: COG0714 350054006587 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 350054006588 Walker A motif; other site 350054006589 ATP binding site [chemical binding]; other site 350054006590 Walker B motif; other site 350054006591 CbbQ/NirQ/NorQ C-terminal; Region: CbbQ_C; pfam08406 350054006592 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 350054006593 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350054006594 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 350054006595 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350054006596 oxidoreductase, SDR family; Region: SDR_subfam_1; TIGR03971 350054006597 classical (c) SDRs; Region: SDR_c; cd05233 350054006598 NAD(P) binding site [chemical binding]; other site 350054006599 active site 350054006600 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 350054006601 Rieske non-heme iron oxygenase (RO) family, N-terminal Rieske domain of the oxygenase alpha subunit; The RO family comprise a large class of aromatic ring-hydroxylating dioxygenases found predominantly in microorganisms. These enzymes enable...; Region: Rieske_RO_Alpha_N; cd03469 350054006602 [2Fe-2S] cluster binding site [ion binding]; other site 350054006603 C-terminal catalytic domain of the oxygenase alpha subunit of Rieske-type non-heme iron aromatic ring-hydroxylating oxygenases; Region: RHO_alpha_C; cd00680 350054006604 alpha subunit interface [polypeptide binding]; other site 350054006605 active site 350054006606 substrate binding site [chemical binding]; other site 350054006607 Fe binding site [ion binding]; other site 350054006608 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 350054006609 Metallo-dependent hydrolases, subgroup A is part of the superfamily of metallo-dependent hydrolases, a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the...; Region: Met_dep_hydrolase_A; cd01299 350054006610 active site 350054006611 MarR family; Region: MarR_2; pfam12802 350054006612 MarR family; Region: MarR_2; cl17246 350054006613 phenylacetate-CoA oxygenase/reductase, PaaK subunit; Region: PA_CoA_Oxy5; TIGR02160 350054006614 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 350054006615 FAD binding pocket [chemical binding]; other site 350054006616 FAD binding motif [chemical binding]; other site 350054006617 phosphate binding motif [ion binding]; other site 350054006618 beta-alpha-beta structure motif; other site 350054006619 NAD(p) ribose binding residues [chemical binding]; other site 350054006620 NAD binding pocket [chemical binding]; other site 350054006621 NAD(P)-pyrophosphate-nicotinamide binding residues [chemical binding]; other site 350054006622 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 350054006623 catalytic loop [active] 350054006624 iron binding site [ion binding]; other site 350054006625 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 350054006626 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 350054006627 NAD(P) binding site [chemical binding]; other site 350054006628 active site 350054006629 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 350054006630 Rieske non-heme iron oxygenase (RO) family, N-terminal Rieske domain of the oxygenase alpha subunit; The RO family comprise a large class of aromatic ring-hydroxylating dioxygenases found predominantly in microorganisms. These enzymes enable...; Region: Rieske_RO_Alpha_N; cd03469 350054006631 [2Fe-2S] cluster binding site [ion binding]; other site 350054006632 C-terminal catalytic domain of the oxygenase alpha subunit of Rieske-type non-heme iron aromatic ring-hydroxylating oxygenases; Region: RHO_alpha_C; cd00680 350054006633 alpha subunit interface [polypeptide binding]; other site 350054006634 active site 350054006635 substrate binding site [chemical binding]; other site 350054006636 Fe binding site [ion binding]; other site 350054006637 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 350054006638 Taurine catabolism dioxygenase TauD, TfdA family; Region: TauD; pfam02668 350054006639 substrate binding pocket [chemical binding]; other site 350054006640 active site 350054006641 iron coordination sites [ion binding]; other site 350054006642 Uncharacterized conserved protein [Function unknown]; Region: COG2128 350054006643 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 350054006644 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 350054006645 Cytochrome P450; Region: p450; cl12078 350054006646 Protein of unknown function (DUF1330); Region: DUF1330; pfam07045 350054006647 methyl indole-3-acetate methyltransferase; Region: PLN02211; cl17657 350054006648 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 350054006649 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 350054006650 Cytochrome P450; Region: p450; cl12078 350054006651 Protein of unknown function (DUF1271); Region: DUF1271; cl01443 350054006652 4Fe-4S single cluster domain; Region: Fer4_15; pfam13459 350054006653 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 350054006654 Cytochrome P450; Region: p450; cl12078 350054006655 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 350054006656 NAD binding domain of 6-phosphogluconate dehydrogenase; Region: NAD_binding_2; pfam03446 350054006657 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 350054006658 NAD binding domain of 6-phosphogluconate dehydrogenase; Region: NAD_binding_2; pfam03446 350054006659 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 350054006660 Rubredoxin-like zinc ribbon domain (DUF35_N); Region: DUF35_N; pfam12172 350054006661 DUF35 OB-fold domain; Region: DUF35; pfam01796 350054006662 lipid-transfer protein; Provisional; Region: PRK07855 350054006663 Thiolase domain associated with sterol carrier protein (SCP)-x isoform and related proteins; SCP-2 has multiple roles in intracellular lipid circulation and metabolism. The N-terminal presequence in the SCP-x isoform represents a peroxisomal...; Region: SCP-x_thiolase; cd00829 350054006664 active site 350054006665 4Fe-4S single cluster domain; Region: Fer4_15; pfam13459 350054006666 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 350054006667 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 350054006668 Ferredoxin subunits of nitrite reductase and ring-hydroxylating dioxygenases [Inorganic ion transport and metabolism / General function prediction only]; Region: {NirD}; COG2146 350054006669 iron-sulfur cluster [ion binding]; other site 350054006670 [2Fe-2S] cluster binding site [ion binding]; other site 350054006671 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 350054006672 Amidohydrolase; Region: Amidohydro_2; pfam04909 350054006673 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 350054006674 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 350054006675 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 350054006676 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 350054006677 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 350054006678 active site 350054006679 Luciferase-like monooxygenase; Region: Bac_luciferase; pfam00296 350054006680 N5,N10-methylenetetrahydromethanopterin reductase (Mer) catalyzes the reduction of N5,N10-methylenetetrahydromethanopterin with reduced coenzyme F420 to N5-methyltetrahydromethanopterin and oxidized coenzyme F420; Region: Tetrahydromethanopterin_reductase; cd01097 350054006681 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 350054006682 Protein of unknown function (DUF1214); Region: DUF1214; cl08447 350054006683 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 350054006684 Cytochrome P450; Region: p450; cl12078 350054006685 4Fe-4S single cluster domain; Region: Fer4_13; pfam13370 350054006686 oxidoreductase, SDR family; Region: SDR_subfam_1; TIGR03971 350054006687 classical (c) SDRs; Region: SDR_c; cd05233 350054006688 NAD(P) binding site [chemical binding]; other site 350054006689 active site 350054006690 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 350054006691 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 350054006692 NAD(P) binding site [chemical binding]; other site 350054006693 active site 350054006694 aldehyde dehydrogenase, Rv0768 family; Region: aldehy_Rv0768; TIGR04284 350054006695 Rhodococcus ruber 6-oxolauric acid dehydrogenase-like and related proteins; Region: ALDH_CddD-AldA-like; cd07089 350054006696 NAD binding site [chemical binding]; other site 350054006697 catalytic residues [active] 350054006698 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 350054006699 CoA-transferase family III; Region: CoA_transf_3; pfam02515 350054006700 Predicted nucleic-acid-binding protein containing a Zn-ribbon [General function prediction only]; Region: COG1545 350054006701 DUF35 OB-fold domain; Region: DUF35; pfam01796 350054006702 acetyl-CoA acetyltransferase; Provisional; Region: PRK06064 350054006703 Thiolase domain associated with sterol carrier protein (SCP)-x isoform and related proteins; SCP-2 has multiple roles in intracellular lipid circulation and metabolism. The N-terminal presequence in the SCP-x isoform represents a peroxisomal...; Region: SCP-x_thiolase; cd00829 350054006704 active site 350054006705 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 350054006706 Permease; Region: Permease; pfam02405 350054006707 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 350054006708 Permease; Region: Permease; pfam02405 350054006709 virulence factor Mce family protein; Region: Mtu_fam_mce; TIGR00996 350054006710 mce related protein; Region: MCE; pfam02470 350054006711 Protein of unknown function (DUF3407); Region: DUF3407; pfam11887 350054006712 virulence factor Mce family protein; Region: Mtu_fam_mce; TIGR00996 350054006713 mce related protein; Region: MCE; pfam02470 350054006714 mce related protein; Region: MCE; pfam02470 350054006715 virulence factor Mce family protein; Region: Mtu_fam_mce; TIGR00996 350054006716 virulence factor Mce family protein; Region: Mtu_fam_mce; TIGR00996 350054006717 mce related protein; Region: MCE; pfam02470 350054006718 virulence factor Mce family protein; Region: Mtu_fam_mce; TIGR00996 350054006719 mce related protein; Region: MCE; pfam02470 350054006720 Protein of unknown function (DUF3407); Region: DUF3407; pfam11887 350054006721 virulence factor Mce family protein; Region: Mtu_fam_mce; TIGR00996 350054006722 mce related protein; Region: MCE; pfam02470 350054006723 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 350054006724 Cytochrome P450; Region: p450; cl12078 350054006725 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 350054006726 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350054006727 acetyl-CoA acetyltransferase; Provisional; Region: PRK06064 350054006728 Thiolase domain associated with sterol carrier protein (SCP)-x isoform and related proteins; SCP-2 has multiple roles in intracellular lipid circulation and metabolism. The N-terminal presequence in the SCP-x isoform represents a peroxisomal...; Region: SCP-x_thiolase; cd00829 350054006729 active site 350054006730 Rubredoxin-like zinc ribbon domain (DUF35_N); Region: DUF35_N; pfam12172 350054006731 DUF35 OB-fold domain; Region: DUF35; pfam01796 350054006732 Methylmalonyl-CoA epimerase (MMCE); Region: MMCE; cd07249 350054006733 dimer interface [polypeptide binding]; other site 350054006734 substrate binding site [chemical binding]; other site 350054006735 metal binding site [ion binding]; metal-binding site 350054006736 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 350054006737 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 350054006738 substrate binding site [chemical binding]; other site 350054006739 oxyanion hole (OAH) forming residues; other site 350054006740 trimer interface [polypeptide binding]; other site 350054006741 short chain acyl-CoA synthetase; Reviewed; Region: PRK06087 350054006742 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 350054006743 acyl-activating enzyme (AAE) consensus motif; other site 350054006744 AMP binding site [chemical binding]; other site 350054006745 active site 350054006746 CoA binding site [chemical binding]; other site 350054006747 Amidohydrolase; Region: Amidohydro_2; pfam04909 350054006748 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07656 350054006749 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 350054006750 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_2; cd05917 350054006751 acyl-activating enzyme (AAE) consensus motif; other site 350054006752 acyl-activating enzyme (AAE) consensus motif; other site 350054006753 putative AMP binding site [chemical binding]; other site 350054006754 putative active site [active] 350054006755 putative CoA binding site [chemical binding]; other site 350054006756 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 350054006757 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 350054006758 substrate binding site; other site 350054006759 dimer interface; other site 350054006760 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 350054006761 Major Facilitator Superfamily; Region: MFS_1; pfam07690 350054006762 putative substrate translocation pore; other site 350054006763 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 350054006764 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 350054006765 DNA binding residues [nucleotide binding] 350054006766 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 350054006767 Enoyl reductase domain of yeast-type FAS1 [Lipid metabolism]; Region: COG4981 350054006768 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 350054006769 phosphate binding site [ion binding]; other site 350054006770 Domain of unknown function (DUF1729); Region: DUF1729; pfam08354 350054006771 FAS_MaoC, the MaoC-like hot dog fold of the fatty acid synthase, beta subunit. Other enzymes with this fold include MaoC dehydratase, Hydratase-Dehydrogenase-Epimerase protein (HDE), and 17-beta-hydroxysteriod dehydrogenase (HSD); Region: FAS_MaoC; cd03447 350054006772 putative active site [active] 350054006773 putative catalytic site [active] 350054006774 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 350054006775 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 350054006776 3-oxoacyl-[acyl-carrier protein]; Region: COG4982 350054006777 ketoacyl reductase (KR) domain of fungal-type fatty acid synthase (fFAS), classical (c)-like SDRs; Region: KR_fFAS_SDR_c_like; cd08950 350054006778 putative NAD(P) binding site [chemical binding]; other site 350054006779 active site 350054006780 "elongating" condensing enzymes are a subclass of decarboxylating condensing enzymes, including beta-ketoacyl [ACP] synthase, type I and II and polyketide synthases.They are characterized by the utlization of acyl carrier protein (ACP)...; Region: elong_cond_enzymes; cd00828 350054006781 3-oxoacyl-(acyl-carrier-protein) synthase [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: FabB; COG0304 350054006782 active site 350054006783 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 350054006784 hypothetical protein; Provisional; Region: PRK07907 350054006785 M20 Dipeptidases; Region: M20_Dipept_like; cd03893 350054006786 active site 350054006787 metal binding site [ion binding]; metal-binding site 350054006788 dimer interface [polypeptide binding]; other site 350054006789 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 350054006790 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 350054006791 catalytic triad [active] 350054006792 Protein of unknown function (DUF3618); Region: DUF3618; pfam12277 350054006793 X-Pro dipeptidyl-peptidase (S15 family); Region: Peptidase_S15; pfam02129 350054006794 X-Pro dipeptidyl-peptidase C-terminal non-catalytic domain; Region: PepX_C; smart00939 350054006795 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 350054006796 active site 350054006797 3-oxoacyl-[acyl-carrier-protein]; Region: FabH; COG0332 350054006798 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 350054006799 active site 350054006800 acyltransferase, WS/DGAT/MGAT; Region: acyl_WS_DGAT; TIGR02946 350054006801 Wax ester synthase-like Acyl-CoA acyltransferase domain; Region: WES_acyltransf; pfam03007 350054006802 IgD-like repeat domain of mycobacterial L,D-transpeptidases; Region: LDT_IgD_like_1; cd13431 350054006803 IgD-like repeat domain of mycobacterial L,D-transpeptidases; Region: LDT_IgD_like_2; cd13432 350054006804 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 350054006805 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 350054006806 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 350054006807 DEDDh 3'-5' exonuclease domain of oligoribonuclease and similar proteins; Region: Orn; cd06135 350054006808 catalytic site [active] 350054006809 putative active site [active] 350054006810 putative substrate binding site [chemical binding]; other site 350054006811 dimer interface [polypeptide binding]; other site 350054006812 Bacterial protein of unknown function (DUF853); Region: DUF853; pfam05872 350054006813 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 350054006814 classical (c) SDRs; Region: SDR_c; cd05233 350054006815 NAD(P) binding site [chemical binding]; other site 350054006816 active site 350054006817 Permeases of the major facilitator superfamily [General function prediction only]; Region: COG2270 350054006818 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 350054006819 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 350054006820 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 350054006821 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 350054006822 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350054006823 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 350054006824 3-methylcrotonyl-CoA carboxylase, beta chain; Region: PLN02820 350054006825 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 350054006826 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 350054006827 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 350054006828 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 350054006829 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; pfam02785 350054006830 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 350054006831 carboxyltransferase (CT) interaction site; other site 350054006832 biotinylation site [posttranslational modification]; other site 350054006833 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 350054006834 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 350054006835 active site 350054006836 FkbR2 is a Streptomyces hygroscopicus protein with a hot dog fold that belongs to a conserved family of proteins found in prokaryotes and archaea but not in eukaryotes. FkbR2 has sequence similarity to (R)-specific enoyl-CoA hydratase, the peroxisomal...; Region: FkbR2; cd03451 350054006837 putative active site [active] 350054006838 putative catalytic site [active] 350054006839 Citrate lyase beta subunit [Carbohydrate transport and metabolism]; Region: CitE; COG2301 350054006840 enoyl-CoA hydratase; Provisional; Region: PRK05870 350054006841 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 350054006842 substrate binding site [chemical binding]; other site 350054006843 oxyanion hole (OAH) forming residues; other site 350054006844 trimer interface [polypeptide binding]; other site 350054006845 Acyl-ACP thioesterase [Lipid metabolism]; Region: FatA; COG3884 350054006846 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 350054006847 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350054006848 Tetracyclin repressor, C-terminal all-alpha domain; Region: TetR_C; pfam02909 350054006849 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 350054006850 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 350054006851 Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various bacteriocins (mostly non-lantibiotic); Region: Peptidase_C39_like; cl00296 350054006852 putative active site [active] 350054006853 Wax ester synthase-like Acyl-CoA acyltransferase domain; Region: WES_acyltransf; pfam03007 350054006854 acyltransferase, WS/DGAT/MGAT; Region: acyl_WS_DGAT; TIGR02946 350054006855 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 350054006856 HAD-superfamily subfamily IB hydrolase, TIGR01490; Region: HAD-SF-IB-hyp1 350054006857 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 350054006858 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 350054006859 putative acyl-acceptor binding pocket; other site 350054006860 glycerol-3-phosphate acyltransferase; Validated; Region: PRK03355 350054006861 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: GPAT-like; Region: LPLAT_DHAPAT-like; cd07993 350054006862 putative acyl-acceptor binding pocket; other site 350054006863 Copper resistance protein D; Region: CopD; pfam05425 350054006864 Cytochrome c oxidase caa3 assembly factor (Caa3_CtaG); Region: Caa3_CtaG; pfam09678 350054006865 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 350054006866 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 350054006867 dimer interface [polypeptide binding]; other site 350054006868 ssDNA binding site [nucleotide binding]; other site 350054006869 tetramer (dimer of dimers) interface [polypeptide binding]; other site 350054006870 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 350054006871 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 350054006872 Walker A/P-loop; other site 350054006873 ATP binding site [chemical binding]; other site 350054006874 Q-loop/lid; other site 350054006875 ABC transporter signature motif; other site 350054006876 Walker B; other site 350054006877 D-loop; other site 350054006878 H-loop/switch region; other site 350054006879 ABC transporter; Region: ABC_tran_2; pfam12848 350054006880 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 350054006881 Bacterial NAD-glutamate dehydrogenase; Region: Bac_GDH; pfam05088 350054006882 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 350054006883 active site 350054006884 Truncated hemoglobins (trHbs) are a family of oxygen-binding heme proteins found in cyanobacteria, eubacteria, unicellular eukaryotes, and plants. The truncated hemoglobins have a characteristic two-over-two alpha helical folding pattern that is distinct...; Region: Trunc_globin; cd00454 350054006885 apolar tunnel; other site 350054006886 heme binding site [chemical binding]; other site 350054006887 dimerization interface [polypeptide binding]; other site 350054006888 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 350054006889 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cd00085 350054006890 active site 350054006891 Repair protein; Region: Repair_PSII; cl01535 350054006892 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cd00085 350054006893 active site 350054006894 aminopeptidase N, Streptomyces lividans type; Region: pepN_strep_liv; TIGR02412 350054006895 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_3; cd09602 350054006896 Zn binding site [ion binding]; other site 350054006897 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 350054006898 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 350054006899 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 350054006900 nucleoside/Zn binding site; other site 350054006901 dimer interface [polypeptide binding]; other site 350054006902 catalytic motif [active] 350054006903 non-haem dioxygenase in morphine synthesis N-terminal; Region: DIOX_N; pfam14226 350054006904 oxidase reductase; Provisional; Region: PTZ00273 350054006905 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; pfam03171 350054006906 ribose-5-phosphate isomerase B; Provisional; Region: PRK05571 350054006907 Formamidopyrimidine-DNA glycosylase [DNA replication, recombination, and repair]; Region: Nei; COG0266 350054006908 N-terminal domain of the actinomycetal Nei1 and related DNA glycosylases; Region: AcNei1_N; cd08970 350054006909 putative DNA binding site [nucleotide binding]; other site 350054006910 catalytic residue [active] 350054006911 putative H2TH interface [polypeptide binding]; other site 350054006912 putative catalytic residues [active] 350054006913 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 350054006914 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 350054006915 Na+/H+ antiporter, bacterial form; Region: a_cpa1; TIGR00831 350054006916 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 350054006917 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 350054006918 Domain of unknown function (DUF222); Region: DUF222; pfam02720 350054006919 trigger factor; Provisional; Region: tig; PRK01490 350054006920 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 350054006921 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 350054006922 Clp protease; Region: CLP_protease; pfam00574 350054006923 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 350054006924 oligomer interface [polypeptide binding]; other site 350054006925 active site residues [active] 350054006926 ATP-dependent Clp protease proteolytic subunit; Reviewed; Region: PRK12553 350054006927 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 350054006928 oligomer interface [polypeptide binding]; other site 350054006929 active site residues [active] 350054006930 PPOX class probable F420-dependent enzyme; Region: Rv1155_F420; TIGR03618 350054006931 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 350054006932 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 350054006933 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 350054006934 Walker A motif; other site 350054006935 ATP binding site [chemical binding]; other site 350054006936 Walker B motif; other site 350054006937 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 350054006938 Glycosyl transferases, related to UDP-glucuronosyltransferase [Carbohydrate transport and metabolism / Signal transduction mechanisms]; Region: COG1819 350054006939 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 350054006940 active site 350054006941 TDP-binding site; other site 350054006942 acceptor substrate-binding pocket; other site 350054006943 homodimer interface [polypeptide binding]; other site 350054006944 formate dehydrogenase accessory protein; Reviewed; Region: PRK00724 350054006945 oxidoreductase alpha (molybdopterin) subunit; Region: Fdhalpha-like; TIGR01701 350054006946 The MopB_ydeP CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative molybdopterin cofactor binding site. These members belong to the molybdopterin_binding (MopB) superfamily of proteins; Region: MopB_ydeP; cd02767 350054006947 putative molybdopterin cofactor binding site [chemical binding]; other site 350054006948 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 350054006949 putative molybdopterin cofactor binding site; other site 350054006950 Transcriptional regulator [Transcription]; Region: LysR; COG0583 350054006951 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 350054006952 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 350054006953 dimerization interface [polypeptide binding]; other site 350054006954 Uncharacterized protein related to glutamine synthetase [General function prediction only]; Region: COG3968 350054006955 Glutamine synthetase type III N terminal; Region: GSIII_N; pfam12437 350054006956 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 350054006957 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 350054006958 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 350054006959 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 350054006960 Acetolactate synthase [Amino acid transport and metabolism]; Region: COG3962 350054006961 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 350054006962 PYR/PP interface [polypeptide binding]; other site 350054006963 dimer interface [polypeptide binding]; other site 350054006964 TPP binding site [chemical binding]; other site 350054006965 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 350054006966 Thiamine pyrophosphate (TPP) family, IolD subfamily, TPP-binding module; composed of proteins similar to Rhizobium leguminosarum bv. viciae IolD. IolD plays an important role in myo-inositol catabolism; Region: TPP_IolD; cd02003 350054006967 TPP-binding site; other site 350054006968 KduI/IolB family; Region: KduI; pfam04962 350054006969 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 350054006970 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 350054006971 substrate binding site [chemical binding]; other site 350054006972 ATP binding site [chemical binding]; other site 350054006973 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 350054006974 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 350054006975 DNA-binding site [nucleotide binding]; DNA binding site 350054006976 UTRA domain; Region: UTRA; pfam07702 350054006977 Hydroxypyruvate isomerase [Carbohydrate transport and metabolism]; Region: Hfi; COG3622 350054006978 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_4; cd06312 350054006979 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 350054006980 putative ligand binding site [chemical binding]; other site 350054006981 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 350054006982 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 350054006983 TM-ABC transporter signature motif; other site 350054006984 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 350054006985 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 350054006986 Walker A/P-loop; other site 350054006987 ATP binding site [chemical binding]; other site 350054006988 Q-loop/lid; other site 350054006989 ABC transporter signature motif; other site 350054006990 Walker B; other site 350054006991 D-loop; other site 350054006992 H-loop/switch region; other site 350054006993 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4399 350054006994 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4399 350054006995 Domain of unknown function (DUF4393); Region: DUF4393; pfam14337 350054006996 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_7; cd07825 350054006997 putative hydrophobic ligand binding site [chemical binding]; other site 350054006998 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 350054006999 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 350054007000 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 350054007001 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 350054007002 Metal-binding active site; metal-binding site 350054007003 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 350054007004 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 350054007005 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 350054007006 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; cl17312 350054007007 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 350054007008 DNA binding site [nucleotide binding] 350054007009 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 350054007010 Periplasmic sugar-binding domain of uncharacterized transport systems; Region: PBP1_uncharacterized_sugar_binding; cd06307 350054007011 putative ligand binding site [chemical binding]; other site 350054007012 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 350054007013 2-oxoacid:acceptor oxidoreductase, alpha subunit; Region: OAFO_sf; TIGR03710 350054007014 Pyrimidine (PYR) binding domain of pyruvate ferredoxin oxidoreductase (PFOR), indolepyruvate ferredoxin oxidoreductase alpha subunit (IOR-alpha), and related proteins; Region: TPP_PYR_PFOR_IOR-alpha_like; cd07034 350054007015 dimer interface [polypeptide binding]; other site 350054007016 PYR/PP interface [polypeptide binding]; other site 350054007017 TPP binding site [chemical binding]; other site 350054007018 substrate binding site [chemical binding]; other site 350054007019 2-oxoglutarate ferredoxin oxidoreductase subunit beta; Reviewed; Region: PRK11867 350054007020 Thiamine pyrophosphate (TPP family), 2-oxoglutarate ferredoxin oxidoreductase (OGFOR) subfamily, TPP-binding module; OGFOR catalyzes the oxidative decarboxylation of 2-oxo-acids, with ferredoxin acting as an electron acceptor. In the TCA cycle, OGFOR...; Region: TPP_OGFOR; cd03375 350054007021 TPP-binding site [chemical binding]; other site 350054007022 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 350054007023 GTP binding site; other site 350054007024 Transglycosylase-like domain; Region: Transglycosylas; pfam06737 350054007025 Transglycosylase-like domain; Region: Transglycosylas; pfam06737 350054007026 hypothetical protein; Provisional; Region: PRK06753 350054007027 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 350054007028 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 350054007029 Phthalate dioxygenase reductase (PDR) is an FMN-dependent reductase that mediates electron transfer from NADH to FMN to an iron sulfur cluster. PDR has an an N-terminal ferrredoxin reductase (FNR)-like NAD(H) binding domain and a C-terminal iron-sulfur; Region: PDR_like; cd06185 350054007030 FMN-binding pocket [chemical binding]; other site 350054007031 flavin binding motif; other site 350054007032 phosphate binding motif [ion binding]; other site 350054007033 beta-alpha-beta structure motif; other site 350054007034 NAD binding pocket [chemical binding]; other site 350054007035 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 350054007036 catalytic loop [active] 350054007037 iron binding site [ion binding]; other site 350054007038 Protein of unknown function (DUF3445); Region: DUF3445; pfam11927 350054007039 Ammonium Transporter Family; Region: Ammonium_transp; cl03012 350054007040 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 350054007041 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 350054007042 Uncharacterized conserved protein [Function unknown]; Region: COG3268 350054007043 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 350054007044 Bacterial protein of unknown function (DUF937); Region: DUF937; pfam06078 350054007045 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 350054007046 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 350054007047 active site 350054007048 HIGH motif; other site 350054007049 nucleotide binding site [chemical binding]; other site 350054007050 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 350054007051 active site 350054007052 KMSKS motif; other site 350054007053 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 350054007054 tRNA binding surface [nucleotide binding]; other site 350054007055 anticodon binding site; other site 350054007056 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 350054007057 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 350054007058 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 350054007059 Protein of unknown function (DUF4233); Region: DUF4233; pfam14017 350054007060 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 350054007061 active site 350054007062 multimer interface [polypeptide binding]; other site 350054007063 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 350054007064 ribonuclease, Rne/Rng family; Region: RNaseEG; TIGR00757 350054007065 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 350054007066 homodimer interface [polypeptide binding]; other site 350054007067 oligonucleotide binding site [chemical binding]; other site 350054007068 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 350054007069 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 350054007070 GTPase CgtA; Reviewed; Region: obgE; PRK12296 350054007071 GTP1/OBG; Region: GTP1_OBG; pfam01018 350054007072 Obg GTPase; Region: Obg; cd01898 350054007073 G1 box; other site 350054007074 GTP/Mg2+ binding site [chemical binding]; other site 350054007075 Switch I region; other site 350054007076 G2 box; other site 350054007077 G3 box; other site 350054007078 Switch II region; other site 350054007079 G4 box; other site 350054007080 G5 box; other site 350054007081 Domain of unknown function (DUF1967); Region: DUF1967; pfam09269 350054007082 gamma-glutamyl kinase; Provisional; Region: PRK05429 350054007083 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 350054007084 nucleotide binding site [chemical binding]; other site 350054007085 homotetrameric interface [polypeptide binding]; other site 350054007086 putative phosphate binding site [ion binding]; other site 350054007087 putative allosteric binding site; other site 350054007088 PUA domain; Region: PUA; pfam01472 350054007089 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 350054007090 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350054007091 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 350054007092 Cytochrome P450; Region: p450; cl12078 350054007093 SIRT4: Eukaryotic and prokaryotic group (class2) which includes human sirtuin SIRT4 and several bacterial homologs; and are members of the SIR2 family of proteins, silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein...; Region: SIRT4; cd01409 350054007094 NAD-dependent deacetylase; Provisional; Region: PRK05333 350054007095 NAD+ binding site [chemical binding]; other site 350054007096 substrate binding site [chemical binding]; other site 350054007097 Zn binding site [ion binding]; other site 350054007098 NAD synthetase; Reviewed; Region: nadE; PRK02628 350054007099 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 350054007100 multimer interface [polypeptide binding]; other site 350054007101 active site 350054007102 catalytic triad [active] 350054007103 protein interface 1 [polypeptide binding]; other site 350054007104 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 350054007105 homodimer interface [polypeptide binding]; other site 350054007106 NAD binding pocket [chemical binding]; other site 350054007107 ATP binding pocket [chemical binding]; other site 350054007108 Mg binding site [ion binding]; other site 350054007109 active-site loop [active] 350054007110 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 350054007111 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 350054007112 substrate binding site [chemical binding]; other site 350054007113 ATP binding site [chemical binding]; other site 350054007114 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 350054007115 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 350054007116 putative catalytic cysteine [active] 350054007117 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 350054007118 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 350054007119 Walker A motif; other site 350054007120 ATP binding site [chemical binding]; other site 350054007121 Walker B motif; other site 350054007122 arginine finger; other site 350054007123 Protein containing von Willebrand factor type A (vWA) domain [General function prediction only]; Region: CoxE; COG3552 350054007124 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 350054007125 metal ion-dependent adhesion site (MIDAS); other site 350054007126 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 350054007127 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 350054007128 Predicted dehydrogenase [General function prediction only]; Region: COG0579 350054007129 hydroxyglutarate oxidase; Provisional; Region: PRK11728 350054007130 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 350054007131 Glycerol kinase [Energy production and conversion]; Region: GlpK; COG0554 350054007132 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 350054007133 nucleotide binding site [chemical binding]; other site 350054007134 permease, urea carboxylase system; Region: ureacarb_perm; TIGR03428 350054007135 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 350054007136 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 350054007137 DNA-binding site [nucleotide binding]; DNA binding site 350054007138 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 350054007139 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 350054007140 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 350054007141 active site 350054007142 (T/H)XGH motif; other site 350054007143 Uncharacterized homolog of plant Iojap protein [Function unknown]; Region: COG0799 350054007144 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 350054007145 catalytic core [active] 350054007146 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cd00229 350054007147 active site 350054007148 catalytic triad [active] 350054007149 oxyanion hole [active] 350054007150 EDD domain protein, DegV family; Region: DegV; TIGR00762 350054007151 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 350054007152 Uncharacterized conserved protein related to dihydrodipicolinate reductase [Function unknown]; Region: COG3804 350054007153 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 350054007154 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 350054007155 NAD(P) binding site [chemical binding]; other site 350054007156 active site 350054007157 Insertion element 4 transposase N-terminal; Region: Nterm_IS4; pfam13006 350054007158 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 350054007159 Helix-hairpin-helix motif; Region: HHH; pfam00633 350054007160 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 350054007161 Competence protein; Region: Competence; pfam03772 350054007162 Predicted membrane metal-binding protein [General function prediction only]; Region: ComEC; COG0658 350054007163 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 350054007164 DNA polymerase III, delta subunit; Region: holA; TIGR01128 350054007165 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 350054007166 Uncharacterized conserved protein [Function unknown]; Region: COG2308 350054007167 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2307 350054007168 A predicted alpha-helical domain with a conserved ER motif; Region: Alpha-E; pfam04168 350054007169 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 350054007170 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 350054007171 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 350054007172 ribonuclease Z; Reviewed; Region: PRK00055 350054007173 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair_10; cd04623 350054007174 FOG: CBS domain [General function prediction only]; Region: COG0517 350054007175 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 350054007176 PemK-like protein; Region: PemK; pfam02452 350054007177 GTP-binding protein LepA; Provisional; Region: PRK05433 350054007178 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 350054007179 G1 box; other site 350054007180 putative GEF interaction site [polypeptide binding]; other site 350054007181 GTP/Mg2+ binding site [chemical binding]; other site 350054007182 Switch I region; other site 350054007183 G2 box; other site 350054007184 G3 box; other site 350054007185 Switch II region; other site 350054007186 G4 box; other site 350054007187 G5 box; other site 350054007188 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 350054007189 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 350054007190 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 350054007191 PknH-like extracellular domain; Region: PknH_C; pfam14032 350054007192 PknH-like extracellular domain; Region: PknH_C; pfam14032 350054007193 Glucoamylase and related glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: SGA1; COG3387 350054007194 Glycosyl hydrolases family 15; Region: Glyco_hydro_15; pfam00723 350054007195 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 350054007196 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 350054007197 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 350054007198 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 350054007199 dimer interface [polypeptide binding]; other site 350054007200 conserved gate region; other site 350054007201 putative PBP binding loops; other site 350054007202 ABC-ATPase subunit interface; other site 350054007203 sulfate transport protein; Provisional; Region: cysT; CHL00187 350054007204 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 350054007205 dimer interface [polypeptide binding]; other site 350054007206 conserved gate region; other site 350054007207 putative PBP binding loops; other site 350054007208 ABC-ATPase subunit interface; other site 350054007209 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 350054007210 sulfate ABC transporter, ATP-binding protein; Region: 3a0106s01; TIGR00968 350054007211 Walker A/P-loop; other site 350054007212 ATP binding site [chemical binding]; other site 350054007213 Q-loop/lid; other site 350054007214 ABC transporter signature motif; other site 350054007215 Walker B; other site 350054007216 D-loop; other site 350054007217 H-loop/switch region; other site 350054007218 TOBE-like domain; Region: TOBE_3; pfam12857 350054007219 Domain of unknown function DUF21; Region: DUF21; pfam01595 350054007220 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 350054007221 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 350054007222 Domain of unknown function DUF21; Region: DUF21; pfam01595 350054007223 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 350054007224 Transporter associated domain; Region: CorC_HlyC; pfam03471 350054007225 Sirohydrochlorin ferrochelatase [Inorganic ion transport and metabolism]; Region: COG2138 350054007226 Sirohydrochlorin cobalt chelatase (CbiX) and sirohydrochlorin iron chelatase (SirB), N-terminal domain. SirB catalyzes the ferro-chelation of sirohydrochlorin to siroheme, the prosthetic group of sulfite and nitrite reductases. CbiX is a cobaltochelatase; Region: CbiX_SirB_N; cd03416 350054007227 putative active site [active] 350054007228 Sirohydrochlorin cobalt chelatase (CbiX) and sirohydrochlorin iron chelatase (SirB), C-terminal domain. SirB catalyzes the ferro-chelation of sirohydrochlorin to siroheme, the prosthetic group of sulfite and nitrite reductases. CbiX is a cobaltochelatase; Region: CbiX_SirB_C; cd03414 350054007229 putative active site [active] 350054007230 3'-phosphoadenosine 5'-phosphosulfate sulfotransferase (PAPS reductase)/FAD synthetase and related enzymes [Amino acid transport and metabolism / Coenzyme metabolism]; Region: CysH; COG0175 350054007231 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 350054007232 Active Sites [active] 350054007233 Sulfite reductase, beta subunit (hemoprotein) [Inorganic ion transport and metabolism]; Region: CysI; COG0155 350054007234 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 350054007235 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 350054007236 coproporphyrinogen III oxidase; Validated; Region: PRK05628 350054007237 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 350054007238 FeS/SAM binding site; other site 350054007239 probable F420-dependent oxidoreductase, MSMEG_4141 family; Region: F420_MSMEG_4141; TIGR03620 350054007240 probable F420-dependent oxidoreductase, Rv3093c family; Region: F420_Rv3093c; TIGR03841 350054007241 SnoaL-like domain; Region: SnoaL_2; pfam12680 350054007242 Polyketide synthase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3321 350054007243 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 350054007244 active site 350054007245 Acyl transferase domain in polyketide synthase (PKS) enzymes; Region: PKS_AT; smart00827 350054007246 Dehydratase domain in polyketide synthase (PKS) enzymes; Region: PKS_DH; smart00826 350054007247 beta-ketoacyl reductase (KR) domain of fatty acid synthase (FAS), subgroup 2, complex (x); Region: KR_2_FAS_SDR_x; cd08955 350054007248 KR domain; Region: KR; pfam08659 350054007249 putative NADP binding site [chemical binding]; other site 350054007250 active site 350054007251 Phosphopantetheine attachment site; Region: PKS_PP; smart00823 350054007252 Peptide arylation enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntE; COG1021 350054007253 2,3-dihydroxybenzoate-AMP ligase; Region: 23DHB-AMP_lg; cd05920 350054007254 acyl-activating enzyme (AAE) consensus motif; other site 350054007255 active site 350054007256 AMP binding site [chemical binding]; other site 350054007257 substrate binding site [chemical binding]; other site 350054007258 Aryl carrier domain [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3433 350054007259 Condensation domain; Region: Condensation; pfam00668 350054007260 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 350054007261 Nonribosomal peptide synthase; Region: NRPS; pfam08415 350054007262 The adenylation domain of nonribosomal peptide synthetases (NRPS), including Streptoalloteichus tallysomycin biosynthesis genes; Region: A_NRPS_TlmIV_like; cd12114 350054007263 acyl-activating enzyme (AAE) consensus motif; other site 350054007264 AMP binding site [chemical binding]; other site 350054007265 Predicted thioesterase involved in non-ribosomal peptide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: GrsT; COG3208 350054007266 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 350054007267 Beta-ketoacyl synthase; Region: PKS_KS; smart00825 350054007268 active site 350054007269 Acyl transferase domain in polyketide synthase (PKS) enzymes; Region: PKS_AT; smart00827 350054007270 ketoreductase (KR) and fatty acid synthase (FAS), complex (x) SDRs; Region: KR_FAS_SDR_x; cd05274 350054007271 This enzymatic domain is part of bacterial polyketide synthases; Region: PKS_KR; smart00822 350054007272 NADP binding site [chemical binding]; other site 350054007273 active site 350054007274 Condensation domain; Region: Condensation; pfam00668 350054007275 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 350054007276 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 350054007277 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 350054007278 acyl-activating enzyme (AAE) consensus motif; other site 350054007279 AMP binding site [chemical binding]; other site 350054007280 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 350054007281 Condensation domain; Region: Condensation; pfam00668 350054007282 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 350054007283 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 350054007284 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 350054007285 Condensation domain; Region: Condensation; pfam00668 350054007286 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 350054007287 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 350054007288 acyl-activating enzyme (AAE) consensus motif; other site 350054007289 AMP binding site [chemical binding]; other site 350054007290 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 350054007291 Condensation domain; Region: Condensation; pfam00668 350054007292 non-ribosomal peptide synthase domain TIGR01720; Region: NRPS-para261 350054007293 Lysine/ornithine N-monooxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: IucD; COG3486 350054007294 MbtH-like protein; Region: MbtH; pfam03621 350054007295 Transcription regulator of the Arc/MetJ class [Transcription]; Region: COG5450 350054007296 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 350054007297 HTH domain; Region: HTH_11; cl17392 350054007298 chaperone protein DnaJ; Provisional; Region: PRK14278 350054007299 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 350054007300 HSP70 interaction site [polypeptide binding]; other site 350054007301 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 350054007302 Zn binding sites [ion binding]; other site 350054007303 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 350054007304 dimer interface [polypeptide binding]; other site 350054007305 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 350054007306 Mycobacterium membrane protein; Region: Mycobact_memb; pfam05423 350054007307 Transport protein; Region: actII; TIGR00833 350054007308 K homology RNA-binding domain; Region: KH; smart00322 350054007309 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 350054007310 PhoH-like protein; Region: PhoH; pfam02562 350054007311 metal-binding heat shock protein; Provisional; Region: PRK00016 350054007312 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 350054007313 Domain of unknown function DUF21; Region: DUF21; pfam01595 350054007314 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 350054007315 Transporter associated domain; Region: CorC_HlyC; smart01091 350054007316 GTPase Era; Reviewed; Region: era; PRK00089 350054007317 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 350054007318 G1 box; other site 350054007319 GTP/Mg2+ binding site [chemical binding]; other site 350054007320 Switch I region; other site 350054007321 G2 box; other site 350054007322 Switch II region; other site 350054007323 G3 box; other site 350054007324 G4 box; other site 350054007325 G5 box; other site 350054007326 KH domain; Region: KH_2; pfam07650 350054007327 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 350054007328 amidase; Provisional; Region: PRK06061 350054007329 Amidase; Region: Amidase; cl11426 350054007330 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 350054007331 Recombination protein O N terminal; Region: RecO_N; pfam11967 350054007332 Recombination protein O C terminal; Region: RecO_C; pfam02565 350054007333 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 350054007334 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 350054007335 catalytic residue [active] 350054007336 putative FPP diphosphate binding site; other site 350054007337 putative FPP binding hydrophobic cleft; other site 350054007338 dimer interface [polypeptide binding]; other site 350054007339 putative IPP diphosphate binding site; other site 350054007340 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 350054007341 metal binding site 2 [ion binding]; metal-binding site 350054007342 putative DNA binding helix; other site 350054007343 metal binding site 1 [ion binding]; metal-binding site 350054007344 dimer interface [polypeptide binding]; other site 350054007345 structural Zn2+ binding site [ion binding]; other site 350054007346 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 350054007347 dimerization interface [polypeptide binding]; other site 350054007348 putative DNA binding site [nucleotide binding]; other site 350054007349 putative Zn2+ binding site [ion binding]; other site 350054007350 glycyl-tRNA synthetase; Provisional; Region: PRK04173 350054007351 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 350054007352 motif 1; other site 350054007353 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 350054007354 active site 350054007355 motif 2; other site 350054007356 motif 3; other site 350054007357 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 350054007358 anticodon binding site; other site 350054007359 Repair protein; Region: Repair_PSII; pfam04536 350054007360 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK03007 350054007361 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 350054007362 Zn2+ binding site [ion binding]; other site 350054007363 Mg2+ binding site [ion binding]; other site 350054007364 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 350054007365 DNA primase; Validated; Region: dnaG; PRK05667 350054007366 CHC2 zinc finger; Region: zf-CHC2; cl17510 350054007367 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 350054007368 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 350054007369 active site 350054007370 metal binding site [ion binding]; metal-binding site 350054007371 interdomain interaction site; other site 350054007372 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 350054007373 DNA primase DnaG DnaB-binding; Region: DnaG_DnaB_bind; smart00766 350054007374 LppP/LprE lipoprotein; Region: Lipoprotein_21; pfam14041 350054007375 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 350054007376 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 350054007377 active site 350054007378 Nodulin-21 and CCC1-related protein family; Region: Nodulin-21_like_2; cd02433 350054007379 Major Facilitator Superfamily; Region: MFS_1; pfam07690 350054007380 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 350054007381 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 350054007382 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 350054007383 MarR family; Region: MarR; pfam01047 350054007384 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 350054007385 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 350054007386 Walker A/P-loop; other site 350054007387 ATP binding site [chemical binding]; other site 350054007388 Q-loop/lid; other site 350054007389 ABC transporter signature motif; other site 350054007390 Walker B; other site 350054007391 D-loop; other site 350054007392 H-loop/switch region; other site 350054007393 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 350054007394 Walker A/P-loop; other site 350054007395 ATP binding site [chemical binding]; other site 350054007396 Q-loop/lid; other site 350054007397 ABC transporter signature motif; other site 350054007398 Walker B; other site 350054007399 D-loop; other site 350054007400 H-loop/switch region; other site 350054007401 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 350054007402 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; COG0312 350054007403 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; COG0312 350054007404 Uncharacterized conserved protein [Function unknown]; Region: COG2128 350054007405 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; pfam08843 350054007406 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; pfam08843 350054007407 Domain of unknown function (DUF4095); Region: DUF4095; pfam13338 350054007408 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 350054007409 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 350054007410 metal binding site [ion binding]; metal-binding site 350054007411 active site 350054007412 I-site; other site 350054007413 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 350054007414 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 350054007415 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 350054007416 GAF domain; Region: GAF; pfam01590 350054007417 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 350054007418 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; cd01901 350054007419 active site 350054007420 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 350054007421 Mechanosensitive ion channel; Region: MS_channel; pfam00924 350054007422 Domain of unknown function (DUF427); Region: DUF427; pfam04248 350054007423 Dipeptide/tripeptide permease [Amino acid transport and metabolism]; Region: PTR2; COG3104 350054007424 POT family; Region: PTR2; cl17359 350054007425 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 350054007426 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 350054007427 putative active site [active] 350054007428 putative metal binding site [ion binding]; other site 350054007429 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 350054007430 Fungalysin/Thermolysin Propeptide Motif; Region: FTP; pfam07504 350054007431 Peptidase M4 family includes thermolysin, protealysin, aureolysin and neutral protease; Region: M4_neutral_protease; cd09597 350054007432 active site 350054007433 Zn binding site [ion binding]; other site 350054007434 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 350054007435 AzlC protein; Region: AzlC; cl00570 350054007436 Branched-chain amino acid transport protein (AzlD); Region: AzlD; cl00735 350054007437 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 350054007438 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 350054007439 Rieske non-heme iron oxygenase (RO) family, N-terminal Rieske domain of the oxygenase alpha subunit; The RO family comprise a large class of aromatic ring-hydroxylating dioxygenases found predominantly in microorganisms. These enzymes enable...; Region: Rieske_RO_Alpha_N; cd03469 350054007440 [2Fe-2S] cluster binding site [ion binding]; other site 350054007441 Uncharacterized conserved protein related to dihydrodipicolinate reductase [Function unknown]; Region: COG3804 350054007442 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 350054007443 Domain of unknown function (DUF222); Region: DUF222; pfam02720 350054007444 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cd00085 350054007445 active site 350054007446 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 350054007447 classical (c) SDRs; Region: SDR_c; cd05233 350054007448 NAD(P) binding site [chemical binding]; other site 350054007449 active site 350054007450 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 350054007451 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 350054007452 Walker A/P-loop; other site 350054007453 ATP binding site [chemical binding]; other site 350054007454 Q-loop/lid; other site 350054007455 ABC transporter signature motif; other site 350054007456 Walker B; other site 350054007457 D-loop; other site 350054007458 H-loop/switch region; other site 350054007459 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 350054007460 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 350054007461 Walker A/P-loop; other site 350054007462 ATP binding site [chemical binding]; other site 350054007463 Q-loop/lid; other site 350054007464 ABC transporter signature motif; other site 350054007465 Walker B; other site 350054007466 D-loop; other site 350054007467 H-loop/switch region; other site 350054007468 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 350054007469 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 350054007470 putative PBP binding loops; other site 350054007471 dimer interface [polypeptide binding]; other site 350054007472 ABC-ATPase subunit interface; other site 350054007473 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 350054007474 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 350054007475 dimer interface [polypeptide binding]; other site 350054007476 conserved gate region; other site 350054007477 putative PBP binding loops; other site 350054007478 ABC-ATPase subunit interface; other site 350054007479 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_11; cd08516 350054007480 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 350054007481 Uncharacterized conserved protein related to dihydrodipicolinate reductase [Function unknown]; Region: COG3804 350054007482 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 350054007483 SAM dependent carboxyl methyltransferase; Region: Methyltransf_7; cl04109 350054007484 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 350054007485 S-(hydroxymethyl)mycothiol dehydrogenase; Region: mycoS_dep_FDH; TIGR03451 350054007486 Class III alcohol dehydrogenase; Region: Zn_ADH_class_III; cd08279 350054007487 NAD binding site [chemical binding]; other site 350054007488 catalytic Zn binding site [ion binding]; other site 350054007489 substrate binding site [chemical binding]; other site 350054007490 structural Zn binding site [ion binding]; other site 350054007491 The Class III extradiol dioxygenase, 4,5-DOPA Dioxygenase, catalyzes the incorporation of both atoms of molecular oxygen into 4,5-dihydroxy-phenylalanine; Region: 45_DOPA_Dioxygenase; cd07363 350054007492 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 350054007493 putative active site [active] 350054007494 metal binding site [ion binding]; metal-binding site 350054007495 Methyltransferase domain; Region: Methyltransf_31; pfam13847 350054007496 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 350054007497 S-adenosylmethionine binding site [chemical binding]; other site 350054007498 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 350054007499 Beta-lactamase; Region: Beta-lactamase; pfam00144 350054007500 Protein of unknown function (DUF3145); Region: DUF3145; pfam11343 350054007501 diacylglycerol kinase; Reviewed; Region: PRK11914 350054007502 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 350054007503 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 350054007504 FAD binding domain; Region: FAD_binding_4; pfam01565 350054007505 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 350054007506 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350054007507 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GlpA; COG0578 350054007508 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 350054007509 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 350054007510 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 350054007511 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK07910 350054007512 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 350054007513 dimer interface [polypeptide binding]; other site 350054007514 active site 350054007515 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK07910 350054007516 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 350054007517 dimer interface [polypeptide binding]; other site 350054007518 active site 350054007519 acyl carrier protein; Provisional; Region: acpP; PRK00982 350054007520 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 350054007521 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 350054007522 Regulator of polyketide synthase expression [Signal transduction mechanisms / Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2508 350054007523 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 350054007524 pyruvate dehydrogenase subunit E1; Reviewed; Region: aceE; PRK09405 350054007525 Thiamine pyrophosphate (TPP) family, E1 of E. coli PDC-like subfamily, TPP-binding module; composed of proteins similar to the E1 component of the Escherichia coli pyruvate dehydrogenase multienzyme complex (PDC). PDC catalyzes the oxidative...; Region: TPP_E1_EcPDC_like; cd02017 350054007526 dimer interface [polypeptide binding]; other site 350054007527 TPP-binding site [chemical binding]; other site 350054007528 Protein of unknown function (DUF3052); Region: DUF3052; pfam11253 350054007529 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 350054007530 Peroxiredoxin (PRX) family, AhpE-like subfamily; composed of proteins similar to Mycobacterium tuberculosis AhpE. AhpE is described as a 1-cys PRX because of the absence of a resolving cysteine. The structure and sequence of AhpE, however, show greater...; Region: PRX_AhpE_like; cd03018 350054007531 dimer interface [polypeptide binding]; other site 350054007532 catalytic triad [active] 350054007533 phiLC3 phage and phage-related integrases, site-specific recombinases, DNA breaking-rejoining enzymes, C-terminal catalytic domain. This CD includes various bacterial (mainly gram positive) and phage integrases, including those similar to Lactococcus...; Region: INT_phiLC3_C; cd01189 350054007534 Int/Topo IB signature motif; other site 350054007535 Helix-turn-helix domain; Region: HTH_36; pfam13730 350054007536 putative transposase OrfB; Reviewed; Region: PHA02517 350054007537 HTH-like domain; Region: HTH_21; pfam13276 350054007538 Integrase core domain; Region: rve; pfam00665 350054007539 Integrase core domain; Region: rve_3; pfam13683 350054007540 TrwC relaxase; Region: TrwC; pfam08751 350054007541 conjugative relaxase domain, TrwC/TraI family; Region: relax_trwC; TIGR02686 350054007542 AAA domain; Region: AAA_30; pfam13604 350054007543 Family description; Region: UvrD_C_2; pfam13538 350054007544 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 350054007545 IgD-like repeat domain of mycobacterial L,D-transpeptidases; Region: LDT_IgD_like; cl17506 350054007546 IgD-like repeat domain of mycobacterial L,D-transpeptidases; Region: LDT_IgD_like_2; cd13432 350054007547 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 350054007548 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 350054007549 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 350054007550 Thioredoxin; Region: Thioredoxin_4; pfam13462 350054007551 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 350054007552 Probable cobalt transporter subunit (CbtA); Region: CbtA; cl02266 350054007553 Membrane-bound lytic murein transglycosylase B [Cell envelope biogenesis, outer membrane]; Region: MltB; COG2951 350054007554 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 350054007555 N-acetyl-D-glucosamine binding site [chemical binding]; other site 350054007556 CAAX protease self-immunity; Region: Abi; pfam02517 350054007557 CopC domain; Region: CopC; pfam04234 350054007558 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 350054007559 NlpC/P60 family; Region: NLPC_P60; pfam00877 350054007560 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 350054007561 Subunit I/III interface [polypeptide binding]; other site 350054007562 Ribosomal protein S19; Region: Ribosomal_S19; cl00350 350054007563 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 350054007564 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 350054007565 catalytic residues [active] 350054007566 Cytochrome c oxidase caa3 assembly factor (Caa3_CtaG); Region: Caa3_CtaG; pfam09678 350054007567 Domain of unknown function (DUF305); Region: DUF305; pfam03713 350054007568 Zn-dependent protease with chaperone function [Posttranslational modification, protein turnover, chaperones]; Region: HtpX; COG0501 350054007569 Penicillinase repressor; Region: Pencillinase_R; pfam03965 350054007570 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 350054007571 Peptidase family M23; Region: Peptidase_M23; pfam01551 350054007572 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 350054007573 Ubiquinol oxidase subunit I. Ubiquinol oxidase, the terminal oxidase in the respiratory chains of aerobic bacteria, is a multi-chain transmembrane protein located in the cell membrane. It catalyzes the reduction of O2 and simultaneously pumps protons...; Region: Ubiquinol_Oxidase_I; cd01662 350054007574 D-pathway; other site 350054007575 Putative ubiquinol binding site [chemical binding]; other site 350054007576 Low-spin heme (heme b) binding site [chemical binding]; other site 350054007577 Putative water exit pathway; other site 350054007578 Binuclear center (heme o3/CuB) [ion binding]; other site 350054007579 K-pathway; other site 350054007580 Putative proton exit pathway; other site 350054007581 cytochrome c-type biogenesis protein CcsB; Region: cytochr_II_ccsB; TIGR03144 350054007582 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 350054007583 heavy metal translocating P-type ATPase; Region: ATPase-IB_hvy; TIGR01525 350054007584 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 350054007585 Soluble P-type ATPase [General function prediction only]; Region: COG4087 350054007586 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 350054007587 cyclase homology domain; Region: CHD; cd07302 350054007588 nucleotidyl binding site; other site 350054007589 metal binding site [ion binding]; metal-binding site 350054007590 dimer interface [polypeptide binding]; other site 350054007591 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 350054007592 IgD-like repeat domain of mycobacterial L,D-transpeptidases; Region: LDT_IgD_like_1; cd13431 350054007593 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 350054007594 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 350054007595 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 350054007596 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 350054007597 Copper resistance protein D; Region: CopD; pfam05425 350054007598 Cytochrome c oxidase caa3 assembly factor (Caa3_CtaG); Region: Caa3_CtaG; pfam09678 350054007599 Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: DsbG; COG1651 350054007600 Thioredoxin; Region: Thioredoxin_4; pfam13462 350054007601 Protein of unknown function (DUF3703); Region: DUF3703; pfam12487 350054007602 heavy metal-(Cd/Co/Hg/Pb/Zn)-translocating P-type ATPase; Region: ATPase-IB2_Cd; TIGR01512 350054007603 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 350054007604 Soluble P-type ATPase [General function prediction only]; Region: COG4087 350054007605 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 350054007606 dimerization interface [polypeptide binding]; other site 350054007607 putative DNA binding site [nucleotide binding]; other site 350054007608 putative Zn2+ binding site [ion binding]; other site 350054007609 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 350054007610 Putative protein-S-isoprenylcysteine methyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: STE14; COG2020 350054007611 Domain of unknown function (DUF305); Region: DUF305; pfam03713 350054007612 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 350054007613 dimerization interface [polypeptide binding]; other site 350054007614 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 350054007615 dimer interface [polypeptide binding]; other site 350054007616 phosphorylation site [posttranslational modification] 350054007617 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 350054007618 ATP binding site [chemical binding]; other site 350054007619 Mg2+ binding site [ion binding]; other site 350054007620 G-X-G motif; other site 350054007621 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 350054007622 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 350054007623 active site 350054007624 phosphorylation site [posttranslational modification] 350054007625 intermolecular recognition site; other site 350054007626 dimerization interface [polypeptide binding]; other site 350054007627 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 350054007628 DNA binding site [nucleotide binding] 350054007629 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 350054007630 NlpC/P60 family; Region: NLPC_P60; pfam00877 350054007631 Penicillinase repressor; Region: Pencillinase_R; cl17580 350054007632 Zn-dependent protease with chaperone function [Posttranslational modification, protein turnover, chaperones]; Region: HtpX; COG0501 350054007633 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 350054007634 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 350054007635 DNA binding site [nucleotide binding] 350054007636 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 350054007637 NlpC/P60 family; Region: NLPC_P60; pfam00877 350054007638 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 350054007639 IgD-like repeat domain of mycobacterial L,D-transpeptidases; Region: LDT_IgD_like_2; cd13432 350054007640 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 350054007641 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 350054007642 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 350054007643 metal-binding site [ion binding] 350054007644 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 350054007645 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 350054007646 metal-binding site [ion binding] 350054007647 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 350054007648 Soluble P-type ATPase [General function prediction only]; Region: COG4087 350054007649 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 350054007650 Transcriptional regulators CsoR (copper-sensitive operon repressor), RcnR, and FrmR, and related domains; this domain superfamily was previously known as DUF156; Region: CsoR-like_DUF156; cd10148 350054007651 putative homotetramer interface [polypeptide binding]; other site 350054007652 putative homodimer interface [polypeptide binding]; other site 350054007653 putative allosteric switch controlling residues; other site 350054007654 putative metal binding site [ion binding]; other site 350054007655 putative homodimer-homodimer interface [polypeptide binding]; other site 350054007656 copper-(or silver)-translocating P-type ATPase; Region: ATPase-IB1_Cu; TIGR01511 350054007657 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 350054007658 Soluble P-type ATPase [General function prediction only]; Region: COG4087 350054007659 Domain of unknown function (DUF1942); Region: DUF1942; pfam09167 350054007660 AMP-binding enzyme; Region: AMP-binding; pfam00501 350054007661 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 350054007662 active site 350054007663 CoA binding site [chemical binding]; other site 350054007664 AMP binding site [chemical binding]; other site 350054007665 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 350054007666 Acyltransferase family; Region: Acyl_transf_3; pfam01757 350054007667 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 350054007668 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 350054007669 Walker A/P-loop; other site 350054007670 ATP binding site [chemical binding]; other site 350054007671 Q-loop/lid; other site 350054007672 ABC transporter signature motif; other site 350054007673 Walker B; other site 350054007674 D-loop; other site 350054007675 H-loop/switch region; other site 350054007676 TOBE domain; Region: TOBE_2; pfam08402 350054007677 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 350054007678 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 350054007679 dimer interface [polypeptide binding]; other site 350054007680 conserved gate region; other site 350054007681 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 350054007682 ABC-ATPase subunit interface; other site 350054007683 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 350054007684 dimer interface [polypeptide binding]; other site 350054007685 conserved gate region; other site 350054007686 ABC-ATPase subunit interface; other site 350054007687 ABC-type thiamine transport system, periplasmic component [Coenzyme metabolism]; Region: TbpA; COG4143 350054007688 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 350054007689 HIRAN domain; Region: HIRAN; cl07418 350054007690 Protein of unknown function (DUF3703); Region: DUF3703; pfam12487 350054007691 Methyltransferase domain; Region: Methyltransf_23; pfam13489 350054007692 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 350054007693 S-adenosylmethionine binding site [chemical binding]; other site 350054007694 Apolipoprotein N-acyltransferase [Cell envelope biogenesis, outer membrane]; Region: Lnt; COG0815 350054007695 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 350054007696 putative active site [active] 350054007697 catalytic triad [active] 350054007698 putative dimer interface [polypeptide binding]; other site 350054007699 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 350054007700 catalytic residues [active] 350054007701 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 350054007702 dimerization interface [polypeptide binding]; other site 350054007703 putative DNA binding site [nucleotide binding]; other site 350054007704 putative Zn2+ binding site [ion binding]; other site 350054007705 heavy metal-(Cd/Co/Hg/Pb/Zn)-translocating P-type ATPase; Region: ATPase-IB2_Cd; TIGR01512 350054007706 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 350054007707 Soluble P-type ATPase [General function prediction only]; Region: COG4087 350054007708 lipoprotein signal peptidase; Provisional; Region: PRK14769 350054007709 Predicted permease, cadmium resistance protein [Inorganic ion transport and metabolism]; Region: CadD; COG4300 350054007710 Cadmium resistance transporter; Region: Cad; pfam03596 350054007711 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 350054007712 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 350054007713 catalytic residues [active] 350054007714 Predicted membrane protein [Function unknown]; Region: COG3462 350054007715 Short C-terminal domain; Region: SHOCT; pfam09851 350054007716 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 350054007717 NlpC/P60 family; Region: NLPC_P60; pfam00877 350054007718 Protein of unknown function (DUF2384); Region: DUF2384; pfam09722 350054007719 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 350054007720 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 350054007721 Walker A motif; other site 350054007722 ATP binding site [chemical binding]; other site 350054007723 Walker B motif; other site 350054007724 Transposase, Mutator family; Region: Transposase_mut; pfam00872 350054007725 MULE transposase domain; Region: MULE; pfam10551 350054007726 Integrase core domain; Region: rve; pfam00665 350054007727 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 350054007728 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 350054007729 active site 350054007730 KAP family P-loop domain; Region: KAP_NTPase; pfam07693 350054007731 Predicted P-loop ATPase [General function prediction only]; Region: COG4928 350054007732 MASE1; Region: MASE1; cl17823 350054007733 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 350054007734 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 350054007735 putative active site [active] 350054007736 heme pocket [chemical binding]; other site 350054007737 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 350054007738 putative active site [active] 350054007739 heme pocket [chemical binding]; other site 350054007740 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 350054007741 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 350054007742 metal binding site [ion binding]; metal-binding site 350054007743 active site 350054007744 I-site; other site 350054007745 SOUL heme-binding protein; Region: SOUL; pfam04832 350054007746 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 350054007747 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 350054007748 active site 350054007749 CobD/Cbib protein; Region: CobD_Cbib; cl00561 350054007750 cobalamin biosynthesis protein; Provisional; Region: cobD; PRK01209 350054007751 SURF1 superfamily. Surf1/Shy1 has been implicated in the posttranslational steps of the biogenesis of the mitochondrially-encoded Cox1 subunit of cytochrome c oxidase (complex IV). Cytochrome c oxidase (complex IV), the terminal electron-transferring...; Region: SURF1; cd06662 350054007752 Low molecular weight phosphatase family; Region: LMWPc; cd00115 350054007753 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 350054007754 active site 350054007755 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 350054007756 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 350054007757 motif II; other site 350054007758 Uncharacterized conserved protein [Function unknown]; Region: COG0327 350054007759 NIF3 (NGG1p interacting factor 3); Region: NIF3; pfam01784 350054007760 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3323 350054007761 NIF3 (NGG1p interacting factor 3); Region: NIF3; pfam01784 350054007762 Zn-ribbon protein, possibly nucleic acid-binding [General function prediction only]; Region: COG1579 350054007763 Putative zinc ribbon domain; Region: DUF164; pfam02591 350054007764 bifunctional RNase H/acid phosphatase; Provisional; Region: PRK07238 350054007765 RNAse HI family that includes Archaeal RNase HI; Region: RNase_HI_archaeal_like; cd09279 350054007766 active site 350054007767 RNA/DNA hybrid binding site [nucleotide binding]; other site 350054007768 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 350054007769 catalytic core [active] 350054007770 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 350054007771 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 350054007772 sequence-specific DNA binding site [nucleotide binding]; other site 350054007773 salt bridge; other site 350054007774 Cupin domain; Region: Cupin_2; pfam07883 350054007775 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 350054007776 Thiopurine S-methyltransferase (TPMT); Region: TPMT; pfam05724 350054007777 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 350054007778 S-adenosylmethionine binding site [chemical binding]; other site 350054007779 Helix-turn-helix domain of transposase family ISL3; Region: HTH_Tnp_ISL3; pfam13542 350054007780 Transposase; Region: DDE_Tnp_ISL3; pfam01610 350054007781 Domain of unknown function (DUF222); Region: DUF222; pfam02720 350054007782 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cd00085 350054007783 active site 350054007784 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 350054007785 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 350054007786 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 350054007787 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 350054007788 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 350054007789 CYTH-like (also known as triphosphate tunnel metalloenzyme (TTM)-like) Phosphatases; Region: CYTH-like_Pase; cd07374 350054007790 putative active site; other site 350054007791 putative metal binding residues [ion binding]; other site 350054007792 signature motif; other site 350054007793 putative triphosphate binding site [ion binding]; other site 350054007794 The CHAD domain is an alpha-helical domain functionally associated with some members of the adenylate cyclase family; Region: CHAD; smart00880 350054007795 putative fatty-acid--CoA ligase; Provisional; Region: PRK12476 350054007796 Fatty acyl-AMP ligase (FAAL); Region: FAAL; cd05931 350054007797 acyl-activating enzyme (AAE) consensus motif; other site 350054007798 active site 350054007799 enoyl-CoA hydratase; Provisional; Region: PRK08140 350054007800 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 350054007801 substrate binding site [chemical binding]; other site 350054007802 oxyanion hole (OAH) forming residues; other site 350054007803 trimer interface [polypeptide binding]; other site 350054007804 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 350054007805 oligomerization interface [polypeptide binding]; other site 350054007806 active site 350054007807 metal binding site [ion binding]; metal-binding site 350054007808 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 350054007809 TAP-like protein; Region: Abhydrolase_4; pfam08386 350054007810 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 350054007811 Coenzyme A binding pocket [chemical binding]; other site 350054007812 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 350054007813 TAP-like protein; Region: Abhydrolase_4; pfam08386 350054007814 Acyl-CoA thioesterase [Lipid metabolism]; Region: TesB; COG1946 350054007815 Thioesterase II (TEII) is thought to regenerate misprimed nonribosomal peptide synthetases (NRPSs) as well as modular polyketide synthases (PKSs) by hydrolyzing acetyl groups bound to the peptidyl carrier protein (PCP) and acyl carrier protein (ACP)...; Region: Thioesterase_II_repeat2; cd03445 350054007816 active site 350054007817 Thioesterase II (TEII) is thought to regenerate misprimed nonribosomal peptide synthetases (NRPSs) as well as modular polyketide synthases (PKSs) by hydrolyzing acetyl groups bound to the peptidyl carrier protein (PCP) and acyl carrier protein (ACP)...; Region: Thioesterase_II_repeat1; cd03444 350054007818 catalytic triad [active] 350054007819 dimer interface [polypeptide binding]; other site 350054007820 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 350054007821 active site 350054007822 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 350054007823 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 350054007824 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 350054007825 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Provisional; Region: PRK14109 350054007826 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 350054007827 metal binding triad; other site 350054007828 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 350054007829 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 350054007830 metal binding triad; other site 350054007831 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 350054007832 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 350054007833 CoenzymeA binding site [chemical binding]; other site 350054007834 subunit interaction site [polypeptide binding]; other site 350054007835 PHB binding site; other site 350054007836 probable F420-dependent oxidoreductase, Rv2161c family; Region: F420_Rv2161c; TIGR03619 350054007837 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 350054007838 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cl02567 350054007839 structural tetrad; other site 350054007840 PQQ-like domain; Region: PQQ_2; pfam13360 350054007841 DoxX; Region: DoxX; pfam07681 350054007842 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cl00083 350054007843 active site 350054007844 Caudovirus prohead protease; Region: Peptidase_U35; pfam04586 350054007845 phage major capsid protein, HK97 family; Region: major_cap_HK97; TIGR01554 350054007846 Phage capsid family; Region: Phage_capsid; pfam05065 350054007847 Helix-turn-helix domain; Region: HTH_36; pfam13730 350054007848 Helix-turn-helix domain; Region: HTH_17; pfam12728 350054007849 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 350054007850 non-specific DNA binding site [nucleotide binding]; other site 350054007851 salt bridge; other site 350054007852 sequence-specific DNA binding site [nucleotide binding]; other site 350054007853 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 350054007854 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 350054007855 active site 350054007856 DNA binding site [nucleotide binding] 350054007857 Int/Topo IB signature motif; other site 350054007858 glutamine synthetase, type I; Region: GlnA; TIGR00653 350054007859 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 350054007860 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 350054007861 RDD family; Region: RDD; pfam06271 350054007862 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 350054007863 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 350054007864 active site 350054007865 Domain of unknown function (DUF4191); Region: DUF4191; pfam13829 350054007866 lipoyl synthase; Provisional; Region: PRK05481 350054007867 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 350054007868 FeS/SAM binding site; other site 350054007869 lipoate-protein ligase B; Provisional; Region: PRK14345 350054007870 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 350054007871 Predicted nucleoside-diphosphate sugar epimerase [General function prediction only]; Region: COG1090 350054007872 NAD(P) binding site [chemical binding]; other site 350054007873 active site 350054007874 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 350054007875 E3 interaction surface; other site 350054007876 lipoyl attachment site [posttranslational modification]; other site 350054007877 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 350054007878 E3 interaction surface; other site 350054007879 lipoyl attachment site [posttranslational modification]; other site 350054007880 e3 binding domain; Region: E3_binding; pfam02817 350054007881 dihydrolipoamide acetyltransferase; Reviewed; Region: PRK11857 350054007882 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 350054007883 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 350054007884 classical (c) SDRs; Region: SDR_c; cd05233 350054007885 short chain dehydrogenase; Provisional; Region: PRK08267 350054007886 NAD(P) binding site [chemical binding]; other site 350054007887 active site 350054007888 multifunctional aminopeptidase A; Provisional; Region: PRK00913 350054007889 Cytosol aminopeptidase family, N-terminal and catalytic domains. Family M17 contains zinc- and manganese-dependent exopeptidases ( EC 3.4.11.1), including leucine aminopeptidase. They catalyze removal of amino acids from the N-terminus of a protein and...; Region: Peptidase_M17; cd00433 350054007890 interface (dimer of trimers) [polypeptide binding]; other site 350054007891 Substrate-binding/catalytic site; other site 350054007892 Zn-binding sites [ion binding]; other site 350054007893 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 350054007894 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 350054007895 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 350054007896 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 350054007897 homodimer interface [polypeptide binding]; other site 350054007898 substrate-cofactor binding pocket; other site 350054007899 catalytic residue [active] 350054007900 cobalamin synthase; Reviewed; Region: cobS; PRK00235 350054007901 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 350054007902 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 350054007903 putative dimer interface [polypeptide binding]; other site 350054007904 active site pocket [active] 350054007905 putative cataytic base [active] 350054007906 Protein of unknown function (DUF3043); Region: DUF3043; pfam11241 350054007907 Glycerate kinase family; Region: Gly_kinase; cl00841 350054007908 Iron-sulfur cluster assembly accessory protein; Region: TIGR00049 350054007909 Ribokinase-like subgroup A. Found in bacteria and archaea, this subgroup is part of the ribokinase/pfkB superfamily. Its oligomerization state is unknown at this time; Region: ribokinase_group_A; cd01942 350054007910 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 350054007911 substrate binding site [chemical binding]; other site 350054007912 ATP binding site [chemical binding]; other site 350054007913 Asparagine synthase (glutamine-hydrolyzing) [Amino acid transport and metabolism]; Region: AsnB; COG0367 350054007914 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 350054007915 dimer interface [polypeptide binding]; other site 350054007916 active site 350054007917 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 350054007918 Ligand Binding Site [chemical binding]; other site 350054007919 Molecular Tunnel; other site 350054007920 Heme/copper-type cytochrome/quinol oxidases, subunit 2 [Energy production and conversion]; Region: CyoA; COG1622 350054007921 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 350054007922 Cytochrome c oxidase subunit IV; Region: Cyt_c_ox_IV; pfam12270 350054007923 Mycobacterium membrane protein; Region: Mycobact_memb; pfam05423 350054007924 Protein of unknown function (DUF2561); Region: DUF2561; pfam10812 350054007925 Cytochrome b subunit of the bc complex [Energy production and conversion]; Region: QcrB; COG1290 350054007926 heme bH binding site [chemical binding]; other site 350054007927 intrachain domain interface; other site 350054007928 heme bL binding site [chemical binding]; other site 350054007929 interchain domain interface [polypeptide binding]; other site 350054007930 Cytochrome b(N-terminal)/b6/petB; Region: Cytochrom_B_N_2; pfam13631 350054007931 Qo binding site; other site 350054007932 Rieske Fe-S protein [Energy production and conversion]; Region: QcrA; COG0723 350054007933 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cd03467 350054007934 iron-sulfur cluster [ion binding]; other site 350054007935 [2Fe-2S] cluster binding site [ion binding]; other site 350054007936 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 350054007937 Cytochrome c; Region: Cytochrom_C; pfam00034 350054007938 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 350054007939 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 350054007940 Subunit I/III interface [polypeptide binding]; other site 350054007941 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 350054007942 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 350054007943 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 350054007944 hypothetical protein; Validated; Region: PRK07883 350054007945 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 350054007946 active site 350054007947 catalytic site [active] 350054007948 substrate binding site [chemical binding]; other site 350054007949 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 350054007950 GIY-YIG motif/motif A; other site 350054007951 active site 350054007952 catalytic site [active] 350054007953 putative DNA binding site [nucleotide binding]; other site 350054007954 metal binding site [ion binding]; metal-binding site 350054007955 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 350054007956 NlpC/P60 family; Region: NLPC_P60; pfam00877 350054007957 Peptidase MA superfamily; Region: Peptidase_MA_2; pfam13485 350054007958 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 350054007959 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 350054007960 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 350054007961 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 350054007962 Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907 350054007963 acyl-activating enzyme (AAE) consensus motif; other site 350054007964 putative AMP binding site [chemical binding]; other site 350054007965 putative active site [active] 350054007966 putative CoA binding site [chemical binding]; other site 350054007967 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_2; cd07819 350054007968 putative hydrophobic ligand binding site [chemical binding]; other site 350054007969 Predicted ATPase involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: ArsA; COG0003 350054007970 ArsA ATPase functionas as an efflux pump located on the inner membrane of the cell. This ATP-driven oxyanion pump catalyzes the extrusion of arsenite, antimonite and arsenate. Maintenance of a low intracellular concentration of oxyanion produces...; Region: ArsA; cd02035 350054007971 DTAP/Switch II; other site 350054007972 Switch I; other site 350054007973 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 350054007974 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 350054007975 putative acyl-acceptor binding pocket; other site 350054007976 Protein of unknown function (DUF2029); Region: DUF2029; pfam09594 350054007977 Class-II DAHP synthetase family; Region: DAHP_synth_2; pfam01474 350054007978 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 350054007979 Catalytic domain of Protein Kinases; Region: PKc; cd00180 350054007980 active site 350054007981 ATP binding site [chemical binding]; other site 350054007982 substrate binding site [chemical binding]; other site 350054007983 activation loop (A-loop); other site 350054007984 HSP90 family protein; Provisional; Region: PRK14083 350054007985 carotene biosynthesis associated membrane protein; Region: crt_membr; TIGR03459 350054007986 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 350054007987 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 350054007988 substrate binding pocket [chemical binding]; other site 350054007989 chain length determination region; other site 350054007990 substrate-Mg2+ binding site; other site 350054007991 catalytic residues [active] 350054007992 aspartate-rich region 1; other site 350054007993 active site lid residues [active] 350054007994 aspartate-rich region 2; other site 350054007995 Protein of unknown function (DUF3153); Region: DUF3153; pfam11353 350054007996 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 350054007997 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 350054007998 Protein of unknown function (DUF3040); Region: DUF3040; pfam11239 350054007999 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2001 350054008000 MraZ protein; Region: MraZ; pfam02381 350054008001 MraZ protein; Region: MraZ; pfam02381 350054008002 MraW methylase family; Region: Methyltransf_5; pfam01795 350054008003 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 350054008004 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 350054008005 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 350054008006 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 350054008007 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 350054008008 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 350054008009 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 350054008010 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 350054008011 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 350054008012 UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase; Region: murF; TIGR01143 350054008013 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 350054008014 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 350054008015 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 350054008016 Glycosyltransferase 4 (GT4) includes both eukaryotic and prokaryotic UDP-D-N-acetylhexosamine:polyprenol phosphate D-N-acetylhexosamine-1-phosphate transferases. They catalyze the transfer of a D-N-acetylhexosamine 1-phosphate to a membrane-bound...; Region: GT_MraY-like; cl10571 350054008017 Mg++ binding site [ion binding]; other site 350054008018 Glycosyltransferase 4 (GT4) includes both eukaryotic and prokaryotic UDP-D-N-acetylhexosamine:polyprenol phosphate D-N-acetylhexosamine-1-phosphate transferases. They catalyze the transfer of a D-N-acetylhexosamine 1-phosphate to a membrane-bound...; Region: GT_MraY-like; cl10571 350054008019 putative catalytic motif [active] 350054008020 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK03369 350054008021 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 350054008022 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 350054008023 cell division protein FtsW; Region: ftsW; TIGR02614 350054008024 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 350054008025 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 350054008026 active site 350054008027 homodimer interface [polypeptide binding]; other site 350054008028 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 350054008029 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 350054008030 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 350054008031 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 350054008032 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 350054008033 Cell division protein FtsQ; Region: FtsQ; pfam03799 350054008034 cell division protein FtsZ; Validated; Region: PRK09330 350054008035 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 350054008036 nucleotide binding site [chemical binding]; other site 350054008037 SulA interaction site; other site 350054008038 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 350054008039 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; pfam02578 350054008040 Predicted enzyme with a TIM-barrel fold [General function prediction only]; Region: COG0325 350054008041 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 350054008042 catalytic residue [active] 350054008043 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1799 350054008044 Predicted integral membrane protein [Function unknown]; Region: COG0762 350054008045 DivIVA domain; Region: DivI1A_domain; TIGR03544 350054008046 Cell division initiation protein [Cell division and chromosome partitioning]; Region: DivIVA; COG3599 350054008047 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl17192 350054008048 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 350054008049 active site 350054008050 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_3; cd07820 350054008051 putative hydrophobic ligand binding site [chemical binding]; other site 350054008052 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 350054008053 TIGR01777 family protein; Region: yfcH 350054008054 NAD(P) binding site [chemical binding]; other site 350054008055 active site 350054008056 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 350054008057 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 350054008058 catalytic triad [active] 350054008059 Calx-beta domain; Region: Calx-beta; cl02522 350054008060 Calx-beta domain; Region: Calx-beta; pfam03160 350054008061 PF-ChiA is an uncharacterized chitinase found in the hyperthermophilic archaeon Pyrococcus furiosus with a glycosyl hydrolase family 18 (GH18) catalytic domain as well as a cellulose-binding domain. Members of this domain family are found not only in...; Region: GH18_PF-ChiA-like; cd06543 350054008062 active site 350054008063 Glycosyl hydrolases family 18; Region: Glyco_hydro_18; pfam00704 350054008064 Calx-beta domain; Region: Calx-beta; pfam03160 350054008065 Cellulose binding domain; Region: CBM_2; pfam00553 350054008066 Calx-beta domain; Region: Calx-beta; cl02522 350054008067 Cellulose binding domain; Region: CBM_2; pfam00553 350054008068 Calx-beta domain; Region: Calx-beta; pfam03160 350054008069 Endoglucanase [Carbohydrate transport and metabolism]; Region: BglC; COG2730 350054008070 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; pfam00150 350054008071 Calx-beta domain; Region: Calx-beta; pfam03160 350054008072 Response regulator of citrate/malate metabolism [Transcription / Signal transduction mechanisms]; Region: CitB; COG4565 350054008073 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 350054008074 active site 350054008075 phosphorylation site [posttranslational modification] 350054008076 intermolecular recognition site; other site 350054008077 dimerization interface [polypeptide binding]; other site 350054008078 Signal transduction histidine kinase regulating citrate/malate metabolism [Signal transduction mechanisms]; Region: CitA; COG3290 350054008079 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 350054008080 ATP binding site [chemical binding]; other site 350054008081 Mg2+ binding site [ion binding]; other site 350054008082 G-X-G motif; other site 350054008083 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 350054008084 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 350054008085 Tripartite tricarboxylate transporter TctA family; Region: TctA; cl00772 350054008086 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 350054008087 Ligand Binding Site [chemical binding]; other site 350054008088 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 350054008089 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG3687 350054008090 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 350054008091 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 350054008092 DNA-binding interface [nucleotide binding]; DNA binding site 350054008093 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 350054008094 iron-sulfur cluster [ion binding]; other site 350054008095 [2Fe-2S] cluster binding site [ion binding]; other site 350054008096 NAD(P)H-nitrite reductase [Energy production and conversion]; Region: NirB; COG1251 350054008097 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 350054008098 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 350054008099 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 350054008100 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 350054008101 Nitrate/nitrite transporter [Inorganic ion transport and metabolism]; Region: NarK; COG2223 350054008102 Nitrate reductases, NapA (Nitrate-R-NapA), NasA, and NarB catalyze the reduction of nitrate to nitrite. Monomeric Nas is located in the cytoplasm and participates in nitrogen assimilation. Dimeric Nap is located in the periplasm and is coupled to quinol...; Region: MopB_Nitrate-R-NapA-like; cd02754 350054008103 formate dehydrogenase, alpha subunit, archaeal-type; Region: Fdh-alpha; TIGR01591 350054008104 [4Fe-4S] binding site [ion binding]; other site 350054008105 molybdopterin cofactor binding site; other site 350054008106 Nitrate reductases, NapA (Nitrate-R-NapA), NasA, and NarB catalyze the reduction of nitrate to nitrite. Monomeric Nas is located in the cytoplasm and participates in nitrogen assimilation. Dimeric Nap is located in the periplasm and is coupled to quinol...; Region: MopB_CT_Nitrate-R-NapA-like; cd02791 350054008107 molybdopterin cofactor binding site; other site 350054008108 Sulfite reductase, alpha subunit (flavoprotein) [Inorganic ion transport and metabolism]; Region: CysJ; COG0369 350054008109 Flavodoxin; Region: Flavodoxin_1; pfam00258 350054008110 Cytochrome p450- like alpha subunits of E. coli sulfite reductase (SiR) multimerize with beta subunits to catalyze the NADPH dependent reduction of sulfite to sulfide. Beta subunits have an Fe4S4 cluster and a siroheme, while the alpha subunits (cysJ...; Region: SiR; cd06199 350054008111 FAD binding pocket [chemical binding]; other site 350054008112 FAD binding motif [chemical binding]; other site 350054008113 catalytic residues [active] 350054008114 NAD binding pocket [chemical binding]; other site 350054008115 phosphate binding motif [ion binding]; other site 350054008116 beta-alpha-beta structure motif; other site 350054008117 Acyltransferase family; Region: Acyl_transf_3; pfam01757 350054008118 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 350054008119 putative active site [active] 350054008120 Antitoxin of toxin-antitoxin stability system [Cell division and chromosome partitioning]; Region: Phd; COG4118 350054008121 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 350054008122 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350054008123 Transposase, Mutator family; Region: Transposase_mut; pfam00872 350054008124 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 350054008125 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 350054008126 DNA-binding interface [nucleotide binding]; DNA binding site 350054008127 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 350054008128 CoenzymeA binding site [chemical binding]; other site 350054008129 subunit interaction site [polypeptide binding]; other site 350054008130 PHB binding site; other site 350054008131 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 350054008132 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 350054008133 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 350054008134 Mycobacterium membrane protein; Region: Mycobact_memb; pfam05423 350054008135 Predicted drug exporters of the RND superfamily [General function prediction only]; Region: COG2409 350054008136 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 350054008137 Zn2+ binding site [ion binding]; other site 350054008138 Mg2+ binding site [ion binding]; other site 350054008139 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_17; cd04676 350054008140 nudix motif; other site 350054008141 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 350054008142 non-specific DNA binding site [nucleotide binding]; other site 350054008143 salt bridge; other site 350054008144 sequence-specific DNA binding site [nucleotide binding]; other site 350054008145 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 350054008146 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 350054008147 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cd00338 350054008148 catalytic residues [active] 350054008149 catalytic nucleophile [active] 350054008150 Recombinase; Region: Recombinase; pfam07508 350054008151 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 350054008152 hypothetical protein; Provisional; Region: PRK07906 350054008153 M20 Peptidase, carboxypeptidase yscS-like; Region: M20_yscS_like; cd05675 350054008154 putative metal binding site [ion binding]; other site 350054008155 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 350054008156 substrate binding site [chemical binding]; other site 350054008157 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 350054008158 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 350054008159 quinone interaction residues [chemical binding]; other site 350054008160 active site 350054008161 catalytic residues [active] 350054008162 FMN binding site [chemical binding]; other site 350054008163 substrate binding site [chemical binding]; other site 350054008164 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK12554 350054008165 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 350054008166 catalytic core [active] 350054008167 Protein of unknown function (DUF3090); Region: DUF3090; pfam11290 350054008168 conserved hypothetical protein; Region: TIGR03843 350054008169 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 350054008170 active site 350054008171 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 350054008172 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 350054008173 cysteinyl-tRNA synthetase; Provisional; Region: PRK12418 350054008174 active site 350054008175 HIGH motif; other site 350054008176 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 350054008177 active site 350054008178 KMSKS motif; other site 350054008179 Anticodon-binding domain of cysteinyl tRNA synthetases and domain found in MshC; Region: Anticodon_Ia_Cys_like; cd07955 350054008180 putative tRNA binding surface [nucleotide binding]; other site 350054008181 short chain dehydrogenase; Provisional; Region: PRK05872 350054008182 classical (c) SDRs; Region: SDR_c; cd05233 350054008183 NAD(P) binding site [chemical binding]; other site 350054008184 active site 350054008185 Uncharacterized conserved protein [Function unknown]; Region: COG5361 350054008186 Protein of unknown function (DUF1254); Region: DUF1254; pfam06863 350054008187 Protein of unknown function (DUF1214); Region: DUF1214; cl08447 350054008188 PAC2 family; Region: PAC2; pfam09754 350054008189 B12-dependent methionine synthase; Provisional; Region: metH; PRK09490 350054008190 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; COG0646 350054008191 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 350054008192 substrate binding pocket [chemical binding]; other site 350054008193 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 350054008194 B12 binding site [chemical binding]; other site 350054008195 cobalt ligand [ion binding]; other site 350054008196 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 350054008197 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 350054008198 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 350054008199 motif II; other site 350054008200 D-xylose transporter XylE; Provisional; Region: xylE; PRK10077 350054008201 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 350054008202 putative substrate translocation pore; other site 350054008203 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 350054008204 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in Mycobacterium tuberculosis phosphoribosyl-ATP pyrophosphohydrolase (HisE or PRATP-PH) and its bacterial homologs; Region: NTP-PPase_HisE; cd11547 350054008205 homodimer interface [polypeptide binding]; other site 350054008206 putative metal binding site [ion binding]; other site 350054008207 ATP phosphoribosyltransferase; Reviewed; Region: hisG; PRK00489 350054008208 ATP phosphoribosyltransferase; Region: hisG; TIGR00070 350054008209 ATP phosphoribosyltransferase, C-terminal domain; Region: HisG_C-term; TIGR03455 350054008210 Predicted membrane protein [Function unknown]; Region: COG3918 350054008211 mercuric reductase; Validated; Region: PRK06370 350054008212 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 350054008213 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 350054008214 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 350054008215 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 350054008216 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350054008217 Ribonucleotide Reductase R2-like protein, Mn/Fe-binding domain; Region: RNRR2_Rv0233_like; cd07911 350054008218 active site 350054008219 diiron metal binding site [ion binding]; other site 350054008220 DinB superfamily; Region: DinB_2; pfam12867 350054008221 Thioesterase-like superfamily; Region: 4HBT_3; pfam13622 350054008222 RecB family exonuclease [DNA replication, recombination, and repair]; Region: COG2887 350054008223 tRNA(1-methyladenosine) methyltransferase and related methyltransferases [Translation, ribosomal structure and biogenesis]; Region: GCD14; COG2519 350054008224 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 350054008225 S-adenosylmethionine binding site [chemical binding]; other site 350054008226 Protein of unknown function (DUF503); Region: DUF503; pfam04456 350054008227 proteasome ATPase; Region: pup_AAA; TIGR03689 350054008228 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 350054008229 Walker A motif; other site 350054008230 ATP binding site [chemical binding]; other site 350054008231 Walker B motif; other site 350054008232 arginine finger; other site 350054008233 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 350054008234 Rrf2 family protein; Region: rrf2_super; TIGR00738 350054008235 Transcriptional regulator; Region: Rrf2; cl17282 350054008236 proteasome accessory factor PafA2; Region: pupylate_PafA2; TIGR03688 350054008237 Pup-like protein; Region: Pup; pfam05639 350054008238 proteasome, beta subunit, bacterial type; Region: 20S_bact_beta; TIGR03690 350054008239 proteasome_protease_HslV. This group contains the eukaryotic proteosome alpha and beta subunits and the prokaryotic protease hslV subunit. Proteasomes are large multimeric self-compartmentalizing proteases, involved in the clearance of misfolded proteins; Region: proteasome_protease_HslV; cd01906 350054008240 active site 350054008241 proteasome, alpha subunit, bacterial type; Region: 20S_bact_alpha; TIGR03691 350054008242 proteasome_protease_HslV. This group contains the eukaryotic proteosome alpha and beta subunits and the prokaryotic protease hslV subunit. Proteasomes are large multimeric self-compartmentalizing proteases, involved in the clearance of misfolded proteins; Region: proteasome_protease_HslV; cd01906 350054008243 active site 350054008244 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 350054008245 hydroxyglutarate oxidase; Provisional; Region: PRK11728 350054008246 Glycine cleavage system T protein (aminomethyltransferase) [Amino acid transport and metabolism]; Region: GcvT; COG0404 350054008247 Sarcosine oxidase, gamma subunit family; Region: SoxG; cl01893 350054008248 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 350054008249 N-methyltryptophan oxidase; Provisional; Region: solA; PRK11259 350054008250 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 350054008251 hydroxyglutarate oxidase; Provisional; Region: PRK11728 350054008252 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 350054008253 Rieske non-heme iron oxygenase (RO) family, N-terminal Rieske domain of the oxygenase alpha subunit; The RO family comprise a large class of aromatic ring-hydroxylating dioxygenases found predominantly in microorganisms. These enzymes enable...; Region: Rieske_RO_Alpha_N; cd03469 350054008254 [2Fe-2S] cluster binding site [ion binding]; other site 350054008255 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 350054008256 hydrophobic ligand binding site; other site 350054008257 Bacillus subtilis NAD+-dependent betaine aldehyde dehydrogenase-like; Region: ALDH_BADH-GbsA; cd07119 350054008258 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 350054008259 tetramerization interface [polypeptide binding]; other site 350054008260 NAD(P) binding site [chemical binding]; other site 350054008261 catalytic residues [active] 350054008262 permease, urea carboxylase system; Region: ureacarb_perm; TIGR03428 350054008263 choline dehydrogenase; Validated; Region: PRK02106 350054008264 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 350054008265 Predicted signal-transduction protein containing cAMP-binding and CBS domains [Signal transduction mechanisms]; Region: COG2905 350054008266 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 350054008267 ligand binding site [chemical binding]; other site 350054008268 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 350054008269 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 350054008270 metal binding triad; other site 350054008271 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 350054008272 Transcriptional regulator [Transcription]; Region: IclR; COG1414 350054008273 Bacterial transcriptional regulator; Region: IclR; pfam01614 350054008274 Alpha/beta hydrolase; Region: Abhydrolase_8; pfam06259 350054008275 proteasome accessory factor PafA; Region: pupylate_PafA; TIGR03686 350054008276 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 350054008277 S-adenosylmethionine binding site [chemical binding]; other site 350054008278 Predicted transcriptional regulator [Transcription]; Region: COG2378 350054008279 WYL domain; Region: WYL; pfam13280 350054008280 Predicted transcriptional regulator [Transcription]; Region: COG2378 350054008281 M protein trans-acting positive regulator (MGA) HTH domain; Region: HTH_Mga; pfam08280 350054008282 WYL domain; Region: WYL; pfam13280 350054008283 twin arginine translocase protein A; Provisional; Region: tatA; PRK00575 350054008284 mttA/Hcf106 family; Region: MttA_Hcf106; pfam02416 350054008285 Twin arginine targeting (Tat) protein translocase TatC; Region: tatC; TIGR00945 350054008286 Superfamily II RNA helicase [DNA replication, recombination, and repair]; Region: COG4581 350054008287 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 350054008288 ATP binding site [chemical binding]; other site 350054008289 putative Mg++ binding site [ion binding]; other site 350054008290 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 350054008291 nucleotide binding region [chemical binding]; other site 350054008292 ATP-binding site [chemical binding]; other site 350054008293 DSHCT (NUC185) domain; Region: DSHCT; pfam08148 350054008294 Domain of unknown function (DUF4333); Region: DUF4333; pfam14230 350054008295 5'-3' exonuclease; Region: 53EXOc; smart00475 350054008296 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 350054008297 active site 350054008298 metal binding site 1 [ion binding]; metal-binding site 350054008299 putative 5' ssDNA interaction site; other site 350054008300 metal binding site 3; metal-binding site 350054008301 metal binding site 2 [ion binding]; metal-binding site 350054008302 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 350054008303 putative DNA binding site [nucleotide binding]; other site 350054008304 putative metal binding site [ion binding]; other site 350054008305 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 350054008306 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 350054008307 Similar to Prolidase and Aminopeptidase P. The members of this subfamily presumably catalyse hydrolysis of Xaa-Pro dipeptides and/or release of any N-terminal amino acid, including proline, that is linked with proline; Region: APP-like; cd01092 350054008308 active site 350054008309 PPOX class probable F420-dependent enzyme; Region: Rv1155_F420; TIGR03618 350054008310 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 350054008311 classical (c) SDRs; Region: SDR_c; cd05233 350054008312 NAD(P) binding site [chemical binding]; other site 350054008313 active site 350054008314 Precorrin-6Y methyltransferase, the cobalamin biosynthesis enzyme CbiE; Region: Precorrin-6Y-methylase; cd11644 350054008315 putative homodimer interface [polypeptide binding]; other site 350054008316 active site 350054008317 SAM binding site [chemical binding]; other site 350054008318 Precorrin-6B methylase 2 [Coenzyme metabolism]; Region: CobL; COG2242 350054008319 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 350054008320 S-adenosylmethionine binding site [chemical binding]; other site 350054008321 Phosphotransferase enzyme family; Region: APH; pfam01636 350054008322 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 350054008323 substrate binding site [chemical binding]; other site 350054008324 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 350054008325 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350054008326 Precorrin-2 C20-methyltransferase, also named CobI or CbiL; Region: Precorrin_2_C20_MT; cd11645 350054008327 active site 350054008328 SAM binding site [chemical binding]; other site 350054008329 homodimer interface [polypeptide binding]; other site 350054008330 Precorrin-3B C(17)-methyltransferase (CobJ/CbiH); Region: Precorrin_3B_C17_MT; cd11646 350054008331 active site 350054008332 SAM binding site [chemical binding]; other site 350054008333 homodimer interface [polypeptide binding]; other site 350054008334 precorrin-8X methylmutase; Reviewed; Region: cobH; PRK08285 350054008335 Precorrin-8X methylmutase; Region: CbiC; pfam02570 350054008336 precorrin-3B synthase; Region: CobG; TIGR02435 350054008337 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 350054008338 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 350054008339 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 350054008340 Clavaminic acid synthetase (CAS) -like; CAS is a trifunctional Fe(II)/ 2-oxoglutarate (2OG) oxygenase carrying out three reactions in the biosynthesis of clavulanic acid, an inhibitor of class A serine beta-lactamases. In general, Fe(II)-2OG oxygenases...; Region: CAS_like; cl00184 350054008341 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 350054008342 ABC-ATPase subunit interface; other site 350054008343 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 350054008344 ATP-binding cassette domain of the osmoprotectant transporter; Region: ABC_OpuCA_Osmoprotection; cd03295 350054008345 Walker A/P-loop; other site 350054008346 ATP binding site [chemical binding]; other site 350054008347 Q-loop/lid; other site 350054008348 ABC transporter signature motif; other site 350054008349 Walker B; other site 350054008350 D-loop; other site 350054008351 H-loop/switch region; other site 350054008352 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 350054008353 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 350054008354 dimer interface [polypeptide binding]; other site 350054008355 conserved gate region; other site 350054008356 putative PBP binding loops; other site 350054008357 ABC-ATPase subunit interface; other site 350054008358 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 350054008359 cobaltochelatase subunit CobN; Reviewed; Region: cobN; PRK05989 350054008360 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 350054008361 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 350054008362 PPOX class probable F420-dependent enzyme, Rv2061 family; Region: Rv2061_F420; TIGR03666 350054008363 PPOX class probable F420-dependent enzyme, Rv2061 family; Region: Rv2061_F420; TIGR03666 350054008364 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 350054008365 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 350054008366 active site 350054008367 Apolipoprotein N-acyltransferase [Cell envelope biogenesis, outer membrane]; Region: Lnt; COG0815 350054008368 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 350054008369 putative active site [active] 350054008370 catalytic triad [active] 350054008371 putative dimer interface [polypeptide binding]; other site 350054008372 DPM1_like represents putative enzymes similar to eukaryotic DPM1; Region: DPM1_like; cd06442 350054008373 Ligand binding site; other site 350054008374 Putative Catalytic site; other site 350054008375 DXD motif; other site 350054008376 Domain of unknown function (DUF4109); Region: DUF4109; pfam13397 350054008377 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 350054008378 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 350054008379 DNA binding site [nucleotide binding] 350054008380 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 350054008381 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 350054008382 Carboxylesterase type B [Lipid metabolism]; Region: PnbA; COG2272 350054008383 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 350054008384 substrate binding pocket [chemical binding]; other site 350054008385 catalytic triad [active] 350054008386 tyramine oxidase; Provisional; Region: tynA; PRK11504 350054008387 Copper amine oxidase, N2 domain; Region: Cu_amine_oxidN2; pfam02727 350054008388 Copper amine oxidase, N3 domain; Region: Cu_amine_oxidN3; pfam02728 350054008389 Copper amine oxidase, enzyme domain; Region: Cu_amine_oxid; pfam01179 350054008390 hypothetical protein; Provisional; Region: PRK02237 350054008391 Domain of unknown function (DUF4333); Region: DUF4333; pfam14230 350054008392 Domain of unknown function (DUF4333); Region: DUF4333; pfam14230 350054008393 Domain of unknown function (DUF4333); Region: DUF4333; pfam14230 350054008394 Predicted membrane protein [Function unknown]; Region: COG2259 350054008395 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 350054008396 enoyl-CoA hydratase; Provisional; Region: PRK08260 350054008397 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 350054008398 substrate binding site [chemical binding]; other site 350054008399 oxyanion hole (OAH) forming residues; other site 350054008400 trimer interface [polypeptide binding]; other site 350054008401 Threonine/homoserine efflux transporter [Amino acid transport and metabolism]; Region: rhtA; COG5006 350054008402 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 350054008403 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 350054008404 dimer interface [polypeptide binding]; other site 350054008405 conserved gate region; other site 350054008406 putative PBP binding loops; other site 350054008407 ABC-ATPase subunit interface; other site 350054008408 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 350054008409 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 350054008410 dimer interface [polypeptide binding]; other site 350054008411 conserved gate region; other site 350054008412 putative PBP binding loops; other site 350054008413 ABC-ATPase subunit interface; other site 350054008414 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 350054008415 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 350054008416 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 350054008417 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 350054008418 Walker A/P-loop; other site 350054008419 ATP binding site [chemical binding]; other site 350054008420 Q-loop/lid; other site 350054008421 ABC transporter signature motif; other site 350054008422 Walker B; other site 350054008423 D-loop; other site 350054008424 H-loop/switch region; other site 350054008425 TOBE domain; Region: TOBE_2; pfam08402 350054008426 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cd07812 350054008427 hydrophobic ligand binding site; other site 350054008428 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 350054008429 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 350054008430 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 350054008431 homodimer interface [polypeptide binding]; other site 350054008432 homotetramer interface [polypeptide binding]; other site 350054008433 active site pocket [active] 350054008434 cleavage site 350054008435 TspO/MBR family; Region: TspO_MBR; pfam03073 350054008436 Thioesterase-like superfamily; Region: 4HBT_3; pfam13622 350054008437 Siderophore-interacting protein [Inorganic ion transport and metabolism]; Region: ViuB; COG2375 350054008438 Siderophore interacting proteins share the domain structure of the ferredoxin reductase like family. Siderophores are produced in various bacteria (and some plants) to extract iron from hosts. Binding constants are high, so iron can be pilfered from...; Region: siderophore_interacting; cd06193 350054008439 FAD binding pocket [chemical binding]; other site 350054008440 FAD binding motif [chemical binding]; other site 350054008441 phosphate binding motif [ion binding]; other site 350054008442 NAD binding pocket [chemical binding]; other site 350054008443 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 350054008444 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 350054008445 SnoaL-like domain; Region: SnoaL_2; pfam12680 350054008446 Glutathione-dependent formaldehyde dehydrogenase related proteins, child 1; Region: FDH_like_1; cd08283 350054008447 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 350054008448 NAD binding site [chemical binding]; other site 350054008449 catalytic Zn binding site [ion binding]; other site 350054008450 structural Zn binding site [ion binding]; other site 350054008451 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cd07812 350054008452 hydrophobic ligand binding site; other site 350054008453 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 350054008454 amidase catalytic site [active] 350054008455 Zn binding residues [ion binding]; other site 350054008456 substrate binding site [chemical binding]; other site 350054008457 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 350054008458 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 350054008459 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350054008460 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 350054008461 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 350054008462 NAD(P) binding site [chemical binding]; other site 350054008463 active site 350054008464 Ecdysteroid kinase; Region: EcKinase; cl17738 350054008465 Phosphotransferase enzyme family; Region: APH; pfam01636 350054008466 Ferredoxin [Energy production and conversion]; Region: COG1146 350054008467 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 350054008468 Succinate dehydrogenase/fumarate reductase, flavoprotein subunit [Energy production and conversion]; Region: SdhA; COG1053 350054008469 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 350054008470 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 350054008471 Walker A/P-loop; other site 350054008472 ATP binding site [chemical binding]; other site 350054008473 Q-loop/lid; other site 350054008474 ABC transporter signature motif; other site 350054008475 Walker B; other site 350054008476 D-loop; other site 350054008477 H-loop/switch region; other site 350054008478 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 350054008479 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 350054008480 dimer interface [polypeptide binding]; other site 350054008481 conserved gate region; other site 350054008482 putative PBP binding loops; other site 350054008483 ABC-ATPase subunit interface; other site 350054008484 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 350054008485 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cl17432 350054008486 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 350054008487 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 350054008488 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 350054008489 dimerization interface [polypeptide binding]; other site 350054008490 putative DNA binding site [nucleotide binding]; other site 350054008491 putative Zn2+ binding site [ion binding]; other site 350054008492 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 350054008493 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK08217 350054008494 NAD(P) binding site [chemical binding]; other site 350054008495 active site 350054008496 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 350054008497 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 350054008498 substrate binding pocket [chemical binding]; other site 350054008499 membrane-bound complex binding site; other site 350054008500 hinge residues; other site 350054008501 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 350054008502 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 350054008503 dimer interface [polypeptide binding]; other site 350054008504 conserved gate region; other site 350054008505 putative PBP binding loops; other site 350054008506 ABC-ATPase subunit interface; other site 350054008507 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 350054008508 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 350054008509 Walker A/P-loop; other site 350054008510 ATP binding site [chemical binding]; other site 350054008511 Q-loop/lid; other site 350054008512 ABC transporter signature motif; other site 350054008513 Walker B; other site 350054008514 D-loop; other site 350054008515 H-loop/switch region; other site 350054008516 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 350054008517 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 350054008518 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 350054008519 ABC-ATPase subunit interface; other site 350054008520 dimer interface [polypeptide binding]; other site 350054008521 putative PBP binding regions; other site 350054008522 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 350054008523 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 350054008524 ABC-type metal ion transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: LraI; COG0803 350054008525 Metal binding protein PsaA. These proteins have been shown to function as initial receptors in ABC transport of Mn2+ and as surface adhesins in some eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins that...; Region: PsaA; cd01137 350054008526 metal binding site [ion binding]; metal-binding site 350054008527 L-Hydantoinases (L-HYDs) and Allantoinase (ALN); L-Hydantoinases are a member of the dihydropyrimidinase family, which catalyzes the reversible hydrolytic ring opening of dihydropyrimidines and hydantoins (five-membered cyclic diamides used in...; Region: L-HYD_ALN; cd01315 350054008528 allantoinase; Region: allantoinase; TIGR03178 350054008529 active site 350054008530 uncharacterized nucleobase-cation-symport-1 (NCS1) transporter subfamily; solute-binding domain; Region: SLC-NCS1sbd_u1; cd11555 350054008531 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 350054008532 Na binding site [ion binding]; other site 350054008533 putative substrate binding site [chemical binding]; other site 350054008534 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 350054008535 hypothetical protein; Provisional; Region: PRK11171 350054008536 Cupin domain; Region: Cupin_2; pfam07883 350054008537 Cupin domain; Region: Cupin_2; cl17218 350054008538 HpcH/HpaI aldolase/citrate lyase family; Region: HpcH_HpaI; cl17231 350054008539 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 350054008540 Transcriptional regulator [Transcription]; Region: IclR; COG1414 350054008541 Bacterial transcriptional regulator; Region: IclR; pfam01614 350054008542 tryptophan synthase subunit beta; Reviewed; Region: PRK12391 350054008543 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 350054008544 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 350054008545 catalytic residue [active] 350054008546 Cutinase; Region: Cutinase; pfam01083 350054008547 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 350054008548 dimerization interface [polypeptide binding]; other site 350054008549 putative DNA binding site [nucleotide binding]; other site 350054008550 putative Zn2+ binding site [ion binding]; other site 350054008551 heavy metal-(Cd/Co/Hg/Pb/Zn)-translocating P-type ATPase; Region: ATPase-IB2_Cd; TIGR01512 350054008552 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 350054008553 Soluble P-type ATPase [General function prediction only]; Region: COG4087 350054008554 Predicted permease, cadmium resistance protein [Inorganic ion transport and metabolism]; Region: CadD; COG4300 350054008555 Cadmium resistance transporter; Region: Cad; pfam03596 350054008556 TniQ; Region: TniQ; pfam06527 350054008557 AAA domain; Region: AAA_22; pfam13401 350054008558 Bacterial TniB protein; Region: TniB; pfam05621 350054008559 Integrase core domain; Region: rve; pfam00665 350054008560 Mu transposase, C-terminal; Region: Mu-transpos_C; pfam09299 350054008561 Macro domain, Appr-1"-pase_like family. The macro domain is a high-affinity ADP-ribose binding module found in a variety of proteins as a stand-alone domain or in combination with other domains like in histone macroH2A and some PARPs (poly...; Region: Macro_Appr_pase_like; cd02908 350054008562 putative ADP-ribose binding site [chemical binding]; other site 350054008563 putative active site [active] 350054008564 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 350054008565 HTH-like domain; Region: HTH_21; pfam13276 350054008566 Integrase core domain; Region: rve; pfam00665 350054008567 Integrase core domain; Region: rve_3; pfam13683 350054008568 Transposase, Mutator family; Region: Transposase_mut; pfam00872 350054008569 MULE transposase domain; Region: MULE; pfam10551 350054008570 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 350054008571 G1 box; other site 350054008572 GTP/Mg2+ binding site [chemical binding]; other site 350054008573 G2 box; other site 350054008574 Switch I region; other site 350054008575 G3 box; other site 350054008576 Switch II region; other site 350054008577 YfjP GTPase; Region: YfjP; cd11383 350054008578 G1 box; other site 350054008579 GTP/Mg2+ binding site [chemical binding]; other site 350054008580 Switch I region; other site 350054008581 G2 box; other site 350054008582 Switch II region; other site 350054008583 G3 box; other site 350054008584 G4 box; other site 350054008585 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 350054008586 G1 box; other site 350054008587 GTP/Mg2+ binding site [chemical binding]; other site 350054008588 G2 box; other site 350054008589 Switch I region; other site 350054008590 G3 box; other site 350054008591 Switch II region; other site 350054008592 putative transposase OrfB; Reviewed; Region: PHA02517 350054008593 Integrase core domain; Region: rve; pfam00665 350054008594 Integrase core domain; Region: rve_3; cl15866 350054008595 McrBC 5-methylcytosine restriction system component; Region: McrBC; cl01737 350054008596 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 350054008597 Walker A motif; other site 350054008598 ATP binding site [chemical binding]; other site 350054008599 Walker B motif; other site 350054008600 arginine finger; other site 350054008601 Lhr-like helicases [General function prediction only]; Region: Lhr; COG1201 350054008602 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 350054008603 ATP binding site [chemical binding]; other site 350054008604 putative Mg++ binding site [ion binding]; other site 350054008605 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 350054008606 nucleotide binding region [chemical binding]; other site 350054008607 ATP-binding site [chemical binding]; other site 350054008608 P-loop Domain of unknown function (DUF2791); Region: DUF2791; pfam10923 350054008609 PglZ domain; Region: PglZ; pfam08665 350054008610 Protein of unknown function (DUF499); Region: DUF499; pfam04465 350054008611 Methyltransferase domain; Region: Methyltransf_26; pfam13659 350054008612 Nuclease-related domain; Region: NERD; pfam08378 350054008613 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 350054008614 Catalytic domain of Protein Kinases; Region: PKc; cd00180 350054008615 active site 350054008616 ATP binding site [chemical binding]; other site 350054008617 substrate binding site [chemical binding]; other site 350054008618 activation loop (A-loop); other site 350054008619 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 350054008620 non-specific DNA binding site [nucleotide binding]; other site 350054008621 salt bridge; other site 350054008622 sequence-specific DNA binding site [nucleotide binding]; other site 350054008623 Cytotoxic translational repressor of toxin-antitoxin stability system [Translation, ribosomal structure and biogenesis / Cell division and chromosome partitioning]; Region: RelE; COG2026 350054008624 PIN domain of the hypothetical protein MT3492 of Mycobacterium tuberculosis CDC1551 and other uncharacterized, annotated PilT protein domain proteins; Region: PIN_MT3492; cd09874 350054008625 putative active site [active] 350054008626 Cadmium resistance transporter; Region: Cad; pfam03596 350054008627 Helix-Turn-Helix DNA binding domain of Heavy Metal Resistance transcription regulators; Region: HTH_HMRTR; cd04770 350054008628 Zn(II)-responsive transcriptional regulator; Region: ZntR; TIGR02043 350054008629 DNA binding residues [nucleotide binding] 350054008630 dimer interface [polypeptide binding]; other site 350054008631 metal binding site [ion binding]; metal-binding site 350054008632 mercuric reductase; Region: MerA; TIGR02053 350054008633 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 350054008634 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 350054008635 alkylmercury lyase; Provisional; Region: PRK13239 350054008636 Helix-turn-helix domain of alkylmercury lyase; Region: HTH_15; pfam12324 350054008637 Alkylmercury lyase; Region: MerB; pfam03243 350054008638 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 350054008639 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 350054008640 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 350054008641 Bacterial TniB protein; Region: TniB; pfam05621 350054008642 AAA domain; Region: AAA_22; pfam13401 350054008643 putative transposase OrfB; Reviewed; Region: PHA02517 350054008644 HTH-like domain; Region: HTH_21; pfam13276 350054008645 Integrase core domain; Region: rve; pfam00665 350054008646 Integrase core domain; Region: rve_3; pfam13683 350054008647 Integrase core domain; Region: rve; pfam00665 350054008648 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 350054008649 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 350054008650 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350054008651 Uncharacterized conserved protein related to dihydrodipicolinate reductase [Function unknown]; Region: COG3804 350054008652 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 350054008653 YaeQ protein; Region: YaeQ; pfam07152 350054008654 Luciferase-like monooxygenase; Region: Bac_luciferase; pfam00296 350054008655 N5,N10-methylenetetrahydromethanopterin reductase (Mer) catalyzes the reduction of N5,N10-methylenetetrahydromethanopterin with reduced coenzyme F420 to N5-methyltetrahydromethanopterin and oxidized coenzyme F420; Region: Tetrahydromethanopterin_reductase; cd01097 350054008656 choline dehydrogenase; Validated; Region: PRK02106 350054008657 lycopene cyclase; Region: lycopene_cycl; TIGR01789 350054008658 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 350054008659 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 350054008660 RibD C-terminal domain; Region: RibD_C; cl17279 350054008661 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_7; cd07825 350054008662 putative hydrophobic ligand binding site [chemical binding]; other site 350054008663 Putative hydrophobic ligand-binding SRPBCC domain of Micromonospora echinospora CalC, human Aha1, and related proteins; Region: SRPBCC_CalC_Aha1-like; cd07814 350054008664 putative hydrophobic ligand binding site [chemical binding]; other site 350054008665 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 350054008666 dimerization interface [polypeptide binding]; other site 350054008667 putative DNA binding site [nucleotide binding]; other site 350054008668 putative Zn2+ binding site [ion binding]; other site 350054008669 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 350054008670 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 350054008671 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 350054008672 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350054008673 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 350054008674 RNA binding surface [nucleotide binding]; other site 350054008675 Predicted esterase [General function prediction only]; Region: COG0627 350054008676 Pyruvate kinase, alpha/beta domain; Region: PK_C; pfam02887 350054008677 Protein of unknown function (DUF3253); Region: DUF3253; pfam11625 350054008678 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 350054008679 S-adenosylmethionine binding site [chemical binding]; other site 350054008680 Protein of unknown function (DUF664); Region: DUF664; pfam04978 350054008681 DinB superfamily; Region: DinB_2; pfam12867 350054008682 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 350054008683 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 350054008684 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 350054008685 acyl-activating enzyme (AAE) consensus motif; other site 350054008686 acyl-activating enzyme (AAE) consensus motif; other site 350054008687 AMP binding site [chemical binding]; other site 350054008688 active site 350054008689 CoA binding site [chemical binding]; other site 350054008690 probable F420-dependent oxidoreductase, MSMEG_3544 family; Region: F420_MSMEG_3544; TIGR03854 350054008691 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 350054008692 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 350054008693 Uncharacterized conserved protein [Function unknown]; Region: COG1434 350054008694 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 350054008695 putative active site [active] 350054008696 PE-PPE domain; Region: PE-PPE; pfam08237 350054008697 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 350054008698 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350054008699 Uncharacterized protein conserved in bacteria (DUF2236); Region: DUF2236; pfam09995 350054008700 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 350054008701 NlpC/P60 family; Region: NLPC_P60; pfam00877 350054008702 Peroxiredoxin (PRX) family, Atypical 2-cys PRX subfamily; composed of PRXs containing peroxidatic and resolving cysteines, similar to the homodimeric thiol specific antioxidant (TSA) protein also known as TRX-dependent thiol peroxidase (Tpx). Tpx is a...; Region: PRX_Atyp2cys; cd03014 350054008703 dimer interface [polypeptide binding]; other site 350054008704 catalytic triad [active] 350054008705 peroxidatic and resolving cysteines [active] 350054008706 Bacterial protein of unknown function (DUF899); Region: DUF899; pfam05988 350054008707 Putative transcription activator [Transcription]; Region: TenA; COG0819 350054008708 hypothetical protein; Validated; Region: PRK07198 350054008709 GTP cyclohydrolase N terminal; Region: GTP_CH_N; pfam12471 350054008710 GTP cyclohydrolase II (RibA). GTP cyclohydrolase II catalyzes the conversion of GTP to 2,5-diamino-6-ribosylamino-4(3H)-pyrimidinone 5' phosphate, formate, pyrophosphate (APy), and GMP in the biosynthetic pathway of riboflavin. Riboflavin is the...; Region: GTP_cyclohydro2; cd00641 350054008711 dimerization interface [polypeptide binding]; other site 350054008712 active site 350054008713 Protein of unknown function (DUF1688); Region: DUF1688; pfam07958 350054008714 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 350054008715 active site 350054008716 Members of the ICL/PEPM enzyme family catalyze either P-C or C-C bond formation/cleavage. Known members are phosphoenolpyruvate mutase (PEPM), phosphonopyruvate hydrolase (PPH), carboxyPEP mutase (CPEP mutase), oxaloacetate hydrolase (OAH), isocitrate...; Region: ICL_PEPM; cd00377 350054008717 tetramer interface [polypeptide binding]; other site 350054008718 active site 350054008719 Mg2+/Mn2+ binding site [ion binding]; other site 350054008720 Members of the ICL/PEPM_KPHMT enzyme superfamily catalyze the formation and cleavage of either P-C or C-C bonds. Typical members are phosphoenolpyruvate mutase (PEPM), phosphonopyruvate hydrolase (PPH), carboxyPEP mutase (CPEP mutase), oxaloacetate...; Region: ICL_KPHMT; cl00435 350054008721 O-succinylbenzoate synthase; Provisional; Region: PRK02901 350054008722 O-succinylbenzoate synthase; Provisional; Region: PRK02901 350054008723 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 350054008724 catalytic triad [active] 350054008725 Arterivirus envelope protein; Region: Arteri_env; pfam01606 350054008726 Truncated hemoglobins (trHbs) are a family of oxygen-binding heme proteins found in cyanobacteria, eubacteria, unicellular eukaryotes, and plants. The truncated hemoglobins have a characteristic two-over-two alpha helical folding pattern that is distinct...; Region: Trunc_globin; cd00454 350054008727 apolar tunnel; other site 350054008728 heme binding site [chemical binding]; other site 350054008729 dimerization interface [polypeptide binding]; other site 350054008730 Stress responsive A/B Barrel Domain; Region: Dabb; cl17744 350054008731 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cd00229 350054008732 active site 350054008733 catalytic triad [active] 350054008734 oxyanion hole [active] 350054008735 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 350054008736 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 350054008737 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 350054008738 active site 350054008739 phosphorylation site [posttranslational modification] 350054008740 intermolecular recognition site; other site 350054008741 dimerization interface [polypeptide binding]; other site 350054008742 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 350054008743 CHASE3 domain; Region: CHASE3; pfam05227 350054008744 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 350054008745 dimer interface [polypeptide binding]; other site 350054008746 phosphorylation site [posttranslational modification] 350054008747 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 350054008748 ATP binding site [chemical binding]; other site 350054008749 Mg2+ binding site [ion binding]; other site 350054008750 G-X-G motif; other site 350054008751 Response regulator receiver domain; Region: Response_reg; pfam00072 350054008752 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 350054008753 active site 350054008754 phosphorylation site [posttranslational modification] 350054008755 intermolecular recognition site; other site 350054008756 dimerization interface [polypeptide binding]; other site 350054008757 Type I phosphodiesterase / nucleotide pyrophosphatase; Region: Phosphodiest; pfam01663 350054008758 NlpC/P60 family; Region: NLPC_P60; cl17555 350054008759 hypothetical protein; Validated; Region: PRK02101 350054008760 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 350054008761 competence damage-inducible protein A; Provisional; Region: PRK00549 350054008762 MoCF_BD: molybdenum cofactor (MoCF) binding domain (BD). This domain is found a variety of proteins involved in biosynthesis of molybdopterin cofactor, like MoaB, MogA, and MoeA. The domain is presumed to bind molybdopterin; Region: MoCF_BD; cl00451 350054008763 Competence-damaged protein; Region: CinA; pfam02464 350054008764 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 350054008765 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 350054008766 NAD(P) binding site [chemical binding]; other site 350054008767 active site 350054008768 Uncharacterized conserved protein related to dihydrodipicolinate reductase [Function unknown]; Region: COG3804 350054008769 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 350054008770 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 350054008771 Sulphate Transporter and Anti-Sigma factor antagonist) domain of anti-anti-sigma factors, key regulators of anti-sigma factors by phosphorylation; Region: STAS_anti-anti-sigma_factors; cd07043 350054008772 anti sigma factor interaction site; other site 350054008773 regulatory phosphorylation site [posttranslational modification]; other site 350054008774 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 350054008775 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 350054008776 Nitronate monooxygenase; Region: NMO; pfam03060 350054008777 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 350054008778 FMN binding site [chemical binding]; other site 350054008779 substrate binding site [chemical binding]; other site 350054008780 putative catalytic residue [active] 350054008781 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 350054008782 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350054008783 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 350054008784 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 350054008785 molybdopterin cofactor binding site; other site 350054008786 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 350054008787 Molybdopterin-Binding, C-terminal (MopB_CT) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum-...; Region: MopB_CT; cl09929 350054008788 molybdopterin cofactor binding site; other site 350054008789 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 350054008790 Cytochrome P450; Region: p450; cl12078 350054008791 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 350054008792 sequence-specific DNA binding site [nucleotide binding]; other site 350054008793 salt bridge; other site 350054008794 Mycobacterium 19 kDa lipoprotein antigen; Region: Myco_19_kDa; pfam05481 350054008795 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 350054008796 CoA binding site [chemical binding]; other site 350054008797 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 350054008798 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 350054008799 substrate binding site; other site 350054008800 tetramer interface; other site 350054008801 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 350054008802 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 350054008803 NAD binding site [chemical binding]; other site 350054008804 substrate binding site [chemical binding]; other site 350054008805 homodimer interface [polypeptide binding]; other site 350054008806 active site 350054008807 dTDP-4-dehydrorhamnose 3,5-epimerase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfbC; COG1898 350054008808 dTDP-4-dehydrorhamnose reductase [Cell envelope biogenesis, outer membrane]; Region: RfbD; COG1091 350054008809 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 350054008810 NADP binding site [chemical binding]; other site 350054008811 active site 350054008812 putative substrate binding site [chemical binding]; other site 350054008813 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 350054008814 IgD-like repeat domain of mycobacterial L,D-transpeptidases; Region: LDT_IgD_like_1; cd13431 350054008815 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 350054008816 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 350054008817 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 350054008818 tetramer interface [polypeptide binding]; other site 350054008819 pyridoxal 5'-phosphate binding site [chemical binding]; other site 350054008820 catalytic residue [active] 350054008821 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 350054008822 active site 350054008823 agmatinase; Region: agmatinase; TIGR01230 350054008824 Agmatinase-like family; Region: Agmatinase-like; cd09990 350054008825 active site 350054008826 oligomer interface [polypeptide binding]; other site 350054008827 Mn binding site [ion binding]; other site 350054008828 Mycolic acid cyclopropane synthetase; Region: CMAS; pfam02353 350054008829 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 350054008830 S-adenosylmethionine binding site [chemical binding]; other site 350054008831 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 350054008832 Cytochrome P450; Region: p450; cl12078 350054008833 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 350054008834 This family is most closely related to the GT1 family of glycosyltransferases. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can...; Region: GT1_like_2; cd03814 350054008835 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 350054008836 N-acyl-D-aspartate/D-glutamate deacylase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3653 350054008837 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 350054008838 SnoaL-like domain; Region: SnoaL_2; pfam12680 350054008839 N-acyl-D-aspartate/D-glutamate deacylase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3653 350054008840 D-aminoacylases (N-acyl-D-Amino acid amidohydrolases) catalyze the hydrolysis of N-acyl-D-amino acids to produce the corresponding D-amino acids, which are used as intermediates in the synthesis of pesticides, bioactive peptides, and antibiotics; Region: D-aminoacylase; cd01297 350054008841 active site 350054008842 putative substrate binding pocket [chemical binding]; other site 350054008843 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 350054008844 Putative hydrophobic ligand-binding SRPBCC domain of Micromonospora echinospora CalC, human Aha1, and related proteins; Region: SRPBCC_CalC_Aha1-like; cd07814 350054008845 putative hydrophobic ligand binding site [chemical binding]; other site 350054008846 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 350054008847 dimerization interface [polypeptide binding]; other site 350054008848 putative DNA binding site [nucleotide binding]; other site 350054008849 putative Zn2+ binding site [ion binding]; other site 350054008850 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 350054008851 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 350054008852 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 350054008853 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 350054008854 Major Facilitator Superfamily; Region: MFS_1; pfam07690 350054008855 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 350054008856 putative substrate translocation pore; other site 350054008857 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 350054008858 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 350054008859 heme binding site [chemical binding]; other site 350054008860 ferroxidase pore; other site 350054008861 ferroxidase diiron center [ion binding]; other site 350054008862 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 350054008863 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 350054008864 substrate binding site [chemical binding]; other site 350054008865 oxyanion hole (OAH) forming residues; other site 350054008866 trimer interface [polypeptide binding]; other site 350054008867 TIGR01666 family membrane protein; Region: YCCS 350054008868 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 350054008869 CoenzymeA binding site [chemical binding]; other site 350054008870 subunit interaction site [polypeptide binding]; other site 350054008871 PHB binding site; other site 350054008872 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 350054008873 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350054008874 TPR repeat; Region: TPR_11; pfam13414 350054008875 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 350054008876 binding surface 350054008877 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 350054008878 binding surface 350054008879 TPR motif; other site 350054008880 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 350054008881 nucleoside/Zn binding site; other site 350054008882 dimer interface [polypeptide binding]; other site 350054008883 catalytic motif [active] 350054008884 Alpha amylase catalytic domain found in bacterial cyclomaltodextrinases and related proteins; Region: AmyAc_bac_CMD_like; cd11354 350054008885 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 350054008886 active site 350054008887 catalytic site [active] 350054008888 Protein of unknown function (DUF1810); Region: DUF1810; pfam08837 350054008889 Putative esterase; Region: Esterase; pfam00756 350054008890 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 350054008891 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 350054008892 Walker A motif; other site 350054008893 ATP binding site [chemical binding]; other site 350054008894 Walker B motif; other site 350054008895 arginine finger; other site 350054008896 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 350054008897 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 350054008898 minor groove reading motif; other site 350054008899 helix-hairpin-helix signature motif; other site 350054008900 malate dehydrogenase; Provisional; Region: PRK05442 350054008901 NAD-dependent, lactate dehydrogenase-like, 2-hydroxycarboxylate dehydrogenase family; Region: LDH_MDH_like; cl17195 350054008902 NAD(P) binding site [chemical binding]; other site 350054008903 LDH/MDH dimer interface [polypeptide binding]; other site 350054008904 substrate binding site [chemical binding]; other site 350054008905 acetyl-CoA acetyltransferase; Validated; Region: PRK08257 350054008906 Thiolase domain associated with sterol carrier protein (SCP)-x isoform and related proteins; SCP-2 has multiple roles in intracellular lipid circulation and metabolism. The N-terminal presequence in the SCP-x isoform represents a peroxisomal...; Region: SCP-x_thiolase; cd00829 350054008907 active site 350054008908 putative phosphoketolase; Provisional; Region: PRK05261 350054008909 Thiamine pyrophosphate (TPP) family, Phosphoketolase (PK) subfamily, TPP-binding module; PK catalyzes the conversion of D-xylulose 5-phosphate and phosphate to acetyl phosphate, D-glyceraldehyde-3-phosphate and H2O. This enzyme requires divalent...; Region: TPP_PK; cd02011 350054008910 TPP-binding site; other site 350054008911 Src Homology 3 domain superfamily; Region: SH3; cl17036 350054008912 peptide ligand binding site [polypeptide binding]; other site 350054008913 XFP C-terminal domain; Region: XFP_C; pfam09363 350054008914 CAAX protease self-immunity; Region: Abi; pfam02517 350054008915 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD2; cd08298 350054008916 zinc-binding alcohol dehydrogenase family protein; Region: adh_fam_2; TIGR02822 350054008917 putative NAD(P) binding site [chemical binding]; other site 350054008918 putative substrate binding site [chemical binding]; other site 350054008919 catalytic Zn binding site [ion binding]; other site 350054008920 structural Zn binding site [ion binding]; other site 350054008921 Transglycosylase associated protein; Region: Transgly_assoc; cl00978 350054008922 Fibronectin-attachment protein (FAP); Region: FAP; pfam07174 350054008923 3-ketoacyl-(acyl-carrier-protein) reductase; Reviewed; Region: PRK12826 350054008924 classical (c) SDRs; Region: SDR_c; cd05233 350054008925 NAD(P) binding site [chemical binding]; other site 350054008926 active site 350054008927 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 350054008928 probable F420-dependent oxidoreductase, Rv1855c family; Region: F420_Rv1855c; TIGR03560 350054008929 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 350054008930 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 350054008931 UreD urease accessory protein; Region: UreD; cl00530 350054008932 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 350054008933 Urease accessory protein UreF [Posttranslational modification, protein turnover, chaperones]; Region: UreF; COG0830 350054008934 urease subunit alpha; Reviewed; Region: ureC; PRK13206 350054008935 Urease alpha-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, fungi and plants. Their primary role is to allow the use of...; Region: Urease_alpha; cd00375 350054008936 subunit interactions [polypeptide binding]; other site 350054008937 active site 350054008938 flap region; other site 350054008939 Urease beta-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, archaea, fungi and plants. Their primary role is to allow the use of...; Region: Urease_beta; cd00407 350054008940 gamma-beta subunit interface [polypeptide binding]; other site 350054008941 alpha-beta subunit interface [polypeptide binding]; other site 350054008942 Urease gamma-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, archaea, fungi and plants. Their primary role is to allow the use...; Region: Urease_gamma; cd00390 350054008943 alpha-gamma subunit interface [polypeptide binding]; other site 350054008944 beta-gamma subunit interface [polypeptide binding]; other site 350054008945 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 350054008946 CoenzymeA binding site [chemical binding]; other site 350054008947 subunit interaction site [polypeptide binding]; other site 350054008948 PHB binding site; other site 350054008949 Predicted transcriptional regulator [Transcription]; Region: COG3682 350054008950 Zn-dependent protease with chaperone function [Posttranslational modification, protein turnover, chaperones]; Region: HtpX; COG0501 350054008951 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 350054008952 6-phosphogluconate dehydrogenase; Validated; Region: PRK09287 350054008953 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 350054008954 inosine 5-monophosphate dehydrogenase; Validated; Region: PRK07807 350054008955 IMP dehydrogenase/GMP reductase [Nucleotide transport and metabolism]; Region: GuaB; COG0516 350054008956 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 350054008957 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 350054008958 active site 350054008959 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 350054008960 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 350054008961 Walker A/P-loop; other site 350054008962 ATP binding site [chemical binding]; other site 350054008963 Q-loop/lid; other site 350054008964 ABC transporter signature motif; other site 350054008965 Walker B; other site 350054008966 D-loop; other site 350054008967 H-loop/switch region; other site 350054008968 TOBE domain; Region: TOBE_2; pfam08402 350054008969 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 350054008970 dimer interface [polypeptide binding]; other site 350054008971 conserved gate region; other site 350054008972 ABC-ATPase subunit interface; other site 350054008973 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 350054008974 dimer interface [polypeptide binding]; other site 350054008975 conserved gate region; other site 350054008976 putative PBP binding loops; other site 350054008977 ABC-ATPase subunit interface; other site 350054008978 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 350054008979 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 350054008980 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 350054008981 Domain of unknown function DUF21; Region: DUF21; pfam01595 350054008982 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 350054008983 Transporter associated domain; Region: CorC_HlyC; smart01091 350054008984 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 350054008985 Domain of unknown function DUF21; Region: DUF21; pfam01595 350054008986 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 350054008987 Malate synthase G (MSG), monomeric enzyme present in some bacteria. In general, malate synthase catalyzes the Claisen condensation of glyoxylate and acetyl-CoA to malyl-CoA , which hydrolyzes to malate and CoA. This reaction is part of the glyoxylate...; Region: malate_synt_G; cd00728 350054008988 active site 350054008989 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 350054008990 metal ion-dependent adhesion site (MIDAS); other site 350054008991 Alkane hydroxylase is a bacterial, integral-membrane di-iron enzyme that shares a requirement for iron and oxygen for activity similar to that of the non-heme integral-membrane acyl coenzyme A (CoA) desaturases and acyl lipid desaturases. The alk genes...; Region: Alkane-hydroxylase; cd03512 350054008992 Fatty acid desaturase; Region: FA_desaturase; pfam00487 350054008993 Di-iron ligands [ion binding]; other site 350054008994 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 350054008995 classical (c) SDRs; Region: SDR_c; cd05233 350054008996 NAD(P) binding site [chemical binding]; other site 350054008997 active site 350054008998 PE-PPE domain; Region: PE-PPE; pfam08237 350054008999 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 350054009000 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 350054009001 Cutinase; Region: Cutinase; pfam01083 350054009002 PE-PPE domain; Region: PE-PPE; pfam08237 350054009003 O-Methyltransferase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3315 350054009004 Leucine carboxyl methyltransferase; Region: LCM; pfam04072 350054009005 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 350054009006 Cytochrome P450; Region: p450; cl12078 350054009007 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 350054009008 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 350054009009 PE-PPE domain; Region: PE-PPE; pfam08237 350054009010 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 350054009011 methyl indole-3-acetate methyltransferase; Region: PLN02211; cl17657 350054009012 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 350054009013 N5,N10-methylenetetrahydromethanopterin reductase (Mer) catalyzes the reduction of N5,N10-methylenetetrahydromethanopterin with reduced coenzyme F420 to N5-methyltetrahydromethanopterin and oxidized coenzyme F420; Region: Tetrahydromethanopterin_reductase; cd01097 350054009014 Nitroreductase family; Region: Nitroreductase; pfam00881 350054009015 FMN binding site [chemical binding]; other site 350054009016 dimer interface [polypeptide binding]; other site 350054009017 Protein of unknown function (DUF2505); Region: DUF2505; pfam10698 350054009018 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 350054009019 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 350054009020 O-Methyltransferase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3315 350054009021 Leucine carboxyl methyltransferase; Region: LCM; pfam04072 350054009022 acyltransferase PapA5; Provisional; Region: PRK09294 350054009023 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 350054009024 ABC-2 type transporter; Region: ABC2_membrane; cl17235 350054009025 ABC-2 type transporter; Region: ABC2_membrane; cl17235 350054009026 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 350054009027 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 350054009028 daunorubicin resistance ABC transporter ATP-binding subunit; Region: drrA; TIGR01188 350054009029 Walker A/P-loop; other site 350054009030 ATP binding site [chemical binding]; other site 350054009031 Q-loop/lid; other site 350054009032 ABC transporter signature motif; other site 350054009033 Walker B; other site 350054009034 D-loop; other site 350054009035 H-loop/switch region; other site 350054009036 Beta-ketoacyl synthase; Region: PKS_KS; smart00825 350054009037 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 350054009038 active site 350054009039 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 350054009040 Acyl transferase domain in polyketide synthase (PKS) enzymes; Region: PKS_AT; smart00827 350054009041 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 350054009042 Condensation domain; Region: Condensation; pfam00668 350054009043 non-ribosomal peptide synthase domain TIGR01720; Region: NRPS-para261 350054009044 Polyketide synthase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3321 350054009045 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 350054009046 active site 350054009047 Acyl transferase domain in polyketide synthase (PKS) enzymes; Region: PKS_AT; smart00827 350054009048 Dehydratase domain in polyketide synthase (PKS) enzymes; Region: PKS_DH; smart00826 350054009049 beta-ketoacyl reductase (KR) domain of fatty acid synthase (FAS), subgroup 2, complex (x); Region: KR_2_FAS_SDR_x; cd08955 350054009050 KR domain; Region: KR; pfam08659 350054009051 putative NADP binding site [chemical binding]; other site 350054009052 active site 350054009053 Phosphopantetheine attachment site; Region: PKS_PP; smart00823 350054009054 Polyketide synthase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3321 350054009055 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 350054009056 active site 350054009057 Acyl transferase domain in polyketide synthase (PKS) enzymes; Region: PKS_AT; smart00827 350054009058 beta-ketoacyl reductase (KR) domain of fatty acid synthase (FAS), subgroup 2, complex (x); Region: KR_2_FAS_SDR_x; cd08955 350054009059 KR domain; Region: KR; pfam08659 350054009060 putative NADP binding site [chemical binding]; other site 350054009061 active site 350054009062 Dehydratase domain in polyketide synthase (PKS) enzymes; Region: PKS_DH; smart00826 350054009063 Phosphopantetheine attachment site; Region: PKS_PP; smart00823 350054009064 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 350054009065 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 350054009066 Beta-ketoacyl synthase; Region: PKS_KS; smart00825 350054009067 active site 350054009068 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 350054009069 Acyl transferase domain in polyketide synthase (PKS) enzymes; Region: PKS_AT; smart00827 350054009070 beta-ketoacyl reductase (KR) domain of fatty acid synthase (FAS), subgroup 2, complex (x); Region: KR_2_FAS_SDR_x; cd08955 350054009071 KR domain; Region: KR; pfam08659 350054009072 putative NADP binding site [chemical binding]; other site 350054009073 active site 350054009074 Phosphopantetheine attachment site; Region: PKS_PP; smart00823 350054009075 acyl-CoA synthetase; Validated; Region: PRK05850 350054009076 Fatty acyl-AMP ligase (FAAL); Region: FAAL; cd05931 350054009077 acyl-activating enzyme (AAE) consensus motif; other site 350054009078 active site 350054009079 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 350054009080 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 350054009081 Beta-ketoacyl synthase; Region: PKS_KS; smart00825 350054009082 active site 350054009083 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 350054009084 Acyl transferase domain in polyketide synthase (PKS) enzymes; Region: PKS_AT; smart00827 350054009085 beta-ketoacyl reductase (KR) domain of fatty acid synthase (FAS), subgroup 2, complex (x); Region: KR_2_FAS_SDR_x; cd08955 350054009086 putative NADP binding site [chemical binding]; other site 350054009087 KR domain; Region: KR; pfam08659 350054009088 active site 350054009089 Phosphopantetheine attachment site; Region: PKS_PP; smart00823 350054009090 acyl-CoA synthetase; Validated; Region: PRK05850 350054009091 Fatty acyl-AMP ligase (FAAL); Region: FAAL; cd05931 350054009092 acyl-activating enzyme (AAE) consensus motif; other site 350054009093 active site 350054009094 Predicted thioesterase involved in non-ribosomal peptide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: GrsT; COG3208 350054009095 glycine dehydrogenase; Provisional; Region: PRK05367 350054009096 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 350054009097 pyridoxal 5'-phosphate binding site [chemical binding]; other site 350054009098 tetramer interface [polypeptide binding]; other site 350054009099 catalytic residue [active] 350054009100 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 350054009101 tetramer interface [polypeptide binding]; other site 350054009102 pyridoxal 5'-phosphate binding site [chemical binding]; other site 350054009103 catalytic residue [active] 350054009104 Helix-Turn-Helix DNA binding domain of GlnR-like transcription regulators; Region: HTH_GlnR-like; cd01105 350054009105 DNA binding residues [nucleotide binding] 350054009106 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 350054009107 putative dimer interface [polypeptide binding]; other site 350054009108 Bifunctional nuclease; Region: DNase-RNase; pfam02577 350054009109 Helix-Turn-Helix DNA binding domain of MerR-like transcription regulators; Region: HTH_MerR-like; cd00592 350054009110 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 350054009111 DNA binding residues [nucleotide binding] 350054009112 chaperone-modulator protein CbpM; Provisional; Region: PRK10265 350054009113 FOG: FHA domain [Signal transduction mechanisms]; Region: COG1716 350054009114 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cd00060 350054009115 phosphopeptide binding site; other site 350054009116 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 350054009117 lipoyl attachment site [posttranslational modification]; other site 350054009118 Bacterial protein of unknown function (DUF881); Region: DUF881; pfam05949 350054009119 Protein of unknown function (DUF1290); Region: DUF1290; pfam06947 350054009120 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3879 350054009121 Bacterial protein of unknown function (DUF881); Region: DUF881; pfam05949 350054009122 Phosphatidylglycerophosphate synthase [Lipid metabolism]; Region: PgsA; COG0558 350054009123 preprotein translocase subunit SecA; Reviewed; Region: PRK12326 350054009124 SecA preprotein cross-linking domain; Region: SecA_PP_bind; pfam01043 350054009125 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 350054009126 nucleotide binding region [chemical binding]; other site 350054009127 ATP-binding site [chemical binding]; other site 350054009128 ABC-type uncharacterized transport system, permease and ATPase components [General function prediction only]; Region: COG4178 350054009129 ABC transporter transmembrane region 2; Region: ABC_membrane_2; cl00549 350054009130 ATP-binding cassette domain of peroxisomal transporter, subfamily D; Region: ABCD_peroxisomal_ALDP; cd03223 350054009131 ABC-type uncharacterized transport system, permease and ATPase components [General function prediction only]; Region: COG4178 350054009132 ABC transporter transmembrane region 2; Region: ABC_membrane_2; cl00549 350054009133 ATP-binding cassette domain of peroxisomal transporter, subfamily D; Region: ABCD_peroxisomal_ALDP; cd03223 350054009134 hypothetical protein; Validated; Region: PRK07121 350054009135 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 350054009136 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 350054009137 active site 350054009138 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 350054009139 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350054009140 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 350054009141 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 350054009142 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 350054009143 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 350054009144 Carboxylesterase type B [Lipid metabolism]; Region: PnbA; COG2272 350054009145 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 350054009146 substrate binding pocket [chemical binding]; other site 350054009147 catalytic triad [active] 350054009148 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 350054009149 Major Facilitator Superfamily; Region: MFS_1; pfam07690 350054009150 4-alpha-glucanotransferase; Provisional; Region: malQ; PRK11052 350054009151 4-alpha-glucanotransferase [Carbohydrate transport and metabolism]; Region: MalQ; COG1640 350054009152 Domain of unknown function (DUF222); Region: DUF222; pfam02720 350054009153 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cd00085 350054009154 active site 350054009155 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG3687 350054009156 Predicted metal-dependent hydrolase; Region: Metal_hydrol; pfam10118 350054009157 Phthalate dioxygenase reductase (PDR) is an FMN-dependent reductase that mediates electron transfer from NADH to FMN to an iron sulfur cluster. PDR has an an N-terminal ferrredoxin reductase (FNR)-like NAD(H) binding domain and a C-terminal iron-sulfur; Region: PDR_like; cd06185 350054009158 HCP oxidoreductase, NADH-dependent; Provisional; Region: PRK10684 350054009159 FMN-binding pocket [chemical binding]; other site 350054009160 flavin binding motif; other site 350054009161 phosphate binding motif [ion binding]; other site 350054009162 beta-alpha-beta structure motif; other site 350054009163 NAD binding pocket [chemical binding]; other site 350054009164 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 350054009165 catalytic loop [active] 350054009166 iron binding site [ion binding]; other site 350054009167 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 350054009168 Catalytic domain of Protein Kinases; Region: PKc; cd00180 350054009169 active site 350054009170 ATP binding site [chemical binding]; other site 350054009171 substrate binding site [chemical binding]; other site 350054009172 activation loop (A-loop); other site 350054009173 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 350054009174 nudix motif; other site 350054009175 Nuclear transport factor 2 (NTF2) domain; Region: NTF2; pfam02136 350054009176 Mycobacterium membrane protein; Region: Mycobact_memb; pfam05423 350054009177 Predicted drug exporters of the RND superfamily [General function prediction only]; Region: COG2409 350054009178 Protein of unknown function (DUF732); Region: DUF732; pfam05305 350054009179 Protein of unknown function (DUF2782); Region: DUF2782; pfam11191 350054009180 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 350054009181 D-galactonate transporter; Region: 2A0114; TIGR00893 350054009182 putative substrate translocation pore; other site 350054009183 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 350054009184 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 350054009185 active site 350054009186 ethanolamine permease; Region: 2A0305; TIGR00908 350054009187 PknH-like extracellular domain; Region: PknH_C; pfam14032 350054009188 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 350054009189 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 350054009190 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 350054009191 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 350054009192 RNA binding site [nucleotide binding]; other site 350054009193 thiamine pyrophosphate protein; Provisional; Region: PRK08273 350054009194 Pyrimidine (PYR) binding domain of POX; Region: TPP_PYR_POX; cd07039 350054009195 PYR/PP interface [polypeptide binding]; other site 350054009196 dimer interface [polypeptide binding]; other site 350054009197 tetramer interface [polypeptide binding]; other site 350054009198 TPP binding site [chemical binding]; other site 350054009199 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 350054009200 Thiamine pyrophosphate (TPP) family, Pyruvate oxidase (POX) subfamily, TPP-binding module; composed of proteins similar to Lactobacillus plantarum POX, which plays a key role in controlling acetate production under aerobic conditions. POX decarboxylates...; Region: TPP_POX; cd02014 350054009201 TPP-binding site [chemical binding]; other site 350054009202 hydroperoxidase II; Provisional; Region: katE; PRK11249 350054009203 Catalase-like heme-binding proteins and protein domains; Region: catalase_like; cl09506 350054009204 heme binding pocket [chemical binding]; other site 350054009205 Type 1 glutamine amidotransferase (GATase1)-like domain found in at the C-terminal of several large catalases; Region: GATase1_catalase; cd03132 350054009206 domain interactions; other site 350054009207 PAS fold; Region: PAS_3; pfam08447 350054009208 ANTAR (AmiR and NasR transcription antitermination regulators) is an RNA-binding domain found in bacterial transcription antitermination regulatory proteins; Region: ANTAR; smart01012 350054009209 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 350054009210 PhoU domain; Region: PhoU; pfam01895 350054009211 PhoU domain; Region: PhoU; pfam01895 350054009212 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 350054009213 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 350054009214 Sulphate Transporter and Anti-Sigma factor antagonist) domain of anti-anti-sigma factors, key regulators of anti-sigma factors by phosphorylation; Region: STAS_anti-anti-sigma_factors; cd07043 350054009215 anti sigma factor interaction site; other site 350054009216 regulatory phosphorylation site [posttranslational modification]; other site 350054009217 catalase/hydroperoxidase HPI(I); Provisional; Region: PRK15061 350054009218 Heme-dependent peroxidases similar to plant peroxidases; Region: plant_peroxidase_like; cl00196 350054009219 heme binding site [chemical binding]; other site 350054009220 C-terminal non-catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_2; cd08200 350054009221 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 350054009222 metal binding site 2 [ion binding]; metal-binding site 350054009223 putative DNA binding helix; other site 350054009224 metal binding site 1 [ion binding]; metal-binding site 350054009225 dimer interface [polypeptide binding]; other site 350054009226 structural Zn2+ binding site [ion binding]; other site 350054009227 Acyltransferase family; Region: Acyl_transf_3; pfam01757 350054009228 Monomeric isocitrate dehydrogenase [Energy production and conversion]; Region: Icd; COG2838 350054009229 Monomeric isocitrate dehydrogenase; Region: IDH; cl15383 350054009230 Sulfatase; Region: Sulfatase; cl17466 350054009231 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 350054009232 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 350054009233 Methyltransferase domain; Region: Methyltransf_11; pfam08241 350054009234 Methylene-tetrahydrofolate reductase C terminal; Region: MTHFR_C; pfam12225 350054009235 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; cl00246 350054009236 FAD binding site [chemical binding]; other site 350054009237 Cobalt transport protein; Region: CbiQ; cl00463 350054009238 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 350054009239 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 350054009240 Walker A/P-loop; other site 350054009241 ATP binding site [chemical binding]; other site 350054009242 Q-loop/lid; other site 350054009243 ABC transporter signature motif; other site 350054009244 Walker B; other site 350054009245 D-loop; other site 350054009246 H-loop/switch region; other site 350054009247 BioY family; Region: BioY; pfam02632 350054009248 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 350054009249 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 350054009250 short chain dehydrogenase; Provisional; Region: PRK05866 350054009251 classical (c) SDRs; Region: SDR_c; cd05233 350054009252 NAD(P) binding site [chemical binding]; other site 350054009253 active site 350054009254 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 350054009255 EamA-like transporter family; Region: EamA; pfam00892 350054009256 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 350054009257 Low molecular weight phosphatase family; Region: LMWPc; cl00105 350054009258 active site 350054009259 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 350054009260 arsenical-resistance protein; Region: acr3; TIGR00832 350054009261 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_20; cd07254 350054009262 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 350054009263 putative metal binding site [ion binding]; other site 350054009264 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 350054009265 dimerization interface [polypeptide binding]; other site 350054009266 putative DNA binding site [nucleotide binding]; other site 350054009267 putative Zn2+ binding site [ion binding]; other site 350054009268 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 350054009269 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 350054009270 Beta-lactamase; Region: Beta-lactamase; pfam00144 350054009271 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 350054009272 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350054009273 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 350054009274 Cytochrome P450; Region: p450; cl12078 350054009275 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 350054009276 Transposase; Region: DDE_Tnp_ISL3; pfam01610 350054009277 Domain of unknown function (DUF222); Region: DUF222; pfam02720 350054009278 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cd00085 350054009279 active site 350054009280 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 350054009281 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 350054009282 metal binding site [ion binding]; metal-binding site 350054009283 active site 350054009284 I-site; other site 350054009285 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 350054009286 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 350054009287 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 350054009288 NAD(P) binding site [chemical binding]; other site 350054009289 Sulfotransferase domain; Region: Sulfotransfer_1; pfam00685 350054009290 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 350054009291 classical (c) SDRs; Region: SDR_c; cd05233 350054009292 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 350054009293 NAD(P) binding site [chemical binding]; other site 350054009294 active site 350054009295 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3226 350054009296 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350054009297 Uncharacterized conserved protein (DUF2249); Region: DUF2249; pfam10006 350054009298 Predicted transcriptional regulator [Transcription]; Region: COG2345 350054009299 Helix-turn-helix domain; Region: HTH_20; pfam12840 350054009300 Cupredoxin-like domain; Region: Cupredoxin_1; cl17234 350054009301 nitrite reductase, copper-containing; Region: Cu_nitrite_red; TIGR02376 350054009302 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 350054009303 Uncharacterized protein related to deoxyribodipyrimidine photolyase [General function prediction only]; Region: COG3046 350054009304 Deoxyribodipyrimidine photo-lyase-related protein; Region: DPRP; pfam04244 350054009305 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 350054009306 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 350054009307 GTP-binding protein Der; Reviewed; Region: PRK03003 350054009308 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 350054009309 G1 box; other site 350054009310 GTP/Mg2+ binding site [chemical binding]; other site 350054009311 Switch I region; other site 350054009312 G2 box; other site 350054009313 Switch II region; other site 350054009314 G3 box; other site 350054009315 G4 box; other site 350054009316 G5 box; other site 350054009317 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 350054009318 G1 box; other site 350054009319 GTP/Mg2+ binding site [chemical binding]; other site 350054009320 Switch I region; other site 350054009321 G2 box; other site 350054009322 G3 box; other site 350054009323 Switch II region; other site 350054009324 G4 box; other site 350054009325 G5 box; other site 350054009326 cytidylate kinase; Provisional; Region: cmk; PRK00023 350054009327 Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates...; Region: NK; cl17190 350054009328 active site 350054009329 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 350054009330 CMP-binding site; other site 350054009331 The sites determining sugar specificity; other site 350054009332 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 350054009333 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 350054009334 RNA binding surface [nucleotide binding]; other site 350054009335 Pseudouridine synthases, RsuA subfamily; Region: PseudoU_synth_RsuA_like; cd02870 350054009336 active site 350054009337 Putative transcriptional regulators (Ypuh-like); Region: DUF387; pfam04079 350054009338 Rec8/ScpA/Scc1-like protein (kleisin family) [Replication, recombination, and repair]; Region: scpA; COG1354 350054009339 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 350054009340 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 350054009341 P-loop; other site 350054009342 Magnesium ion binding site [ion binding]; other site 350054009343 Predicted O-methyltransferase [General function prediction only]; Region: COG4122 350054009344 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 350054009345 S-adenosylmethionine binding site [chemical binding]; other site 350054009346 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 350054009347 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 350054009348 active site 350054009349 DNA binding site [nucleotide binding] 350054009350 Int/Topo IB signature motif; other site 350054009351 nudix-type nucleoside diphosphatase, YffH/AdpP family; Region: TIGR00052 350054009352 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 350054009353 dimer interface [polypeptide binding]; other site 350054009354 ADP-ribose binding site [chemical binding]; other site 350054009355 active site 350054009356 nudix motif; other site 350054009357 metal binding site [ion binding]; metal-binding site 350054009358 CTP synthetase; Validated; Region: pyrG; PRK05380 350054009359 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 350054009360 Catalytic site [active] 350054009361 active site 350054009362 UTP binding site [chemical binding]; other site 350054009363 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 350054009364 active site 350054009365 putative oxyanion hole; other site 350054009366 catalytic triad [active] 350054009367 Protein of unknown function (DUF3186); Region: DUF3186; pfam11382 350054009368 Uncharacterized membrane-anchored protein conserved in bacteria [Function unknown]; Region: COG4825 350054009369 Thiamine pyrophosphokinase; Region: TPK; cl08415 350054009370 Thiamine pyrophosphokinase C terminal; Region: TPPK_C; pfam12555 350054009371 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 350054009372 active site 350054009373 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 350054009374 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350054009375 DNA repair protein RecN; Region: recN; TIGR00634 350054009376 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 350054009377 Walker A/P-loop; other site 350054009378 ATP binding site [chemical binding]; other site 350054009379 Q-loop/lid; other site 350054009380 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 350054009381 ABC transporter signature motif; other site 350054009382 Walker B; other site 350054009383 D-loop; other site 350054009384 H-loop/switch region; other site 350054009385 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK03372 350054009386 ATP-NAD kinase; Region: NAD_kinase; pfam01513 350054009387 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 350054009388 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 350054009389 RNA binding surface [nucleotide binding]; other site 350054009390 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 350054009391 S-adenosylmethionine binding site [chemical binding]; other site 350054009392 Predicted sugar phosphatases of the HAD superfamily [Carbohydrate transport and metabolism]; Region: NagD; COG0647 350054009393 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 350054009394 active site 350054009395 motif I; other site 350054009396 motif II; other site 350054009397 HAD-hyrolase-like; Region: Hydrolase_like; pfam13242 350054009398 FOG: TPR repeat [General function prediction only]; Region: NrfG; COG0457 350054009399 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 350054009400 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 350054009401 active site 350054009402 HIGH motif; other site 350054009403 dimer interface [polypeptide binding]; other site 350054009404 KMSKS motif; other site 350054009405 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 350054009406 RNA binding surface [nucleotide binding]; other site 350054009407 3-methyladenine DNA glycosylase; Reviewed; Region: PRK00802 350054009408 Uncharacterized conserved protein [Function unknown]; Region: COG2835 350054009409 acyl-CoA synthetase; Validated; Region: PRK07868 350054009410 PHB de-polymerase C-terminus; Region: PHB_depo_C; pfam06850 350054009411 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 350054009412 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 350054009413 active site 350054009414 CoA binding site [chemical binding]; other site 350054009415 AMP binding site [chemical binding]; other site 350054009416 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 350054009417 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 350054009418 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 350054009419 Domain of unknown function (DUF4352); Region: DUF4352; pfam11611 350054009420 argininosuccinate lyase; Provisional; Region: PRK00855 350054009421 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 350054009422 active sites [active] 350054009423 tetramer interface [polypeptide binding]; other site 350054009424 argininosuccinate synthase; Provisional; Region: PRK13820 350054009425 Argininosuccinate synthase. The Argininosuccinate synthase is a urea cycle enzyme that catalyzes the penultimate step in arginine biosynthesis: the ATP-dependent ligation of citrulline to aspartate to form argininosuccinate, AMP and pyrophosphate . In...; Region: Argininosuccinate_Synthase; cd01999 350054009426 ANP binding site [chemical binding]; other site 350054009427 Substrate Binding Site II [chemical binding]; other site 350054009428 Substrate Binding Site I [chemical binding]; other site 350054009429 Arginine repressor [Transcription]; Region: ArgR; COG1438 350054009430 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 350054009431 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 350054009432 ornithine carbamoyltransferase; Provisional; Region: PRK00779 350054009433 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 350054009434 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 350054009435 acetylornithine aminotransferase; Provisional; Region: argD; PRK03244 350054009436 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 350054009437 inhibitor-cofactor binding pocket; inhibition site 350054009438 pyridoxal 5'-phosphate binding site [chemical binding]; other site 350054009439 catalytic residue [active] 350054009440 AAK_NAGK-C: N-Acetyl-L-glutamate kinase - cyclic (NAGK-C) catalyzes the phosphorylation of the gamma-COOH group of N-acetyl-L-glutamate (NAG) by ATP in the second step of arginine biosynthesis found in some bacteria and photosynthetic organisms using the...; Region: AAK_NAGK-C; cd04250 350054009441 feedback inhibition sensing region; other site 350054009442 homohexameric interface [polypeptide binding]; other site 350054009443 nucleotide binding site [chemical binding]; other site 350054009444 N-acetyl-L-glutamate binding site [chemical binding]; other site 350054009445 Ornithine acetyltransferase (OAT) family; also referred to as ArgJ. OAT catalyzes the first and fifth steps in arginine biosynthesis, coupling acetylation of glutamate with deacetylation of N-acetylornithine, which allows recycling of the acetyl group in...; Region: OAT; cd02152 350054009446 heterotetramer interface [polypeptide binding]; other site 350054009447 active site pocket [active] 350054009448 cleavage site 350054009449 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 350054009450 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 350054009451 Predicted dehydrogenase [General function prediction only]; Region: COG0579 350054009452 hydroxyglutarate oxidase; Provisional; Region: PRK11728 350054009453 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 350054009454 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 350054009455 putative tRNA-binding site [nucleotide binding]; other site 350054009456 B3/4 domain; Region: B3_4; pfam03483 350054009457 tRNA synthetase B5 domain; Region: B5; smart00874 350054009458 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 350054009459 dimer interface [polypeptide binding]; other site 350054009460 motif 1; other site 350054009461 motif 3; other site 350054009462 motif 2; other site 350054009463 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; cl08386 350054009464 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 350054009465 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 350054009466 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 350054009467 dimer interface [polypeptide binding]; other site 350054009468 motif 1; other site 350054009469 active site 350054009470 motif 2; other site 350054009471 motif 3; other site 350054009472 Bestrophin, RFP-TM, chloride channel; Region: Bestrophin; cl01544 350054009473 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 350054009474 cyclase homology domain; Region: CHD; cd07302 350054009475 nucleotidyl binding site; other site 350054009476 metal binding site [ion binding]; metal-binding site 350054009477 dimer interface [polypeptide binding]; other site 350054009478 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3662 350054009479 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 350054009480 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 350054009481 active site 350054009482 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 350054009483 classical (c) SDRs; Region: SDR_c; cd05233 350054009484 NAD(P) binding site [chemical binding]; other site 350054009485 active site 350054009486 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 350054009487 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 350054009488 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 350054009489 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 350054009490 23S rRNA binding site [nucleotide binding]; other site 350054009491 L21 binding site [polypeptide binding]; other site 350054009492 L13 binding site [polypeptide binding]; other site 350054009493 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 350054009494 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 350054009495 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 350054009496 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 350054009497 lysyl-tRNA synthetase; Provisional; Region: lysS; PRK02983 350054009498 Uncharacterized conserved protein (DUF2156); Region: DUF2156; pfam09924 350054009499 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 350054009500 dimer interface [polypeptide binding]; other site 350054009501 putative anticodon binding site; other site 350054009502 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 350054009503 motif 1; other site 350054009504 dimer interface [polypeptide binding]; other site 350054009505 active site 350054009506 motif 2; other site 350054009507 motif 3; other site 350054009508 Predicted esterase [General function prediction only]; Region: COG0627 350054009509 Phage shock protein A (IM30), suppresses sigma54-dependent transcription [Transcription / Signal transduction mechanisms]; Region: PspA; COG1842 350054009510 Protein of unknown function (DUF1006); Region: DUF1006; pfam06224 350054009511 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 350054009512 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 350054009513 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 350054009514 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 350054009515 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 350054009516 fructose-1,6-bisphosphate aldolase; Reviewed; Region: PRK05377 350054009517 catalytic residue [active] 350054009518 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 350054009519 Ligand Binding Site [chemical binding]; other site 350054009520 Cutinase; Region: Cutinase; pfam01083 350054009521 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 350054009522 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 350054009523 excinuclease ABC subunit B; Provisional; Region: PRK05298 350054009524 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 350054009525 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 350054009526 nucleotide binding region [chemical binding]; other site 350054009527 ATP-binding site [chemical binding]; other site 350054009528 Ultra-violet resistance protein B; Region: UvrB; pfam12344 350054009529 UvrB/uvrC motif; Region: UVR; pfam02151 350054009530 Protein of unknown function (DUF402); Region: DUF402; cl00979 350054009531 dephospho-CoA kinase/protein folding accessory domain-containing protein; Provisional; Region: coaE; PRK03333 350054009532 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 350054009533 CoA-binding site [chemical binding]; other site 350054009534 ATP-binding [chemical binding]; other site 350054009535 Uncharacterized protein family (UPF0157); Region: UPF0157; pfam04229 350054009536 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK07899 350054009537 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 350054009538 RNA binding site [nucleotide binding]; other site 350054009539 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 350054009540 RNA binding site [nucleotide binding]; other site 350054009541 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 350054009542 RNA binding site [nucleotide binding]; other site 350054009543 S1_RPS1_repeat_hs4: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_hs4; cd05692 350054009544 RNA binding site [nucleotide binding]; other site 350054009545 Protease prsW family; Region: PrsW-protease; pfam13367 350054009546 Thioesterase-like superfamily; Region: 4HBT_3; pfam13622 350054009547 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 350054009548 Thioesterase II (TEII) is thought to regenerate misprimed nonribosomal peptide synthetases (NRPSs) as well as modular polyketide synthases (PKSs) by hydrolyzing acetyl groups bound to the peptidyl carrier protein (PCP) and acyl carrier protein (ACP)...; Region: Thioesterase_II; cd00556 350054009549 active site 350054009550 dimer interface [polypeptide binding]; other site 350054009551 DNA polymerase I; Provisional; Region: PRK05755 350054009552 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 350054009553 active site 350054009554 metal binding site 1 [ion binding]; metal-binding site 350054009555 putative 5' ssDNA interaction site; other site 350054009556 metal binding site 3; metal-binding site 350054009557 metal binding site 2 [ion binding]; metal-binding site 350054009558 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 350054009559 putative DNA binding site [nucleotide binding]; other site 350054009560 putative metal binding site [ion binding]; other site 350054009561 inactive DEDDy 3'-5' exonuclease domain of Bacillus stearothermophilus DNA polymerase I and similar family-A DNA polymerases; Region: DNA_polA_I_Bacillus_like_exo; cd06140 350054009562 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 350054009563 active site 350054009564 DNA binding site [nucleotide binding] 350054009565 catalytic site [active] 350054009566 DNA-binding transcriptional regulator CynR; Provisional; Region: PRK11242 350054009567 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 350054009568 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_3; cd08436 350054009569 putative dimerization interface [polypeptide binding]; other site 350054009570 methyl indole-3-acetate methyltransferase; Region: PLN02211; cl17657 350054009571 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 350054009572 Predicted nucleic-acid-binding protein containing a Zn-ribbon [General function prediction only]; Region: COG1545 350054009573 Rubredoxin-like zinc ribbon domain (DUF35_N); Region: DUF35_N; pfam12172 350054009574 DUF35 OB-fold domain; Region: DUF35; pfam01796 350054009575 lipid-transfer protein; Provisional; Region: PRK06059 350054009576 Thiolase domain associated with sterol carrier protein (SCP)-x isoform and related proteins; SCP-2 has multiple roles in intracellular lipid circulation and metabolism. The N-terminal presequence in the SCP-x isoform represents a peroxisomal...; Region: SCP-x_thiolase; cd00829 350054009577 active site 350054009578 Uncharacterized ACR, YggU family COG1872; Region: DUF167; pfam02594 350054009579 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 350054009580 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 350054009581 Walker A/P-loop; other site 350054009582 ATP binding site [chemical binding]; other site 350054009583 Q-loop/lid; other site 350054009584 ABC transporter signature motif; other site 350054009585 Walker B; other site 350054009586 D-loop; other site 350054009587 H-loop/switch region; other site 350054009588 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 350054009589 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 350054009590 Walker A/P-loop; other site 350054009591 ATP binding site [chemical binding]; other site 350054009592 Q-loop/lid; other site 350054009593 ABC transporter signature motif; other site 350054009594 Walker B; other site 350054009595 D-loop; other site 350054009596 H-loop/switch region; other site 350054009597 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 350054009598 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 350054009599 TM-ABC transporter signature motif; other site 350054009600 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 350054009601 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 350054009602 TM-ABC transporter signature motif; other site 350054009603 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 350054009604 Type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine); Region: PBP1_ABC_LIVBP_like; cd06342 350054009605 dimerization interface [polypeptide binding]; other site 350054009606 ligand binding site [chemical binding]; other site 350054009607 Response regulator with putative antiterminator output domain [Signal transduction mechanisms]; Region: AmiR; COG3707 350054009608 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 350054009609 active site 350054009610 phosphorylation site [posttranslational modification] 350054009611 intermolecular recognition site; other site 350054009612 dimerization interface [polypeptide binding]; other site 350054009613 ANTAR domain; Region: ANTAR; pfam03861 350054009614 Heme NO binding associated; Region: HNOBA; pfam07701 350054009615 Adenylyl- / guanylyl cyclase, catalytic domain; Region: CYCc; smart00044 350054009616 cyclase homology domain; Region: CHD; cd07302 350054009617 nucleotidyl binding site; other site 350054009618 metal binding site [ion binding]; metal-binding site 350054009619 dimer interface [polypeptide binding]; other site 350054009620 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 350054009621 Ferritin-like domain; Region: Ferritin; pfam00210 350054009622 dimerization interface [polypeptide binding]; other site 350054009623 DPS ferroxidase diiron center [ion binding]; other site 350054009624 ion pore; other site 350054009625 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 350054009626 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 350054009627 active site 350054009628 phosphorylation site [posttranslational modification] 350054009629 intermolecular recognition site; other site 350054009630 dimerization interface [polypeptide binding]; other site 350054009631 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 350054009632 DNA binding residues [nucleotide binding] 350054009633 dimerization interface [polypeptide binding]; other site 350054009634 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 350054009635 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 350054009636 ATP binding site [chemical binding]; other site 350054009637 Mg2+ binding site [ion binding]; other site 350054009638 G-X-G motif; other site 350054009639 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 350054009640 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 350054009641 Walker A/P-loop; other site 350054009642 ATP binding site [chemical binding]; other site 350054009643 Q-loop/lid; other site 350054009644 ABC transporter signature motif; other site 350054009645 Walker B; other site 350054009646 D-loop; other site 350054009647 H-loop/switch region; other site 350054009648 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 350054009649 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 350054009650 dimer interface [polypeptide binding]; other site 350054009651 conserved gate region; other site 350054009652 putative PBP binding loops; other site 350054009653 ABC-ATPase subunit interface; other site 350054009654 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 350054009655 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 350054009656 substrate binding pocket [chemical binding]; other site 350054009657 membrane-bound complex binding site; other site 350054009658 hinge residues; other site 350054009659 Uncharacterized conserved protein [Function unknown]; Region: HdeD; COG3247 350054009660 cytochrome d terminal oxidase subunit 1; Provisional; Region: PRK15097 350054009661 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 350054009662 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 350054009663 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 350054009664 thiol reductant ABC exporter, CydD subunit; Region: CydD; TIGR02857 350054009665 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 350054009666 Walker A/P-loop; other site 350054009667 ATP binding site [chemical binding]; other site 350054009668 Q-loop/lid; other site 350054009669 ABC transporter signature motif; other site 350054009670 Walker B; other site 350054009671 D-loop; other site 350054009672 H-loop/switch region; other site 350054009673 thiol reductant ABC exporter, CydC subunit; Region: CydC; TIGR02868 350054009674 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 350054009675 Walker A/P-loop; other site 350054009676 ATP binding site [chemical binding]; other site 350054009677 ABC transporter signature motif; other site 350054009678 Walker B; other site 350054009679 D-loop; other site 350054009680 H-loop/switch region; other site 350054009681 Acyl-CoA thioesterase [Lipid metabolism]; Region: TesB; COG1946 350054009682 Thioesterase II (TEII) is thought to regenerate misprimed nonribosomal peptide synthetases (NRPSs) as well as modular polyketide synthases (PKSs) by hydrolyzing acetyl groups bound to the peptidyl carrier protein (PCP) and acyl carrier protein (ACP)...; Region: Thioesterase_II_repeat2; cd03445 350054009683 active site 350054009684 Thioesterase II (TEII) is thought to regenerate misprimed nonribosomal peptide synthetases (NRPSs) as well as modular polyketide synthases (PKSs) by hydrolyzing acetyl groups bound to the peptidyl carrier protein (PCP) and acyl carrier protein (ACP)...; Region: Thioesterase_II_repeat1; cd03444 350054009685 catalytic triad [active] 350054009686 dimer interface [polypeptide binding]; other site 350054009687 pyruvate kinase; Provisional; Region: PRK06247 350054009688 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 350054009689 domain interfaces; other site 350054009690 active site 350054009691 glutamate synthase subunit beta; Reviewed; Region: gltD; PRK12810 350054009692 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 350054009693 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 350054009694 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 350054009695 active site 350054009696 dimer interface [polypeptide binding]; other site 350054009697 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 350054009698 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 350054009699 active site 350054009700 FMN binding site [chemical binding]; other site 350054009701 substrate binding site [chemical binding]; other site 350054009702 3Fe-4S cluster binding site [ion binding]; other site 350054009703 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 350054009704 domain interface; other site 350054009705 Protein of unknown function (DUF2752); Region: DUF2752; pfam10825 350054009706 Domain of unknown function (DUF222); Region: DUF222; pfam02720 350054009707 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cd00085 350054009708 active site 350054009709 Prolipoprotein diacylglyceryl transferase; Region: LGT; pfam01790 350054009710 tryptophan synthase alpha subunit; Provisional; Region: trpA; CHL00200 350054009711 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 350054009712 substrate binding site [chemical binding]; other site 350054009713 active site 350054009714 catalytic residues [active] 350054009715 heterodimer interface [polypeptide binding]; other site 350054009716 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 350054009717 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 350054009718 pyridoxal 5'-phosphate binding site [chemical binding]; other site 350054009719 catalytic residue [active] 350054009720 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 350054009721 active site 350054009722 ribulose/triose binding site [chemical binding]; other site 350054009723 phosphate binding site [ion binding]; other site 350054009724 substrate (anthranilate) binding pocket [chemical binding]; other site 350054009725 product (indole) binding pocket [chemical binding]; other site 350054009726 Tryptophan-associated transmembrane protein (Trp_oprn_chp); Region: Trp_oprn_chp; pfam09534 350054009727 anthranilate synthase component I; Provisional; Region: PRK13571 350054009728 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 350054009729 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 350054009730 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 350054009731 catalytic triad [active] 350054009732 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 350054009733 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 350054009734 Walker A/P-loop; other site 350054009735 ATP binding site [chemical binding]; other site 350054009736 Q-loop/lid; other site 350054009737 ABC transporter signature motif; other site 350054009738 Walker B; other site 350054009739 D-loop; other site 350054009740 H-loop/switch region; other site 350054009741 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 350054009742 phosphoribosyl-AMP cyclohydrolase; Reviewed; Region: hisI; PRK00051 350054009743 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 350054009744 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 350054009745 substrate binding site [chemical binding]; other site 350054009746 glutamase interaction surface [polypeptide binding]; other site 350054009747 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 350054009748 Inositol-monophosphatase-like domains. This family of phosphatases is dependent on bivalent metal ions such as Mg++, and many members are inhibited by Li+ (which is thought to displace a bivalent ion in the active site). Substrates include fructose-1; Region: IMPase_like; cd01637 350054009749 active site 350054009750 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 350054009751 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 350054009752 catalytic residues [active] 350054009753 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13146 350054009754 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 350054009755 putative active site [active] 350054009756 oxyanion strand; other site 350054009757 catalytic triad [active] 350054009758 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 350054009759 putative active site pocket [active] 350054009760 4-fold oligomerization interface [polypeptide binding]; other site 350054009761 metal binding residues [ion binding]; metal-binding site 350054009762 3-fold/trimer interface [polypeptide binding]; other site 350054009763 histidinol-phosphate aminotransferase; Provisional; Region: PRK03317 350054009764 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 350054009765 pyridoxal 5'-phosphate binding site [chemical binding]; other site 350054009766 homodimer interface [polypeptide binding]; other site 350054009767 catalytic residue [active] 350054009768 Histidinol dehydrogenase; Region: Histidinol_dh; pfam00815 350054009769 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 350054009770 NAD binding site [chemical binding]; other site 350054009771 dimerization interface [polypeptide binding]; other site 350054009772 product binding site; other site 350054009773 substrate binding site [chemical binding]; other site 350054009774 zinc binding site [ion binding]; other site 350054009775 catalytic residues [active] 350054009776 Domain of unknown function (DUF385); Region: DUF385; cl04387 350054009777 LysE type translocator; Region: LysE; cl00565 350054009778 nicotinate-nucleotide pyrophosphorylase; Provisional; Region: PRK07896 350054009779 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 350054009780 dimerization interface [polypeptide binding]; other site 350054009781 active site 350054009782 Aspartate oxidase [Coenzyme metabolism]; Region: NadB; COG0029 350054009783 L-aspartate oxidase; Provisional; Region: PRK06175 350054009784 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 350054009785 quinolinate synthetase; Provisional; Region: PRK09375 350054009786 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cd02883 350054009787 nudix motif; other site 350054009788 Uncharacterized conserved protein [General function prediction only]; Region: COG4111 350054009789 Secretory lipase; Region: LIP; pfam03583 350054009790 Protein of unknown function (DUF2567); Region: DUF2567; pfam10821 350054009791 biotin synthase; Validated; Region: PRK06256 350054009792 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 350054009793 FeS/SAM binding site; other site 350054009794 Biotin and Thiamin Synthesis associated domain; Region: BATS; pfam06968 350054009795 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350054009796 Tetracyclin repressor, C-terminal all-alpha domain; Region: TetR_C; pfam02909 350054009797 2'-5' RNA ligase superfamily; Region: 2_5_RNA_ligase2; pfam13563 350054009798 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 350054009799 8-amino-7-oxononanoate synthase; Reviewed; Region: PRK05958 350054009800 Aminotransferase class I and II; Region: Aminotran_1_2; pfam00155 350054009801 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 350054009802 catalytic residue [active] 350054009803 adenosylmethionine--8-amino-7-oxononanoate transaminase; Provisional; Region: PRK05964 350054009804 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 350054009805 inhibitor-cofactor binding pocket; inhibition site 350054009806 pyridoxal 5'-phosphate binding site [chemical binding]; other site 350054009807 catalytic residue [active] 350054009808 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 350054009809 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 350054009810 glycogen debranching enzyme GlgX; Region: glgX_debranch; TIGR02100 350054009811 N-terminal Early set domain associated with the catalytic domain of Glycogen debranching enzyme and bacterial isoamylase (also called glycogen 6-glucanohydrolase); Region: E_set_GDE_Isoamylase_N; cd02856 350054009812 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 350054009813 active site 350054009814 catalytic site [active] 350054009815 malto-oligosyltrehalose synthase; Region: trehalose_TreY; TIGR02401 350054009816 Alpha amylase catalytic domain found in maltooligosyl trehalose synthase (MTSase); Region: AmyAc_MTSase; cd11336 350054009817 active site 350054009818 catalytic site [active] 350054009819 malto-oligosyltrehalose trehalohydrolase; Region: trehalose_TreZ; TIGR02402 350054009820 N-terminal Early set domain associated with the catalytic domain of Maltooligosyl trehalose trehalohydrolase (also called Glycosyltrehalose trehalohydrolase) and similar proteins; Region: E_set_MTHase_like_N; cd02853 350054009821 Alpha amylase catalytic domain found in Glycosyltrehalose trehalohydrolase (also called Maltooligosyl trehalose Trehalohydrolase); Region: AmyAc_GTHase; cd11325 350054009822 catalytic site [active] 350054009823 active site 350054009824 Domain of unknown function (DUF3459); Region: DUF3459; pfam11941 350054009825 threonine dehydratase; Validated; Region: PRK08639 350054009826 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 350054009827 tetramer interface [polypeptide binding]; other site 350054009828 pyridoxal 5'-phosphate binding site [chemical binding]; other site 350054009829 catalytic residue [active] 350054009830 C-terminal regulatory domain of Threonine dehydratase; Region: Thr_dehydrat_C; pfam00585 350054009831 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 350054009832 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE3; Region: PHP_PolIIIA_DnaE3; cd12113 350054009833 active site 350054009834 PHP Thumb interface [polypeptide binding]; other site 350054009835 metal binding site [ion binding]; metal-binding site 350054009836 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 350054009837 generic binding surface II; other site 350054009838 generic binding surface I; other site 350054009839 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 350054009840 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350054009841 Predicted permeases [General function prediction only]; Region: RarD; COG2962 350054009842 pseudouridine synthase, RluA family; Region: rluA_subfam; TIGR00005 350054009843 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 350054009844 active site 350054009845 lipoprotein signal peptidase; Provisional; Region: PRK14764 350054009846 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 350054009847 active site 350054009848 homotetramer interface [polypeptide binding]; other site 350054009849 homodimer interface [polypeptide binding]; other site 350054009850 DNA polymerase IV; Provisional; Region: PRK03348 350054009851 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 350054009852 active site 350054009853 DNA binding site [nucleotide binding] 350054009854 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 350054009855 RNA binding surface [nucleotide binding]; other site 350054009856 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK06039 350054009857 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 350054009858 HIGH motif; other site 350054009859 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 350054009860 active site 350054009861 KMSKS motif; other site 350054009862 Anticodon-binding domain of archaeal, bacterial, and eukaryotic cytoplasmic isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_ABEc; cd07961 350054009863 tRNA binding surface [nucleotide binding]; other site 350054009864 anticodon binding site; other site 350054009865 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 350054009866 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 350054009867 Beta-lactamase; Region: Beta-lactamase; pfam00144 350054009868 membrane ATPase/protein kinase; Provisional; Region: PRK09435 350054009869 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 350054009870 Walker A; other site 350054009871 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 350054009872 G4 box; other site 350054009873 G5 box; other site 350054009874 methylmalonyl-CoA mutase; Reviewed; Region: PRK09426 350054009875 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 350054009876 active site 350054009877 substrate binding site [chemical binding]; other site 350054009878 coenzyme B12 binding site [chemical binding]; other site 350054009879 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 350054009880 B12 binding site [chemical binding]; other site 350054009881 cobalt ligand [ion binding]; other site 350054009882 methylmalonyl-CoA mutase, heterodimeric type, beta chain; Region: mmCoA_mut_beta; TIGR00642 350054009883 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 350054009884 heterodimer interface [polypeptide binding]; other site 350054009885 B12 binding domain (B12-BD). Most of the members bind different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide. This domain is found in several enzymes, such as glutamate mutase; Region: B12-binding_like; cl00293 350054009886 Uncharacterized conserved protein [Function unknown]; Region: COG0398 350054009887 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 350054009888 DoxX-like family; Region: DoxX_2; pfam13564 350054009889 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 350054009890 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 350054009891 Membrane protein implicated in regulation of membrane protease activity [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: COG1585 350054009892 ferrochelatase; Reviewed; Region: hemH; PRK00035 350054009893 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 350054009894 C-terminal domain interface [polypeptide binding]; other site 350054009895 active site 350054009896 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 350054009897 active site 350054009898 N-terminal domain interface [polypeptide binding]; other site 350054009899 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK07889 350054009900 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 350054009901 NAD binding site [chemical binding]; other site 350054009902 homotetramer interface [polypeptide binding]; other site 350054009903 homodimer interface [polypeptide binding]; other site 350054009904 substrate binding site [chemical binding]; other site 350054009905 active site 350054009906 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 350054009907 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 350054009908 NAD(P) binding site [chemical binding]; other site 350054009909 homotetramer interface [polypeptide binding]; other site 350054009910 homodimer interface [polypeptide binding]; other site 350054009911 active site 350054009912 hypothetical protein; Provisional; Region: PRK13685 350054009913 Aerotolerance regulator N-terminal; Region: BatA; cl06567 350054009914 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 350054009915 metal ion-dependent adhesion site (MIDAS); other site 350054009916 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 350054009917 Protein of unknown function DUF58; Region: DUF58; pfam01882 350054009918 MoxR-like ATPases [General function prediction only]; Region: COG0714 350054009919 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 350054009920 Walker A motif; other site 350054009921 ATP binding site [chemical binding]; other site 350054009922 Walker B motif; other site 350054009923 arginine finger; other site 350054009924 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 350054009925 NlpC/P60 family; Region: NLPC_P60; pfam00877 350054009926 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 350054009927 NlpC/P60 family; Region: NLPC_P60; pfam00877 350054009928 aconitate hydratase; Validated; Region: PRK09277 350054009929 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 350054009930 substrate binding site [chemical binding]; other site 350054009931 ligand binding site [chemical binding]; other site 350054009932 Aconitase A swivel domain. This is the major form of the TCA cycle enzyme aconitate hydratase, also known as aconitase and citrate hydro-lyase. It includes bacterial and archaeal aconitase A, and the eukaryotic cytosolic form of aconitase. This group...; Region: AcnA_IRP_Swivel; cd01580 350054009933 substrate binding site [chemical binding]; other site 350054009934 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 350054009935 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350054009936 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 350054009937 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 350054009938 Walker A/P-loop; other site 350054009939 ATP binding site [chemical binding]; other site 350054009940 Q-loop/lid; other site 350054009941 ABC transporter signature motif; other site 350054009942 Walker B; other site 350054009943 D-loop; other site 350054009944 H-loop/switch region; other site 350054009945 ABC transporter; Region: ABC_tran_2; pfam12848 350054009946 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 350054009947 enoyl-CoA hydratase; Provisional; Region: PRK05864 350054009948 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 350054009949 substrate binding site [chemical binding]; other site 350054009950 oxyanion hole (OAH) forming residues; other site 350054009951 trimer interface [polypeptide binding]; other site 350054009952 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 350054009953 catalytic residues [active] 350054009954 Predicted metal-sulfur cluster biosynthetic enzyme [General function prediction only]; Region: PaaD; COG2151 350054009955 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 350054009956 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 350054009957 trimerization site [polypeptide binding]; other site 350054009958 active site 350054009959 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 350054009960 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 350054009961 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 350054009962 catalytic residue [active] 350054009963 Cysteine desulfurase activator ATPase [Posttranslational modification, protein turnover, chaperones]; Region: sufC; COG0396 350054009964 ABC-type transport system involved in Fe-S cluster assembly, ATPase component; Region: ABC_FeS_Assembly; cd03217 350054009965 Walker A/P-loop; other site 350054009966 ATP binding site [chemical binding]; other site 350054009967 Q-loop/lid; other site 350054009968 ABC transporter signature motif; other site 350054009969 Walker B; other site 350054009970 D-loop; other site 350054009971 H-loop/switch region; other site 350054009972 Cysteine desulfurase activator SufB [Posttranslational modification, protein turnover, chaperones]; Region: SufB; COG0719 350054009973 FeS assembly protein SufD; Region: sufD; TIGR01981 350054009974 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814; cl03223 350054009975 FeS assembly protein SufB; Region: sufB; TIGR01980 350054009976 Predicted transcriptional regulator [Transcription]; Region: COG2345 350054009977 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 350054009978 dimerization interface [polypeptide binding]; other site 350054009979 putative DNA binding site [nucleotide binding]; other site 350054009980 putative Zn2+ binding site [ion binding]; other site 350054009981 carotene biosynthesis associated membrane protein; Region: crt_membr; TIGR03459 350054009982 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 350054009983 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 350054009984 Walker A/P-loop; other site 350054009985 ATP binding site [chemical binding]; other site 350054009986 Q-loop/lid; other site 350054009987 ABC transporter signature motif; other site 350054009988 Walker B; other site 350054009989 D-loop; other site 350054009990 H-loop/switch region; other site 350054009991 ABC-2 type transporter; Region: ABC2_membrane; cl17235 350054009992 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 350054009993 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350054009994 Uncharacterized protein required for cytochrome oxidase assembly [Posttranslational modification, protein turnover, chaperones]; Region: CtaA; COG1612 350054009995 Cytochrome oxidase assembly protein; Region: COX15-CtaA; pfam02628 350054009996 Glutathione synthase/Ribosomal protein S6 modification enzyme (glutaminyl transferase) [Coenzyme metabolism / Translation, ribosomal structure and biogenesis]; Region: RimK; COG0189 350054009997 ATP-grasp domain; Region: ATP-grasp_4; cl17255 350054009998 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 350054009999 quinone oxidoreductase, NADPH-dependent; Provisional; Region: PRK10754 350054010000 NADP binding site [chemical binding]; other site 350054010001 dimer interface [polypeptide binding]; other site 350054010002 Protein of unknown function (DUF1214); Region: DUF1214; pfam06742 350054010003 putative transposase OrfB; Reviewed; Region: PHA02517 350054010004 HTH-like domain; Region: HTH_21; pfam13276 350054010005 Integrase core domain; Region: rve; pfam00665 350054010006 Integrase core domain; Region: rve_3; pfam13683 350054010007 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 350054010008 Transposase; Region: HTH_Tnp_1; pfam01527 350054010009 Protein of unknown function (DUF1254); Region: DUF1254; pfam06863 350054010010 protoheme IX farnesyltransferase; Provisional; Region: PRK04375 350054010011 UbiA prenyltransferase family; Region: UbiA; pfam01040 350054010012 Transketolase [Carbohydrate transport and metabolism]; Region: TktA; COG0021 350054010013 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 350054010014 TPP-binding site [chemical binding]; other site 350054010015 dimer interface [polypeptide binding]; other site 350054010016 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 350054010017 PYR/PP interface [polypeptide binding]; other site 350054010018 dimer interface [polypeptide binding]; other site 350054010019 TPP binding site [chemical binding]; other site 350054010020 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 350054010021 Transaldolase-like proteins from plants and bacteria; Region: Transaldolase_like; cd00955 350054010022 putative active site [active] 350054010023 transaldolase; Provisional; Region: PRK03903 350054010024 catalytic residue [active] 350054010025 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 350054010026 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 350054010027 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 350054010028 glucose-6-phosphate dehydrogenase assembly protein OpcA; Region: OpcA; TIGR00534 350054010029 Glucose-6-phosphate dehydrogenase subunit; Region: OpcA_G6PD_assem; pfam10128 350054010030 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 350054010031 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 350054010032 putative active site [active] 350054010033 putative transposase OrfB; Reviewed; Region: PHA02517 350054010034 HTH-like domain; Region: HTH_21; pfam13276 350054010035 Integrase core domain; Region: rve; pfam00665 350054010036 Integrase core domain; Region: rve_3; pfam13683 350054010037 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; cl00674 350054010038 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]; Region: COG1139 350054010039 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 350054010040 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 350054010041 Cysteine-rich domain; Region: CCG; pfam02754 350054010042 Cysteine-rich domain; Region: CCG; pfam02754 350054010043 phosphoenolpyruvate carboxylase; Reviewed; Region: PRK00009 350054010044 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 350054010045 triosephosphate isomerase; Provisional; Region: PRK14567 350054010046 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 350054010047 substrate binding site [chemical binding]; other site 350054010048 dimer interface [polypeptide binding]; other site 350054010049 catalytic triad [active] 350054010050 Phosphoglycerate kinase; Region: PGK; pfam00162 350054010051 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 350054010052 substrate binding site [chemical binding]; other site 350054010053 hinge regions; other site 350054010054 ADP binding site [chemical binding]; other site 350054010055 catalytic site [active] 350054010056 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 350054010057 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 350054010058 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 350054010059 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 350054010060 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 350054010061 substrate binding pocket [chemical binding]; other site 350054010062 membrane-bound complex binding site; other site 350054010063 hinge residues; other site 350054010064 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1481 350054010065 Sporulation Regulator WhiA N terminal; Region: WhiA_N; pfam10298 350054010066 conserved hypothetical protein, cofD-related; Region: CofD_related; TIGR01826 350054010067 family of mostly uncharacterized proteins similar to B.subtilis YvcK; Region: YvcK_like; cd07187 350054010068 phosphate binding site [ion binding]; other site 350054010069 putative substrate binding pocket [chemical binding]; other site 350054010070 dimer interface [polypeptide binding]; other site 350054010071 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 350054010072 AAA domain; Region: AAA_18; pfam13238 350054010073 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 350054010074 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 350054010075 GIY-YIG motif/motif A; other site 350054010076 active site 350054010077 catalytic site [active] 350054010078 putative DNA binding site [nucleotide binding]; other site 350054010079 metal binding site [ion binding]; metal-binding site 350054010080 UvrB/uvrC motif; Region: UVR; pfam02151 350054010081 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 350054010082 Helix-hairpin-helix motif; Region: HHH; pfam00633 350054010083 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 350054010084 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 350054010085 Protein of unknown function (DUF2581); Region: DUF2581; pfam10756 350054010086 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 350054010087 homopentamer interface [polypeptide binding]; other site 350054010088 active site 350054010089 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09311 350054010090 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 350054010091 GTP cyclohydrolase II (RibA). GTP cyclohydrolase II catalyzes the conversion of GTP to 2,5-diamino-6-ribosylamino-4(3H)-pyrimidinone 5' phosphate, formate, pyrophosphate (APy), and GMP in the biosynthetic pathway of riboflavin. Riboflavin is the...; Region: GTP_cyclohydro2; cd00641 350054010092 dimerization interface [polypeptide binding]; other site 350054010093 active site 350054010094 PE-PPE domain; Region: PE-PPE; pfam08237 350054010095 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 350054010096 Lumazine binding domain; Region: Lum_binding; pfam00677 350054010097 Lumazine binding domain; Region: Lum_binding; pfam00677 350054010098 probable non-F420 flavinoid oxidoreductase; Region: flavin_revert; TIGR03885 350054010099 N5,N10-methylenetetrahydromethanopterin reductase (Mer) catalyzes the reduction of N5,N10-methylenetetrahydromethanopterin with reduced coenzyme F420 to N5-methyltetrahydromethanopterin and oxidized coenzyme F420; Region: Tetrahydromethanopterin_reductase; cd01097 350054010100 trehalose synthase; Region: treS_nterm; TIGR02456 350054010101 Alpha amylase catalytic domain found in Trehalose synthetase; Region: AmyAc_TreS; cd11334 350054010102 active site 350054010103 catalytic site [active] 350054010104 Protein of unknown function (DUF1396); Region: DUF1396; pfam07161 350054010105 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 350054010106 putative substrate translocation pore; other site 350054010107 Cytidine and deoxycytidylate deaminase zinc-binding region. The family contains cytidine deaminases, nucleoside deaminases, deoxycytidylate deaminases and riboflavin deaminases. Also included are the apoBec family of mRNA editing enzymes. All members...; Region: cytidine_deaminase-like; cl00269 350054010108 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 350054010109 active site 350054010110 Zn binding site [ion binding]; other site 350054010111 RibD C-terminal domain; Region: RibD_C; pfam01872 350054010112 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 350054010113 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 350054010114 substrate binding site [chemical binding]; other site 350054010115 hexamer interface [polypeptide binding]; other site 350054010116 metal binding site [ion binding]; metal-binding site 350054010117 N-terminal RNA binding domain of the methyltransferase Sun. The rRNA-specific 5-methylcytidine transferase Sun, also known as RrmB or Fmu shares the RNA-binding non-catalytic domain with the transcription termination factor NusB. The precise biological...; Region: Methyltransferase_Sun; cd00620 350054010118 putative RNA binding site [nucleotide binding]; other site 350054010119 16S rRNA methyltransferase B; Provisional; Region: PRK14902 350054010120 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 350054010121 S-adenosylmethionine binding site [chemical binding]; other site 350054010122 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 350054010123 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 350054010124 putative active site [active] 350054010125 substrate binding site [chemical binding]; other site 350054010126 putative cosubstrate binding site; other site 350054010127 catalytic site [active] 350054010128 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 350054010129 substrate binding site [chemical binding]; other site 350054010130 Uncharacterized conserved protein [Function unknown]; Region: LemA; COG1704 350054010131 Predicted membrane protein (DUF2207); Region: DUF2207; pfam09972 350054010132 primosome assembly protein PriA; Provisional; Region: PRK14873 350054010133 YhhN-like protein; Region: YhhN; pfam07947 350054010134 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 350054010135 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 350054010136 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 350054010137 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 350054010138 S-adenosylmethionine synthetase; Validated; Region: PRK05250 350054010139 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 350054010140 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 350054010141 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 350054010142 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 350054010143 Flavoprotein; Region: Flavoprotein; pfam02441 350054010144 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 350054010145 DNA-directed RNA polymerase, subunit K/omega [Transcription]; Region: RpoZ; COG1758 350054010146 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 350054010147 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 350054010148 catalytic site [active] 350054010149 G-X2-G-X-G-K; other site 350054010150 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 350054010151 active site 350054010152 dimer interface [polypeptide binding]; other site 350054010153 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 350054010154 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 350054010155 ATP-grasp domain; Region: ATP-grasp_4; cl17255 350054010156 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 350054010157 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 350054010158 ATP-grasp domain; Region: ATP-grasp_4; cl17255 350054010159 Methylglyoxal synthase-like domain from type II glutamine-dependent carbamoyl phosphate synthetase (CSP). CSP, a CarA and CarB heterodimer, catalyzes the production of carbamoyl phosphate which is subsequently employed in the metabolic pathways...; Region: MGS_CPS_II; cd01424 350054010160 IMP binding site; other site 350054010161 dimer interface [polypeptide binding]; other site 350054010162 interdomain contacts; other site 350054010163 partial ornithine binding site; other site 350054010164 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 350054010165 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 350054010166 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 350054010167 catalytic site [active] 350054010168 subunit interface [polypeptide binding]; other site 350054010169 dihydroorotase; Validated; Region: pyrC; PRK09357 350054010170 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 350054010171 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 350054010172 active site 350054010173 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 350054010174 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 350054010175 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 350054010176 Pyrimidine operon attenuation protein/uracil phosphoribosyltransferase [Nucleotide transport and metabolism]; Region: PyrR; COG2065 350054010177 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 350054010178 active site 350054010179 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 350054010180 Beta-lactamase; Region: Beta-lactamase; pfam00144 350054010181 Domain of unknown function (DUF222); Region: DUF222; pfam02720 350054010182 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cd00085 350054010183 active site 350054010184 transcription antitermination protein NusB; Reviewed; Region: nusB; PRK00202 350054010185 putative RNA binding site [nucleotide binding]; other site 350054010186 elongation factor P; Validated; Region: PRK00529 350054010187 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 350054010188 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 350054010189 RNA binding site [nucleotide binding]; other site 350054010190 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 350054010191 RNA binding site [nucleotide binding]; other site 350054010192 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 350054010193 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 350054010194 Similar to Prolidase and Aminopeptidase P. The members of this subfamily presumably catalyse hydrolysis of Xaa-Pro dipeptides and/or release of any N-terminal amino acid, including proline, that is linked with proline; Region: APP-like; cd01092 350054010195 active site 350054010196 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 350054010197 active site 350054010198 dimer interface [polypeptide binding]; other site 350054010199 metal binding site [ion binding]; metal-binding site 350054010200 shikimate kinase; Reviewed; Region: aroK; PRK00131 350054010201 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 350054010202 ADP binding site [chemical binding]; other site 350054010203 magnesium binding site [ion binding]; other site 350054010204 putative shikimate binding site; other site 350054010205 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 350054010206 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 350054010207 Tetramer interface [polypeptide binding]; other site 350054010208 active site 350054010209 FMN-binding site [chemical binding]; other site 350054010210 Type II secretory pathway, prepilin signal peptidase PulO and related peptidases [Cell motility and secretion / Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: PulO; COG1989 350054010211 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 350054010212 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 350054010213 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 350054010214 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 350054010215 NAD(P) binding site [chemical binding]; other site 350054010216 shikimate binding site; other site 350054010217 YceG-like family; Region: YceG; pfam02618 350054010218 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 350054010219 dimerization interface [polypeptide binding]; other site 350054010220 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 350054010221 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 350054010222 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 350054010223 motif 1; other site 350054010224 active site 350054010225 motif 2; other site 350054010226 motif 3; other site 350054010227 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 350054010228 DHHA1 domain; Region: DHHA1; pfam02272 350054010229 Uncharacterized conserved protein [Function unknown]; Region: COG0432 350054010230 recombination factor protein RarA; Reviewed; Region: PRK13342 350054010231 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 350054010232 Walker A motif; other site 350054010233 ATP binding site [chemical binding]; other site 350054010234 Walker B motif; other site 350054010235 arginine finger; other site 350054010236 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 350054010237 Protein of unknown function (DUF3097); Region: DUF3097; pfam11296 350054010238 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4307 350054010239 Uncharacterized protein conserved in bacteria (DUF2248); Region: DUF2248; pfam10005 350054010240 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 350054010241 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 350054010242 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 350054010243 A circularly permuted ATPgrasp; Region: CP_ATPgrasp_1; cl17448 350054010244 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2307 350054010245 A predicted alpha-helical domain with a conserved ER motif; Region: Alpha-E; pfam04168 350054010246 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 350054010247 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 350054010248 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 350054010249 Putative amidoligase enzyme (DUF2126); Region: DUF2126; pfam09899 350054010250 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4196 350054010251 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 350054010252 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 350054010253 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 350054010254 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 350054010255 uncharacterized xylulose kinase-like proteins; a subgroup of the FGGY family of carbohydrate kinases; Region: FGGY_XK_like_1; cd07804 350054010256 N- and C-terminal domain interface [polypeptide binding]; other site 350054010257 putative active site [active] 350054010258 MgATP binding site [chemical binding]; other site 350054010259 catalytic site [active] 350054010260 metal binding site [ion binding]; metal-binding site 350054010261 putative xylulose binding site [chemical binding]; other site 350054010262 putative homodimer interface [polypeptide binding]; other site 350054010263 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 350054010264 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 350054010265 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 350054010266 dimer interface [polypeptide binding]; other site 350054010267 conserved gate region; other site 350054010268 ABC-ATPase subunit interface; other site 350054010269 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 350054010270 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 350054010271 dimer interface [polypeptide binding]; other site 350054010272 conserved gate region; other site 350054010273 putative PBP binding loops; other site 350054010274 ABC-ATPase subunit interface; other site 350054010275 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 350054010276 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 350054010277 Walker A/P-loop; other site 350054010278 ATP binding site [chemical binding]; other site 350054010279 Q-loop/lid; other site 350054010280 ABC transporter signature motif; other site 350054010281 Walker B; other site 350054010282 D-loop; other site 350054010283 H-loop/switch region; other site 350054010284 TOBE domain; Region: TOBE; pfam03459 350054010285 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 350054010286 classical (c) SDRs; Region: SDR_c; cd05233 350054010287 NAD(P) binding site [chemical binding]; other site 350054010288 active site 350054010289 BtpA family; Region: BtpA; cl00440 350054010290 Predicted transcriptional regulators [Transcription]; Region: COG1733 350054010291 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 350054010292 acetyl-CoA acetyltransferase; Provisional; Region: PRK07801 350054010293 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 350054010294 dimer interface [polypeptide binding]; other site 350054010295 active site 350054010296 Domain of unknown function (DUF385); Region: DUF385; pfam04075 350054010297 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 350054010298 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 350054010299 dimer interface [polypeptide binding]; other site 350054010300 anticodon binding site; other site 350054010301 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 350054010302 homodimer interface [polypeptide binding]; other site 350054010303 motif 1; other site 350054010304 active site 350054010305 motif 2; other site 350054010306 GAD domain; Region: GAD; pfam02938 350054010307 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 350054010308 active site 350054010309 motif 3; other site 350054010310 Pyrabactin resistance 1 (PYR1), PYR1-like (PYL), regulatory component of abscisic acid receptors (RCARs), and related proteins; Region: PYR_PYL_RCAR_like; cd07821 350054010311 putative hydrophobic ligand binding site [chemical binding]; other site 350054010312 protein interface [polypeptide binding]; other site 350054010313 gate; other site 350054010314 Carboxylesterase type B [Lipid metabolism]; Region: PnbA; COG2272 350054010315 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 350054010316 substrate binding pocket [chemical binding]; other site 350054010317 catalytic triad [active] 350054010318 Putative neutral zinc metallopeptidase; Region: Zn_peptidase; pfam04228 350054010319 Bacterial protein of unknown function (DUF885); Region: DUF885; pfam05960 350054010320 Acyl-CoA thioesterase [Lipid metabolism]; Region: TesB; COG1946 350054010321 Thioesterase II (TEII) is thought to regenerate misprimed nonribosomal peptide synthetases (NRPSs) as well as modular polyketide synthases (PKSs) by hydrolyzing acetyl groups bound to the peptidyl carrier protein (PCP) and acyl carrier protein (ACP)...; Region: Thioesterase_II_repeat2; cd03445 350054010322 active site 350054010323 Thioesterase II (TEII) is thought to regenerate misprimed nonribosomal peptide synthetases (NRPSs) as well as modular polyketide synthases (PKSs) by hydrolyzing acetyl groups bound to the peptidyl carrier protein (PCP) and acyl carrier protein (ACP)...; Region: Thioesterase_II_repeat1; cd03444 350054010324 catalytic triad [active] 350054010325 dimer interface [polypeptide binding]; other site 350054010326 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 350054010327 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350054010328 Amidohydrolase; Region: Amidohydro_2; pfam04909 350054010329 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 350054010330 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 350054010331 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 350054010332 active site 350054010333 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 350054010334 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 350054010335 active site 350054010336 Radical SAM superfamily; Region: Radical_SAM; pfam04055 350054010337 Superfamily I DNA and RNA helicases [General function prediction only]; Region: COG3973 350054010338 Part of AAA domain; Region: AAA_19; pfam13245 350054010339 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 350054010340 Periplasmic component (FmdD) of an active transport system for short-chain amides and urea (FmdDEF); Region: PBP1_FmdD_like; cd06355 350054010341 putative ligand binding site [chemical binding]; other site 350054010342 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 350054010343 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 350054010344 TM-ABC transporter signature motif; other site 350054010345 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 350054010346 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 350054010347 TM-ABC transporter signature motif; other site 350054010348 urea ABC transporter, ATP-binding protein UrtD; Region: urea_trans_UrtD; TIGR03411 350054010349 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 350054010350 Walker A/P-loop; other site 350054010351 ATP binding site [chemical binding]; other site 350054010352 Q-loop/lid; other site 350054010353 ABC transporter signature motif; other site 350054010354 Walker B; other site 350054010355 D-loop; other site 350054010356 H-loop/switch region; other site 350054010357 urea ABC transporter, ATP-binding protein UrtE; Region: urea_trans_UrtE; TIGR03410 350054010358 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 350054010359 Walker A/P-loop; other site 350054010360 ATP binding site [chemical binding]; other site 350054010361 Q-loop/lid; other site 350054010362 ABC transporter signature motif; other site 350054010363 Walker B; other site 350054010364 D-loop; other site 350054010365 H-loop/switch region; other site 350054010366 Predicted membrane protein [Function unknown]; Region: COG4325 350054010367 Predicted membrane protein (DUF2254); Region: DUF2254; pfam10011 350054010368 RNA polymerase sigma-70 factor, sigma-B/F/G subfamily; Region: SigBFG; TIGR02980 350054010369 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 350054010370 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 350054010371 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 350054010372 DNA binding residues [nucleotide binding] 350054010373 Protein of unknown function (DUF461); Region: DUF461; pfam04314 350054010374 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 350054010375 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 350054010376 dimer interface [polypeptide binding]; other site 350054010377 motif 1; other site 350054010378 active site 350054010379 motif 2; other site 350054010380 motif 3; other site 350054010381 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 350054010382 anticodon binding site; other site 350054010383 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 350054010384 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 350054010385 active site 350054010386 (p)ppGpp synthetase, RelA/SpoT family; Region: spoT_relA; TIGR00691 350054010387 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 350054010388 Zn2+ binding site [ion binding]; other site 350054010389 Mg2+ binding site [ion binding]; other site 350054010390 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 350054010391 synthetase active site [active] 350054010392 NTP binding site [chemical binding]; other site 350054010393 metal binding site [ion binding]; metal-binding site 350054010394 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 350054010395 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 350054010396 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 350054010397 active site 350054010398 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 350054010399 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cl01709 350054010400 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 350054010401 Protein export membrane protein; Region: SecD_SecF; pfam02355 350054010402 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 350054010403 Protein export membrane protein; Region: SecD_SecF; cl14618 350054010404 preprotein translocase subunit YajC; Validated; Region: yajC; PRK05886 350054010405 4-aminobutyrate aminotransferase; Provisional; Region: PRK06058 350054010406 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 350054010407 inhibitor-cofactor binding pocket; inhibition site 350054010408 pyridoxal 5'-phosphate binding site [chemical binding]; other site 350054010409 catalytic residue [active] 350054010410 gamma-aminobutyraldehyde dehydrogenase; Provisional; Region: PRK13473 350054010411 Escherichia coli NAD+-dependent gamma-aminobutyraldehyde dehydrogenase YdcW-like; Region: ALDH_ABALDH-YdcW; cd07092 350054010412 tetrameric interface [polypeptide binding]; other site 350054010413 NAD binding site [chemical binding]; other site 350054010414 catalytic residues [active] 350054010415 substrate binding site [chemical binding]; other site 350054010416 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 350054010417 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 350054010418 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 350054010419 metal binding site [ion binding]; metal-binding site 350054010420 active site 350054010421 I-site; other site 350054010422 Protein of unknown function (DUF1304); Region: DUF1304; pfam06993 350054010423 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 350054010424 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 350054010425 Walker A motif; other site 350054010426 ATP binding site [chemical binding]; other site 350054010427 Walker B motif; other site 350054010428 arginine finger; other site 350054010429 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 350054010430 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 350054010431 RuvA N terminal domain; Region: RuvA_N; pfam01330 350054010432 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 350054010433 active site 350054010434 putative DNA-binding cleft [nucleotide binding]; other site 350054010435 dimer interface [polypeptide binding]; other site 350054010436 hypothetical protein; Validated; Region: PRK00110 350054010437 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 350054010438 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 350054010439 active site 350054010440 Glutamine Amidotransferase (GATase_I) involved in pyridoxine biosynthesis; Region: GATase1_PB; cd01749 350054010441 predicted active site [active] 350054010442 catalytic triad [active] 350054010443 acyl-CoA thioesterase II; Region: tesB; TIGR00189 350054010444 Thioesterase II (TEII) is thought to regenerate misprimed nonribosomal peptide synthetases (NRPSs) as well as modular polyketide synthases (PKSs) by hydrolyzing acetyl groups bound to the peptidyl carrier protein (PCP) and acyl carrier protein (ACP)...; Region: Thioesterase_II_repeat2; cd03445 350054010445 active site 350054010446 Thioesterase II (TEII) is thought to regenerate misprimed nonribosomal peptide synthetases (NRPSs) as well as modular polyketide synthases (PKSs) by hydrolyzing acetyl groups bound to the peptidyl carrier protein (PCP) and acyl carrier protein (ACP)...; Region: Thioesterase_II_repeat1; cd03444 350054010447 catalytic triad [active] 350054010448 dimer interface [polypeptide binding]; other site 350054010449 pyridoxal 5'-phosphate synthase, synthase subunit Pdx1; Region: TIGR00343 350054010450 PdxS is a subunit of the pyridoxal 5'-phosphate (PLP) synthase, an important enzyme in deoxyxylulose 5-phosphate (DXP)-independent pathway for de novo biosynthesis of PLP, present in some eubacteria, in archaea, fungi, plants, plasmodia, and some...; Region: pdxS; cd04727 350054010451 active site 350054010452 multimer interface [polypeptide binding]; other site 350054010453 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily requires a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_26; cd04685 350054010454 nudix motif; other site 350054010455 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 350054010456 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 350054010457 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 350054010458 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 350054010459 putative acyl-acceptor binding pocket; other site 350054010460 Phosphatidylglycerophosphate synthase [Lipid metabolism]; Region: PgsA; COG0558 350054010461 FHIT (fragile histidine family): FHIT proteins, related to the HIT family carry a motif HxHxH/Qxx (x, is a hydrophobic amino acid), On the basis of sequence, substrate specificity, structure, evolution and mechanism, HIT proteins are classified into...; Region: FHIT; cd01275 350054010462 nucleotide binding site/active site [active] 350054010463 HIT family signature motif; other site 350054010464 catalytic residue [active] 350054010465 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK12305 350054010466 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; pfam07973 350054010467 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 350054010468 active site 350054010469 dimer interface [polypeptide binding]; other site 350054010470 motif 1; other site 350054010471 motif 2; other site 350054010472 motif 3; other site 350054010473 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 350054010474 anticodon binding site; other site 350054010475 Putative transmembrane protein (PGPGW); Region: PGPGW; cl09870 350054010476 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 350054010477 CoenzymeA binding site [chemical binding]; other site 350054010478 subunit interaction site [polypeptide binding]; other site 350054010479 PHB binding site; other site 350054010480 Domain of unknown function (DUF1990); Region: DUF1990; pfam09348 350054010481 GAF domain; Region: GAF; pfam01590 350054010482 GAF domain; Region: GAF_2; pfam13185 350054010483 ANTAR (AmiR and NasR transcription antitermination regulators) is an RNA-binding domain found in bacterial transcription antitermination regulatory proteins; Region: ANTAR; smart01012 350054010484 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 350054010485 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 350054010486 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 350054010487 Histidine kinase; Region: HisKA_3; pfam07730 350054010488 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 350054010489 ATP binding site [chemical binding]; other site 350054010490 Mg2+ binding site [ion binding]; other site 350054010491 G-X-G motif; other site 350054010492 Proteins of this family catalyze the reduction of flavin or nitrocompounds using NAD(P)H as electron donor in a obligatory two-electron transfer, utilizing FMN or FAD as cofactor. They are often found to be homodimers. Enzymes of this family are...; Region: Nitro_FMN_reductase; cl00514 350054010493 dimer interface [polypeptide binding]; other site 350054010494 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 350054010495 Ligand Binding Site [chemical binding]; other site 350054010496 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 350054010497 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 350054010498 active site 350054010499 phosphorylation site [posttranslational modification] 350054010500 intermolecular recognition site; other site 350054010501 dimerization interface [polypeptide binding]; other site 350054010502 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 350054010503 DNA binding residues [nucleotide binding] 350054010504 dimerization interface [polypeptide binding]; other site 350054010505 Proteins of this family catalyze the reduction of flavin or nitrocompounds using NAD(P)H as electron donor in a obligatory two-electron transfer, utilizing FMN or FAD as cofactor. They are often found to be homodimers. Enzymes of this family are...; Region: Nitro_FMN_reductase; cl00514 350054010506 Alpha amylase catalytic domain found in oligo-1,6-glucosidase (also called isomaltase; sucrase-isomaltase; alpha-limit dextrinase), trehalose synthase (also called maltose alpha-D-glucosyltransferase), and related proteins; Region: AmyAc_OligoGlu_TS; cd11332 350054010507 active site 350054010508 catalytic site [active] 350054010509 Domain of unknown function (DUF3459); Region: DUF3459; pfam11941 350054010510 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 350054010511 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 350054010512 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 350054010513 dimer interface [polypeptide binding]; other site 350054010514 conserved gate region; other site 350054010515 putative PBP binding loops; other site 350054010516 ABC-ATPase subunit interface; other site 350054010517 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 350054010518 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 350054010519 dimer interface [polypeptide binding]; other site 350054010520 conserved gate region; other site 350054010521 putative PBP binding loops; other site 350054010522 ABC-ATPase subunit interface; other site 350054010523 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 350054010524 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 350054010525 Walker A/P-loop; other site 350054010526 ATP binding site [chemical binding]; other site 350054010527 Q-loop/lid; other site 350054010528 ABC transporter signature motif; other site 350054010529 Walker B; other site 350054010530 D-loop; other site 350054010531 H-loop/switch region; other site 350054010532 Lipopolysaccharide kinase (Kdo/WaaP) family; Region: Kdo; cl17488 350054010533 Domain of unknown function (DUF4032); Region: DUF4032; pfam13224 350054010534 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 350054010535 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 350054010536 PAS domain; Region: PAS_9; pfam13426 350054010537 putative active site [active] 350054010538 heme pocket [chemical binding]; other site 350054010539 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 350054010540 Helix-Turn-Helix DNA binding domain of truncated MerR-like proteins; Region: HTH_MerR-trunc; cd04762 350054010541 DNA binding residues [nucleotide binding] 350054010542 TOBE domain; Region: TOBE; cl01440 350054010543 ABC-type molybdate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: ModA; COG0725 350054010544 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 350054010545 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 350054010546 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 350054010547 ABC-type sulfate/molybdate transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: CysA; COG1118 350054010548 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 350054010549 Walker A/P-loop; other site 350054010550 ATP binding site [chemical binding]; other site 350054010551 Q-loop/lid; other site 350054010552 ABC transporter signature motif; other site 350054010553 Walker B; other site 350054010554 D-loop; other site 350054010555 H-loop/switch region; other site 350054010556 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 350054010557 acetoacetyl-CoA synthetase; Provisional; Region: PRK03584 350054010558 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 350054010559 acyl-activating enzyme (AAE) consensus motif; other site 350054010560 AMP binding site [chemical binding]; other site 350054010561 active site 350054010562 CoA binding site [chemical binding]; other site 350054010563 PE-PPE domain; Region: PE-PPE; pfam08237 350054010564 Virulence factor BrkB; Region: Virul_fac_BrkB; pfam03631 350054010565 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 350054010566 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 350054010567 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 350054010568 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 350054010569 NAD(P) binding site [chemical binding]; other site 350054010570 active site 350054010571 Virulence factor BrkB; Region: Virul_fac_BrkB; pfam03631 350054010572 Predicted membrane protein [Function unknown]; Region: COG2261 350054010573 RNA polymerase sigma factor SigF; Reviewed; Region: PRK07122 350054010574 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 350054010575 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 350054010576 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 350054010577 DNA binding residues [nucleotide binding] 350054010578 RNA polymerase sigma factor SigF; Reviewed; Region: PRK07122 350054010579 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 350054010580 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 350054010581 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 350054010582 DNA binding residues [nucleotide binding] 350054010583 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 350054010584 Formate/glycerate dehydrogenases, D-specific 2-hydroxy acid dehydrogenases and related dehydrogenases; Region: FDH_GDH_like; cl17240 350054010585 Glycosyltransferase family 28 C-terminal domain; Region: Glyco_tran_28_C; cl17369 350054010586 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 350054010587 mycofactocin system transcriptional regulator; Region: mycofact_TetR; TIGR03968 350054010588 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350054010589 Response regulator receiver domain; Region: Response_reg; pfam00072 350054010590 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 350054010591 active site 350054010592 phosphorylation site [posttranslational modification] 350054010593 intermolecular recognition site; other site 350054010594 dimerization interface [polypeptide binding]; other site 350054010595 Sulphate Transporter and Anti-Sigma factor antagonist) domain of anti-anti-sigma factors, key regulators of anti-sigma factors by phosphorylation; Region: STAS_anti-anti-sigma_factors; cd07043 350054010596 anti sigma factor interaction site; other site 350054010597 regulatory phosphorylation site [posttranslational modification]; other site 350054010598 CsbD-like; Region: CsbD; pfam05532 350054010599 proposed F420-0 ABC transporter, periplasmic F420-0 binding protein; Region: F420-O_ABCperi; TIGR03868 350054010600 Metal binding protein TroA_a. These proteins are predicted to function as initial receptors in ABC transport of metal ions in eubacteria. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a distinct fold and...; Region: TroA_a; cd01148 350054010601 putative ligand binding residues [chemical binding]; other site 350054010602 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 350054010603 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 350054010604 dimer interface [polypeptide binding]; other site 350054010605 putative PBP binding regions; other site 350054010606 ABC-ATPase subunit interface; other site 350054010607 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 350054010608 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 350054010609 Walker A/P-loop; other site 350054010610 ATP binding site [chemical binding]; other site 350054010611 Q-loop/lid; other site 350054010612 ABC transporter signature motif; other site 350054010613 Walker B; other site 350054010614 D-loop; other site 350054010615 H-loop/switch region; other site 350054010616 copper-(or silver)-translocating P-type ATPase; Region: ATPase-IB1_Cu; TIGR01511 350054010617 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 350054010618 Soluble P-type ATPase [General function prediction only]; Region: COG4087 350054010619 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 350054010620 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 350054010621 active site 350054010622 phosphorylation site [posttranslational modification] 350054010623 intermolecular recognition site; other site 350054010624 dimerization interface [polypeptide binding]; other site 350054010625 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 350054010626 DNA binding site [nucleotide binding] 350054010627 HAMP domain; Region: HAMP; pfam00672 350054010628 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 350054010629 dimer interface [polypeptide binding]; other site 350054010630 phosphorylation site [posttranslational modification] 350054010631 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 350054010632 Mg2+ binding site [ion binding]; other site 350054010633 G-X-G motif; other site 350054010634 Domain of unknown function (DUF305); Region: DUF305; pfam03713 350054010635 phage major capsid protein, HK97 family; Region: major_cap_HK97; TIGR01554 350054010636 Phage capsid family; Region: Phage_capsid; pfam05065 350054010637 Prim_Pol: Primase-polymerase (primpol) domain of the type found in bifunctional replicases from archaeal plasmids, including ORF904 protein of the crenarchaeal plasmid pRN1 from Sulfolobus islandicus (pRN1 primpol). These primpol domains belong to the...; Region: Prim_Pol; cd04859 350054010638 polymerase nucleotide-binding site; other site 350054010639 DNA-binding residues [nucleotide binding]; DNA binding site 350054010640 nucleotide binding site [chemical binding]; other site 350054010641 primase nucleotide-binding site [nucleotide binding]; other site 350054010642 AAA domain; Region: AAA_25; pfam13481 350054010643 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 350054010644 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cd00085 350054010645 active site 350054010646 Helix-turn-helix domain; Region: HTH_17; cl17695 350054010647 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 350054010648 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 350054010649 active site 350054010650 Int/Topo IB signature motif; other site 350054010651 DNA binding site [nucleotide binding] 350054010652 Protein of unknown function (DUF3703); Region: DUF3703; pfam12487 350054010653 Cation efflux family; Region: Cation_efflux; cl00316 350054010654 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 350054010655 dimerization interface [polypeptide binding]; other site 350054010656 putative DNA binding site [nucleotide binding]; other site 350054010657 putative Zn2+ binding site [ion binding]; other site 350054010658 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 350054010659 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 350054010660 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 350054010661 hydrophobic ligand binding site; other site 350054010662 Clp amino terminal domain; Region: Clp_N; pfam02861 350054010663 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 350054010664 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 350054010665 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 350054010666 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 350054010667 DNA binding site [nucleotide binding] 350054010668 active site 350054010669 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 350054010670 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 350054010671 Coenzyme A binding pocket [chemical binding]; other site 350054010672 AFG1-like ATPase; Region: AFG1_ATPase; pfam03969 350054010673 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl17189 350054010674 hypothetical protein; Provisional; Region: PRK14059 350054010675 Pyrimidine reductase, riboflavin biosynthesis [Coenzyme metabolism]; Region: RibD; COG1985 350054010676 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 350054010677 TAP-like protein; Region: Abhydrolase_4; pfam08386 350054010678 Protein of unknown function (DUF2029); Region: DUF2029; pfam09594 350054010679 Conserved domain frequently associated with peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: COG0229 350054010680 SelR domain; Region: SelR; pfam01641 350054010681 Predicted heme peroxidase involved in anaerobic stress response [General function prediction only]; Region: ywfI; COG3253 350054010682 protoporphyrinogen oxidase; Reviewed; Region: PRK11883 350054010683 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 350054010684 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 350054010685 substrate binding site [chemical binding]; other site 350054010686 active site 350054010687 Protein of unknown function (DUF3000); Region: DUF3000; pfam11452 350054010688 Ribonuclease D [Translation, ribosomal structure and biogenesis]; Region: Rnd; COG0349 350054010689 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 350054010690 catalytic site [active] 350054010691 putative active site [active] 350054010692 putative substrate binding site [chemical binding]; other site 350054010693 Helicase and RNase D C-terminal; Region: HRDC; smart00341 350054010694 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 350054010695 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 350054010696 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 350054010697 TPP-binding site; other site 350054010698 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 350054010699 PYR/PP interface [polypeptide binding]; other site 350054010700 dimer interface [polypeptide binding]; other site 350054010701 TPP binding site [chemical binding]; other site 350054010702 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 350054010703 pH-dependent sodium/proton antiporter; Provisional; Region: nhaA; PRK14853 350054010704 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 350054010705 TRAM domain; Region: TRAM; cl01282 350054010706 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 350054010707 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 350054010708 TrkA-N domain; Region: TrkA_N; pfam02254 350054010709 TrkA-C domain; Region: TrkA_C; pfam02080 350054010710 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 350054010711 TrkA-N domain; Region: TrkA_N; pfam02254 350054010712 TrkA-C domain; Region: TrkA_C; pfam02080 350054010713 Protein of unknown function (DUF3159); Region: DUF3159; pfam11361 350054010714 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 350054010715 generic binding surface II; other site 350054010716 ssDNA binding site; other site 350054010717 Protein of unknown function (DUF3710); Region: DUF3710; pfam12502 350054010718 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 350054010719 trimer interface [polypeptide binding]; other site 350054010720 active site 350054010721 Protein of unknown function (DUF3093); Region: DUF3093; pfam11292 350054010722 Domain of unknown function (DUF4193); Region: DUF4193; pfam13834 350054010723 LytR cell envelope-related transcriptional attenuator; Region: LytR_C; pfam13399 350054010724 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 350054010725 IMPase, inositol monophosphatase and related domains. A family of Mg++ dependent phosphatases, inhibited by lithium, many of which may act on inositol monophosphate substrate. They dephosphorylate inositol phosphate to generate inositol, which may be...; Region: IMPase; cd01639 350054010726 active site 350054010727 dimerization interface [polypeptide binding]; other site 350054010728 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 350054010729 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 350054010730 RNA polymerase sigma factor SigB; Reviewed; Region: PRK07921 350054010731 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 350054010732 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 350054010733 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 350054010734 DNA binding residues [nucleotide binding] 350054010735 O-methyltransferase; Region: Methyltransf_2; pfam00891 350054010736 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_6; cd06154 350054010737 homotrimer interaction site [polypeptide binding]; other site 350054010738 putative active site [active] 350054010739 Protein of unknown function (DUF952); Region: DUF952; pfam06108 350054010740 Ribonuclease BN family enzyme [Replication, recombination, and repair]; Region: Rbn; COG1295 350054010741 Protein of unknown function (DUF3039); Region: DUF3039; pfam11238 350054010742 Protein of unknown function (DUF3099); Region: DUF3099; pfam11298 350054010743 RNA polymerase sigma factor SigB; Reviewed; Region: PRK07921 350054010744 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 350054010745 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 350054010746 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 350054010747 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 350054010748 DNA binding residues [nucleotide binding] 350054010749 Mn-dependent transcriptional regulator [Transcription]; Region: TroR; COG1321 350054010750 Iron dependent repressor, N-terminal DNA binding domain; Region: Fe_dep_repress; pfam01325 350054010751 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 350054010752 This entry represents the core domain of the ferrous iron (Fe2+) transport protein FeoA found in bacteria; Region: FeoA; smart00899 350054010753 Domain of unknown function (DUF4192); Region: DUF4192; pfam13830 350054010754 PAC2 family; Region: PAC2; pfam09754 350054010755 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 350054010756 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 350054010757 Phenazine biosynthesis-like protein; Region: PhzC-PhzF; pfam02567 350054010758 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 350054010759 ATP cone domain; Region: ATP-cone; pfam03477 350054010760 LysM domain; Region: LysM; pfam01476 350054010761 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 350054010762 LexA repressor; Validated; Region: PRK00215 350054010763 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 350054010764 Catalytic site [active] 350054010765 Uncharacterized protein potentially involved in peptidoglycan biosynthesis [Cell envelope biogenesis, outer membrane]; Region: COG5479 350054010766 LGFP repeat; Region: LGFP; pfam08310 350054010767 LGFP repeat; Region: LGFP; pfam08310 350054010768 LGFP repeat; Region: LGFP; pfam08310 350054010769 LGFP repeat; Region: LGFP; pfam08310 350054010770 The MopB_DMSOR-BSOR-TMAOR CD contains dimethylsulfoxide reductase (DMSOR), biotin sulfoxide reductase (BSOR), trimethylamine N-oxide reductase (TMAOR) and other related proteins. DMSOR always catalyzes the reduction of DMSO to dimethylsulfide, but its...; Region: MopB_DMSOR-BSOR-TMAOR; cd02769 350054010771 molybdopterin guanine dinucleotide-containing S/N-oxide reductases; Region: bisC_fam; TIGR00509 350054010772 molybdopterin cofactor binding site [chemical binding]; other site 350054010773 substrate binding site [chemical binding]; other site 350054010774 The MopB_DMSOR-BSOR-TMAOR CD contains dimethylsulfoxide reductase (DMSOR), biotin sulfoxide reductase (BSOR), trimethylamine N-oxide reductase (TMAOR) and other related proteins. DMSOR always catalyzes the reduction of DMSO to dimethylsulfide, but its...; Region: MopB_CT_DMSOR-BSOR-TMAOR; cd02793 350054010775 molybdopterin cofactor binding site; other site 350054010776 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 350054010777 DEAD-like helicases superfamily; Region: DEXDc; smart00487 350054010778 ATP binding site [chemical binding]; other site 350054010779 Mg++ binding site [ion binding]; other site 350054010780 motif III; other site 350054010781 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 350054010782 nucleotide binding region [chemical binding]; other site 350054010783 ATP-binding site [chemical binding]; other site 350054010784 GTPases [General function prediction only]; Region: HflX; COG2262 350054010785 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 350054010786 HflX GTPase family; Region: HflX; cd01878 350054010787 G1 box; other site 350054010788 GTP/Mg2+ binding site [chemical binding]; other site 350054010789 Switch I region; other site 350054010790 G2 box; other site 350054010791 G3 box; other site 350054010792 Switch II region; other site 350054010793 G4 box; other site 350054010794 G5 box; other site 350054010795 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 350054010796 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 350054010797 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 350054010798 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 350054010799 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 350054010800 Subunit B of Class III Extradiol ring-cleavage dioxygenases; Region: Extradiol_Dioxygenase_3B_like; cl00599 350054010801 active site 350054010802 metal binding site [ion binding]; metal-binding site 350054010803 Domain of Unknown Function (DUF349); Region: DUF349; pfam03993 350054010804 Domain of Unknown Function (DUF349); Region: DUF349; pfam03993 350054010805 Domain of Unknown Function (DUF349); Region: DUF349; pfam03993 350054010806 lysyl-tRNA synthetase; Provisional; Region: lysS; PRK02983 350054010807 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14326 350054010808 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 350054010809 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 350054010810 FeS/SAM binding site; other site 350054010811 TRAM domain; Region: TRAM; cl01282 350054010812 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 350054010813 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 350054010814 Walker A/P-loop; other site 350054010815 ATP binding site [chemical binding]; other site 350054010816 Q-loop/lid; other site 350054010817 ABC transporter signature motif; other site 350054010818 Walker B; other site 350054010819 D-loop; other site 350054010820 H-loop/switch region; other site 350054010821 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 350054010822 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 350054010823 substrate binding pocket [chemical binding]; other site 350054010824 membrane-bound complex binding site; other site 350054010825 hinge residues; other site 350054010826 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 350054010827 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 350054010828 dimer interface [polypeptide binding]; other site 350054010829 conserved gate region; other site 350054010830 putative PBP binding loops; other site 350054010831 ABC-ATPase subunit interface; other site 350054010832 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 350054010833 dimer interface [polypeptide binding]; other site 350054010834 conserved gate region; other site 350054010835 putative PBP binding loops; other site 350054010836 ABC-ATPase subunit interface; other site 350054010837 Protein of unknown function (DUF1622); Region: DUF1622; pfam07784 350054010838 recombination regulator RecX; Reviewed; Region: recX; PRK00117 350054010839 recombinase A; Provisional; Region: recA; PRK09354 350054010840 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 350054010841 hexamer interface [polypeptide binding]; other site 350054010842 Walker A motif; other site 350054010843 ATP binding site [chemical binding]; other site 350054010844 Walker B motif; other site 350054010845 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 350054010846 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 350054010847 Zn finger protein HypA/HybF (possibly regulating hydrogenase expression) [General function prediction only]; Region: HybF; COG0375 350054010848 Hydrogenase expression/synthesis hypA family; Region: HypA; pfam01155 350054010849 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 350054010850 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypF; COG0068 350054010851 Acylphosphatase; Region: Acylphosphatase; pfam00708 350054010852 HypF finger; Region: zf-HYPF; pfam07503 350054010853 HypF finger; Region: zf-HYPF; pfam07503 350054010854 Telomere recombination; Region: Sua5_yciO_yrdC; pfam01300 350054010855 HupF/HypC family; Region: HupF_HypC; pfam01455 350054010856 hydrogenase isoenzymes formation protein HypD; Provisional; Region: PRK15062 350054010857 hydrogenase expression/formation protein HypD; Region: hypD; TIGR00075 350054010858 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 350054010859 dimerization interface [polypeptide binding]; other site 350054010860 hydrogenase expression/formation protein HypE; Region: hypE; TIGR02124 350054010861 ATP binding site [chemical binding]; other site 350054010862 Protein of unknown function (DUF3046); Region: DUF3046; pfam11248 350054010863 Glycosyl transferases, related to UDP-glucuronosyltransferase [Carbohydrate transport and metabolism / Signal transduction mechanisms]; Region: COG1819 350054010864 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 350054010865 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 350054010866 Phage shock protein A (IM30), suppresses sigma54-dependent transcription [Transcription / Signal transduction mechanisms]; Region: PspA; COG1842 350054010867 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 350054010868 non-specific DNA binding site [nucleotide binding]; other site 350054010869 salt bridge; other site 350054010870 sequence-specific DNA binding site [nucleotide binding]; other site 350054010871 Phosphatidylglycerophosphate synthase [Lipid metabolism]; Region: PgsA; COG0558 350054010872 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 350054010873 Coenzyme A binding pocket [chemical binding]; other site 350054010874 Predicted naringenin-chalcone synthase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: BcsA; COG3424 350054010875 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 350054010876 malonyl-CoA binding site [chemical binding]; other site 350054010877 dimer interface [polypeptide binding]; other site 350054010878 active site 350054010879 product binding site; other site 350054010880 Methyltransferase domain; Region: Methyltransf_23; pfam13489 350054010881 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 350054010882 S-adenosylmethionine binding site [chemical binding]; other site 350054010883 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 350054010884 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 350054010885 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 350054010886 Uncharacterized conserved protein [Function unknown]; Region: COG1359 350054010887 3-ketoacyl-(acyl-carrier-protein) reductase; Reviewed; Region: PRK12826 350054010888 classical (c) SDRs; Region: SDR_c; cd05233 350054010889 NAD(P) binding site [chemical binding]; other site 350054010890 active site 350054010891 O-Methyltransferase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3315 350054010892 Leucine carboxyl methyltransferase; Region: LCM; cl01306 350054010893 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 350054010894 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 350054010895 active site 350054010896 phosphorylation site [posttranslational modification] 350054010897 intermolecular recognition site; other site 350054010898 dimerization interface [polypeptide binding]; other site 350054010899 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 350054010900 DNA binding site [nucleotide binding] 350054010901 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 350054010902 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 350054010903 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 350054010904 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 350054010905 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 350054010906 dimer interface [polypeptide binding]; other site 350054010907 active site 350054010908 catalytic residue [active] 350054010909 FAD-dependent thymidylate synthase; Reviewed; Region: thyX; PRK00847 350054010910 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 350054010911 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 350054010912 metal binding site [ion binding]; metal-binding site 350054010913 active site 350054010914 I-site; other site 350054010915 haloalkane dehalogenase; Provisional; Region: PRK00870 350054010916 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3214 350054010917 Protein of unknown function (DUF1006); Region: DUF1006; pfam06224 350054010918 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 350054010919 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 350054010920 folate binding site [chemical binding]; other site 350054010921 NADP+ binding site [chemical binding]; other site 350054010922 thymidylate synthase; Reviewed; Region: thyA; PRK01827 350054010923 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 350054010924 dimerization interface [polypeptide binding]; other site 350054010925 active site 350054010926 Dienelactone hydrolase family; Region: DLH; pfam01738 350054010927 Citrate lyase beta subunit [Carbohydrate transport and metabolism]; Region: CitE; COG2301 350054010928 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 350054010929 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 350054010930 dihydrodipicolinate reductase; Provisional; Region: PRK00048 350054010931 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 350054010932 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 350054010933 Domain of unknown function (DUF222); Region: DUF222; pfam02720 350054010934 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cd00085 350054010935 active site 350054010936 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 350054010937 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 350054010938 putative DNA binding site [nucleotide binding]; other site 350054010939 putative Zn2+ binding site [ion binding]; other site 350054010940 AsnC family; Region: AsnC_trans_reg; pfam01037 350054010941 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 350054010942 Alanine dehydrogenase NAD-binding and catalytic domains; Region: L-AlaDH; cd05305 350054010943 hexamer interface [polypeptide binding]; other site 350054010944 ligand binding site [chemical binding]; other site 350054010945 putative active site [active] 350054010946 NAD(P) binding site [chemical binding]; other site 350054010947 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 350054010948 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 350054010949 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 350054010950 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 350054010951 hypothetical protein; Provisional; Region: PRK01842 350054010952 SEC-C motif; Region: SEC-C; pfam02810 350054010953 GXWXG protein; Region: GXWXG; pfam14231 350054010954 Domain of unknown function (DUF4334); Region: DUF4334; pfam14232 350054010955 Beta-lactamase enzyme family; Region: Beta-lactamase2; pfam13354 350054010956 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 350054010957 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 350054010958 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 350054010959 guanosine pentaphosphate synthetase I/polynucleotide phosphorylase; Region: pppGpp_PNP; TIGR02696 350054010960 RNase PH-like 3'-5' exoribonucleases; Region: RNase_PH; cl03114 350054010961 oligomer interface [polypeptide binding]; other site 350054010962 RNA binding site [nucleotide binding]; other site 350054010963 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 350054010964 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 350054010965 RNase E interface [polypeptide binding]; other site 350054010966 trimer interface [polypeptide binding]; other site 350054010967 active site 350054010968 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 350054010969 putative nucleic acid binding region [nucleotide binding]; other site 350054010970 G-X-X-G motif; other site 350054010971 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 350054010972 RNA binding site [nucleotide binding]; other site 350054010973 domain interface; other site 350054010974 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 350054010975 16S/18S rRNA binding site [nucleotide binding]; other site 350054010976 S13e-L30e interaction site [polypeptide binding]; other site 350054010977 25S rRNA binding site [nucleotide binding]; other site 350054010978 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 350054010979 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 350054010980 active site 350054010981 Riboflavin kinase; Region: Flavokinase; pfam01687 350054010982 Mn-dependent transcriptional regulator [Transcription]; Region: TroR; COG1321 350054010983 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 350054010984 putative DNA binding site [nucleotide binding]; other site 350054010985 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 350054010986 FeoA domain; Region: FeoA; pfam04023 350054010987 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cd07812 350054010988 hydrophobic ligand binding site; other site 350054010989 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK03287 350054010990 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 350054010991 RNA binding site [nucleotide binding]; other site 350054010992 active site 350054010993 tRNA Pseudouridine synthase II, C terminal; Region: TruB_C; pfam09142 350054010994 Phosphopantetheinyl transferase component of siderophore synthetase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntD; COG2977 350054010995 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 350054010996 Predicted phosphohydrolases [General function prediction only]; Region: Icc; COG1409 350054010997 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 350054010998 active site 350054010999 metal binding site [ion binding]; metal-binding site 350054011000 Protein of unknown function (DUF3558); Region: DUF3558; pfam12079 350054011001 Predicted acyl esterases [General function prediction only]; Region: COG2936 350054011002 X-Pro dipeptidyl-peptidase C-terminal non-catalytic domain; Region: PepX_C; smart00939 350054011003 Domain of unknown function (DUF1802); Region: DUF1802; pfam08819 350054011004 enoyl-CoA hydratase; Provisional; Region: PRK06190 350054011005 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 350054011006 substrate binding site [chemical binding]; other site 350054011007 oxyanion hole (OAH) forming residues; other site 350054011008 trimer interface [polypeptide binding]; other site 350054011009 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 350054011010 S-adenosylmethionine binding site [chemical binding]; other site 350054011011 DinF and similar proteins, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_DinF_like; cd13136 350054011012 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 350054011013 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 350054011014 DHH family; Region: DHH; pfam01368 350054011015 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 350054011016 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 350054011017 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 350054011018 Translation initiation factor 2 (IF-2; GTPase) [Translation, ribosomal structure and biogenesis]; Region: InfB; COG0532 350054011019 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 350054011020 G1 box; other site 350054011021 putative GEF interaction site [polypeptide binding]; other site 350054011022 GTP/Mg2+ binding site [chemical binding]; other site 350054011023 Switch I region; other site 350054011024 G2 box; other site 350054011025 G3 box; other site 350054011026 Switch II region; other site 350054011027 G4 box; other site 350054011028 G5 box; other site 350054011029 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 350054011030 Translation-initiation factor 2; Region: IF-2; pfam11987 350054011031 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 350054011032 Protein of unknown function (DUF448); Region: DUF448; pfam04296 350054011033 putative RNA binding cleft [nucleotide binding]; other site 350054011034 transcription elongation factor NusA; Provisional; Region: nusA; PRK12327 350054011035 NusA N-terminal domain; Region: NusA_N; pfam08529 350054011036 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 350054011037 RNA binding site [nucleotide binding]; other site 350054011038 homodimer interface [polypeptide binding]; other site 350054011039 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 350054011040 G-X-X-G motif; other site 350054011041 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 350054011042 G-X-X-G motif; other site 350054011043 ribosome maturation protein RimP; Reviewed; Region: PRK00092 350054011044 Sm and related proteins; Region: Sm_like; cl00259 350054011045 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 350054011046 putative oligomer interface [polypeptide binding]; other site 350054011047 putative RNA binding site [nucleotide binding]; other site 350054011048 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 350054011049 dinuclear metal binding motif [ion binding]; other site 350054011050 prolyl-tRNA synthetase; Provisional; Region: PRK09194 350054011051 Prolyl-tRNA synthetase (ProRS) class II core catalytic domain. ProRS is a homodimer. It is responsible for the attachment of proline to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent...; Region: ProRS_core_prok; cd00779 350054011052 dimer interface [polypeptide binding]; other site 350054011053 motif 1; other site 350054011054 active site 350054011055 motif 2; other site 350054011056 INS is an amino acid-editing domain inserted (INS) into the bacterial class II prolyl-tRNA synthetase (ProRS) however, this CD is not exclusively bacterial. It is also found at the N-terminus of the eukaryotic/archaea-like ProRS's of yeasts and...; Region: ProRS-INS; cd04334 350054011057 putative deacylase active site [active] 350054011058 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 350054011059 active site 350054011060 motif 3; other site 350054011061 ProRS Prolyl-anticodon binding domain, short version found predominantly in bacteria. ProRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding; Region: ProRS_anticodon_short; cd00861 350054011062 anticodon binding site; other site 350054011063 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 350054011064 Major Facilitator Superfamily; Region: MFS_1; pfam07690 350054011065 putative substrate translocation pore; other site 350054011066 Siroheme synthase (precorrin-2 oxidase/ferrochelatase domain) [Coenzyme metabolism]; Region: CysG; COG1648 350054011067 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 350054011068 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 350054011069 homodimer interface [polypeptide binding]; other site 350054011070 active site 350054011071 SAM binding site [chemical binding]; other site 350054011072 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 350054011073 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 350054011074 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 350054011075 catalytic triad [active] 350054011076 ATP:corrinoid adenosyltransferase [Coenzyme metabolism]; Region: BtuR; COG2109 350054011077 ATP:corrinoid adenosyltransferase BtuR/CobO/CobP. This family consists of the BtuR, CobO, CobP proteins all of which are Cob(I)alamin (vitamin B12) adenosyltransferase, which is involved in cobalamin (vitamin B12) biosynthesis. This enzyme is a homodimer; Region: CobA_CobO_BtuR; cd00561 350054011078 Walker A motif; other site 350054011079 homodimer interface [polypeptide binding]; other site 350054011080 ATP binding site [chemical binding]; other site 350054011081 hydroxycobalamin binding site [chemical binding]; other site 350054011082 Walker B motif; other site 350054011083 magnesium chelatase ATPase subunit I; Region: BchI-ChlI; TIGR02030 350054011084 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl17189 350054011085 Walker A motif; other site 350054011086 ATP binding site [chemical binding]; other site 350054011087 Walker B motif; other site 350054011088 arginine finger; other site 350054011089 Mg-chelatase subunit ChlD [Coenzyme metabolism]; Region: ChlD; COG1240 350054011090 Magnesium chelatase: Mg-chelatase catalyses the insertion of Mg into protoporphyrin IX (Proto). In chlorophyll biosynthesis, insertion of Mg2+ into protoporphyrin IX is catalysed by magnesium chelatase in an ATP-dependent reaction. Magnesium chelatase is...; Region: vWA_Magnesium_chelatase; cd01451 350054011091 metal ion-dependent adhesion site (MIDAS); other site 350054011092 Predicted acyltransferase [General function prediction only]; Region: ElaA; COG2153 350054011093 malate:quinone oxidoreductase; Validated; Region: PRK05257 350054011094 malate:quinone-oxidoreductase; Region: mal_quin_oxido; TIGR01320 350054011095 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 350054011096 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 350054011097 mycothione reductase; Reviewed; Region: PRK07846 350054011098 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 350054011099 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 350054011100 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 350054011101 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 350054011102 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 350054011103 Walker A/P-loop; other site 350054011104 ATP binding site [chemical binding]; other site 350054011105 Q-loop/lid; other site 350054011106 ABC transporter signature motif; other site 350054011107 Walker B; other site 350054011108 D-loop; other site 350054011109 H-loop/switch region; other site 350054011110 cobalt ABC transporter, permease protein CbiQ; Region: CbiQ_TIGR; TIGR02454 350054011111 PDGLE domain; Region: PDGLE; pfam13190 350054011112 ABC-type Co2+ transport system, permease component [Inorganic ion transport and metabolism]; Region: CbiM; COG0310 350054011113 Cobalt uptake substrate-specific transmembrane region; Region: CbiM; pfam01891 350054011114 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 350054011115 dimerization interface [polypeptide binding]; other site 350054011116 putative DNA binding site [nucleotide binding]; other site 350054011117 putative Zn2+ binding site [ion binding]; other site 350054011118 Methyltransferase domain; Region: Methyltransf_11; pfam08241 350054011119 Transcriptional regulators [Transcription]; Region: FadR; COG2186 350054011120 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 350054011121 DNA-binding site [nucleotide binding]; DNA binding site 350054011122 FCD domain; Region: FCD; pfam07729 350054011123 short chain dehydrogenase; Provisional; Region: PRK06057 350054011124 classical (c) SDRs; Region: SDR_c; cd05233 350054011125 NAD(P) binding site [chemical binding]; other site 350054011126 active site 350054011127 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 350054011128 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 350054011129 NAD(P) binding site [chemical binding]; other site 350054011130 catalytic residues [active] 350054011131 Predicted glutamine amidotransferases [General function prediction only]; Region: COG2071 350054011132 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 350054011133 catalytic triad [active] 350054011134 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 350054011135 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 350054011136 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 350054011137 asparagine synthase family amidotransferase; Region: trio_amidotrans; TIGR03104 350054011138 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 350054011139 active site 350054011140 dimer interface [polypeptide binding]; other site 350054011141 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 350054011142 Ligand Binding Site [chemical binding]; other site 350054011143 Molecular Tunnel; other site 350054011144 GNAT-family acetyltransferase TIGR03103; Region: trio_acet_GNAT 350054011145 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 350054011146 ATP-grasp domain; Region: ATP-grasp_4; cl17255 350054011147 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 350054011148 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 350054011149 active site 350054011150 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 350054011151 CoenzymeA binding site [chemical binding]; other site 350054011152 subunit interaction site [polypeptide binding]; other site 350054011153 PHB binding site; other site 350054011154 Domain of unknown function (DUF1707); Region: DUF1707; pfam08044 350054011155 NTF2-like N-terminal transpeptidase domain; Region: MecA_N; pfam05223 350054011156 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 350054011157 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 350054011158 Integrase core domain; Region: rve; pfam00665 350054011159 Integrase core domain; Region: rve_3; pfam13683 350054011160 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 350054011161 Predicted acetyltransferase [General function prediction only]; Region: COG3393 350054011162 Domain of unknown function (DUF4081); Region: DUF4081; pfam13312 350054011163 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 350054011164 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 350054011165 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 350054011166 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 350054011167 Predicted membrane-associated Zn-dependent proteases 1 [Cell envelope biogenesis, outer membrane]; Region: COG0750 350054011168 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 350054011169 active site 350054011170 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 350054011171 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 350054011172 putative substrate binding region [chemical binding]; other site 350054011173 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 350054011174 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 350054011175 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 350054011176 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 350054011177 Secreted and surface protein containing fasciclin-like repeats [Cell envelope biogenesis, outer membrane]; Region: COG2335 350054011178 Fasciclin domain; Region: Fasciclin; pfam02469 350054011179 Secreted and surface protein containing fasciclin-like repeats [Cell envelope biogenesis, outer membrane]; Region: COG2335 350054011180 Fasciclin domain; Region: Fasciclin; pfam02469 350054011181 DNA photolyase; Region: DNA_photolyase; pfam00875 350054011182 Deoxyribodipyrimidine photolyase [DNA replication, recombination, and repair]; Region: PhrB; COG0415 350054011183 oxidoreductase, SDR family; Region: SDR_subfam_1; TIGR03971 350054011184 classical (c) SDRs; Region: SDR_c; cd05233 350054011185 NAD(P) binding site [chemical binding]; other site 350054011186 active site 350054011187 Protein of unknown function (DUF2631); Region: DUF2631; pfam10939 350054011188 acyltransferase, WS/DGAT/MGAT; Region: acyl_WS_DGAT; TIGR02946 350054011189 Wax ester synthase-like Acyl-CoA acyltransferase domain; Region: WES_acyltransf; pfam03007 350054011190 Protein of unknown function (DUF1298); Region: DUF1298; pfam06974 350054011191 Domain of unknown function (DUF427); Region: DUF427; pfam04248 350054011192 Acyl-CoA thioesterase [Lipid metabolism]; Region: TesB; COG1946 350054011193 Thioesterase II (TEII) is thought to regenerate misprimed nonribosomal peptide synthetases (NRPSs) as well as modular polyketide synthases (PKSs) by hydrolyzing acetyl groups bound to the peptidyl carrier protein (PCP) and acyl carrier protein (ACP)...; Region: Thioesterase_II_repeat2; cd03445 350054011194 active site 350054011195 Thioesterase II (TEII) is thought to regenerate misprimed nonribosomal peptide synthetases (NRPSs) as well as modular polyketide synthases (PKSs) by hydrolyzing acetyl groups bound to the peptidyl carrier protein (PCP) and acyl carrier protein (ACP)...; Region: Thioesterase_II_repeat1; cd03444 350054011196 catalytic triad [active] 350054011197 dimer interface [polypeptide binding]; other site 350054011198 Putative NADP-dependent oxidoreductases [General function prediction only]; Region: COG2130 350054011199 Prostaglandin dehydrogenases; Region: PGDH; cd05288 350054011200 NAD(P) binding site [chemical binding]; other site 350054011201 substrate binding site [chemical binding]; other site 350054011202 dimer interface [polypeptide binding]; other site 350054011203 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG3687 350054011204 Predicted metal-dependent hydrolase; Region: Metal_hydrol; pfam10118 350054011205 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 350054011206 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350054011207 probable F420-dependent oxidoreductase, Rv2161c family; Region: F420_Rv2161c; TIGR03619 350054011208 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 350054011209 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 350054011210 probable F420-dependent oxidoreductase, Rv1855c family; Region: F420_Rv1855c; TIGR03560 350054011211 Domain of unknown function (DUF222); Region: DUF222; pfam02720 350054011212 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cd00085 350054011213 active site 350054011214 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 350054011215 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 350054011216 active site 350054011217 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 350054011218 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 350054011219 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 350054011220 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 350054011221 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 350054011222 classical (c) SDRs; Region: SDR_c; cd05233 350054011223 NAD(P) binding site [chemical binding]; other site 350054011224 active site 350054011225 HpcH/HpaI aldolase/citrate lyase family; Region: HpcH_HpaI; cl17231 350054011226 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 350054011227 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 350054011228 NAD(P) binding site [chemical binding]; other site 350054011229 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 350054011230 Cytochrome P450; Region: p450; cl12078 350054011231 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 350054011232 Strictosidine synthase; Region: Str_synth; pfam03088 350054011233 Thioesterase-like superfamily; Region: 4HBT_3; pfam13622 350054011234 Ferredoxin [Energy production and conversion]; Region: Fer; COG1141 350054011235 Protein of unknown function (DUF1271); Region: DUF1271; cl01443 350054011236 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 350054011237 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350054011238 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 350054011239 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350054011240 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 350054011241 CoA-transferase family III; Region: CoA_transf_3; pfam02515 350054011242 Ecdysteroid kinase; Region: EcKinase; cl17738 350054011243 Phosphotransferase enzyme family; Region: APH; pfam01636 350054011244 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 350054011245 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 350054011246 sequence-specific DNA binding site [nucleotide binding]; other site 350054011247 salt bridge; other site 350054011248 aldehyde dehydrogenase, Rv0768 family; Region: aldehy_Rv0768; TIGR04284 350054011249 Rhodococcus ruber 6-oxolauric acid dehydrogenase-like and related proteins; Region: ALDH_CddD-AldA-like; cd07089 350054011250 NAD binding site [chemical binding]; other site 350054011251 catalytic residues [active] 350054011252 SnoaL-like domain; Region: SnoaL_4; pfam13577 350054011253 SnoaL-like domain; Region: SnoaL_3; pfam13474 350054011254 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK14459 350054011255 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 350054011256 FeS/SAM binding site; other site 350054011257 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 350054011258 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 350054011259 ribosome recycling factor; Reviewed; Region: frr; PRK00083 350054011260 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 350054011261 hinge region; other site 350054011262 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 350054011263 putative nucleotide binding site [chemical binding]; other site 350054011264 uridine monophosphate binding site [chemical binding]; other site 350054011265 homohexameric interface [polypeptide binding]; other site 350054011266 tyramine oxidase; Provisional; Region: tynA; PRK11504 350054011267 Copper amine oxidase, N2 domain; Region: Cu_amine_oxidN2; pfam02727 350054011268 Copper amine oxidase, N3 domain; Region: Cu_amine_oxidN3; pfam02728 350054011269 Copper amine oxidase, enzyme domain; Region: Cu_amine_oxid; pfam01179 350054011270 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 350054011271 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 350054011272 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 350054011273 Walker A/P-loop; other site 350054011274 ATP binding site [chemical binding]; other site 350054011275 Q-loop/lid; other site 350054011276 ABC transporter signature motif; other site 350054011277 Walker B; other site 350054011278 D-loop; other site 350054011279 H-loop/switch region; other site 350054011280 amidase; Provisional; Region: PRK07869 350054011281 Amidase; Region: Amidase; cl11426 350054011282 exopolysaccharide biosynthesis polyprenyl glycosylphosphotransferase; Region: EPS_sugtrans; TIGR03025 350054011283 Bacterial sugar transferase; Region: Bac_transf; pfam02397 350054011284 elongation factor Ts; Provisional; Region: tsf; PRK09377 350054011285 UBA/TS-N domain; Region: UBA; pfam00627 350054011286 Elongation factor TS; Region: EF_TS; pfam00889 350054011287 Elongation factor TS; Region: EF_TS; pfam00889 350054011288 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 350054011289 rRNA interaction site [nucleotide binding]; other site 350054011290 S8 interaction site; other site 350054011291 putative laminin-1 binding site; other site 350054011292 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 350054011293 Peptidase family M23; Region: Peptidase_M23; pfam01551 350054011294 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 350054011295 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 350054011296 active site 350054011297 DNA binding site [nucleotide binding] 350054011298 Int/Topo IB signature motif; other site 350054011299 L-Lactate 2-monooxygenase (LMO) FMN-binding domain. LMO is a FMN-containing enzyme that catalyzes the conversion of L-lactate and oxygen to acetate, carbon dioxide, and water. LMO is a member of the family of alpha-hydroxy acid oxidases. It is thought...; Region: LMO_FMN; cd03332 350054011300 FMN-dependent dehydrogenase; Region: FMN_dh; pfam01070 350054011301 putative active site [active] 350054011302 putative substrate binding site [chemical binding]; other site 350054011303 putative FMN binding site [chemical binding]; other site 350054011304 putative catalytic residues [active] 350054011305 Siderophore-interacting protein [Inorganic ion transport and metabolism]; Region: ViuB; COG2375 350054011306 Siderophore interacting proteins share the domain structure of the ferredoxin reductase like family. Siderophores are produced in various bacteria (and some plants) to extract iron from hosts. Binding constants are high, so iron can be pilfered from...; Region: siderophore_interacting; cd06193 350054011307 FAD binding pocket [chemical binding]; other site 350054011308 FAD binding motif [chemical binding]; other site 350054011309 phosphate binding motif [ion binding]; other site 350054011310 NAD binding pocket [chemical binding]; other site 350054011311 Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]; Region: Smf; COG0758 350054011312 DNA protecting protein DprA; Region: dprA; TIGR00732 350054011313 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 350054011314 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 350054011315 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 350054011316 Walker A motif; other site 350054011317 ATP binding site [chemical binding]; other site 350054011318 Walker B motif; other site 350054011319 arginine finger; other site 350054011320 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 350054011321 hypothetical protein; Reviewed; Region: PRK12497 350054011322 Domain of Unknown Function (DUF1206); Region: DUF1206; pfam06724 350054011323 Domain of Unknown Function (DUF1206); Region: DUF1206; pfam06724 350054011324 Domain of Unknown Function (DUF1206); Region: DUF1206; pfam06724 350054011325 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 350054011326 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 350054011327 active site 350054011328 CoA binding site [chemical binding]; other site 350054011329 AMP binding site [chemical binding]; other site 350054011330 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 350054011331 Acyl-CoA thioesterase [Lipid metabolism]; Region: TesB; COG1946 350054011332 Thioesterase II (TEII) is thought to regenerate misprimed nonribosomal peptide synthetases (NRPSs) as well as modular polyketide synthases (PKSs) by hydrolyzing acetyl groups bound to the peptidyl carrier protein (PCP) and acyl carrier protein (ACP)...; Region: Thioesterase_II_repeat2; cd03445 350054011333 active site 350054011334 Thioesterase II (TEII) is thought to regenerate misprimed nonribosomal peptide synthetases (NRPSs) as well as modular polyketide synthases (PKSs) by hydrolyzing acetyl groups bound to the peptidyl carrier protein (PCP) and acyl carrier protein (ACP)...; Region: Thioesterase_II_repeat1; cd03444 350054011335 catalytic triad [active] 350054011336 dimer interface [polypeptide binding]; other site 350054011337 mesaconyl-CoA isomerase; Region: mesacon_CoA_iso; TIGR04253 350054011338 CoA-transferase family III; Region: CoA_transf_3; pfam02515 350054011339 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 350054011340 Cytochrome P450; Region: p450; cl12078 350054011341 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 350054011342 oxidoreductase, SDR family; Region: SDR_subfam_1; TIGR03971 350054011343 classical (c) SDRs; Region: SDR_c; cd05233 350054011344 NAD(P) binding site [chemical binding]; other site 350054011345 active site 350054011346 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 350054011347 Cytochrome P450; Region: p450; cl12078 350054011348 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 350054011349 Cytochrome P450; Region: p450; cl12078 350054011350 short chain dehydrogenase; Provisional; Region: PRK06179 350054011351 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 350054011352 NAD(P) binding site [chemical binding]; other site 350054011353 active site 350054011354 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 350054011355 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 350054011356 ligand binding site [chemical binding]; other site 350054011357 MoxR-like ATPases [General function prediction only]; Region: COG0714 350054011358 AAA domain (dynein-related subfamily); Region: AAA_5; pfam07728 350054011359 Walker A motif; other site 350054011360 ATP binding site [chemical binding]; other site 350054011361 Walker B motif; other site 350054011362 CbbQ/NirQ/NorQ C-terminal; Region: CbbQ_C; pfam08406 350054011363 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 350054011364 metal ion-dependent adhesion site (MIDAS); other site 350054011365 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 350054011366 short chain dehydrogenase; Provisional; Region: PRK07791 350054011367 NAD(P) binding site [chemical binding]; other site 350054011368 active site 350054011369 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 350054011370 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350054011371 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 350054011372 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350054011373 Uncharacterized conserved protein related to dihydrodipicolinate reductase [Function unknown]; Region: COG3804 350054011374 mce related protein; Region: MCE; pfam02470 350054011375 Protein of unknown function (DUF3407); Region: DUF3407; pfam11887 350054011376 virulence factor Mce family protein; Region: Mtu_fam_mce; TIGR00996 350054011377 mce related protein; Region: MCE; pfam02470 350054011378 Uncharacterized protein, probably involved in trehalose biosynthesis [Carbohydrate transport and metabolism]; Region: Ble; COG3281 350054011379 mce related protein; Region: MCE; pfam02470 350054011380 Protein of unknown function (DUF3407); Region: DUF3407; pfam11887 350054011381 mce related protein; Region: MCE; pfam02470 350054011382 virulence factor Mce family protein; Region: Mtu_fam_mce; TIGR00996 350054011383 virulence factor Mce family protein; Region: Mtu_fam_mce; TIGR00996 350054011384 mce related protein; Region: MCE; pfam02470 350054011385 virulence factor Mce family protein; Region: Mtu_fam_mce; TIGR00996 350054011386 mce related protein; Region: MCE; pfam02470 350054011387 Protein of unknown function (DUF2469); Region: DUF2469; pfam10611 350054011388 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 350054011389 RNA/DNA hybrid binding site [nucleotide binding]; other site 350054011390 active site 350054011391 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 350054011392 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 350054011393 Catalytic site [active] 350054011394 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 350054011395 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 350054011396 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 350054011397 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 350054011398 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 350054011399 RimM N-terminal domain; Region: RimM; pfam01782 350054011400 PRC-barrel domain; Region: PRC; pfam05239 350054011401 hypothetical protein; Provisional; Region: PRK02821 350054011402 Predicted RNA-binding protein (contains KH domain) [General function prediction only]; Region: COG1837 350054011403 G-X-X-G motif; other site 350054011404 30S ribosomal protein S16; Provisional; Region: rpsP; PRK14520 350054011405 MgtE intracellular N domain; Region: MgtE_N; smart00924 350054011406 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 350054011407 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 350054011408 Divalent cation transporter; Region: MgtE; cl00786 350054011409 SnoaL-like domain; Region: SnoaL_4; pfam13577 350054011410 SnoaL-like domain; Region: SnoaL_3; pfam13474 350054011411 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cd00531 350054011412 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 350054011413 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 350054011414 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 350054011415 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 350054011416 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 350054011417 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 350054011418 active site 350054011419 signal recognition particle protein; Provisional; Region: PRK10867 350054011420 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 350054011421 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 350054011422 P loop; other site 350054011423 GTP binding site [chemical binding]; other site 350054011424 Signal peptide binding domain; Region: SRP_SPB; pfam02978 350054011425 PII uridylyl-transferase; Provisional; Region: PRK03381 350054011426 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 350054011427 metal binding triad; other site 350054011428 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 350054011429 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 350054011430 Zn2+ binding site [ion binding]; other site 350054011431 Mg2+ binding site [ion binding]; other site 350054011432 ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD; Region: ACT_UUR-ACR-like; cd04873 350054011433 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 350054011434 Nitrogen regulatory protein P-II; Region: P-II; pfam00543 350054011435 Nitrogen regulatory protein P-II; Region: P-II; smart00938 350054011436 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 350054011437 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 350054011438 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 350054011439 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 350054011440 isopentenyl pyrophosphate isomerase; Provisional; Region: PRK05437 350054011441 Isopentenyl-diphosphate:dimethylallyl diphosphate isomerase type 2 (IDI-2) FMN-binding domain. Two types of IDIs have been characterized at present. The long known IDI-1 is only dependent on divalent metals for activity, whereas IDI-2 requires a metal; Region: IDI-2_FMN; cd02811 350054011442 homotetramer interface [polypeptide binding]; other site 350054011443 FMN binding site [chemical binding]; other site 350054011444 homodimer contacts [polypeptide binding]; other site 350054011445 putative active site [active] 350054011446 putative substrate binding site [chemical binding]; other site 350054011447 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 350054011448 AAA domain; Region: AAA_23; pfam13476 350054011449 Walker A/P-loop; other site 350054011450 ATP binding site [chemical binding]; other site 350054011451 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 350054011452 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; smart00968 350054011453 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 350054011454 ABC transporter signature motif; other site 350054011455 Walker B; other site 350054011456 D-loop; other site 350054011457 H-loop/switch region; other site 350054011458 acylphosphatase; Provisional; Region: PRK14422 350054011459 Predicted redox protein, regulator of disulfide bond formation [Posttranslational modification, protein turnover, chaperones]; Region: COG1765 350054011460 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 350054011461 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 350054011462 DNA binding site [nucleotide binding] 350054011463 catalytic residue [active] 350054011464 H2TH interface [polypeptide binding]; other site 350054011465 putative catalytic residues [active] 350054011466 turnover-facilitating residue; other site 350054011467 intercalation triad [nucleotide binding]; other site 350054011468 8OG recognition residue [nucleotide binding]; other site 350054011469 putative reading head residues; other site 350054011470 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 350054011471 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 350054011472 ribonuclease III; Reviewed; Region: rnc; PRK00102 350054011473 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 350054011474 dimerization interface [polypeptide binding]; other site 350054011475 active site 350054011476 metal binding site [ion binding]; metal-binding site 350054011477 Double-stranded RNA binding motif. Binding is not sequence specific but is highly specific for double stranded RNA. Found in a variety of proteins including dsRNA dependent protein kinase PKR, RNA helicases, Drosophila staufen protein, E. coli RNase III; Region: DSRM; cd00048 350054011478 dsRNA binding site [nucleotide binding]; other site 350054011479 Predicted metal-binding, possibly nucleic acid-binding protein [General function prediction only]; Region: COG1399 350054011480 Cell division initiation protein [Cell division and chromosome partitioning]; Region: DivIVA; COG3599 350054011481 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl17192 350054011482 Hemerythrin-like domain; Region: Hr-like; cd12108 350054011483 Fe binding site [ion binding]; other site 350054011484 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 350054011485 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 350054011486 active site 350054011487 (T/H)XGH motif; other site 350054011488 Conserved hypothetical protein 95; Region: Cons_hypoth95; pfam03602 350054011489 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 350054011490 S-adenosylmethionine binding site [chemical binding]; other site 350054011491 pyruvate carboxylase; Reviewed; Region: PRK12999 350054011492 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 350054011493 ATP-grasp domain; Region: ATP-grasp_4; cl17255 350054011494 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 350054011495 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 350054011496 active site 350054011497 catalytic residues [active] 350054011498 metal binding site [ion binding]; metal-binding site 350054011499 homodimer binding site [polypeptide binding]; other site 350054011500 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 350054011501 carboxyltransferase (CT) interaction site; other site 350054011502 biotinylation site [posttranslational modification]; other site 350054011503 Transposase; Region: DEDD_Tnp_IS110; pfam01548 350054011504 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 350054011505 Transposase; Region: DEDD_Tnp_IS110; pfam01548 350054011506 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 350054011507 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 350054011508 Vitamin K epoxide reductase family in bacteria; Region: VKOR_5; cd12922 350054011509 putative active site [active] 350054011510 redox center [active] 350054011511 Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: DsbG; COG1651 350054011512 DsbA family; consists of DsbA and DsbA-like proteins, including DsbC, DsbG, glutathione (GSH) S-transferase kappa (GSTK), 2-hydroxychromene-2-carboxylate (HCCA) isomerase, an oxidoreductase (FrnE) presumed to be involved in frenolicin biosynthesis, a...; Region: DsbA_family; cd02972 350054011513 catalytic residues [active] 350054011514 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 350054011515 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 350054011516 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 350054011517 HTH-like domain; Region: HTH_21; pfam13276 350054011518 Integrase core domain; Region: rve; pfam00665 350054011519 Integrase core domain; Region: rve_3; pfam13683 350054011520 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 350054011521 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 350054011522 active site 350054011523 catalytic tetrad [active] 350054011524 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 350054011525 PepSY-associated TM helix; Region: PepSY_TM_1; pfam13172 350054011526 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 350054011527 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 350054011528 Protein of unknown function (DUF461); Region: DUF461; pfam04314 350054011529 Dyp-type peroxidase family; Region: Dyp_perox; cl01067 350054011530 Protein of unknown function (DUF1524); Region: DUF1524; pfam07510 350054011531 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 350054011532 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 350054011533 generic binding surface II; other site 350054011534 ssDNA binding site; other site 350054011535 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 350054011536 ATP binding site [chemical binding]; other site 350054011537 putative Mg++ binding site [ion binding]; other site 350054011538 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 350054011539 nucleotide binding region [chemical binding]; other site 350054011540 ATP-binding site [chemical binding]; other site 350054011541 DAK2 domain fusion protein YloV; Region: YloV; TIGR03599 350054011542 DAK2 domain; Region: Dak2; cl03685 350054011543 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 350054011544 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 350054011545 ligand binding site [chemical binding]; other site 350054011546 active site 350054011547 UGI interface [polypeptide binding]; other site 350054011548 catalytic site [active] 350054011549 thiamine monophosphate kinase; Provisional; Region: PRK05731 350054011550 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 350054011551 ATP binding site [chemical binding]; other site 350054011552 dimerization interface [polypeptide binding]; other site 350054011553 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 350054011554 AsnC family; Region: AsnC_trans_reg; pfam01037 350054011555 Protein of unknown function (DUF3515); Region: DUF3515; pfam12028 350054011556 D-alanyl-alanine synthetase A; Reviewed; Region: ddl; PRK01966 350054011557 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 350054011558 D-ala D-ala ligase C-terminus; Region: Dala_Dala_lig_C; pfam07478 350054011559 cystathionine gamma-lyase; Validated; Region: PRK07582 350054011560 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 350054011561 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 350054011562 catalytic residue [active] 350054011563 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 350054011564 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 350054011565 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 350054011566 2-phospho-L-lactate guanylyltransferase; Region: F420_cofC; TIGR03552 350054011567 polyphosphate kinase; Provisional; Region: PRK05443 350054011568 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 350054011569 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 350054011570 Catalytic C-terminal domain, first repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C1_like; cd09165 350054011571 putative domain interface [polypeptide binding]; other site 350054011572 putative active site [active] 350054011573 catalytic site [active] 350054011574 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 350054011575 putative active site [active] 350054011576 catalytic site [active] 350054011577 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 350054011578 active site 350054011579 Ap6A binding site [chemical binding]; other site 350054011580 nudix motif; other site 350054011581 metal binding site [ion binding]; metal-binding site 350054011582 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 350054011583 catalytic core [active] 350054011584 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 350054011585 IHF - DNA interface [nucleotide binding]; other site 350054011586 IHF dimer interface [polypeptide binding]; other site 350054011587 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 350054011588 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 350054011589 substrate binding site [chemical binding]; other site 350054011590 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 350054011591 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 350054011592 substrate binding site [chemical binding]; other site 350054011593 ligand binding site [chemical binding]; other site 350054011594 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 350054011595 Transcriptional regulator [Transcription]; Region: IclR; COG1414 350054011596 Bacterial transcriptional regulator; Region: IclR; pfam01614 350054011597 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 350054011598 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 350054011599 HIGH motif; other site 350054011600 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 350054011601 active site 350054011602 KMSKS motif; other site 350054011603 Domain of unknown function (DUF2437); Region: DUF2437; pfam10370 350054011604 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 350054011605 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 350054011606 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 350054011607 Major Facilitator Superfamily; Region: MFS_1; pfam07690 350054011608 putative substrate translocation pore; other site 350054011609 3-isopropylmalate dehydrogenase; Provisional; Region: PRK03437 350054011610 tartrate dehydrogenase; Region: TTC; TIGR02089 350054011611 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK13581 350054011612 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_4; cd12173 350054011613 ligand binding site [chemical binding]; other site 350054011614 NAD binding site [chemical binding]; other site 350054011615 dimerization interface [polypeptide binding]; other site 350054011616 catalytic site [active] 350054011617 C-terminal ACT (regulatory) domain of D-3-phosphoglycerate dehydrogenase (3PGDH); Region: ACT_3PGDH-xct; cd04902 350054011618 putative L-serine binding site [chemical binding]; other site 350054011619 Phytoene dehydrogenase and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG1233 350054011620 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 350054011621 Protein of unknown function (DUF3159); Region: DUF3159; pfam11361 350054011622 ketol-acid reductoisomerase; Provisional; Region: PRK05479 350054011623 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 350054011624 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 350054011625 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 350054011626 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 350054011627 putative valine binding site [chemical binding]; other site 350054011628 dimer interface [polypeptide binding]; other site 350054011629 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 350054011630 acetolactate synthase 1 catalytic subunit; Validated; Region: PRK07789 350054011631 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 350054011632 PYR/PP interface [polypeptide binding]; other site 350054011633 dimer interface [polypeptide binding]; other site 350054011634 TPP binding site [chemical binding]; other site 350054011635 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; cd00368 350054011636 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 350054011637 TPP-binding site [chemical binding]; other site 350054011638 dimer interface [polypeptide binding]; other site 350054011639 Protein of unknown function (DUF2581); Region: DUF2581; pfam10756 350054011640 Predicted membrane protein [Function unknown]; Region: COG2259 350054011641 Glucose/sorbosone dehydrogenases [Carbohydrate transport and metabolism]; Region: COG2133 350054011642 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 350054011643 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 350054011644 dimer interface [polypeptide binding]; other site 350054011645 phosphorylation site [posttranslational modification] 350054011646 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 350054011647 ATP binding site [chemical binding]; other site 350054011648 Mg2+ binding site [ion binding]; other site 350054011649 G-X-G motif; other site 350054011650 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 350054011651 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 350054011652 GatB domain; Region: GatB_Yqey; pfam02637 350054011653 6-phosphofructokinase; Provisional; Region: PRK03202 350054011654 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 350054011655 active site 350054011656 ADP/pyrophosphate binding site [chemical binding]; other site 350054011657 dimerization interface [polypeptide binding]; other site 350054011658 allosteric effector site; other site 350054011659 fructose-1,6-bisphosphate binding site; other site 350054011660 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 350054011661 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 350054011662 ACT_MalLac-Enz CD includes the N-terminal ACT domain of putative NAD-dependent malic enzyme 1, Bacillus subtilis YqkI and related domains; Region: ACT_MalLac-Enz; cd04887 350054011663 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 350054011664 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 350054011665 nucleotide binding pocket [chemical binding]; other site 350054011666 K-X-D-G motif; other site 350054011667 catalytic site [active] 350054011668 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 350054011669 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 350054011670 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 350054011671 Dimer interface [polypeptide binding]; other site 350054011672 Protein of unknown function (DUF419); Region: DUF419; pfam04237 350054011673 4-coumarate--CoA ligase; Region: PLN02246 350054011674 4-Coumarate-CoA Ligase (4CL); Region: 4CL; cd05904 350054011675 acyl-activating enzyme (AAE) consensus motif; other site 350054011676 active site 350054011677 putative CoA binding site [chemical binding]; other site 350054011678 AMP binding site [chemical binding]; other site 350054011679 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 350054011680 GAF domain; Region: GAF; pfam01590 350054011681 PAS fold; Region: PAS_4; pfam08448 350054011682 PAS fold; Region: PAS; pfam00989 350054011683 PAS domain; Region: PAS; smart00091 350054011684 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 350054011685 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 350054011686 metal binding site [ion binding]; metal-binding site 350054011687 active site 350054011688 I-site; other site 350054011689 CIMS - Cobalamine-independent methonine synthase, or MetE. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme catalyses the last step in...; Region: CIMS_like; cd03310 350054011690 PknH-like extracellular domain; Region: PknH_C; pfam14032 350054011691 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 350054011692 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 350054011693 Ligand Binding Site [chemical binding]; other site 350054011694 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 350054011695 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 350054011696 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 350054011697 catalytic residue [active] 350054011698 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 350054011699 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 350054011700 putative acyl-acceptor binding pocket; other site 350054011701 Acetyltransferase (GNAT) domain; Region: Acetyltransf_5; cl17496 350054011702 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 350054011703 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_alpha; cd01715 350054011704 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 350054011705 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 350054011706 Ligand binding site [chemical binding]; other site 350054011707 Electron transfer flavoprotein domain; Region: ETF; pfam01012 350054011708 Methyltransferase domain; Region: Methyltransf_23; pfam13489 350054011709 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 350054011710 S-adenosylmethionine binding site [chemical binding]; other site 350054011711 Uncharacterized conserved protein [Function unknown]; Region: COG1543 350054011712 Catalytic domain of glycoside hydrolase (GH) families 38 and 57, lactam utilization protein LamB/YcsF family proteins, YdjC-family proteins, and similar proteins; Region: GH38-57_N_LamB_YdjC_SF; cl17191 350054011713 Domain of unknown function (DUF1957); Region: DUF1957; pfam09210 350054011714 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 350054011715 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 350054011716 glucose-6-phosphate 1-dehydrogenase; Provisional; Region: PRK12854 350054011717 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 350054011718 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 350054011719 Acetyltransferase (isoleucine patch superfamily) [General function prediction only]; Region: WbbJ; COG0110 350054011720 Maltose O-acyltransferase (MAT)-like: This family is composed of maltose O-acetyltransferase, galactoside O-acetyltransferase (GAT), xenobiotic acyltransferase (XAT) and similar proteins. MAT and GAT catalyze the CoA-dependent acetylation of the...; Region: LbH_MAT_like; cd04647 350054011721 trimer interface [polypeptide binding]; other site 350054011722 active site 350054011723 substrate binding site [chemical binding]; other site 350054011724 CoA binding site [chemical binding]; other site 350054011725 FOG: WD40-like repeat [Function unknown]; Region: COG1520 350054011726 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 350054011727 active site 350054011728 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 350054011729 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 350054011730 Protein of unknown function (DUF3298); Region: DUF3298; pfam11738 350054011731 RRNA methyltransferase AviRa; Region: AviRa; pfam11599 350054011732 Methyltransferase domain; Region: Methyltransf_31; pfam13847 350054011733 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 350054011734 S-adenosylmethionine binding site [chemical binding]; other site 350054011735 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 350054011736 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 350054011737 substrate binding site [chemical binding]; other site 350054011738 oxyanion hole (OAH) forming residues; other site 350054011739 trimer interface [polypeptide binding]; other site 350054011740 ABC-type molybdenum transport system, ATPase component/photorepair protein PhrA [Inorganic ion transport and metabolism]; Region: ModF; COG1119 350054011741 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 350054011742 Walker A/P-loop; other site 350054011743 ATP binding site [chemical binding]; other site 350054011744 Q-loop/lid; other site 350054011745 ABC transporter signature motif; other site 350054011746 Walker B; other site 350054011747 D-loop; other site 350054011748 nucleoside triphosphate hydrolase domain-containing protein; Reviewed; Region: PRK09270 350054011749 Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates...; Region: NK; cl17190 350054011750 active site 350054011751 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 350054011752 Predicted membrane protein [Function unknown]; Region: COG2364 350054011753 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 350054011754 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 350054011755 DNA-binding site [nucleotide binding]; DNA binding site 350054011756 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 350054011757 pyridoxal 5'-phosphate binding site [chemical binding]; other site 350054011758 homodimer interface [polypeptide binding]; other site 350054011759 catalytic residue [active] 350054011760 CT domains found N-terminal of phosphoserine phosphatase (PSP, SerB); Region: ACT_PSP_1; cd04870 350054011761 ACT domains found N-terminal of phosphoserine phosphatase (PSP, SerB); Region: ACT_PSP_2; cd04871 350054011762 phosphoserine phosphatase SerB; Region: serB; TIGR00338 350054011763 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 350054011764 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 350054011765 motif II; other site 350054011766 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 350054011767 Ubiquinol oxidase subunit I. Ubiquinol oxidase, the terminal oxidase in the respiratory chains of aerobic bacteria, is a multi-chain transmembrane protein located in the cell membrane. It catalyzes the reduction of O2 and simultaneously pumps protons...; Region: Ubiquinol_Oxidase_I; cd01662 350054011768 D-pathway; other site 350054011769 Putative ubiquinol binding site [chemical binding]; other site 350054011770 Low-spin heme (heme b) binding site [chemical binding]; other site 350054011771 Putative water exit pathway; other site 350054011772 Binuclear center (heme o3/CuB) [ion binding]; other site 350054011773 K-pathway; other site 350054011774 Putative proton exit pathway; other site 350054011775 Fe3+-siderophore binding domain FhuD. These proteins have been shown to function as initial receptors in ABC transport of Fe3+-siderophores in many eubacterial species. They belong to the TroA-like superfamily of helical backbone metal receptor proteins...; Region: FhuD; cd01146 350054011776 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 350054011777 siderophore binding site; other site 350054011778 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 350054011779 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD1; cd05283 350054011780 putative NAD(P) binding site [chemical binding]; other site 350054011781 putative substrate binding site [chemical binding]; other site 350054011782 catalytic Zn binding site [ion binding]; other site 350054011783 structural Zn binding site [ion binding]; other site 350054011784 dimer interface [polypeptide binding]; other site 350054011785 Protein of unknown function (DUF3349); Region: DUF3349; pfam11829 350054011786 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 350054011787 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350054011788 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 350054011789 Cytochrome P450; Region: p450; cl12078 350054011790 Transposase, Mutator family; Region: Transposase_mut; pfam00872 350054011791 MULE transposase domain; Region: MULE; pfam10551 350054011792 putative transporter; Provisional; Region: PRK11043 350054011793 ribonucleotide-diphosphate reductase subunit beta; Provisional; Region: nrdF2; PRK13966 350054011794 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 350054011795 dimer interface [polypeptide binding]; other site 350054011796 putative radical transfer pathway; other site 350054011797 diiron center [ion binding]; other site 350054011798 tyrosyl radical; other site 350054011799 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 350054011800 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 350054011801 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 350054011802 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 350054011803 Zn2+ binding site [ion binding]; other site 350054011804 Mg2+ binding site [ion binding]; other site 350054011805 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 350054011806 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 350054011807 DNA binding residues [nucleotide binding] 350054011808 dimerization interface [polypeptide binding]; other site 350054011809 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 350054011810 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350054011811 geranylgeranyl reductase family; Region: GG-red-SF; TIGR02032 350054011812 Patatin-like phospholipase; Region: Pat17_PNPLA8_PNPLA9_like4; cd07217 350054011813 active site 350054011814 nucleophile elbow; other site 350054011815 TIR domain; Region: TIR_2; pfam13676 350054011816 AAA ATPase domain; Region: AAA_16; pfam13191 350054011817 FOG: WD40 repeat [General function prediction only]; Region: COG2319 350054011818 WD domain, G-beta repeat; Region: WD40; pfam00400 350054011819 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cd00200 350054011820 structural tetrad; other site 350054011821 FOG: WD40 repeat [General function prediction only]; Region: COG2319 350054011822 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cd00200 350054011823 structural tetrad; other site 350054011824 WD domain, G-beta repeat; Region: WD40; pfam00400 350054011825 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 350054011826 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_10; cd07251 350054011827 Cupin domain; Region: Cupin_2; cl17218 350054011828 Predicted transcriptional regulator [Transcription]; Region: COG2345 350054011829 Helix-turn-helix domain; Region: HTH_20; pfam12840 350054011830 Methyltransferase domain; Region: Methyltransf_31; pfam13847 350054011831 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 350054011832 S-adenosylmethionine binding site [chemical binding]; other site 350054011833 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 350054011834 gallidermin-class lantibiotic protection ABC transporter, ATP-binding subunit; Region: galliderm_ABC; TIGR03740 350054011835 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 350054011836 Walker A/P-loop; other site 350054011837 ATP binding site [chemical binding]; other site 350054011838 Q-loop/lid; other site 350054011839 ABC transporter signature motif; other site 350054011840 Walker B; other site 350054011841 D-loop; other site 350054011842 H-loop/switch region; other site 350054011843 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 350054011844 dimerization interface [polypeptide binding]; other site 350054011845 GIY-YIG domain of uncharacterized hypothetical protein found in bacteria; Region: GIY-YIG_unchar_1; cd10446 350054011846 GIY-YIG motif/motif A; other site 350054011847 putative active site [active] 350054011848 putative metal binding site [ion binding]; other site 350054011849 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK08188 350054011850 Ribonucleotide reductase N-terminal; Region: RNR_N; pfam08343 350054011851 Class I ribonucleotide reductase; Region: RNR_I; cd01679 350054011852 active site 350054011853 dimer interface [polypeptide binding]; other site 350054011854 catalytic residues [active] 350054011855 effector binding site; other site 350054011856 R2 peptide binding site; other site 350054011857 ribonucleotide reductase stimulatory protein; Reviewed; Region: nrdI; PRK03600 350054011858 NrdH-redoxin (NrdH) family; NrdH is a small monomeric protein with a conserved redox active CXXC motif within a TRX fold, characterized by a glutaredoxin (GRX)-like sequence and TRX-like activity profile. In vitro, it displays protein disulfide reductase...; Region: NrdH; cd02976 350054011859 catalytic residues [active] 350054011860 Predicted flavoprotein [General function prediction only]; Region: COG0431 350054011861 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 350054011862 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350054011863 DNA polymerase IV; Validated; Region: PRK03352 350054011864 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 350054011865 active site 350054011866 DNA binding site [nucleotide binding] 350054011867 GAF domain; Region: GAF; pfam01590 350054011868 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 350054011869 Predicted ATPase [General function prediction only]; Region: COG4637 350054011870 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 350054011871 Walker A/P-loop; other site 350054011872 ATP binding site [chemical binding]; other site 350054011873 short chain dehydrogenase; Provisional; Region: PRK07832 350054011874 classical (c) SDRs; Region: SDR_c; cd05233 350054011875 NAD(P) binding site [chemical binding]; other site 350054011876 active site 350054011877 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 350054011878 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350054011879 Cytochrome P450; Region: p450; cl12078 350054011880 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 350054011881 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 350054011882 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 350054011883 Acyl-CoA dehydrogenase (ACAD) 10 and 11, N-terminal domain, and similar proteins. This subfamily is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs); Region: ACAD10_11_like; cd05154 350054011884 Phosphotransferase enzyme family; Region: APH; pfam01636 350054011885 putative active site [active] 350054011886 putative substrate binding site [chemical binding]; other site 350054011887 ATP binding site [chemical binding]; other site 350054011888 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK08217 350054011889 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 350054011890 NAD(P) binding site [chemical binding]; other site 350054011891 active site 350054011892 Sulfite oxidase and related enzymes [General function prediction only]; Region: COG2041 350054011893 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 350054011894 Moco binding site; other site 350054011895 metal coordination site [ion binding]; other site 350054011896 dimerization interface [polypeptide binding]; other site 350054011897 ATP-dependent DNA ligase; Reviewed; Region: ligB; PRK03180 350054011898 Adenylation domain of archaeal and bacterial LigB-like DNA ligases; Region: Adenylation_DNA_ligase_Arch_LigB; cd07901 350054011899 active site 350054011900 DNA binding site [nucleotide binding] 350054011901 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 350054011902 DNA binding site [nucleotide binding] 350054011903 carbon starvation protein A; Provisional; Region: PRK15015 350054011904 Carbon starvation protein CstA; Region: CstA; pfam02554 350054011905 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 350054011906 Protein of unknown function (DUF466); Region: DUF466; cl01082 350054011907 Amidohydrolase; Region: Amidohydro_2; pfam04909 350054011908 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 350054011909 Cytochrome P450; Region: p450; cl12078 350054011910 coenzyme F420-dependent oxidoreductase, NP1902A family; Region: F420_NP1902A; TIGR04024 350054011911 N5,N10-methylenetetrahydromethanopterin reductase (Mer) catalyzes the reduction of N5,N10-methylenetetrahydromethanopterin with reduced coenzyme F420 to N5-methyltetrahydromethanopterin and oxidized coenzyme F420; Region: Tetrahydromethanopterin_reductase; cd01097 350054011912 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 350054011913 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 350054011914 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 350054011915 probable F420-dependent oxidoreductase, MSMEG_2249 family; Region: F420_MSMEG_2249; TIGR03857 350054011916 N5,N10-methylenetetrahydromethanopterin reductase (Mer) catalyzes the reduction of N5,N10-methylenetetrahydromethanopterin with reduced coenzyme F420 to N5-methyltetrahydromethanopterin and oxidized coenzyme F420; Region: Tetrahydromethanopterin_reductase; cd01097 350054011917 SnoaL-like domain; Region: SnoaL_2; pfam12680 350054011918 Phosphotransferase enzyme family; Region: APH; pfam01636 350054011919 Ecdysteroid kinase; Region: EcKinase; cl17738 350054011920 Uncharacterized conserved protein (DUF2048); Region: DUF2048; pfam09752 350054011921 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 350054011922 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 350054011923 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 350054011924 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 350054011925 Rieske non-heme iron oxygenase (RO) family, N-terminal Rieske domain of the oxygenase alpha subunit; The RO family comprise a large class of aromatic ring-hydroxylating dioxygenases found predominantly in microorganisms. These enzymes enable...; Region: Rieske_RO_Alpha_N; cd03469 350054011926 [2Fe-2S] cluster binding site [ion binding]; other site 350054011927 Isochorismatase family; Region: Isochorismatase; pfam00857 350054011928 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cd00431 350054011929 catalytic triad [active] 350054011930 conserved cis-peptide bond; other site 350054011931 acyl-CoA synthetase; Validated; Region: PRK07798 350054011932 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 350054011933 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_5; cd05924 350054011934 acyl-activating enzyme (AAE) consensus motif; other site 350054011935 acyl-activating enzyme (AAE) consensus motif; other site 350054011936 putative AMP binding site [chemical binding]; other site 350054011937 putative active site [active] 350054011938 putative CoA binding site [chemical binding]; other site 350054011939 aldehyde dehydrogenase family protein; Provisional; Region: PTZ00381 350054011940 Coniferyl aldehyde dehydrogenase-like; Region: ALDH_CALDH_CalB; cd07133 350054011941 NAD(P) binding site [chemical binding]; other site 350054011942 catalytic residues [active] 350054011943 Protein of unknown function (DUF2834); Region: DUF2834; pfam11196 350054011944 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 350054011945 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 350054011946 NAD(P) binding site [chemical binding]; other site 350054011947 active site 350054011948 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 350054011949 Cytochrome P450; Region: p450; cl12078 350054011950 aldehyde dehydrogenase, Rv0768 family; Region: aldehy_Rv0768; TIGR04284 350054011951 Rhodococcus ruber 6-oxolauric acid dehydrogenase-like and related proteins; Region: ALDH_CddD-AldA-like; cd07089 350054011952 NAD binding site [chemical binding]; other site 350054011953 catalytic residues [active] 350054011954 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 350054011955 CoA-transferase family III; Region: CoA_transf_3; pfam02515 350054011956 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 350054011957 formate dehydrogenase, alpha subunit, archaeal-type; Region: Fdh-alpha; TIGR01591 350054011958 molybdopterin cofactor binding site; other site 350054011959 Molybdopterin-Binding, C-terminal (MopB_CT) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum-...; Region: MopB_CT; cl09929 350054011960 molybdopterin cofactor binding site; other site 350054011961 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 350054011962 Cytochrome P450; Region: p450; cl12078 350054011963 Thioesterase-like superfamily; Region: 4HBT_3; pfam13622 350054011964 acetyl-CoA acetyltransferase; Provisional; Region: PRK06064 350054011965 Thiolase domain associated with sterol carrier protein (SCP)-x isoform and related proteins; SCP-2 has multiple roles in intracellular lipid circulation and metabolism. The N-terminal presequence in the SCP-x isoform represents a peroxisomal...; Region: SCP-x_thiolase; cd00829 350054011966 active site 350054011967 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 350054011968 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 350054011969 active site 350054011970 pimeloyl-CoA dehydrogenase, small subunit; Region: pimD_small; TIGR03203 350054011971 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 350054011972 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 350054011973 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 350054011974 acyl-CoA synthetase; Validated; Region: PRK07798 350054011975 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 350054011976 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_5; cd05924 350054011977 acyl-activating enzyme (AAE) consensus motif; other site 350054011978 acyl-activating enzyme (AAE) consensus motif; other site 350054011979 putative AMP binding site [chemical binding]; other site 350054011980 putative active site [active] 350054011981 putative CoA binding site [chemical binding]; other site 350054011982 Amidohydrolase; Region: Amidohydro_2; pfam04909 350054011983 enoyl-CoA hydratase; Provisional; Region: PRK06210 350054011984 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 350054011985 substrate binding site [chemical binding]; other site 350054011986 oxyanion hole (OAH) forming residues; other site 350054011987 trimer interface [polypeptide binding]; other site 350054011988 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cl15762 350054011989 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 350054011990 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 350054011991 active site 350054011992 inhibitor site; inhibition site 350054011993 dimer interface [polypeptide binding]; other site 350054011994 catalytic residue [active] 350054011995 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 350054011996 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 350054011997 NAD(P) binding site [chemical binding]; other site 350054011998 active site 350054011999 enoyl-CoA hydratase; Provisional; Region: PRK08252 350054012000 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 350054012001 substrate binding site [chemical binding]; other site 350054012002 oxyanion hole (OAH) forming residues; other site 350054012003 trimer interface [polypeptide binding]; other site 350054012004 tetracycline repressor protein TetR; Provisional; Region: PRK13756 350054012005 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350054012006 Tetracyclin repressor, C-terminal all-alpha domain; Region: TetR_C; pfam02909 350054012007 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 350054012008 acetyl-CoA acetyltransferases; Region: AcCoA-C-Actrans; TIGR01930 350054012009 dimer interface [polypeptide binding]; other site 350054012010 active site 350054012011 Enoyl-CoA hydratase/isomerase family; Region: ECH; pfam00378 350054012012 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 350054012013 substrate binding site [chemical binding]; other site 350054012014 oxyanion hole (OAH) forming residues; other site 350054012015 trimer interface [polypeptide binding]; other site 350054012016 Transcriptional regulators [Transcription]; Region: FadR; COG2186 350054012017 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 350054012018 DNA-binding site [nucleotide binding]; DNA binding site 350054012019 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 350054012020 enoyl-CoA hydratase; Provisional; Region: PRK06688 350054012021 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 350054012022 substrate binding site [chemical binding]; other site 350054012023 oxyanion hole (OAH) forming residues; other site 350054012024 trimer interface [polypeptide binding]; other site 350054012025 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 350054012026 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 350054012027 substrate binding site [chemical binding]; other site 350054012028 oxyanion hole (OAH) forming residues; other site 350054012029 trimer interface [polypeptide binding]; other site 350054012030 enoyl-CoA hydratase; Provisional; Region: PRK08290 350054012031 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 350054012032 substrate binding site [chemical binding]; other site 350054012033 oxyanion hole (OAH) forming residues; other site 350054012034 trimer interface [polypeptide binding]; other site 350054012035 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 350054012036 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 350054012037 AMP binding site [chemical binding]; other site 350054012038 active site 350054012039 acyl-activating enzyme (AAE) consensus motif; other site 350054012040 CoA binding site [chemical binding]; other site 350054012041 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 350054012042 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 350054012043 acyl-activating enzyme (AAE) consensus motif; other site 350054012044 AMP binding site [chemical binding]; other site 350054012045 active site 350054012046 CoA binding site [chemical binding]; other site 350054012047 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 350054012048 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 350054012049 acyl-activating enzyme (AAE) consensus motif; other site 350054012050 AMP binding site [chemical binding]; other site 350054012051 active site 350054012052 CoA binding site [chemical binding]; other site 350054012053 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 350054012054 CoA-transferase family III; Region: CoA_transf_3; pfam02515 350054012055 Transcriptional regulators [Transcription]; Region: FadR; COG2186 350054012056 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 350054012057 DNA-binding site [nucleotide binding]; DNA binding site 350054012058 FCD domain; Region: FCD; pfam07729 350054012059 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 350054012060 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 350054012061 active site 350054012062 acetyl-CoA acetyltransferase; Provisional; Region: PRK06205 350054012063 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 350054012064 dimer interface [polypeptide binding]; other site 350054012065 active site 350054012066 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 350054012067 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 350054012068 NAD(P) binding site [chemical binding]; other site 350054012069 active site 350054012070 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 350054012071 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 350054012072 active site 350054012073 oxidoreductase, SDR family; Region: SDR_subfam_1; TIGR03971 350054012074 classical (c) SDRs; Region: SDR_c; cd05233 350054012075 NAD(P) binding site [chemical binding]; other site 350054012076 active site 350054012077 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 350054012078 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 350054012079 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 350054012080 Flavin-binding monooxygenase-like; Region: FMO-like; pfam00743 350054012081 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 350054012082 NodN (nodulation factor N) contains a single hot dog fold similar to those of the peroxisomal Hydratase-Dehydrogenase-Epimerase (HDE) protein, and the fatty acid synthase beta subunit. Rhizobium and related species form nodules on the roots of their...; Region: NodN; cd03450 350054012083 putative active site [active] 350054012084 putative catalytic site [active] 350054012085 hypothetical protein; Provisional; Region: PRK07877 350054012086 Superfamily of activating enzymes (E1) of the ubiquitin-like proteins. This family includes classical ubiquitin-activating enzymes E1, ubiquitin-like (ubl) activating enzymes and other mechanistic homologes, like MoeB, Thif1 and others. The common...; Region: E1_enzyme_family; cd01483 350054012087 ATP binding site [chemical binding]; other site 350054012088 substrate interface [chemical binding]; other site 350054012089 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 350054012090 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 350054012091 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 350054012092 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 350054012093 metal binding site [ion binding]; metal-binding site 350054012094 active site 350054012095 I-site; other site 350054012096 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 350054012097 putative FAD-binding dehydrogenase; Reviewed; Region: PRK06134 350054012098 pimeloyl-CoA dehydrogenase, large subunit; Region: pimC_large; TIGR03204 350054012099 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 350054012100 active site 350054012101 pimeloyl-CoA dehydrogenase, small subunit; Region: pimD_small; TIGR03203 350054012102 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 350054012103 active site 350054012104 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 350054012105 Ligand Binding Site [chemical binding]; other site 350054012106 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 350054012107 Ligand Binding Site [chemical binding]; other site 350054012108 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350054012109 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 350054012110 putative catalytic site [active] 350054012111 putative metal binding site [ion binding]; other site 350054012112 putative phosphate binding site [ion binding]; other site 350054012113 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 350054012114 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 350054012115 ligand binding site [chemical binding]; other site 350054012116 flexible hinge region; other site 350054012117 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 350054012118 putative switch regulator; other site 350054012119 non-specific DNA interactions [nucleotide binding]; other site 350054012120 DNA binding site [nucleotide binding] 350054012121 sequence specific DNA binding site [nucleotide binding]; other site 350054012122 putative cAMP binding site [chemical binding]; other site 350054012123 Mycobacterium tuberculosis aldehyde dehydrogenase AldA-like; Region: ALDH_AldA-Rv0768; cd07139 350054012124 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 350054012125 NAD binding site [chemical binding]; other site 350054012126 catalytic residues [active] 350054012127 Predicted membrane protein (DUF2243); Region: DUF2243; pfam10002 350054012128 mycofactocin system transcriptional regulator; Region: mycofact_TetR; TIGR03968 350054012129 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350054012130 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 350054012131 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 350054012132 putative adenylate-forming enzyme; Region: aden_form_hyp; TIGR02304 350054012133 Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541 350054012134 Helix-turn-helix domain of transposase family ISL3; Region: HTH_Tnp_ISL3; pfam13542 350054012135 Transposase; Region: DDE_Tnp_ISL3; pfam01610 350054012136 Domain of unknown function (DUF222); Region: DUF222; pfam02720 350054012137 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cd00085 350054012138 active site 350054012139 Carboxylesterase type B [Lipid metabolism]; Region: PnbA; COG2272 350054012140 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 350054012141 substrate binding pocket [chemical binding]; other site 350054012142 catalytic triad [active] 350054012143 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 350054012144 active site 350054012145 Uncharacterized conserved protein [Function unknown]; Region: COG5361 350054012146 Sulfotransferase domain; Region: Sulfotransfer_1; pfam00685 350054012147 Luciferase-like monooxygenase; Region: Bac_luciferase; pfam00296 350054012148 N5,N10-methylenetetrahydromethanopterin reductase (Mer) catalyzes the reduction of N5,N10-methylenetetrahydromethanopterin with reduced coenzyme F420 to N5-methyltetrahydromethanopterin and oxidized coenzyme F420; Region: Tetrahydromethanopterin_reductase; cd01097 350054012149 Protein of unknown function (DUF3297); Region: DUF3297; pfam11730 350054012150 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 350054012151 putative substrate translocation pore; other site 350054012152 Major Facilitator Superfamily; Region: MFS_1; pfam07690 350054012153 phosphoglucomutase; Validated; Region: PRK07564 350054012154 This bacterial PGM-like (phosphoglucomutase-like) protein of unknown function belongs to the alpha-D-phosphohexomutase superfamily. The alpha-D-phosphohexomutases include several related enzymes that catalyze a reversible intramolecular phosphoryl...; Region: PGM_like3; cd05801 350054012155 active site 350054012156 substrate binding site [chemical binding]; other site 350054012157 metal binding site [ion binding]; metal-binding site 350054012158 camphor resistance protein CrcB; Provisional; Region: PRK14216 350054012159 camphor resistance protein CrcB; Provisional; Region: PRK14228 350054012160 Uncharacterized ACR, COG1993; Region: DUF190; cl00872 350054012161 Uncharacterized ACR, COG1993; Region: DUF190; cl00872 350054012162 acyl carrier protein; Validated; Region: PRK05883 350054012163 long-chain-fatty-acid--[acyl-carrier-protein] ligase; Validated; Region: PRK05851 350054012164 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 350054012165 acyl-activating enzyme (AAE) consensus motif; other site 350054012166 AMP binding site [chemical binding]; other site 350054012167 active site 350054012168 CoA binding site [chemical binding]; other site 350054012169 Acetyltransferase (GNAT) domain; Region: Acetyltransf_8; pfam13523 350054012170 Siderophore biosynthesis protein domain; Region: AlcB; smart01006 350054012171 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2354 350054012172 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 350054012173 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 350054012174 motif II; other site 350054012175 Predicted drug exporters of the RND superfamily [General function prediction only]; Region: COG2409 350054012176 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 350054012177 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 350054012178 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 350054012179 AE_Prim_S_like: primase domain similar to that found in the small subunit of archaeal and eukaryotic (A/E) DNA primases. The replication machineries of A/Es are distinct from that of bacteria. Primases are DNA-dependent RNA polymerases which synthesis...; Region: AE_Prim_S_like; cl01287 350054012180 nucleotide binding site [chemical binding]; other site 350054012181 Sulphate Transporter and Anti-Sigma factor antagonist) domain of anti-anti-sigma factors, key regulators of anti-sigma factors by phosphorylation; Region: STAS_anti-anti-sigma_factors; cd07043 350054012182 anti sigma factor interaction site; other site 350054012183 regulatory phosphorylation site [posttranslational modification]; other site 350054012184 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 350054012185 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 350054012186 dimer interface [polypeptide binding]; other site 350054012187 phosphorylation site [posttranslational modification] 350054012188 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 350054012189 ATP binding site [chemical binding]; other site 350054012190 Mg2+ binding site [ion binding]; other site 350054012191 G-X-G motif; other site 350054012192 Response regulator receiver domain; Region: Response_reg; pfam00072 350054012193 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 350054012194 active site 350054012195 phosphorylation site [posttranslational modification] 350054012196 intermolecular recognition site; other site 350054012197 dimerization interface [polypeptide binding]; other site 350054012198 PAS domain S-box; Region: sensory_box; TIGR00229 350054012199 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 350054012200 putative active site [active] 350054012201 heme pocket [chemical binding]; other site 350054012202 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 350054012203 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 350054012204 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 350054012205 ATP binding site [chemical binding]; other site 350054012206 Mg2+ binding site [ion binding]; other site 350054012207 G-X-G motif; other site 350054012208 Sulphate Transporter and Anti-Sigma factor antagonist) domain of anti-anti-sigma factors, key regulators of anti-sigma factors by phosphorylation; Region: STAS_anti-anti-sigma_factors; cd07043 350054012209 anti sigma factor interaction site; other site 350054012210 regulatory phosphorylation site [posttranslational modification]; other site 350054012211 PAS fold; Region: PAS_3; pfam08447 350054012212 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 350054012213 putative active site [active] 350054012214 heme pocket [chemical binding]; other site 350054012215 ANTAR (AmiR and NasR transcription antitermination regulators) is an RNA-binding domain found in bacterial transcription antitermination regulatory proteins; Region: ANTAR; smart01012 350054012216 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 350054012217 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 350054012218 Tocopherol cyclase; Region: Tocopherol_cycl; cl14571 350054012219 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 350054012220 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 350054012221 N5,N10-methylenetetrahydromethanopterin reductase (Mer) catalyzes the reduction of N5,N10-methylenetetrahydromethanopterin with reduced coenzyme F420 to N5-methyltetrahydromethanopterin and oxidized coenzyme F420; Region: Tetrahydromethanopterin_reductase; cd01097 350054012222 Aminoglycoside/hydroxyurea antibiotic resistance kinase; Region: APH_6_hur; cl17810 350054012223 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cd00531 350054012224 Cutinase; Region: Cutinase; pfam01083 350054012225 indolepyruvate ferredoxin oxidoreductase; Validated; Region: PRK09193 350054012226 Pyrimidine (PYR) binding domain of pyruvate ferredoxin oxidoreductase (PFOR), indolepyruvate ferredoxin oxidoreductase alpha subunit (IOR-alpha), and related proteins; Region: TPP_PYR_PFOR_IOR-alpha_like; cd07034 350054012227 dimer interface [polypeptide binding]; other site 350054012228 PYR/PP interface [polypeptide binding]; other site 350054012229 TPP binding site [chemical binding]; other site 350054012230 substrate binding site [chemical binding]; other site 350054012231 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 350054012232 TPP-binding site [chemical binding]; other site 350054012233 indolepyruvate oxidoreductase subunit beta; Reviewed; Region: PRK06853 350054012234 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 350054012235 AsnC family; Region: AsnC_trans_reg; pfam01037 350054012236 Protein of unknown function (DUF2993); Region: DUF2993; pfam11209 350054012237 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 350054012238 active site 350054012239 Cupin; Region: Cupin_1; smart00835 350054012240 Cupin domain; Region: Cupin_2; cl17218 350054012241 Cupin domain; Region: Cupin_2; cl17218 350054012242 Cutinase; Region: Cutinase; pfam01083 350054012243 Protein of unknown function (DUF998); Region: DUF998; pfam06197 350054012244 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 350054012245 NAD(P) binding site [chemical binding]; other site 350054012246 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 350054012247 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 350054012248 active site 350054012249 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4320 350054012250 Uncharacterized protein conserved in bacteria (DUF2252); Region: DUF2252; pfam10009 350054012251 LabA_like proteins; Region: LabA_like; cd06167 350054012252 putative metal binding site [ion binding]; other site 350054012253 Uncharacterized conserved protein [Function unknown]; Region: COG1432 350054012254 C-terminal domain of LabA_like proteins; Region: LabA_like_C; cd10146 350054012255 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 350054012256 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 350054012257 metal binding site [ion binding]; metal-binding site 350054012258 active site 350054012259 I-site; other site 350054012260 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 350054012261 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 350054012262 SmpB-tmRNA interface; other site 350054012263 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 350054012264 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 350054012265 FtsX-like permease family; Region: FtsX; pfam02687 350054012266 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 350054012267 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 350054012268 Walker A/P-loop; other site 350054012269 ATP binding site [chemical binding]; other site 350054012270 Q-loop/lid; other site 350054012271 ABC transporter signature motif; other site 350054012272 Walker B; other site 350054012273 D-loop; other site 350054012274 H-loop/switch region; other site 350054012275 Mechanosensitive ion channel; Region: MS_channel; pfam00924 350054012276 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 350054012277 peptide chain release factor 2; Validated; Region: prfB; PRK00578 350054012278 This domain is found in peptide chain release factors; Region: PCRF; smart00937 350054012279 RF-1 domain; Region: RF-1; pfam00472 350054012280 ferredoxin-NADP+ reductase; Region: PLN02852 350054012281 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 350054012282 FIG, FBPase/IMPase/glpX-like domain. A superfamily of metal-dependent phosphatases with various substrates. Fructose-1,6-bisphospatase (both the major and the glpX-encoded variant) hydrolyze fructose-1,6,-bisphosphate to fructose-6-phosphate in...; Region: FIG; cl00289 350054012283 active site 350054012284 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 350054012285 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 350054012286 active site 350054012287 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 350054012288 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 350054012289 active site 350054012290 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 350054012291 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 350054012292 molybdopterin cofactor binding site; other site 350054012293 The MopB_CT_1 CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. This CD is of the...; Region: MopB_CT_1; cd02782 350054012294 putative molybdopterin cofactor binding site; other site 350054012295 Yhdh putative quinone oxidoreductases; Region: MDR_yhdh; cd08288 350054012296 putative quinone oxidoreductase, YhdH/YhfP family; Region: oxido_YhdH; TIGR02823 350054012297 NADP binding site [chemical binding]; other site 350054012298 dimer interface [polypeptide binding]; other site 350054012299 Putative esterase; Region: Esterase; pfam00756 350054012300 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 350054012301 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350054012302 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 350054012303 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 350054012304 active site 350054012305 Domain of unknown function (DUF385); Region: DUF385; pfam04075 350054012306 homogentisate 1,2-dioxygenase; Region: HgmA; cl17306 350054012307 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 350054012308 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 350054012309 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 350054012310 CoA-transferase family III; Region: CoA_transf_3; pfam02515 350054012311 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 350054012312 active site 350054012313 catalytic residues [active] 350054012314 metal binding site [ion binding]; metal-binding site 350054012315 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 350054012316 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350054012317 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 350054012318 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 350054012319 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 350054012320 active site 350054012321 Phosphotransferase enzyme family; Region: APH; pfam01636 350054012322 Acyl-CoA dehydrogenase (ACAD) 10 and 11, N-terminal domain, and similar proteins. This subfamily is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs); Region: ACAD10_11_like; cd05154 350054012323 putative active site [active] 350054012324 putative substrate binding site [chemical binding]; other site 350054012325 ATP binding site [chemical binding]; other site 350054012326 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 350054012327 Methyltransferase domain; Region: Methyltransf_31; pfam13847 350054012328 S-adenosylmethionine binding site [chemical binding]; other site 350054012329 SnoaL-like domain; Region: SnoaL_2; pfam12680 350054012330 AAA ATPase domain; Region: AAA_16; pfam13191 350054012331 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 350054012332 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 350054012333 DNA binding residues [nucleotide binding] 350054012334 dimerization interface [polypeptide binding]; other site 350054012335 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 350054012336 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 350054012337 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 350054012338 triacylglycerol lipase; Region: PLN02872 350054012339 RNA helicase; Region: RNA_helicase; pfam00910 350054012340 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 350054012341 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 350054012342 DNA binding residues [nucleotide binding] 350054012343 dimerization interface [polypeptide binding]; other site 350054012344 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 350054012345 active site 350054012346 phosphorylation site [posttranslational modification] 350054012347 intermolecular recognition site; other site 350054012348 dimerization interface [polypeptide binding]; other site 350054012349 NADH dehydrogenase subunit A; Validated; Region: PRK07928 350054012350 NADH dehydrogenase subunit B; Validated; Region: PRK06411 350054012351 NADH dehydrogenase subunit C; Provisional; Region: PRK07785 350054012352 NADH (or F420H2) dehydrogenase, subunit C; Region: NuoC_fam; TIGR01961 350054012353 NADH dehydrogenase I, D subunit; Region: NuoD; TIGR01962 350054012354 NADH dehydrogenase subunit D; Validated; Region: PRK06075 350054012355 NADH dehydrogenase subunit E; Validated; Region: PRK07539 350054012356 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NADH:ubiquinone oxidoreductase (Nuo) subunit E subfamily; Nuo, also called respiratory chain Complex 1, is the entry point for electrons into the respiratory chains of bacteria and the mitochondria of eukaryotes; Region: TRX_Fd_NuoE; cd03064 350054012357 putative dimer interface [polypeptide binding]; other site 350054012358 [2Fe-2S] cluster binding site [ion binding]; other site 350054012359 NADH-quinone oxidoreductase, F subunit; Region: nuoF_fam; TIGR01959 350054012360 SLBB domain; Region: SLBB; pfam10531 350054012361 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; pfam10589 350054012362 NADH dehydrogenase subunit G; Validated; Region: PRK07860 350054012363 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 350054012364 catalytic loop [active] 350054012365 iron binding site [ion binding]; other site 350054012366 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 350054012367 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 350054012368 molybdopterin cofactor binding site; other site 350054012369 MopB_CT_NDH-1_NuoG2-N7: C-terminal region of the NuoG-like subunit (of the variant with a [4Fe-4S] cluster, N7) of the NADH-quinone oxidoreductase/NADH dehydrogenase-1 (NDH-1) found in various bacteria. The NDH-1 is the first energy-transducting complex...; Region: MopB_CT_NDH-1_NuoG2-N7; cd02788 350054012370 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 350054012371 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 350054012372 NADH-quinone oxidoreductase, chain I; Region: NuoI; TIGR01971 350054012373 4Fe-4S binding domain; Region: Fer4; pfam00037 350054012374 4Fe-4S binding domain; Region: Fer4; pfam00037 350054012375 NADH dehydrogenase subunit J; Provisional; Region: PRK06433 350054012376 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 350054012377 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 350054012378 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 350054012379 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 350054012380 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 350054012381 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 350054012382 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 350054012383 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 350054012384 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 350054012385 enoyl-CoA hydratase; Provisional; Region: PRK06190 350054012386 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 350054012387 substrate binding site [chemical binding]; other site 350054012388 oxyanion hole (OAH) forming residues; other site 350054012389 trimer interface [polypeptide binding]; other site 350054012390 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 350054012391 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350054012392 Acyl-CoA dehydrogenase (ACAD) 10 and 11, N-terminal domain, and similar proteins. This subfamily is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs); Region: ACAD10_11_like; cd05154 350054012393 putative active site [active] 350054012394 putative substrate binding site [chemical binding]; other site 350054012395 ATP binding site [chemical binding]; other site 350054012396 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 350054012397 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 350054012398 Luciferase-like monooxygenase; Region: Bac_luciferase; pfam00296 350054012399 N5,N10-methylenetetrahydromethanopterin reductase (Mer) catalyzes the reduction of N5,N10-methylenetetrahydromethanopterin with reduced coenzyme F420 to N5-methyltetrahydromethanopterin and oxidized coenzyme F420; Region: Tetrahydromethanopterin_reductase; cd01097 350054012400 Monoamine oxidase [Amino acid transport and metabolism]; Region: COG1231 350054012401 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 350054012402 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 350054012403 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 350054012404 Quinone oxidoreductase (QOR); Region: QOR1; cd08241 350054012405 NAD(P) binding site [chemical binding]; other site 350054012406 AAA ATPase domain; Region: AAA_16; pfam13191 350054012407 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 350054012408 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 350054012409 DNA binding residues [nucleotide binding] 350054012410 dimerization interface [polypeptide binding]; other site 350054012411 3beta17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 3beta-17beta-HSD_like_SDR_c; cd05341 350054012412 homotetramer interface [polypeptide binding]; other site 350054012413 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 350054012414 NAD binding site [chemical binding]; other site 350054012415 homodimer interface [polypeptide binding]; other site 350054012416 active site 350054012417 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 350054012418 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 350054012419 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 350054012420 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 350054012421 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 350054012422 classical (c) SDRs; Region: SDR_c; cd05233 350054012423 NAD(P) binding site [chemical binding]; other site 350054012424 active site 350054012425 Isochorismatase family; Region: Isochorismatase; pfam00857 350054012426 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cd00431 350054012427 catalytic triad [active] 350054012428 conserved cis-peptide bond; other site 350054012429 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 350054012430 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 350054012431 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 350054012432 active site 350054012433 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 350054012434 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 350054012435 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 350054012436 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 350054012437 metal binding site [ion binding]; metal-binding site 350054012438 active site 350054012439 I-site; other site 350054012440 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 350054012441 squalene-associated FAD-dependent desaturase; Region: HpnE; TIGR03467 350054012442 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 350054012443 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 350054012444 NAD(P) binding site [chemical binding]; other site 350054012445 PE-PPE domain; Region: PE-PPE; pfam08237 350054012446 PAS fold; Region: PAS_2; pfam08446 350054012447 GAF domain; Region: GAF; pfam01590 350054012448 Phytochrome region; Region: PHY; pfam00360 350054012449 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 350054012450 Sulphate Transporter and Anti-Sigma factor antagonist) domain of anti-anti-sigma factors, key regulators of anti-sigma factors by phosphorylation; Region: STAS_anti-anti-sigma_factors; cd07043 350054012451 anti sigma factor interaction site; other site 350054012452 regulatory phosphorylation site [posttranslational modification]; other site 350054012453 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 350054012454 GAF domain; Region: GAF; pfam01590 350054012455 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 350054012456 GAF domain; Region: GAF_3; pfam13492 350054012457 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 350054012458 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 350054012459 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 350054012460 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cl00075 350054012461 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 350054012462 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 350054012463 membrane-bound complex binding site; other site 350054012464 hinge residues; other site 350054012465 TupA-like ATPgrasp; Region: ATPgrasp_TupA; pfam14305 350054012466 metabolite-proton symporter; Region: 2A0106; TIGR00883 350054012467 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 350054012468 putative substrate translocation pore; other site 350054012469 2-hydroxy-6-oxo-6-phenylhexa-2,4-dienoate hydrolase; Region: biphenyl_bphD; TIGR03343 350054012470 Predicted nucleic-acid-binding protein containing a Zn-ribbon [General function prediction only]; Region: COG1545 350054012471 Rubredoxin-like zinc ribbon domain (DUF35_N); Region: DUF35_N; pfam12172 350054012472 lipid-transfer protein; Provisional; Region: PRK06059 350054012473 Thiolase domain associated with sterol carrier protein (SCP)-x isoform and related proteins; SCP-2 has multiple roles in intracellular lipid circulation and metabolism. The N-terminal presequence in the SCP-x isoform represents a peroxisomal...; Region: SCP-x_thiolase; cd00829 350054012474 active site 350054012475 virulence factor Mce family protein; Region: Mtu_fam_mce; TIGR00996 350054012476 mce related protein; Region: MCE; pfam02470 350054012477 virulence factor Mce family protein; Region: Mtu_fam_mce; TIGR00996 350054012478 mce related protein; Region: MCE; pfam02470 350054012479 Protein of unknown function (DUF3407); Region: DUF3407; pfam11887 350054012480 mce related protein; Region: MCE; pfam02470 350054012481 virulence factor Mce family protein; Region: Mtu_fam_mce; TIGR00996 350054012482 virulence factor Mce family protein; Region: Mtu_fam_mce; TIGR00996 350054012483 mce related protein; Region: MCE; pfam02470 350054012484 virulence factor Mce family protein; Region: Mtu_fam_mce; TIGR00996 350054012485 mce related protein; Region: MCE; pfam02470 350054012486 mce related protein; Region: MCE; pfam02470 350054012487 Protein of unknown function (DUF3407); Region: DUF3407; pfam11887 350054012488 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 350054012489 Permease; Region: Permease; pfam02405 350054012490 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 350054012491 Permease; Region: Permease; pfam02405 350054012492 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 350054012493 classical (c) SDRs; Region: SDR_c; cd05233 350054012494 NAD(P) binding site [chemical binding]; other site 350054012495 active site 350054012496 SnoaL-like domain; Region: SnoaL_4; pfam13577 350054012497 probable F420-dependent oxidoreductase, Rv2161c family; Region: F420_Rv2161c; TIGR03619 350054012498 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 350054012499 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 350054012500 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 350054012501 NAD(P) binding site [chemical binding]; other site 350054012502 active site 350054012503 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 350054012504 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 350054012505 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 350054012506 catalytic loop [active] 350054012507 iron binding site [ion binding]; other site 350054012508 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 350054012509 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 350054012510 active site 350054012511 2,3-dihydroxybiphenyl 1,2-dioxygenase; Region: 23dbph12diox; TIGR03213 350054012512 N-terminal domain of 2,3-dihydroxybiphenyl 1,2-dioxygenase (BphC, EC 1.13.11.39) 1 from Rhodococcus globerulus P6 (BphC1-RGP6) and similar proteins; Region: BphC1-RGP6_N_like; cd07252 350054012513 C-terminal domain of 2,3-dihydroxybiphenyl 1,2-dioxygenase (BphC, EC 1.13.11.39) 1 from Rhodococcus globerulus P6 (BphC1-RGP6) and similar proteins; Region: BphC1-RGP6_C_like; cd07237 350054012514 active site 350054012515 Fe binding site [ion binding]; other site 350054012516 hypothetical protein; Validated; Region: PRK07121 350054012517 Transcriptional regulator [Transcription]; Region: IclR; COG1414 350054012518 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 350054012519 Bacterial transcriptional regulator; Region: IclR; pfam01614 350054012520 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 350054012521 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 350054012522 substrate binding pocket [chemical binding]; other site 350054012523 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 350054012524 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 350054012525 Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a...; Region: OYE_like_FMN_family; cd02803 350054012526 active site 350054012527 FMN binding site [chemical binding]; other site 350054012528 substrate binding site [chemical binding]; other site 350054012529 putative catalytic residue [active] 350054012530 Stress responsive A/B Barrel Domain; Region: Dabb; smart00886 350054012531 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 350054012532 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 350054012533 NAD(P) binding site [chemical binding]; other site 350054012534 active site 350054012535 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 350054012536 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 350054012537 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 350054012538 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 350054012539 active site 350054012540 acyl-CoA synthetase; Validated; Region: PRK08316 350054012541 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 350054012542 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 350054012543 acyl-activating enzyme (AAE) consensus motif; other site 350054012544 putative AMP binding site [chemical binding]; other site 350054012545 putative active site [active] 350054012546 putative CoA binding site [chemical binding]; other site 350054012547 classical (c) SDRs; Region: SDR_c; cd05233 350054012548 NAD(P) binding site [chemical binding]; other site 350054012549 active site 350054012550 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 350054012551 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 350054012552 hypothetical protein; Validated; Region: PRK07121 350054012553 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 350054012554 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 350054012555 The alignment model represents the N-terminal rieske iron-sulfur domain of KshA, the oxygenase component of 3-ketosteroid 9-alpha-hydroxylase (KSH). The terminal oxygenase component of KSH is a key enzyme in the microbial steroid degradation pathway; Region: Rieske_RO_Alpha_KSH; cd03531 350054012556 3-ketosteroid-delta-1-dehydrogenase; Reviewed; Region: PRK12845 350054012557 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 350054012558 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 350054012559 Predicted transcriptional regulators [Transcription]; Region: COG1695 350054012560 Transcriptional regulator PadR-like family; Region: PadR; cl17335 350054012561 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 350054012562 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 350054012563 CoenzymeA binding site [chemical binding]; other site 350054012564 subunit interaction site [polypeptide binding]; other site 350054012565 PHB binding site; other site 350054012566 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 350054012567 GAF domain; Region: GAF; pfam01590 350054012568 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 350054012569 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 350054012570 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350054012571 NorE_like subfamily of heme-copper oxidase subunit III. Heme-copper oxidases include cytochrome c and ubiquinol oxidases. Alcaligenes faecalis norE is found in a gene cluster containing norCB. norCB encodes the cytochrome c and cytochrome b subunits of...; Region: NorE_like; cd02862 350054012572 Subunit I/III interface [polypeptide binding]; other site 350054012573 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 350054012574 catalytic core [active] 350054012575 Periplasmic binding domain of autoinducer-2 (AI-2) receptor LsrB from Salmonella typhimurium and its close homologs; Region: PBP1_LsrB_Quorum_Sensing; cd06302 350054012576 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 350054012577 ligand binding site [chemical binding]; other site 350054012578 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 350054012579 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350054012580 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 350054012581 CoenzymeA binding site [chemical binding]; other site 350054012582 subunit interaction site [polypeptide binding]; other site 350054012583 PHB binding site; other site 350054012584 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 350054012585 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350054012586 coenzyme F420-dependent oxidoreductase, NP1902A family; Region: F420_NP1902A; TIGR04024 350054012587 N5,N10-methylenetetrahydromethanopterin reductase (Mer) catalyzes the reduction of N5,N10-methylenetetrahydromethanopterin with reduced coenzyme F420 to N5-methyltetrahydromethanopterin and oxidized coenzyme F420; Region: Tetrahydromethanopterin_reductase; cd01097 350054012588 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 350054012589 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350054012590 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 350054012591 CoenzymeA binding site [chemical binding]; other site 350054012592 subunit interaction site [polypeptide binding]; other site 350054012593 PHB binding site; other site 350054012594 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 350054012595 Transglutaminase-like superfamily; Region: Transglut_core; cl17362 350054012596 A predicted NlpC/p60-like peptidase; Region: BtrH; pfam14399 350054012597 Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various bacteriocins (mostly non-lantibiotic); Region: Peptidase_C39_like; cl00296 350054012598 putative active site [active] 350054012599 oxidoreductase, Rxyl_3153 family; Region: Rxyl_3153; TIGR03989 350054012600 Class III alcohol dehydrogenase; Region: Zn_ADH_class_III; cd08279 350054012601 NAD binding site [chemical binding]; other site 350054012602 catalytic Zn binding site [ion binding]; other site 350054012603 substrate binding site [chemical binding]; other site 350054012604 structural Zn binding site [ion binding]; other site 350054012605 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 350054012606 Fatty acyl-CoA synthetases similar to LC-FACS from Thermus thermophiles; Region: ttLC_FACS_AlkK_like; cd12119 350054012607 dimer interface [polypeptide binding]; other site 350054012608 acyl-activating enzyme (AAE) consensus motif; other site 350054012609 putative active site [active] 350054012610 AMP binding site [chemical binding]; other site 350054012611 putative CoA binding site [chemical binding]; other site 350054012612 SCP-2 sterol transfer family; Region: SCP2; cl01225 350054012613 phenylpropionate dioxygenase ferredoxin reductase subunit; Provisional; Region: PRK09754 350054012614 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 350054012615 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 350054012616 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 350054012617 Cytochrome P450; Region: p450; cl12078 350054012618 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 350054012619 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 350054012620 catalytic loop [active] 350054012621 iron binding site [ion binding]; other site 350054012622 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 350054012623 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 350054012624 Carboxylesterase type B [Lipid metabolism]; Region: PnbA; COG2272 350054012625 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 350054012626 substrate binding pocket [chemical binding]; other site 350054012627 catalytic triad [active] 350054012628 enoyl-CoA hydratase; Provisional; Region: PRK06494 350054012629 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 350054012630 substrate binding site [chemical binding]; other site 350054012631 oxyanion hole (OAH) forming residues; other site 350054012632 trimer interface [polypeptide binding]; other site 350054012633 TIGR03084 family protein; Region: TIGR03084 350054012634 Mycothiol maleylpyruvate isomerase N-terminal domain; Region: MDMPI_N; pfam11716 350054012635 Protein of unknown function (DUF1446); Region: DUF1446; pfam07287 350054012636 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 350054012637 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350054012638 cyclase homology domain; Region: CHD; cd07302 350054012639 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 350054012640 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 350054012641 active site 350054012642 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 350054012643 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350054012644 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 350054012645 classical (c) SDRs; Region: SDR_c; cd05233 350054012646 NAD(P) binding site [chemical binding]; other site 350054012647 active site 350054012648 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 350054012649 Cytochrome P450; Region: p450; cl12078 350054012650 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 350054012651 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 350054012652 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 350054012653 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 350054012654 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 350054012655 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 350054012656 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 350054012657 classical (c) SDRs; Region: SDR_c; cd05233 350054012658 short chain dehydrogenase; Provisional; Region: PRK05650 350054012659 NAD(P) binding site [chemical binding]; other site 350054012660 active site 350054012661 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 350054012662 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 350054012663 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 350054012664 active site 350054012665 3-methylcrotonyl-CoA carboxylase, beta chain; Region: PLN02820 350054012666 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 350054012667 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 350054012668 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 350054012669 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 350054012670 ATP-grasp domain; Region: ATP-grasp_4; cl17255 350054012671 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 350054012672 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 350054012673 carboxyltransferase (CT) interaction site; other site 350054012674 biotinylation site [posttranslational modification]; other site 350054012675 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 350054012676 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 350054012677 active site 350054012678 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 350054012679 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 350054012680 acyl-activating enzyme (AAE) consensus motif; other site 350054012681 AMP binding site [chemical binding]; other site 350054012682 active site 350054012683 CoA binding site [chemical binding]; other site 350054012684 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 350054012685 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 350054012686 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 350054012687 Transposase; Region: HTH_Tnp_1; pfam01527 350054012688 putative transposase OrfB; Reviewed; Region: PHA02517 350054012689 HTH-like domain; Region: HTH_21; pfam13276 350054012690 Integrase core domain; Region: rve; pfam00665 350054012691 Integrase core domain; Region: rve_3; pfam13683 350054012692 Regulator of polyketide synthase expression [Signal transduction mechanisms / Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2508 350054012693 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 350054012694 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 350054012695 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 350054012696 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 350054012697 CoenzymeA binding site [chemical binding]; other site 350054012698 subunit interaction site [polypeptide binding]; other site 350054012699 PHB binding site; other site 350054012700 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 350054012701 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 350054012702 DNA-binding interface [nucleotide binding]; DNA binding site 350054012703 acetyl-CoA acetyltransferase; Validated; Region: PRK08257 350054012704 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 350054012705 active site 350054012706 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 350054012707 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cd05188 350054012708 NAD(P) binding site [chemical binding]; other site 350054012709 Uncharacterized conserved protein [Function unknown]; Region: COG2128 350054012710 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 350054012711 Predicted metal-dependent hydrolase; Region: Metal_hydrol; pfam10118 350054012712 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG3687 350054012713 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 350054012714 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350054012715 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 350054012716 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350054012717 MMPL family; Region: MMPL; pfam03176 350054012718 putative transposase OrfB; Reviewed; Region: PHA02517 350054012719 HTH-like domain; Region: HTH_21; pfam13276 350054012720 Integrase core domain; Region: rve; pfam00665 350054012721 Integrase core domain; Region: rve_3; pfam13683 350054012722 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 350054012723 Transposase; Region: HTH_Tnp_1; pfam01527 350054012724 MMPL family; Region: MMPL; pfam03176 350054012725 X-X-X-Leu-X-X-Gly heptad repeats; Region: xxxLxxG_by_4; TIGR03057 350054012726 Transposase, Mutator family; Region: Transposase_mut; pfam00872 350054012727 MULE transposase domain; Region: MULE; pfam10551 350054012728 Transposase, Mutator family; Region: Transposase_mut; pfam00872 350054012729 MULE transposase domain; Region: MULE; pfam10551 350054012730 Integrase core domain; Region: rve_3; pfam13683 350054012731 putative transposase OrfB; Reviewed; Region: PHA02517 350054012732 HTH-like domain; Region: HTH_21; pfam13276 350054012733 Integrase core domain; Region: rve; pfam00665 350054012734 Integrase core domain; Region: rve_3; pfam13683 350054012735 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 350054012736 Transposase; Region: HTH_Tnp_1; pfam01527 350054012737 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 350054012738 active site 350054012739 catalytic residues [active] 350054012740 DNA binding site [nucleotide binding] 350054012741 Int/Topo IB signature motif; other site 350054012742 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 350054012743 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 350054012744 active site 350054012745 DNA binding site [nucleotide binding] 350054012746 Int/Topo IB signature motif; other site 350054012747 HTH-like domain; Region: HTH_21; pfam13276 350054012748 Integrase core domain; Region: rve; pfam00665 350054012749 heat shock protein 90; Provisional; Region: PRK05218 350054012750 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 350054012751 ATP binding site [chemical binding]; other site 350054012752 Mg2+ binding site [ion binding]; other site 350054012753 G-X-G motif; other site 350054012754 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 350054012755 FAD binding domain; Region: FAD_binding_4; pfam01565 350054012756 DNA binding site [nucleotide binding] 350054012757 Transcriptional regulatory protein, C terminal; Region: Trans_reg_C; pfam00486 350054012758 Bacterial transcriptional activator domain; Region: BTAD; smart01043 350054012759 Predicted ATPase [General function prediction only]; Region: COG3899 350054012760 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 350054012761 Walker A motif; other site 350054012762 ATP binding site [chemical binding]; other site 350054012763 Uncharacterized conserved protein [Function unknown]; Region: COG1615; cl09133 350054012764 hypothetical protein; Validated; Region: PRK00068 350054012765 Predicted secreted protein containing a PDZ domain [Signal transduction mechanisms]; Region: SdrC; COG3480 350054012766 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 350054012767 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 350054012768 uncharacterized protein, coenzyme F420 biosynthesis associated; Region: DUF2342_F420; TIGR03883 350054012769 Uncharacterized conserved protein (DUF2342); Region: DUF2342; pfam10103 350054012770 Predicted unusual protein kinase [General function prediction only]; Region: AarF; COG0661 350054012771 ABC1 family; Region: ABC1; pfam03109 350054012772 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 350054012773 active site 350054012774 ATP binding site [chemical binding]; other site 350054012775 Transcription factor WhiB; Region: Whib; pfam02467 350054012776 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 350054012777 Family description; Region: UvrD_C_2; pfam13538 350054012778 HRDC domain; Region: HRDC; pfam00570 350054012779 NrdH-redoxin (NrdH) family; NrdH is a small monomeric protein with a conserved redox active CXXC motif within a TRX fold, characterized by a glutaredoxin (GRX)-like sequence and TRX-like activity profile. In vitro, it displays protein disulfide reductase...; Region: NrdH; cd02976 350054012780 catalytic residues [active] 350054012781 NADH pyrophosphatase; Reviewed; Region: nudC; PRK00241 350054012782 NADH pyrophosphatase-like rudimentary NUDIX domain; Region: NUDIX-like; pfam09296 350054012783 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 350054012784 NADH pyrophosphatase, a member of the Nudix hydrolase superfamily, catalyzes the cleavage of NADH into reduced nicotinamide mononucleotide (NMNH) and AMP. Like other members of the Nudix family, it requires a divalent cation, such as Mg2+ or Mn2+, for...; Region: NADH_pyrophosphatase; cd03429 350054012785 putative NADH binding site [chemical binding]; other site 350054012786 putative active site [active] 350054012787 nudix motif; other site 350054012788 putative metal binding site [ion binding]; other site 350054012789 Ion channel; Region: Ion_trans_2; pfam07885 350054012790 Kef-type K+ transport systems, predicted NAD-binding component [Inorganic ion transport and metabolism]; Region: Kch; COG1226 350054012791 TrkA-N domain; Region: TrkA_N; pfam02254 350054012792 Predicted membrane protein [Function unknown]; Region: COG4270 350054012793 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 350054012794 Part of AAA domain; Region: AAA_19; pfam13245 350054012795 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 350054012796 UvrD/REP helicase N-terminal domain; Region: UvrD-helicase; pfam00580 350054012797 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 350054012798 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 350054012799 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 350054012800 catalytic site [active] 350054012801 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 350054012802 active site 350054012803 DNA binding site [nucleotide binding] 350054012804 TIGR02569 family protein; Region: TIGR02569_actnb 350054012805 molybdopterin biosynthesis-like protein MoeZ; Validated; Region: PRK07878 350054012806 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 350054012807 ATP binding site [chemical binding]; other site 350054012808 substrate interface [chemical binding]; other site 350054012809 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 350054012810 active site residue [active] 350054012811 Protein of unknown function (DUF3152); Region: DUF3152; pfam11350 350054012812 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 350054012813 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350054012814 Protein of unknown function (DUF3107); Region: DUF3107; pfam11305 350054012815 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 350054012816 dinuclear metal binding motif [ion binding]; other site 350054012817 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 350054012818 DEAD-like helicases superfamily; Region: DEXDc; smart00487 350054012819 ATP binding site [chemical binding]; other site 350054012820 Mg++ binding site [ion binding]; other site 350054012821 motif III; other site 350054012822 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 350054012823 nucleotide binding region [chemical binding]; other site 350054012824 ATP-binding site [chemical binding]; other site 350054012825 outer membrane assembly lipoprotein YfgL; Region: assembly_YfgL; TIGR03300 350054012826 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 350054012827 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 350054012828 P-loop; other site 350054012829 Magnesium ion binding site [ion binding]; other site 350054012830 transport-energizing ATPase, TRC40/GET3/ArsA family; Region: GET3_arsA_TRC40; TIGR00345 350054012831 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 350054012832 Magnesium ion binding site [ion binding]; other site 350054012833 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 350054012834 catalytic core [active] 350054012835 isochorismate synthase DhbC; Validated; Region: PRK06923 350054012836 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 350054012837 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 350054012838 Coenzyme A binding pocket [chemical binding]; other site 350054012839 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 350054012840 Dehydroquinase class II; Region: DHquinase_II; pfam01220 350054012841 active site 350054012842 trimer interface [polypeptide binding]; other site 350054012843 dimer interface [polypeptide binding]; other site 350054012844 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]; Region: LCB5; COG1597 350054012845 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 350054012846 Transcription factor WhiB; Region: Whib; pfam02467 350054012847 Signal transduction histidine kinase; Region: H_kinase_N; pfam12282 350054012848 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 350054012849 Histidine kinase; Region: HisKA_2; pfam07568 350054012850 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 350054012851 ATP binding site [chemical binding]; other site 350054012852 Mg2+ binding site [ion binding]; other site 350054012853 G-X-G motif; other site 350054012854 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 350054012855 carboxyltransferase (CT) interaction site; other site 350054012856 biotinylation site [posttranslational modification]; other site 350054012857 mycothiol system anti-sigma-R factor; Region: antisig_RsrA; TIGR03988 350054012858 RNA polymerase sigma-70 factor, TIGR02947 family; Region: SigH_actino 350054012859 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 350054012860 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 350054012861 DNA binding residues [nucleotide binding] 350054012862 This CD includes cysteinyl-tRNA(Pro) deacylases from Haemophilus influenzae and Escherichia coli and other related bacterial proteins. These trans-acting, single-domain proteins are homologs of ProX and also the cis-acting prolyl-tRNA synthetase (ProRS)...; Region: YbaK_deacylase; cd00002 350054012863 putative deacylase active site [active] 350054012864 short chain dehydrogenase; Provisional; Region: PRK08278 350054012865 human hydroxysteroid dehydrogenase-like protein 2 (HSDL2), classical (c) SDRs; Region: HSDL2_SDR_c; cd09762 350054012866 NAD(P) binding site [chemical binding]; other site 350054012867 homodimer interface [polypeptide binding]; other site 350054012868 active site 350054012869 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 350054012870 Methylase of polypeptide chain release factors [Translation, ribosomal structure and biogenesis]; Region: HemK; COG2890 350054012871 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 350054012872 S-adenosylmethionine binding site [chemical binding]; other site 350054012873 Uncharacterized conserved protein [Function unknown]; Region: COG2135 350054012874 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 350054012875 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 350054012876 hinge; other site 350054012877 active site 350054012878 Predicted GTPases [General function prediction only]; Region: COG1162 350054012879 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 350054012880 GTPase/Zn-binding domain interface [polypeptide binding]; other site 350054012881 GTP/Mg2+ binding site [chemical binding]; other site 350054012882 G4 box; other site 350054012883 G5 box; other site 350054012884 G1 box; other site 350054012885 Switch I region; other site 350054012886 G2 box; other site 350054012887 G3 box; other site 350054012888 Switch II region; other site 350054012889 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 350054012890 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 350054012891 active site 350054012892 catalytic tetrad [active] 350054012893 Fatty acid desaturase [Lipid metabolism]; Region: DesA; COG3239 350054012894 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 350054012895 putative di-iron ligands [ion binding]; other site 350054012896 Iron-sulfur binding ferredoxin reductase (FNR) proteins combine the FAD and NAD(P) binding regions of FNR with an iron-sulfur binding cluster domain. Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible electron...; Region: FNR_iron_sulfur_binding_2; cd06216 350054012897 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 350054012898 FAD binding pocket [chemical binding]; other site 350054012899 FAD binding motif [chemical binding]; other site 350054012900 phosphate binding motif [ion binding]; other site 350054012901 beta-alpha-beta structure motif; other site 350054012902 NAD binding pocket [chemical binding]; other site 350054012903 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 350054012904 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 350054012905 catalytic loop [active] 350054012906 iron binding site [ion binding]; other site 350054012907 polyphosphate kinase 2, PA0141 family; Region: PPK2_P_aer; TIGR03707 350054012908 BCCT family transporter; Region: BCCT; pfam02028 350054012909 acyltransferase, WS/DGAT/MGAT; Region: acyl_WS_DGAT; TIGR02946 350054012910 Wax ester synthase-like Acyl-CoA acyltransferase domain; Region: WES_acyltransf; pfam03007 350054012911 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 350054012912 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl17251 350054012913 ATP binding site [chemical binding]; other site 350054012914 putative Mg++ binding site [ion binding]; other site 350054012915 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 350054012916 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 350054012917 30S subunit binding site; other site 350054012918 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 350054012919 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cd03467 350054012920 Rieske Fe-S protein [Energy production and conversion]; Region: QcrA; COG0723 350054012921 iron-sulfur cluster [ion binding]; other site 350054012922 [2Fe-2S] cluster binding site [ion binding]; other site 350054012923 lipoprotein LpqB; Provisional; Region: PRK13616 350054012924 Sporulation and spore germination; Region: Germane; pfam10646 350054012925 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 350054012926 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 350054012927 dimerization interface [polypeptide binding]; other site 350054012928 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 350054012929 dimer interface [polypeptide binding]; other site 350054012930 phosphorylation site [posttranslational modification] 350054012931 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 350054012932 ATP binding site [chemical binding]; other site 350054012933 Mg2+ binding site [ion binding]; other site 350054012934 G-X-G motif; other site 350054012935 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 350054012936 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 350054012937 active site 350054012938 phosphorylation site [posttranslational modification] 350054012939 intermolecular recognition site; other site 350054012940 dimerization interface [polypeptide binding]; other site 350054012941 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 350054012942 DNA binding site [nucleotide binding] 350054012943 Thymidine monophosphate kinase (TMPK), also known as thymidylate kinase, catalyzes the phosphorylation of thymidine monophosphate (TMP) to thymidine diphosphate (TDP) utilizing ATP as its preferred phophoryl donor. TMPK represents the rate-limiting step...; Region: TMPK; cd01672 350054012944 TMP-binding site; other site 350054012945 ATP-binding site [chemical binding]; other site 350054012946 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 350054012947 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 350054012948 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 350054012949 S-Adenosylhomocysteine Hydrolase, NAD-binding and catalytic domains; Region: SAHH; cd00401 350054012950 homotetramer interface [polypeptide binding]; other site 350054012951 ligand binding site [chemical binding]; other site 350054012952 catalytic site [active] 350054012953 NAD binding site [chemical binding]; other site 350054012954 probable dihydroxyacetone kinase regulator; Region: DHAK_reg; TIGR02366 350054012955 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350054012956 Rubredoxin [Energy production and conversion]; Region: COG1773 350054012957 Rubredoxin; nonheme iron binding domains containing a [Fe(SCys)4] center. Rubredoxins are small nonheme iron proteins. The iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc. They are...; Region: rubredoxin; cd00730 350054012958 iron binding site [ion binding]; other site 350054012959 Rubredoxin [Energy production and conversion]; Region: COG1773 350054012960 Rubredoxin; nonheme iron binding domains containing a [Fe(SCys)4] center. Rubredoxins are small nonheme iron proteins. The iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc. They are...; Region: rubredoxin; cd00730 350054012961 iron binding site [ion binding]; other site 350054012962 Alkane hydroxylase is a bacterial, integral-membrane di-iron enzyme that shares a requirement for iron and oxygen for activity similar to that of the non-heme integral-membrane acyl coenzyme A (CoA) desaturases and acyl lipid desaturases. The alk genes...; Region: Alkane-hydroxylase; cd03512 350054012963 Fatty acid desaturase; Region: FA_desaturase; pfam00487 350054012964 Di-iron ligands [ion binding]; other site 350054012965 amino acid transporter; Region: 2A0306; TIGR00909 350054012966 C-terminus of AA_permease; Region: AA_permease_C; pfam13906 350054012967 2-polyprenyl-6-methoxyphenol hydroxylase and related FAD-dependent oxidoreductases [Coenzyme metabolism / Energy production and conversion]; Region: UbiH; COG0654 350054012968 hypothetical protein; Provisional; Region: PRK07236 350054012969 mannose-6-phosphate isomerase; Provisional; Region: PRK15131 350054012970 Alpha-Mannosidase Binding Domain of Atg19/34; Region: ABD; cl15429 350054012971 Alpha-Mannosidase Binding Domain of Atg19/34; Region: ABD; cl15429 350054012972 The phosphomannomutase/phosphoglucomutase (PMM/PGM) bifunctional enzyme catalyzes the reversible conversion of 1-phospho to 6-phospho-sugars (e.g. between mannose-1-phosphate and mannose-6-phosphate or glucose-1-phosphate and glucose-6-phosphate) via a...; Region: PMM_PGM; cd03089 350054012973 phosphomannomutase/phosphoglucomutase; Reviewed; Region: manB; PRK09542 350054012974 active site 350054012975 substrate binding site [chemical binding]; other site 350054012976 metal binding site [ion binding]; metal-binding site 350054012977 Protein of unknown function (DUF3499); Region: DUF3499; pfam12005 350054012978 Minimal MMP-like domain found in a group of hypothetical proteins from alphaproteobacteria and actinobacteria; Region: MMP_TTHA0227_like_1; cd12954 350054012979 Transcription factor WhiB; Region: Whib; pfam02467 350054012980 LPPG:FO 2-phospho-L-lactate transferase; Provisional; Region: PRK13606 350054012981 Uncharacterized protein family UPF0052; Region: UPF0052; pfam01933 350054012982 dimer interface [polypeptide binding]; other site 350054012983 phosphate binding site [ion binding]; other site 350054012984 F420-0--gamma-glutamyl ligase; Provisional; Region: PRK13294 350054012985 F420-0:Gamma-glutamyl ligase; Region: F420_ligase; cl00644 350054012986 NAD(P)H:flavin oxidoreductase-like family 1. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes; Region: NADPH_oxidoreductase_1; cd02150 350054012987 putative FMN binding site [chemical binding]; other site 350054012988 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. They also contain a...; Region: Nudix_Hydrolase_1; cd03674 350054012989 nudix motif; other site 350054012990 Nucleoside-diphosphate-sugar pyrophosphorylase involved in lipopolysaccharide biosynthesis/translation initiation factor 2B, gamma/epsilon subunits (eIF-2Bgamma/eIF-2Bepsilon) [Cell envelope biogenesis, outer membrane / Translation, ribosomal structure...; Region: GCD1; COG1208 350054012991 NTP_transferases catalyze the transfer of nucleotides onto phosphosugars; Region: NTP_transferase; cd04181 350054012992 active site 350054012993 Substrate binding site; other site 350054012994 Mg++ binding site; other site 350054012995 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 350054012996 putative CoA binding site [chemical binding]; other site 350054012997 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 350054012998 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 350054012999 Probable Catalytic site; other site 350054013000 metal-binding site 350054013001 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 350054013002 NADP binding site [chemical binding]; other site 350054013003 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 350054013004 active site 350054013005 putative substrate binding site [chemical binding]; other site 350054013006 Transcriptional regulator [Transcription]; Region: LytR; COG1316 350054013007 LytR cell envelope-related transcriptional attenuator; Region: LytR_C; pfam13399 350054013008 TIGR03089 family protein; Region: TIGR03089 350054013009 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 350054013010 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 350054013011 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 350054013012 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 350054013013 Short chain acyl-CoA dehydrogenases and eukaryotic short/branched chain acyl-CoA dehydrogenases; Region: SCAD_SBCAD; cd01158 350054013014 FAD binding site [chemical binding]; other site 350054013015 homotetramer interface [polypeptide binding]; other site 350054013016 substrate binding pocket [chemical binding]; other site 350054013017 catalytic base [active] 350054013018 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 350054013019 Peptidase family M23; Region: Peptidase_M23; pfam01551 350054013020 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 350054013021 GAF domain; Region: GAF; pfam01590 350054013022 Phosphoribosylcarboxyaminoimidazole (NCAIR) mutase [Nucleotide transport and metabolism]; Region: PurE; COG0041 350054013023 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 350054013024 ATP-grasp domain; Region: ATP-grasp; pfam02222 350054013025 Predicted membrane protein [Function unknown]; Region: COG2246 350054013026 GtrA-like protein; Region: GtrA; pfam04138 350054013027 Bacterial PH domain; Region: DUF304; pfam03703 350054013028 hypothetical protein; Provisional; Region: PRK07208 350054013029 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 350054013030 Cis (Z)-Isoprenyl Diphosphate Synthases (cis-IPPS); homodimers which catalyze the successive 1'-4 condensation of the isopentenyl diphosphate (IPP) molecule to trans,trans-farnesyl diphosphate (FPP) or to cis,trans-FPP to form long-chain polyprenyl...; Region: CIS_IPPS; cl00230 350054013031 dimer interface [polypeptide binding]; other site 350054013032 Cis (Z)-Isoprenyl Diphosphate Synthases (cis-IPPS); homodimers which catalyze the successive 1'-4 condensation of the isopentenyl diphosphate (IPP) molecule to trans,trans-farnesyl diphosphate (FPP) or to cis,trans-FPP to form long-chain polyprenyl...; Region: CIS_IPPS; cl00230 350054013033 putative IPP diphosphate binding site; other site 350054013034 HTH-like domain; Region: HTH_21; pfam13276 350054013035 Integrase core domain; Region: rve; pfam00665 350054013036 Integrase core domain; Region: rve_3; pfam13683 350054013037 GDP-4-keto-6-deoxymannose-3, 5-epimerase-4-reductase; Region: PLN02725 350054013038 GDP-fucose synthetase, extended (e) SDRs; Region: GDP_FS_SDR_e; cd05239 350054013039 NADP binding site [chemical binding]; other site 350054013040 active site 350054013041 putative substrate binding site [chemical binding]; other site 350054013042 GDP-D-mannose dehydratase [Cell envelope biogenesis, outer membrane]; Region: Gmd; COG1089 350054013043 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 350054013044 NADP-binding site; other site 350054013045 homotetramer interface [polypeptide binding]; other site 350054013046 substrate binding site [chemical binding]; other site 350054013047 homodimer interface [polypeptide binding]; other site 350054013048 active site 350054013049 exopolysaccharide biosynthesis polyprenyl glycosylphosphotransferase; Region: EPS_sugtrans; TIGR03025 350054013050 Bacterial sugar transferase; Region: Bac_transf; pfam02397 350054013051 Low molecular weight phosphatase family; Region: LMWPc; cl00105 350054013052 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 350054013053 active site 350054013054 Teichoic acid biosynthesis proteins [Cell envelope biogenesis, outer membrane]; Region: WecG; COG1922 350054013055 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 350054013056 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 350054013057 methyltransferase, FkbM family; Region: fkbM_fam; TIGR01444 350054013058 HTH-like domain; Region: HTH_21; pfam13276 350054013059 Integrase core domain; Region: rve; pfam00665 350054013060 Integrase core domain; Region: rve_3; pfam13683 350054013061 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 350054013062 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 350054013063 WfgS and WfeV are involved in O-antigen biosynthesis; Region: GT_2_WfgS_like; cd06433 350054013064 metal-binding site 350054013065 Protein of unknown function DUF115; Region: MAF_flag10; cl17471 350054013066 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 350054013067 classical (c) SDRs; Region: SDR_c; cd05233 350054013068 NAD(P) binding site [chemical binding]; other site 350054013069 active site 350054013070 Putative D-3-Phosphoglycerate Dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_like_2; cd12172 350054013071 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 350054013072 putative ligand binding site [chemical binding]; other site 350054013073 putative NAD binding site [chemical binding]; other site 350054013074 catalytic site [active] 350054013075 CMP-NeuAc_Synthase activates N-acetylneuraminic acid by adding CMP moiety; Region: CMP-NeuAc_Synthase; cd02513 350054013076 ligand binding site; other site 350054013077 tetramer interface; other site 350054013078 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 350054013079 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 350054013080 active site 350054013081 Capsular polysaccharide biosynthesis protein [Cell envelope biogenesis, outer membrane]; Region: COG3944 350054013082 Chain length determinant protein; Region: Wzz; pfam02706 350054013083 capsular exopolysaccharide family; Region: eps_fam; TIGR01007 350054013084 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 350054013085 Protein of unknown function (DUF4012); Region: DUF4012; pfam13196 350054013086 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 350054013087 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 350054013088 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 350054013089 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 350054013090 Acyl-CoA carboxylase epsilon subunit; Region: ACC_epsilon; pfam13822 350054013091 Maf-like protein; Reviewed; Region: PRK00148 350054013092 Maf-like protein; Region: Maf; pfam02545 350054013093 putative active site [active] 350054013094 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 350054013095 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 350054013096 Thiosulfate sulfurtransferase (TST), N-terminal, inactive domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the 1st repeat, which does not contain the catalytically active Cys residue. The role of the 1st repeat is uncertain, but it...; Region: TST_Repeat_1; cd01448 350054013097 active site residue [active] 350054013098 Thiosulfate sulfurtransferase (TST), C-terminal, catalytic domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the second repeat. Only the second repeat contains the catalytically active Cys residue; Region: TST_Repeat_2; cd01449 350054013099 active site residue [active] 350054013100 Fe-S metabolism associated domain; Region: SufE; cl00951 350054013101 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 350054013102 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 350054013103 metal binding site [ion binding]; metal-binding site 350054013104 active site 350054013105 I-site; other site 350054013106 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 350054013107 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 350054013108 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 350054013109 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 350054013110 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 350054013111 carboxyltransferase (CT) interaction site; other site 350054013112 biotinylation site [posttranslational modification]; other site 350054013113 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 350054013114 active site 350054013115 Sulphate Transporter and Anti-Sigma factor antagonist) domain of anti-anti-sigma factors, key regulators of anti-sigma factors by phosphorylation; Region: STAS_anti-anti-sigma_factors; cd07043 350054013116 anti sigma factor interaction site; other site 350054013117 regulatory phosphorylation site [posttranslational modification]; other site 350054013118 RNA polymerase sigma factor SigF; Reviewed; Region: PRK07122 350054013119 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 350054013120 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 350054013121 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 350054013122 DNA binding residues [nucleotide binding] 350054013123 Anti-sigma regulatory factor (Ser/Thr protein kinase) [Signal transduction mechanisms]; Region: RsbW; COG2172 350054013124 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cl00075 350054013125 CsbD-like; Region: CsbD; cl17424 350054013126 Restriction endonuclease; Region: Mrr_cat; pfam04471 350054013127 L-lysine aminotransferase; Provisional; Region: PRK08297 350054013128 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 350054013129 inhibitor-cofactor binding pocket; inhibition site 350054013130 pyridoxal 5'-phosphate binding site [chemical binding]; other site 350054013131 catalytic residue [active] 350054013132 helix_turn_helix ASNC type; Region: HTH_ASNC; smart00344 350054013133 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 350054013134 AsnC family; Region: AsnC_trans_reg; pfam01037 350054013135 Domain of unknown function (DUF1338); Region: DUF1338; pfam07063 350054013136 NAD+-dependent alpha-aminoadipic semialdehyde dehydrogenase, ALDH family members 7A1 and 7B; Region: ALDH_F7_AASADH; cd07130 350054013137 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 350054013138 tetrameric interface [polypeptide binding]; other site 350054013139 NAD binding site [chemical binding]; other site 350054013140 catalytic residues [active] 350054013141 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 350054013142 short chain dehydrogenase; Provisional; Region: PRK05650 350054013143 NAD(P) binding site [chemical binding]; other site 350054013144 active site 350054013145 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 350054013146 Cytochrome P450; Region: p450; cl12078 350054013147 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 350054013148 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350054013149 Dyp-type peroxidase family; Region: Dyp_perox; cl01067 350054013150 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 350054013151 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 350054013152 DNA binding residues [nucleotide binding] 350054013153 dimerization interface [polypeptide binding]; other site 350054013154 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 350054013155 putative ATP-dependent helicase Lhr; Provisional; Region: PRK09751 350054013156 ATP binding site [chemical binding]; other site 350054013157 putative Mg++ binding site [ion binding]; other site 350054013158 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 350054013159 nucleotide binding region [chemical binding]; other site 350054013160 ATP-binding site [chemical binding]; other site 350054013161 DEAD/H associated; Region: DEAD_assoc; pfam08494 350054013162 Formamidopyrimidine-DNA glycosylase [DNA replication, recombination, and repair]; Region: Nei; COG0266 350054013163 N-terminal domain of the actinomycetal Nei2 and related DNA glycosylases; Region: AcNei2_N; cd08971 350054013164 putative DNA binding site [nucleotide binding]; other site 350054013165 catalytic residue [active] 350054013166 putative H2TH interface [polypeptide binding]; other site 350054013167 putative catalytic residues [active] 350054013168 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 350054013169 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 350054013170 Fatty acid desaturase; Region: FA_desaturase; pfam00487 350054013171 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 350054013172 putative di-iron ligands [ion binding]; other site 350054013173 Iron-sulfur binding ferredoxin reductase (FNR) proteins combine the FAD and NAD(P) binding regions of FNR with an iron-sulfur binding cluster domain. Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible electron...; Region: FNR_iron_sulfur_binding_2; cd06216 350054013174 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 350054013175 FAD binding pocket [chemical binding]; other site 350054013176 FAD binding motif [chemical binding]; other site 350054013177 phosphate binding motif [ion binding]; other site 350054013178 beta-alpha-beta structure motif; other site 350054013179 NAD binding pocket [chemical binding]; other site 350054013180 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 350054013181 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 350054013182 catalytic loop [active] 350054013183 iron binding site [ion binding]; other site 350054013184 DNA-binding transcriptional repressor FabR; Provisional; Region: PRK11202 350054013185 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350054013186 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 350054013187 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 350054013188 substrate binding site [chemical binding]; other site 350054013189 oxyanion hole (OAH) forming residues; other site 350054013190 trimer interface [polypeptide binding]; other site 350054013191 short chain dehydrogenase; Provisional; Region: PRK07035 350054013192 classical (c) SDRs; Region: SDR_c; cd05233 350054013193 NAD(P) binding site [chemical binding]; other site 350054013194 active site 350054013195 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 350054013196 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 350054013197 active site 350054013198 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GlpA; COG0578 350054013199 flavoprotein disulfide reductase; Reviewed; Region: PRK07845 350054013200 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 350054013201 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 350054013202 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 350054013203 GGCT-like domains, also called AIG2-like family. Gamma-glutamyl cyclotransferase (GGCT) catalyzes the formation of pyroglutamic acid (5-oxoproline) from dipeptides containing gamma-glutamyl, and is a dimeric protein. In Homo sapiens, the protein is...; Region: GGCT_like; cd06661 350054013204 putative active site pocket [active] 350054013205 dimerization interface [polypeptide binding]; other site 350054013206 putative catalytic residue [active] 350054013207 Predicted drug exporters of the RND superfamily [General function prediction only]; Region: COG2409 350054013208 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 350054013209 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like4; cd08014 350054013210 metal binding site [ion binding]; metal-binding site 350054013211 putative dimer interface [polypeptide binding]; other site 350054013212 M20 Peptidase Aminoacylase 1-like protein 2-like, amidohydrolase subfamily; Region: M20_ACY1L2_like; cd05672 350054013213 amidohydrolase; Region: amidohydrolases; TIGR01891 350054013214 metal binding site [ion binding]; metal-binding site 350054013215 purine nucleoside phosphorylase; Provisional; Region: PRK08202 350054013216 Putative ammonia monooxygenase [General function prediction only]; Region: AbrB; COG3180 350054013217 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 350054013218 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 350054013219 MarR family; Region: MarR_2; pfam12802 350054013220 phosphoglucomutase-2-like protein; Provisional; Region: PTZ00150 350054013221 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 350054013222 active site 350054013223 substrate binding site [chemical binding]; other site 350054013224 metal binding site [ion binding]; metal-binding site 350054013225 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 350054013226 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 350054013227 Coenzyme A binding pocket [chemical binding]; other site 350054013228 diaminobutyrate--2-oxoglutarate aminotransferase; Validated; Region: PRK09264 350054013229 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 350054013230 inhibitor-cofactor binding pocket; inhibition site 350054013231 pyridoxal 5'-phosphate binding site [chemical binding]; other site 350054013232 catalytic residue [active] 350054013233 L-ectoine synthase; Reviewed; Region: ectC; PRK13290 350054013234 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; cl17312 350054013235 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 350054013236 active site 350054013237 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 350054013238 NlpC/P60 family; Region: NLPC_P60; pfam00877 350054013239 probable F420-dependent oxidoreductase, Rv2161c family; Region: F420_Rv2161c; TIGR03619 350054013240 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 350054013241 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 350054013242 adenosine deaminase; Provisional; Region: PRK09358 350054013243 active site 350054013244 thymidine phosphorylase; Reviewed; Region: deoA; PRK05820 350054013245 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 350054013246 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 350054013247 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; smart00941 350054013248 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 350054013249 active site 350054013250 catalytic motif [active] 350054013251 Zn binding site [ion binding]; other site 350054013252 Succinate:quinone oxidoreductase (SQR) Type A subfamily, Succinate dehydrogenase C (SdhC)-like subunit; SQR catalyzes the oxidation of succinate to fumarate coupled to the reduction of quinone to quinol. Members of this subfamily reduce low potential...; Region: SQR_TypeA_SdhC_like; cd03501 350054013253 putative Iron-sulfur protein interface [polypeptide binding]; other site 350054013254 putative proximal heme binding site [chemical binding]; other site 350054013255 putative SdhD-like interface [polypeptide binding]; other site 350054013256 putative distal heme binding site [chemical binding]; other site 350054013257 Succinate:quinone oxidoreductase (SQR) Type A subfamily, Succinate dehydrogenase D (SdhD)-like subunit; SQR catalyzes the oxidation of succinate to fumarate coupled to the reduction of quinone to quinol. Members of this subfamily reduce low potential...; Region: SQR_TypeA_SdhD_like; cd03500 350054013258 putative Iron-sulfur protein interface [polypeptide binding]; other site 350054013259 putative proximal heme binding site [chemical binding]; other site 350054013260 putative SdhC-like subunit interface [polypeptide binding]; other site 350054013261 putative distal heme binding site [chemical binding]; other site 350054013262 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK08205 350054013263 L-aspartate oxidase; Provisional; Region: PRK06175 350054013264 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 350054013265 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 350054013266 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 350054013267 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 350054013268 Protein of unknown function (DUF1470); Region: DUF1470; pfam07336 350054013269 CGNR zinc finger; Region: zf-CGNR; pfam11706 350054013270 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 350054013271 Domain of unknown function DUF20; Region: UPF0118; pfam01594 350054013272 uncharacterized peroxidase-related enzyme; Region: peroxid_rel; TIGR01926 350054013273 RNA polymerase sigma factor SigJ; Provisional; Region: PRK09636 350054013274 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 350054013275 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 350054013276 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 350054013277 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 350054013278 Ligand Binding Site [chemical binding]; other site 350054013279 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 350054013280 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 350054013281 Uncharacterized conserved protein [Function unknown]; Region: COG3391 350054013282 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 350054013283 Transposase; Region: HTH_Tnp_1; cl17663 350054013284 gamma-aminobutyraldehyde dehydrogenase; Provisional; Region: PRK13473 350054013285 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 350054013286 NAD(P) binding site [chemical binding]; other site 350054013287 catalytic residues [active] 350054013288 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 350054013289 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 350054013290 AsnC family; Region: AsnC_trans_reg; pfam01037 350054013291 hypothetical protein; Provisional; Region: PRK06541 350054013292 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 350054013293 inhibitor-cofactor binding pocket; inhibition site 350054013294 pyridoxal 5'-phosphate binding site [chemical binding]; other site 350054013295 catalytic residue [active] 350054013296 Gluconolactonase [Carbohydrate transport and metabolism]; Region: COG3386 350054013297 Strictosidine synthase; Region: Str_synth; pfam03088 350054013298 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 350054013299 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 350054013300 DNA binding residues [nucleotide binding] 350054013301 dimerization interface [polypeptide binding]; other site 350054013302 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 350054013303 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 350054013304 acyl-activating enzyme (AAE) consensus motif; other site 350054013305 AMP binding site [chemical binding]; other site 350054013306 active site 350054013307 CoA binding site [chemical binding]; other site 350054013308 AMP-binding domain protein; Validated; Region: PRK08315 350054013309 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 350054013310 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_2; cd05917 350054013311 acyl-activating enzyme (AAE) consensus motif; other site 350054013312 putative AMP binding site [chemical binding]; other site 350054013313 putative active site [active] 350054013314 putative CoA binding site [chemical binding]; other site 350054013315 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 350054013316 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 350054013317 putative active site [active] 350054013318 putative metal binding site [ion binding]; other site 350054013319 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 350054013320 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 350054013321 Virulence factor BrkB; Region: Virul_fac_BrkB; cl07918 350054013322 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 350054013323 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 350054013324 active site 350054013325 HIGH motif; other site 350054013326 dimer interface [polypeptide binding]; other site 350054013327 KMSKS motif; other site 350054013328 Predicted acetyltransferases and hydrolases with the alpha/beta hydrolase fold [General function prediction only]; Region: LipA; COG1075 350054013329 Neisseria meningitides Nape-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Nape_like_AP-endo; cd10281 350054013330 putative active site [active] 350054013331 putative catalytic site [active] 350054013332 putative DNA binding site [nucleotide binding]; other site 350054013333 putative phosphate binding site [ion binding]; other site 350054013334 metal binding site A [ion binding]; metal-binding site 350054013335 putative AP binding site [nucleotide binding]; other site 350054013336 putative metal binding site B [ion binding]; other site 350054013337 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 350054013338 O-acetylhomoserine aminocarboxypropyltransferase; Validated; Region: PRK07812 350054013339 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 350054013340 homodimer interface [polypeptide binding]; other site 350054013341 substrate-cofactor binding pocket; other site 350054013342 pyridoxal 5'-phosphate binding site [chemical binding]; other site 350054013343 catalytic residue [active] 350054013344 homoserine O-acetyltransferase; Provisional; Region: metX; PRK00175 350054013345 homoserine O-acetyltransferase; Region: homoserO_Ac_trn; TIGR01392 350054013346 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 350054013347 S-adenosylmethionine binding site [chemical binding]; other site 350054013348 Protein of unknown function (DUF3017); Region: DUF3017; pfam11222 350054013349 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14193 350054013350 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 350054013351 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 350054013352 homodimer interface [polypeptide binding]; other site 350054013353 NADP binding site [chemical binding]; other site 350054013354 substrate binding site [chemical binding]; other site 350054013355 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 350054013356 Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a...; Region: OYE_like_FMN_family; cd02803 350054013357 active site 350054013358 FMN binding site [chemical binding]; other site 350054013359 substrate binding site [chemical binding]; other site 350054013360 putative catalytic residue [active] 350054013361 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 350054013362 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350054013363 FOG: FHA domain [Signal transduction mechanisms]; Region: COG1716 350054013364 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cd00060 350054013365 phosphopeptide binding site; other site 350054013366 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cd00060 350054013367 FOG: FHA domain [Signal transduction mechanisms]; Region: COG1716 350054013368 phosphopeptide binding site; other site 350054013369 Eye pigment and drug resistance transporter subfamily G of the ATP-binding cassette superfamily; Region: ABCG_EPDR; cd03213 350054013370 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 350054013371 Walker A/P-loop; other site 350054013372 ATP binding site [chemical binding]; other site 350054013373 Q-loop/lid; other site 350054013374 ABC transporter signature motif; other site 350054013375 Walker B; other site 350054013376 D-loop; other site 350054013377 H-loop/switch region; other site 350054013378 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 350054013379 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 350054013380 bifunctional nitric oxide dioxygenase/dihydropteridine reductase 2; Provisional; Region: PRK13289 350054013381 Globins are heme proteins, which bind and transport oxygen. This family summarizes a diverse set of homologous protein domains, including: (1) tetrameric vertebrate hemoglobins, which are the major protein component of erythrocytes and transport oxygen...; Region: globin; cd01040 350054013382 heme-binding site [chemical binding]; other site 350054013383 FAD_NAD(P)H binding domain of flavohemoglobin. Flavohemoglobins have a globin domain containing a B-type heme fused with a ferredoxin reductase-like FAD/NAD-binding domain. Flavohemoglobins detoxify nitric oxide (NO) via an NO dioxygenase reaction. The...; Region: flavohem_like_fad_nad_binding; cd06184 350054013384 FAD binding pocket [chemical binding]; other site 350054013385 FAD binding motif [chemical binding]; other site 350054013386 phosphate binding motif [ion binding]; other site 350054013387 beta-alpha-beta structure motif; other site 350054013388 NAD binding pocket [chemical binding]; other site 350054013389 Heme binding pocket [chemical binding]; other site 350054013390 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 350054013391 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 350054013392 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 350054013393 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 350054013394 Conserved hypothetical ATP binding protein; Region: ATP_bind_1; pfam03029 350054013395 G1 box; other site 350054013396 GTP/Mg2+ binding site [chemical binding]; other site 350054013397 G2 box; other site 350054013398 Switch I region; other site 350054013399 G3 box; other site 350054013400 Switch II region; other site 350054013401 G4 box; other site 350054013402 G5 box; other site 350054013403 Protein of unknown function (DUF742); Region: DUF742; pfam05331 350054013404 Uncharacterized distant relative of homeotic protein bithoraxoid [General function prediction only]; Region: COG2018 350054013405 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 350054013406 ATP binding site [chemical binding]; other site 350054013407 Mg2+ binding site [ion binding]; other site 350054013408 G-X-G motif; other site 350054013409 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 350054013410 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 350054013411 Proteins of this family catalyze the reduction of flavin or nitrocompounds using NAD(P)H as electron donor in a obligatory two-electron transfer, utilizing FMN or FAD as cofactor. They are often found to be homodimers. Enzymes of this family are...; Region: Nitro_FMN_reductase; cd02062 350054013412 FMN binding site [chemical binding]; other site 350054013413 dimer interface [polypeptide binding]; other site 350054013414 error-prone DNA polymerase; Validated; Region: dnaE2; PRK05672 350054013415 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 350054013416 active site 350054013417 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 350054013418 generic binding surface II; other site 350054013419 generic binding surface I; other site 350054013420 Inhibitor of apoptosis-promoting Bax1; Region: Bax1-I; pfam01027 350054013421 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 350054013422 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 350054013423 metal binding site [ion binding]; metal-binding site 350054013424 active site 350054013425 I-site; other site 350054013426 enoyl-CoA hydratase; Region: PLN02864 350054013427 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 350054013428 HDE_HSD The R-hydratase-like hot dog fold of the 17-beta-hydroxysteriod dehydrogenase (HSD), and Hydratase-Dehydrogenase-Epimerase (HDE) proteins. Other enzymes with this fold include MaoC dehydratase, and the fatty acid synthase beta subunit; Region: HDE_HSD; cd03448 350054013429 dimer interaction site [polypeptide binding]; other site 350054013430 substrate-binding tunnel; other site 350054013431 active site 350054013432 catalytic site [active] 350054013433 substrate binding site [chemical binding]; other site 350054013434 short chain dehydrogenase; Provisional; Region: PRK07201 350054013435 Pseudomonas fluorescens MupV-like, extended (e) SDRs; Region: MupV_like_SDR_e; cd05263 350054013436 putative NAD(P) binding site [chemical binding]; other site 350054013437 active site 350054013438 putative substrate binding site [chemical binding]; other site 350054013439 classical (c) SDRs; Region: SDR_c; cd05233 350054013440 NAD(P) binding site [chemical binding]; other site 350054013441 active site 350054013442 NH_3: A subgroup of nucleoside hydrolases. This group contains eukaryotic and bacterial proteins similar to nucleoside hydrolases. Nucleoside hydrolases cleave the N-glycosidic bond in nucleosides generating ribose and the respective base. These enzymes...; Region: nuc_hydro_3; cd02653 350054013443 active site 350054013444 DNA Polymerase Y-family; Region: PolY_like; cd03468 350054013445 Nucleotidyltransferase/DNA polymerase involved in DNA repair [DNA replication, recombination, and repair]; Region: DinP; COG0389 350054013446 DNA binding site [nucleotide binding] 350054013447 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 350054013448 Helix-Turn-Helix DNA binding domain of putative transcription regulators from the MerR superfamily; Region: HTH_MerR-like_sg2; cd04778 350054013449 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 350054013450 DNA binding residues [nucleotide binding] 350054013451 putative dimer interface [polypeptide binding]; other site 350054013452 GMP synthase; Reviewed; Region: guaA; PRK00074 350054013453 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 350054013454 AMP/PPi binding site [chemical binding]; other site 350054013455 candidate oxyanion hole; other site 350054013456 catalytic triad [active] 350054013457 potential glutamine specificity residues [chemical binding]; other site 350054013458 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 350054013459 ATP Binding subdomain [chemical binding]; other site 350054013460 Ligand Binding sites [chemical binding]; other site 350054013461 Dimerization subdomain; other site 350054013462 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 350054013463 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 350054013464 DNA binding residues [nucleotide binding] 350054013465 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 350054013466 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 350054013467 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 350054013468 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 350054013469 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 350054013470 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350054013471 inosine 5-monophosphate dehydrogenase; Validated; Region: PRK08649 350054013472 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 350054013473 phosphate binding site [ion binding]; other site 350054013474 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 350054013475 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 350054013476 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 350054013477 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 350054013478 active site 350054013479 RNA polymerase sigma factor SigD; Reviewed; Region: PRK09648 350054013480 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 350054013481 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 350054013482 DNA binding residues [nucleotide binding] 350054013483 Transcription factor WhiB; Region: Whib; pfam02467 350054013484 Nitrile hydratase beta subunit; Region: NHase_beta; pfam02211 350054013485 nitrile hydratase, beta subunit; Region: nitrile_beta; TIGR03888 350054013486 thiocyanate hydrolase, gamma subunit; Region: thiocyan_alph; TIGR03887 350054013487 NHLP leader peptide domain; Region: TOMM_pelo; TIGR03793 350054013488 Domain of unknown function (DUF4349); Region: DUF4349; pfam14257 350054013489 phospho-2-dehydro-3-deoxyheptonate aldolase; Validated; Region: PRK09261 350054013490 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 350054013491 Lipocalin-like domain; Region: Lipocalin_2; pfam08212 350054013492 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 350054013493 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 350054013494 ring oligomerisation interface [polypeptide binding]; other site 350054013495 ATP/Mg binding site [chemical binding]; other site 350054013496 stacking interactions; other site 350054013497 hinge regions; other site 350054013498 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 350054013499 oligomerisation interface [polypeptide binding]; other site 350054013500 mobile loop; other site 350054013501 roof hairpin; other site 350054013502 Domain of unknown function (DUF222); Region: DUF222; pfam02720 350054013503 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cd00085 350054013504 active site 350054013505 SnoaL-like domain; Region: SnoaL_4; pfam13577 350054013506 UGMP family protein; Validated; Region: PRK09604 350054013507 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 350054013508 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 350054013509 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 350054013510 Coenzyme A binding pocket [chemical binding]; other site 350054013511 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 350054013512 Glycoprotease family; Region: Peptidase_M22; pfam00814 350054013513 Uncharacterized P-loop hydrolase UPF0079; Region: UPF0079; pfam02367 350054013514 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 350054013515 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 350054013516 TAP-like protein; Region: Abhydrolase_4; pfam08386 350054013517 alanine racemase; Reviewed; Region: alr; PRK00053 350054013518 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 350054013519 active site 350054013520 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 350054013521 dimer interface [polypeptide binding]; other site 350054013522 substrate binding site [chemical binding]; other site 350054013523 catalytic residues [active] 350054013524 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 350054013525 tyrosine decarboxylase MnfA; Region: tyr_de_CO2_Arch; TIGR03812 350054013526 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 350054013527 catalytic residue [active] 350054013528 Uncharacterized conserved protein [Function unknown]; Region: COG0062 350054013529 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 350054013530 putative substrate binding site [chemical binding]; other site 350054013531 putative ATP binding site [chemical binding]; other site 350054013532 Sulphate Transporter and Anti-Sigma factor antagonist) domain of anti-anti-sigma factors, key regulators of anti-sigma factors by phosphorylation; Region: STAS_anti-anti-sigma_factors; cd07043 350054013533 anti sigma factor interaction site; other site 350054013534 regulatory phosphorylation site [posttranslational modification]; other site 350054013535 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 350054013536 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 350054013537 glutaminase active site [active] 350054013538 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 350054013539 dimer interface [polypeptide binding]; other site 350054013540 active site 350054013541 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 350054013542 dimer interface [polypeptide binding]; other site 350054013543 active site 350054013544 probable F420-dependent oxidoreductase, Rv3520c family; Region: F420_Rv3520c; TIGR03559 350054013545 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 350054013546 N5,N10-methylenetetrahydromethanopterin reductase (Mer) catalyzes the reduction of N5,N10-methylenetetrahydromethanopterin with reduced coenzyme F420 to N5-methyltetrahydromethanopterin and oxidized coenzyme F420; Region: Tetrahydromethanopterin_reductase; cd01097 350054013547 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350054013548 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 350054013549 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 350054013550 active site 350054013551 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14318 350054013552 GlmM is a bacterial phosphoglucosamine mutase (PNGM) that belongs to the alpha-D-phosphohexomutase superfamily. It is required for the interconversion of glucosamine-6-phosphate and glucosamine-1-phosphate in the biosynthetic pathway of...; Region: GlmM; cd05802 350054013553 active site 350054013554 substrate binding site [chemical binding]; other site 350054013555 metal binding site [ion binding]; metal-binding site 350054013556 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 350054013557 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 350054013558 23S rRNA interface [nucleotide binding]; other site 350054013559 L3 interface [polypeptide binding]; other site 350054013560 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 350054013561 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD3; cd08297 350054013562 NAD binding site [chemical binding]; other site 350054013563 substrate binding site [chemical binding]; other site 350054013564 catalytic Zn binding site [ion binding]; other site 350054013565 tetramer interface [polypeptide binding]; other site 350054013566 structural Zn binding site [ion binding]; other site 350054013567 Ralstonia eutrophus NAD+-dependent acetaldehyde dehydrogenase II-like; Region: ALDH_ACDHII-AcoD; cd07116 350054013568 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 350054013569 NAD(P) binding site [chemical binding]; other site 350054013570 catalytic residues [active] 350054013571 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 350054013572 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350054013573 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 350054013574 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 350054013575 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4842 350054013576 Proteins of 100 residues with WXG; Region: WXG100; cl02005 350054013577 type VII secretion-associated protein, Rv3446c family, C-terminal domain; Region: T7SS_Rv3446c; TIGR03931 350054013578 type VII secretion protein EccCa; Region: T7SS_EccC_a; TIGR03924 350054013579 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 350054013580 type VII secretion protein EccCb; Region: T7SS_EccC_b; TIGR03925 350054013581 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 350054013582 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 350054013583 WXG100 protein secretion system (Wss), protein YukD; Region: YukD; pfam08817 350054013584 type VII secretion-associated serine protease mycosin; Region: T7SS_mycosin; TIGR03921 350054013585 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 350054013586 active site 350054013587 catalytic residues [active] 350054013588 type VII secretion protein EccB, Actinobacterial; Region: T7SS_EccB; TIGR03919 350054013589 Protein of unknown function (DUF1470); Region: DUF1470; pfam07336 350054013590 CGNR zinc finger; Region: zf-CGNR; pfam11706 350054013591 EamA-like transporter family; Region: EamA; pfam00892 350054013592 EamA-like transporter family; Region: EamA; pfam00892 350054013593 Cutinase; Region: Cutinase; pfam01083 350054013594 Cutinase; Region: Cutinase; pfam01083 350054013595 Cutinase; Region: Cutinase; pfam01083 350054013596 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 350054013597 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 350054013598 dimerization interface 3.5A [polypeptide binding]; other site 350054013599 active site 350054013600 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 350054013601 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 350054013602 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 350054013603 alphaNTD - beta interaction site [polypeptide binding]; other site 350054013604 alphaNTD homodimer interface [polypeptide binding]; other site 350054013605 alphaNTD - beta' interaction site [polypeptide binding]; other site 350054013606 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 350054013607 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 350054013608 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 350054013609 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 350054013610 RNA binding surface [nucleotide binding]; other site 350054013611 30S ribosomal protein S11; Validated; Region: PRK05309 350054013612 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 350054013613 30S ribosomal protein S13; Region: bact_S13; TIGR03631 350054013614 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 350054013615 rRNA binding site [nucleotide binding]; other site 350054013616 predicted 30S ribosome binding site; other site 350054013617 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 350054013618 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 350054013619 Sulfate transporter family; Region: Sulfate_transp; pfam00916 350054013620 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 350054013621 acyltransferase, WS/DGAT/MGAT; Region: acyl_WS_DGAT; TIGR02946 350054013622 Wax ester synthase-like Acyl-CoA acyltransferase domain; Region: WES_acyltransf; pfam03007 350054013623 Protein of unknown function (DUF1298); Region: DUF1298; pfam06974 350054013624 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 350054013625 Ligand Binding Site [chemical binding]; other site 350054013626 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 350054013627 Ligand Binding Site [chemical binding]; other site 350054013628 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 350054013629 Domain of unknown function DUF21; Region: DUF21; pfam01595 350054013630 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 350054013631 Transporter associated domain; Region: CorC_HlyC; smart01091 350054013632 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428 350054013633 ZIP Zinc transporter; Region: Zip; pfam02535 350054013634 Domain of unknown function (DUF3448); Region: DUF3448; pfam11930 350054013635 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 350054013636 Acyl carrier protein [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcpP; COG0236 350054013637 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 350054013638 Ligand Binding Site [chemical binding]; other site 350054013639 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 350054013640 Ligand Binding Site [chemical binding]; other site 350054013641 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 350054013642 1-phosphofructokinase (FruK), minor 6-phosphofructokinase (pfkB) and related sugar kinases. FruK plays an important role in the predominant pathway for fructose utilisation.This group also contains tagatose-6-phophate kinase, an enzyme of the tagatose...; Region: FruK_PfkB_like; cd01164 350054013643 putative substrate binding site [chemical binding]; other site 350054013644 putative ATP binding site [chemical binding]; other site 350054013645 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 350054013646 active site 350054013647 Erythromycin esterase; Region: Erythro_esteras; pfam05139 350054013648 Trehalose-6-phosphatase [Carbohydrate transport and metabolism]; Region: OtsB; COG1877 350054013649 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 350054013650 active site 350054013651 motif I; other site 350054013652 motif II; other site 350054013653 Trehalose and maltose hydrolases (possible phosphorylases) [Carbohydrate transport and metabolism]; Region: ATH1; COG1554 350054013654 Glycosyl hydrolase family 65, N-terminal domain; Region: Glyco_hydro_65N; pfam03636 350054013655 Glycosyl hydrolase family 65 central catalytic domain; Region: Glyco_hydro_65m; pfam03632 350054013656 Glycosyl hydrolase family 65, C-terminal domain; Region: Glyco_hydro_65C; pfam03633 350054013657 phosphoenolpyruvate synthase; Validated; Region: PRK06464 350054013658 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 350054013659 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 350054013660 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 350054013661 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 350054013662 Ligand Binding Site [chemical binding]; other site 350054013663 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 350054013664 Ligand Binding Site [chemical binding]; other site 350054013665 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 350054013666 Ligand Binding Site [chemical binding]; other site 350054013667 heavy metal-(Cd/Co/Hg/Pb/Zn)-translocating P-type ATPase; Region: ATPase-IB2_Cd; TIGR01512 350054013668 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 350054013669 Hemerythrin-like domain; Region: Hr-like; cd12108 350054013670 Proteins of this family catalyze the reduction of flavin or nitrocompounds using NAD(P)H as electron donor in a obligatory two-electron transfer, utilizing FMN or FAD as cofactor. They are often found to be homodimers. Enzymes of this family are...; Region: Nitro_FMN_reductase; cl00514 350054013671 dimer interface [polypeptide binding]; other site 350054013672 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 350054013673 Ligand Binding Site [chemical binding]; other site 350054013674 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 350054013675 Ligand Binding Site [chemical binding]; other site 350054013676 formaldehyde dehydrogenase (FDH)-like; Region: FDH_like_ADH2; cd08286 350054013677 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 350054013678 catalytic Zn binding site [ion binding]; other site 350054013679 structural Zn binding site [ion binding]; other site 350054013680 NAD(P) binding site [chemical binding]; other site 350054013681 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 350054013682 Ligand Binding Site [chemical binding]; other site 350054013683 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 350054013684 Ligand Binding Site [chemical binding]; other site 350054013685 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; cl00250 350054013686 30S subunit binding site; other site 350054013687 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 350054013688 Ligand Binding Site [chemical binding]; other site 350054013689 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 350054013690 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 350054013691 active site 350054013692 phosphorylation site [posttranslational modification] 350054013693 intermolecular recognition site; other site 350054013694 dimerization interface [polypeptide binding]; other site 350054013695 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 350054013696 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 350054013697 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 350054013698 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 350054013699 ligand binding site [chemical binding]; other site 350054013700 flexible hinge region; other site 350054013701 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 350054013702 ATP binding site [chemical binding]; other site 350054013703 Mg2+ binding site [ion binding]; other site 350054013704 G-X-G motif; other site 350054013705 probable F420-dependent oxidoreductase, MSMEG_4141 family; Region: F420_MSMEG_4141; TIGR03620 350054013706 coenzyme F420-dependent oxidoreductase, NP1902A family; Region: F420_NP1902A; TIGR04024 350054013707 probable F420-dependent oxidoreductase, MSMEG_4141 family; Region: F420_MSMEG_4141; TIGR03620 350054013708 probable F420-dependent oxidoreductase, Rv3093c family; Region: F420_Rv3093c; TIGR03841 350054013709 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 350054013710 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 350054013711 NAD binding site [chemical binding]; other site 350054013712 substrate binding site [chemical binding]; other site 350054013713 homodimer interface [polypeptide binding]; other site 350054013714 active site 350054013715 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 350054013716 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350054013717 hypothetical protein; Provisional; Region: PRK06184 350054013718 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 350054013719 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 350054013720 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 350054013721 tetrameric interface [polypeptide binding]; other site 350054013722 NAD binding site [chemical binding]; other site 350054013723 catalytic residues [active] 350054013724 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 350054013725 Isobutyryl-CoA dehydrogenase; Region: IBD; cd01162 350054013726 substrate binding pocket [chemical binding]; other site 350054013727 FAD binding site [chemical binding]; other site 350054013728 catalytic base [active] 350054013729 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 350054013730 3-hydroxyisobutyrate dehydrogenase; Region: HIBADH; TIGR01692 350054013731 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 350054013732 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 350054013733 motif II; other site 350054013734 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 350054013735 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 350054013736 active site 350054013737 phosphorylation site [posttranslational modification] 350054013738 intermolecular recognition site; other site 350054013739 dimerization interface [polypeptide binding]; other site 350054013740 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 350054013741 DNA binding residues [nucleotide binding] 350054013742 dimerization interface [polypeptide binding]; other site 350054013743 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 350054013744 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 350054013745 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 350054013746 Histidine kinase; Region: HisKA_3; pfam07730 350054013747 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 350054013748 ATP binding site [chemical binding]; other site 350054013749 Mg2+ binding site [ion binding]; other site 350054013750 G-X-G motif; other site 350054013751 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 350054013752 Cytochrome P450; Region: p450; cl12078 350054013753 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 350054013754 MarR family; Region: MarR; pfam01047 350054013755 Putative zinc-finger; Region: zf-HC2; pfam13490 350054013756 RNA polymerase sigma factor SigL; Provisional; Region: PRK09645 350054013757 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 350054013758 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 350054013759 DNA binding residues [nucleotide binding] 350054013760 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 350054013761 active site 350054013762 adenylate kinase; Reviewed; Region: adk; PRK00279 350054013763 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 350054013764 AMP-binding site [chemical binding]; other site 350054013765 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 350054013766 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 350054013767 SecY translocase; Region: SecY; pfam00344 350054013768 O-Methyltransferase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3315 350054013769 methyltransferase, TIGR00027 family; Region: mthyl_TIGR00027 350054013770 O-Methyltransferase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3315 350054013771 methyltransferase, TIGR00027 family; Region: mthyl_TIGR00027 350054013772 O-Methyltransferase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3315 350054013773 methyltransferase, TIGR00027 family; Region: mthyl_TIGR00027 350054013774 Signal peptide peptidase A (SppA) 67K type, a serine protease, has catalytic Ser-Lys dyad; Region: S49_SppA_67K_type; cd07018 350054013775 tandem repeat interface [polypeptide binding]; other site 350054013776 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 350054013777 oligomer interface [polypeptide binding]; other site 350054013778 active site residues [active] 350054013779 Periplasmic serine proteases (ClpP class) [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: SppA; COG0616 350054013780 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 350054013781 tandem repeat interface [polypeptide binding]; other site 350054013782 oligomer interface [polypeptide binding]; other site 350054013783 active site residues [active] 350054013784 Protein of unknown function (DUF732); Region: DUF732; pfam05305 350054013785 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 350054013786 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 350054013787 23S rRNA binding site [nucleotide binding]; other site 350054013788 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 350054013789 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 350054013790 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 350054013791 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 350054013792 5S rRNA interface [nucleotide binding]; other site 350054013793 L27 interface [polypeptide binding]; other site 350054013794 23S rRNA interface [nucleotide binding]; other site 350054013795 L5 interface [polypeptide binding]; other site 350054013796 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 350054013797 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 350054013798 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 350054013799 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 350054013800 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08061 350054013801 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 350054013802 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 350054013803 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 350054013804 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 350054013805 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 350054013806 RNA binding site [nucleotide binding]; other site 350054013807 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 350054013808 Uncharacterized conserved protein [Function unknown]; Region: COG1262 350054013809 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 350054013810 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 350054013811 Sulfatase; Region: Sulfatase; pfam00884 350054013812 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 350054013813 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 350054013814 putative translocon interaction site; other site 350054013815 23S rRNA interface [nucleotide binding]; other site 350054013816 signal recognition particle (SRP54) interaction site; other site 350054013817 L23 interface [polypeptide binding]; other site 350054013818 trigger factor interaction site; other site 350054013819 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 350054013820 23S rRNA interface [nucleotide binding]; other site 350054013821 5S rRNA interface [nucleotide binding]; other site 350054013822 putative antibiotic binding site [chemical binding]; other site 350054013823 L25 interface [polypeptide binding]; other site 350054013824 L27 interface [polypeptide binding]; other site 350054013825 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 350054013826 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 350054013827 G-X-X-G motif; other site 350054013828 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 350054013829 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 350054013830 putative translocon binding site; other site 350054013831 protein-rRNA interface [nucleotide binding]; other site 350054013832 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 350054013833 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 350054013834 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 350054013835 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 350054013836 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 350054013837 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 350054013838 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 350054013839 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 350054013840 Carboxylesterase family; Region: COesterase; pfam00135 350054013841 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 350054013842 substrate binding pocket [chemical binding]; other site 350054013843 catalytic triad [active] 350054013844 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 350054013845 Cytochrome P450; Region: p450; cl12078 350054013846 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 350054013847 Cytochrome P450; Region: p450; cl12078 350054013848 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 350054013849 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350054013850 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 350054013851 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 350054013852 putative substrate translocation pore; other site 350054013853 dehydrogenase, Rv0697 family; Region: Rv0697; TIGR03970 350054013854 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 350054013855 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 350054013856 mycofactocin system glycosyltransferase; Region: mycofact_glyco; TIGR03965 350054013857 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 350054013858 Probable Catalytic site; other site 350054013859 metal-binding site 350054013860 mycofactocin system creatininase family protein; Region: mycofact_creat; TIGR03964 350054013861 heme/flavin dehydrogenase, mycofactocin system; Region: actino_HemFlav; TIGR03966 350054013862 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 350054013863 phosphate binding site [ion binding]; other site 350054013864 mycofactocin radical SAM maturase; Region: mycofact_rSAM; TIGR03962 350054013865 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 350054013866 FeS/SAM binding site; other site 350054013867 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 350054013868 putative mycofactocin binding protein MftB; Region: mycofact_MftB; TIGR03967 350054013869 mycofactocin system transcriptional regulator; Region: mycofact_TetR; TIGR03968 350054013870 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350054013871 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 350054013872 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 350054013873 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cl17257 350054013874 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_8; cd07246 350054013875 putative dimer interface [polypeptide binding]; other site 350054013876 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 350054013877 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 350054013878 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 350054013879 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 350054013880 active site 350054013881 metal binding site [ion binding]; metal-binding site 350054013882 Domain of unknown function (DUF222); Region: DUF222; pfam02720 350054013883 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cd00085 350054013884 active site 350054013885 Transposase zinc-ribbon domain; Region: Zn_Tnp_IS1595; pfam12760 350054013886 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; pfam12762 350054013887 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 350054013888 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 350054013889 helix_turn_helix ASNC type; Region: HTH_ASNC; smart00344 350054013890 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 350054013891 putative DNA binding site [nucleotide binding]; other site 350054013892 putative Zn2+ binding site [ion binding]; other site 350054013893 AsnC family; Region: AsnC_trans_reg; pfam01037 350054013894 N-Dimethylarginine dimethylaminohydrolase [Amino acid transport and metabolism]; Region: COG1834 350054013895 Amidinotransferase; Region: Amidinotransf; pfam02274 350054013896 ornithine--oxo-acid transaminase; Provisional; Region: rocD; PRK04073 350054013897 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 350054013898 inhibitor-cofactor binding pocket; inhibition site 350054013899 pyridoxal 5'-phosphate binding site [chemical binding]; other site 350054013900 catalytic residue [active] 350054013901 oxidoreductase, SDR family; Region: SDR_subfam_1; TIGR03971 350054013902 classical (c) SDRs; Region: SDR_c; cd05233 350054013903 NAD(P) binding site [chemical binding]; other site 350054013904 active site 350054013905 Short C-terminal domain; Region: SHOCT; pfam09851 350054013906 Cutinase; Region: Cutinase; pfam01083 350054013907 elongation factor Tu; Reviewed; Region: PRK00049 350054013908 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 350054013909 G1 box; other site 350054013910 GEF interaction site [polypeptide binding]; other site 350054013911 GTP/Mg2+ binding site [chemical binding]; other site 350054013912 Switch I region; other site 350054013913 G2 box; other site 350054013914 G3 box; other site 350054013915 Switch II region; other site 350054013916 G4 box; other site 350054013917 G5 box; other site 350054013918 Translation_Factor_II_like: Elongation factor Tu (EF-Tu) domain II-like proteins. Elongation factor Tu consists of three structural domains, this family represents the second domain. Domain II adopts a beta barrel structure and is involved in binding to...; Region: Translation_Factor_II_like; cl02787 350054013919 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 350054013920 Antibiotic Binding Site [chemical binding]; other site 350054013921 elongation factor G; Reviewed; Region: PRK00007 350054013922 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 350054013923 G1 box; other site 350054013924 putative GEF interaction site [polypeptide binding]; other site 350054013925 GTP/Mg2+ binding site [chemical binding]; other site 350054013926 Switch I region; other site 350054013927 G2 box; other site 350054013928 G3 box; other site 350054013929 Switch II region; other site 350054013930 G4 box; other site 350054013931 G5 box; other site 350054013932 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 350054013933 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 350054013934 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 350054013935 30S ribosomal protein S7; Validated; Region: PRK05302 350054013936 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 350054013937 S17 interaction site [polypeptide binding]; other site 350054013938 S8 interaction site; other site 350054013939 16S rRNA interaction site [nucleotide binding]; other site 350054013940 streptomycin interaction site [chemical binding]; other site 350054013941 23S rRNA interaction site [nucleotide binding]; other site 350054013942 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 350054013943 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 350054013944 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350054013945 WHG domain; Region: WHG; pfam13305 350054013946 Protein of unknown function (DUF3558); Region: DUF3558; pfam12079 350054013947 Protein of unknown function (DUF3558); Region: DUF3558; pfam12079 350054013948 Protein of unknown function (DUF3060); Region: DUF3060; pfam11259 350054013949 Protein of unknown function (DUF3060); Region: DUF3060; pfam11259 350054013950 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 350054013951 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 350054013952 substrate binding site [chemical binding]; other site 350054013953 oxyanion hole (OAH) forming residues; other site 350054013954 trimer interface [polypeptide binding]; other site 350054013955 PaaX-like protein; Region: PaaX; pfam07848 350054013956 PaaX-like protein C-terminal domain; Region: PaaX_C; pfam08223 350054013957 isovaleryl CoA dehydrogenase; Provisional; Region: PRK11561 350054013958 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 350054013959 active site 350054013960 Methyltransferase domain; Region: Methyltransf_23; pfam13489 350054013961 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 350054013962 S-adenosylmethionine binding site [chemical binding]; other site 350054013963 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 350054013964 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 350054013965 active site 350054013966 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 350054013967 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 350054013968 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 350054013969 putative active site [active] 350054013970 putative substrate binding site [chemical binding]; other site 350054013971 putative cosubstrate binding site; other site 350054013972 catalytic site [active] 350054013973 methyltransferase, FkbM family; Region: fkbM_fam; TIGR01444 350054013974 endonuclease IV; Provisional; Region: PRK01060 350054013975 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cd00019 350054013976 AP (apurinic/apyrimidinic) site pocket; other site 350054013977 DNA interaction; other site 350054013978 Metal-binding active site; metal-binding site 350054013979 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; cl17312 350054013980 putative calcium/sodium:proton antiporter; Provisional; Region: PRK10734 350054013981 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 350054013982 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 350054013983 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 350054013984 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 350054013985 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 350054013986 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 350054013987 RNA polymerase Rpb1, domain 5; Region: RNA_pol_Rpb1_5; pfam04998 350054013988 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 350054013989 Rpb1 (beta') - Rpb6 (omega) interaction site [polypeptide binding]; other site 350054013990 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 350054013991 G-loop; other site 350054013992 DNA binding site [nucleotide binding] 350054013993 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 350054013994 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 350054013995 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 350054013996 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 350054013997 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 350054013998 RPB10 interaction site [polypeptide binding]; other site 350054013999 RPB1 interaction site [polypeptide binding]; other site 350054014000 RPB11 interaction site [polypeptide binding]; other site 350054014001 RPB3 interaction site [polypeptide binding]; other site 350054014002 RPB12 interaction site [polypeptide binding]; other site 350054014003 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 350054014004 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 350054014005 Walker A/P-loop; other site 350054014006 ATP binding site [chemical binding]; other site 350054014007 Q-loop/lid; other site 350054014008 ABC transporter signature motif; other site 350054014009 Walker B; other site 350054014010 D-loop; other site 350054014011 H-loop/switch region; other site 350054014012 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 350054014013 core dimer interface [polypeptide binding]; other site 350054014014 peripheral dimer interface [polypeptide binding]; other site 350054014015 L10 interface [polypeptide binding]; other site 350054014016 L11 interface [polypeptide binding]; other site 350054014017 putative EF-Tu interaction site [polypeptide binding]; other site 350054014018 putative EF-G interaction site [polypeptide binding]; other site 350054014019 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 350054014020 23S rRNA interface [nucleotide binding]; other site 350054014021 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 350054014022 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 350054014023 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 350054014024 nucleotide binding site [chemical binding]; other site 350054014025 N-terminal catalytic domain of class II alpha-mannosidases and similar proteins; glycoside hydrolase family 38 (GH38); Region: GH38N_AMII_like; cd10786 350054014026 active site 350054014027 catalytic site [active] 350054014028 Alpha-mannosidase [Carbohydrate transport and metabolism]; Region: AMS1; COG0383 350054014029 Alpha mannosidase, middle domain; Region: Alpha-mann_mid; smart00872 350054014030 NPCBM-associated, NEW3 domain of alpha-galactosidase; Region: NPCBM_assoc; pfam10633 350054014031 Predicted transcriptional regulator [Transcription]; Region: COG2378 350054014032 HTH domain; Region: HTH_11; pfam08279 350054014033 WYL domain; Region: WYL; pfam13280 350054014034 DinB superfamily; Region: DinB_2; pfam12867 350054014035 Protein of unknown function (DUF664); Region: DUF664; pfam04978 350054014036 DinB superfamily; Region: DinB_2; pfam12867 350054014037 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 350054014038 Uncharacterized protein conserved in bacteria (DUF2236); Region: DUF2236; pfam09995 350054014039 Predicted unusual protein kinase [General function prediction only]; Region: AarF; COG0661 350054014040 ABC1 family; Region: ABC1; cl17513 350054014041 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 350054014042 Mycolic acid cyclopropane synthetase; Region: CMAS; pfam02353 350054014043 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 350054014044 S-adenosylmethionine binding site [chemical binding]; other site 350054014045 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 350054014046 mRNA/rRNA interface [nucleotide binding]; other site 350054014047 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 350054014048 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 350054014049 23S rRNA interface [nucleotide binding]; other site 350054014050 L7/L12 interface [polypeptide binding]; other site 350054014051 putative thiostrepton binding site; other site 350054014052 L25 interface [polypeptide binding]; other site 350054014053 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 350054014054 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 350054014055 putative homodimer interface [polypeptide binding]; other site 350054014056 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 350054014057 heterodimer interface [polypeptide binding]; other site 350054014058 homodimer interface [polypeptide binding]; other site 350054014059 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK07597 350054014060 (R)-hydratase [(R)-specific enoyl-CoA hydratase]. Catalyzes the hydration of trans-2-enoyl CoA to (R)-3-hydroxyacyl-CoA as part of the PHA (polyhydroxyalkanoate) biosynthetic pathway. The structure of the monomer includes a five-strand antiparallel...; Region: R_hydratase_like; cd03441 350054014061 active site 350054014062 catalytic site [active] 350054014063 SAV4209_like. Similar in sequence to the Streptomyces avermitilis SAV4209 protein, with a hot dog fold that is similar to those of (R)-specific enoyl-CoA hydratase, the peroxisomal Hydratase-Dehydrogenase-Epimerase (HDE) protein, and the fatty acid...; Region: SAV4209_like; cd03453 350054014064 active site 350054014065 catalytic site [active] 350054014066 (R)-hydratase [(R)-specific enoyl-CoA hydratase]. Catalyzes the hydration of trans-2-enoyl CoA to (R)-3-hydroxyacyl-CoA as part of the PHA (polyhydroxyalkanoate) biosynthetic pathway. The structure of the monomer includes a five-strand antiparallel...; Region: R_hydratase_like; cd03441 350054014067 active site 350054014068 catalytic site [active] 350054014069 50S ribosomal protein L33; Validated; Region: rpmG; PRK00504 350054014070 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 350054014071 Uncharacterized conserved protein (DUF2235); Region: DUF2235; pfam09994 350054014072 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 350054014073 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 350054014074 substrate binding site [chemical binding]; other site 350054014075 oxyanion hole (OAH) forming residues; other site 350054014076 trimer interface [polypeptide binding]; other site 350054014077 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 350054014078 Thermotoga maritima CorA-like family; Region: TmCorA-like; cd12822 350054014079 oligomer interface [polypeptide binding]; other site 350054014080 metal binding site [ion binding]; metal-binding site 350054014081 metal binding site [ion binding]; metal-binding site 350054014082 putative Cl binding site [ion binding]; other site 350054014083 aspartate ring; other site 350054014084 basic sphincter; other site 350054014085 hydrophobic gate; other site 350054014086 periplasmic entrance; other site 350054014087 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 350054014088 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 350054014089 Protein of unknown function (DUF3060); Region: DUF3060; pfam11259 350054014090 exodeoxyribonuclease V, gamma subunit; Region: recC; TIGR01450 350054014091 exonuclease V subunit gamma; Provisional; Region: recC; PRK11069 350054014092 exonuclease V subunit gamma; Provisional; Region: recC; PRK11069 350054014093 Part of AAA domain; Region: AAA_19; pfam13245 350054014094 exodeoxyribonuclease V, beta subunit; Region: recB; TIGR00609 350054014095 exodeoxyribonuclease V, alpha subunit; Region: recD; TIGR01447 350054014096 AAA domain; Region: AAA_30; pfam13604 350054014097 Family description; Region: UvrD_C_2; pfam13538 350054014098 Uncharacterized protein family (UPF0104); Region: UPF0104; pfam03706 350054014099 ethanolamine utilization protein EutQ; Provisional; Region: PRK15457 350054014100 urea carboxylase-associated protein 1; Region: urea_degr_1; TIGR03424 350054014101 Domain of unknown function (DUF1989); Region: DUF1989; pfam09347 350054014102 Glycine cleavage system T protein (aminomethyltransferase) [Amino acid transport and metabolism]; Region: GcvT; COG0404 350054014103 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 350054014104 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 350054014105 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 350054014106 Alkanesulfonate monoxygenase is the monoxygenase of a two-component system that catalyzes the conversion of alkanesulfonates to the corresponding aldehyde and sulfite. Alkanesulfonate monoxygenase (SsuD) has an absolute requirement for reduced flavin...; Region: Alkanesulfonate_monoxygenase; cd01094 350054014107 alkanesulfonate monooxygenase, FMNH(2)-dependent; Region: alk_sulf_monoox; TIGR03565 350054014108 active site 350054014109 dimer interface [polypeptide binding]; other site 350054014110 non-prolyl cis peptide bond; other site 350054014111 insertion regions; other site 350054014112 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_M15_4; pfam13539 350054014113 MMPL family; Region: MMPL; pfam03176 350054014114 MMPL family; Region: MMPL; pfam03176 350054014115 Predicted naringenin-chalcone synthase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: BcsA; COG3424 350054014116 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 350054014117 malonyl-CoA binding site [chemical binding]; other site 350054014118 dimer interface [polypeptide binding]; other site 350054014119 active site 350054014120 product binding site; other site 350054014121 Phospholipid methyltransferase; Region: PEMT; cl17370 350054014122 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 350054014123 MASE1; Region: MASE1; cl17823 350054014124 PAS domain S-box; Region: sensory_box; TIGR00229 350054014125 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 350054014126 putative active site [active] 350054014127 heme pocket [chemical binding]; other site 350054014128 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 350054014129 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 350054014130 metal binding site [ion binding]; metal-binding site 350054014131 active site 350054014132 I-site; other site 350054014133 This is a family of oligosaccharide phosphorylases. It includes yeast and mammalian glycogen phosphorylases, plant starch/glucan phosphorylase, as well as the maltodextrin phosphorylases of bacteria. The members of this family catalyze the breakdown of...; Region: GT1_Glycogen_Phosphorylase; cd04300 350054014134 homodimer interface [polypeptide binding]; other site 350054014135 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 350054014136 active site pocket [active] 350054014137 dihydroxyacetone kinase, ATP-dependent; Region: dak_ATP; TIGR02361 350054014138 Putative esterase; Region: Esterase; pfam00756 350054014139 Predicted acetamidase/formamidase [Energy production and conversion]; Region: COG2421 350054014140 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 350054014141 classical (c) SDRs; Region: SDR_c; cd05233 350054014142 NAD(P) binding site [chemical binding]; other site 350054014143 active site 350054014144 AAA ATPase domain; Region: AAA_16; pfam13191 350054014145 Domain of unknown function DUF87; Region: DUF87; pfam01935 350054014146 AAA-like domain; Region: AAA_10; pfam12846 350054014147 Zonular occludens toxin (Zot); Region: Zot; cl17485 350054014148 Uncharacterized conserved protein [Function unknown]; Region: COG0398 350054014149 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 350054014150 PIF1-like helicase; Region: PIF1; pfam05970 350054014151 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 350054014152 Walker A motif; other site 350054014153 ATP binding site [chemical binding]; other site 350054014154 Walker B motif; other site 350054014155 Family description; Region: UvrD_C_2; pfam13538 350054014156 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 350054014157 catalytic site [active] 350054014158 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 350054014159 Beta-eliminating lyase; Region: Beta_elim_lyase; pfam01212 350054014160 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 350054014161 catalytic residue [active] 350054014162 alcohol dehydrogenase and quinone reductase-like medium chain degydrogenases/reductases; Region: MDR_like_2; cd05289 350054014163 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 350054014164 putative NAD(P) binding site [chemical binding]; other site 350054014165 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 350054014166 putative enoyl-[acyl-carrier-protein] reductase II; Region: enACPred_II; TIGR03151 350054014167 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 350054014168 FMN binding site [chemical binding]; other site 350054014169 substrate binding site [chemical binding]; other site 350054014170 putative catalytic residue [active] 350054014171 Protein of unknown function (DUF3375); Region: DUF3375; pfam11855 350054014172 Domain of unknown function (DUF4194); Region: DUF4194; pfam13835 350054014173 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4913 350054014174 P-loop containing region of AAA domain; Region: AAA_29; cl17516 350054014175 Putative exonuclease SbcCD, C subunit; Region: SbcCD_C; pfam13558 350054014176 Esterase-like activity of phytase; Region: Phytase-like; pfam13449 350054014177 The MopB_3 CD includes a group of related uncharacterized bacterial and archaeal molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. These members...; Region: MopB_3; cd02766 350054014178 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 350054014179 putative [4Fe-4S] binding site [ion binding]; other site 350054014180 putative molybdopterin cofactor binding site [chemical binding]; other site 350054014181 Molybdopterin-Binding, C-terminal (MopB_CT) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum-...; Region: MopB_CT; cl09929 350054014182 molybdopterin cofactor binding site; other site 350054014183 Luciferase-like monooxygenase; Region: Bac_luciferase; pfam00296 350054014184 N5,N10-methylenetetrahydromethanopterin reductase (Mer) catalyzes the reduction of N5,N10-methylenetetrahydromethanopterin with reduced coenzyme F420 to N5-methyltetrahydromethanopterin and oxidized coenzyme F420; Region: Tetrahydromethanopterin_reductase; cd01097 350054014185 Transmembrane secretion effector; Region: MFS_3; pfam05977 350054014186 YceI-like domain; Region: YceI; smart00867 350054014187 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 350054014188 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 350054014189 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 350054014190 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 350054014191 active site 350054014192 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 350054014193 Integral membrane protein TerC family; Region: TerC; cl10468 350054014194 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 350054014195 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 350054014196 non-specific DNA binding site [nucleotide binding]; other site 350054014197 salt bridge; other site 350054014198 sequence-specific DNA binding site [nucleotide binding]; other site 350054014199 dihydroxy-acid dehydratase; Provisional; Region: PRK12448 350054014200 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 350054014201 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350054014202 mycofactocin system transcriptional regulator; Region: mycofact_TetR; TIGR03968 350054014203 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350054014204 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 350054014205 GAF domain; Region: GAF; pfam01590 350054014206 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 350054014207 PAS domain S-box; Region: sensory_box; TIGR00229 350054014208 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 350054014209 putative active site [active] 350054014210 heme pocket [chemical binding]; other site 350054014211 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 350054014212 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 350054014213 metal binding site [ion binding]; metal-binding site 350054014214 active site 350054014215 I-site; other site 350054014216 peroxiredoxin, Ohr subfamily; Region: organ_hyd_perox; TIGR03561 350054014217 Nuclease-related domain; Region: NERD; pfam08378 350054014218 non-LTR RNase HI domain of reverse transcriptases; Region: Rnase_HI_RT_non_LTR; cd09276 350054014219 RNA/DNA hybrid binding site [nucleotide binding]; other site 350054014220 active site 350054014221 PE-PPE domain; Region: PE-PPE; pfam08237 350054014222 ADP-ribose pyrophosphatase [Nucleotide transport and metabolism]; Region: COG1051 350054014223 nudix motif; other site 350054014224 Uncharacterized conserved protein [General function prediction only]; Region: COG4111 350054014225 ADP-ribosylglycohydrolase; Region: ADP_ribosyl_GH; pfam03747 350054014226 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 350054014227 active site 350054014228 metal binding site [ion binding]; metal-binding site 350054014229 Protein of unknown function (DUF732); Region: DUF732; pfam05305 350054014230 Protein of unknown function (DUF732); Region: DUF732; pfam05305 350054014231 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 350054014232 CoA-transferase family III; Region: CoA_transf_3; pfam02515 350054014233 Uncharacterized vancomycin resistance protein [Defense mechanisms]; Region: COG2720 350054014234 Putative peptidoglycan binding domain; Region: PG_binding_4; pfam12229 350054014235 VanW like protein; Region: VanW; pfam04294 350054014236 ERCC4 domain; Region: ERCC4; smart00891 350054014237 Lsr2; Region: Lsr2; pfam11774 350054014238 PIN domain of the Rv0301 toxin of Mycobacterium tuberculosis and other uncharacterized, annotated PilT protein domain proteins; Region: PIN_MtRv0301; cd09882 350054014239 putative active site [active] 350054014240 Domain of Unknown Function (DUF1206); Region: DUF1206; pfam06724 350054014241 Domain of Unknown Function (DUF1206); Region: DUF1206; pfam06724 350054014242 Predicted acyl esterases [General function prediction only]; Region: COG2936 350054014243 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 350054014244 X-Pro dipeptidyl-peptidase C-terminal non-catalytic domain; Region: PepX_C; smart00939 350054014245 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; COG1914 350054014246 hypothetical protein; Provisional; Region: PRK05463 350054014247 Fatty acid desaturase [Lipid metabolism]; Region: DesA; COG3239 350054014248 The membrane fatty acid desaturase (Membrane_FADS)-like CD includes membrane FADSs, alkane hydroxylases, beta carotene ketolases (CrtW-like), hydroxylases (CrtR-like), and other related proteins. They are present in all groups of organisms with the...; Region: Membrane-FADS-like; cl00615 350054014249 putative di-iron ligands [ion binding]; other site 350054014250 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 350054014251 Regulators of stationary/sporulation gene expression [Transcription]; Region: AbrB; COG2002 350054014252 SpoVT / AbrB like domain; Region: SpoVT_AbrB; smart00966 350054014253 Protein of unknown function (DUF3423); Region: DUF3423; pfam11903 350054014254 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4185 350054014255 AAA domain; Region: AAA_33; pfam13671 350054014256 Plasmid pRiA4b ORF-3-like protein; Region: PRiA4_ORF3; pfam07929 350054014257 PIN domain of the Pyrobaculum aerophilum Pae0151 and Pae2754 proteins and homologs; Region: PIN_Pae0151; cd09873 350054014258 putative active site [active] 350054014259 homotetrameric interface [polypeptide binding]; other site 350054014260 Protein of unknown function (DUF524); Region: DUF524; pfam04411 350054014261 Domain of unknown function (DUF2357); Region: DUF2357; pfam09823 350054014262 GTPase subunit of restriction endonuclease [Defense mechanisms]; Region: McrB; COG1401 350054014263 alpha-ketoglutarate transporter; Provisional; Region: PRK10406 350054014264 Membrane carboxypeptidase (penicillin-binding protein) [Cell envelope biogenesis, outer membrane]; Region: MrcB; COG0744 350054014265 Transglycosylase; Region: Transgly; pfam00912 350054014266 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 350054014267 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 350054014268 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 350054014269 Catalytic domain of Protein Kinases; Region: PKc; cd00180 350054014270 active site 350054014271 ATP binding site [chemical binding]; other site 350054014272 substrate binding site [chemical binding]; other site 350054014273 activation loop (A-loop); other site 350054014274 Fic/DOC family; Region: Fic; cl00960 350054014275 acyltransferase, WS/DGAT/MGAT; Region: acyl_WS_DGAT; TIGR02946 350054014276 Wax ester synthase-like Acyl-CoA acyltransferase domain; Region: WES_acyltransf; pfam03007 350054014277 Fatty acid desaturase [Lipid metabolism]; Region: DesA; COG3239 350054014278 The membrane fatty acid desaturase (Membrane_FADS)-like CD includes membrane FADSs, alkane hydroxylases, beta carotene ketolases (CrtW-like), hydroxylases (CrtR-like), and other related proteins. They are present in all groups of organisms with the...; Region: Membrane-FADS-like; cl00615 350054014279 putative di-iron ligands [ion binding]; other site 350054014280 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 350054014281 Glycosyl hydrolase families: GH43, GH62, GH32, GH68; Region: GH43_62_32_68; cl14647 350054014282 active site 350054014283 This family is most closely related to the GT1 family of glycosyltransferases. ORF704 in E. coli has been shown to be involved in the biosynthesis of O-specific mannose homopolysaccharides; Region: GT1_ecORF704_like; cd03822 350054014284 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 350054014285 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07768 350054014286 Fatty acyl-AMP ligase (FAAL); Region: FAAL; cd05931 350054014287 acyl-activating enzyme (AAE) consensus motif; other site 350054014288 active site 350054014289 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 350054014290 GAF domain; Region: GAF; cl17456 350054014291 ANTAR domain; Region: ANTAR; pfam03861 350054014292 GAF domain; Region: GAF; cl17456 350054014293 ANTAR (AmiR and NasR transcription antitermination regulators) is an RNA-binding domain found in bacterial transcription antitermination regulatory proteins; Region: ANTAR; smart01012 350054014294 GAF domain; Region: GAF; cl17456 350054014295 ANTAR (AmiR and NasR transcription antitermination regulators) is an RNA-binding domain found in bacterial transcription antitermination regulatory proteins; Region: ANTAR; smart01012 350054014296 Fatty acid desaturase [Lipid metabolism]; Region: DesA; COG3239 350054014297 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 350054014298 putative di-iron ligands [ion binding]; other site 350054014299 alanine dehydrogenase; Region: alaDH; TIGR00518 350054014300 N(5)-(carboxyethyl)ornithine synthase; Region: ceo_syn; cd12181 350054014301 putative active site [active] 350054014302 putative ligand binding site [chemical binding]; other site 350054014303 putative NAD(P) binding site [chemical binding]; other site 350054014304 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 350054014305 This family is most closely related to the GT1 family of glycosyltransferases. ORF704 in E. coli has been shown to be involved in the biosynthesis of O-specific mannose homopolysaccharides; Region: GT1_ecORF704_like; cd03822 350054014306 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 350054014307 DNA-binding site [nucleotide binding]; DNA binding site 350054014308 RNA-binding motif; other site 350054014309 GPI-Mannosyltransferase II co-activator; Region: Pga1; pfam10333 350054014310 X-Pro dipeptidyl-peptidase (S15 family); Region: Peptidase_S15; pfam02129 350054014311 putative hydrolase, CocE/NonD family; Region: /NonD; TIGR00976 350054014312 X-Pro dipeptidyl-peptidase C-terminal non-catalytic domain; Region: PepX_C; smart00939 350054014313 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 350054014314 DNA-binding site [nucleotide binding]; DNA binding site 350054014315 RNA-binding motif; other site 350054014316 Predicted drug exporters of the RND superfamily [General function prediction only]; Region: COG2409 350054014317 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 350054014318 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cl00075 350054014319 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 350054014320 Catalytic domain of Protein Kinases; Region: PKc; cd00180 350054014321 active site 350054014322 ATP binding site [chemical binding]; other site 350054014323 substrate binding site [chemical binding]; other site 350054014324 activation loop (A-loop); other site 350054014325 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 350054014326 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 350054014327 substrate binding pocket [chemical binding]; other site 350054014328 membrane-bound complex binding site; other site 350054014329 hinge residues; other site 350054014330 Predicted transcriptional regulators [Transcription]; Region: COG1733 350054014331 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 350054014332 dimerization interface [polypeptide binding]; other site 350054014333 putative DNA binding site [nucleotide binding]; other site 350054014334 putative Zn2+ binding site [ion binding]; other site 350054014335 SCP-2 sterol transfer family; Region: SCP2; cl01225 350054014336 Domain of unknown function (DUF385); Region: DUF385; cl04387 350054014337 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 350054014338 Hydroxy(phenyl)pyruvate Reductase, D-isomer-specific 2-hydroxyacid-related dehydrogenase; Region: HPPR; cd12156 350054014339 putative ligand binding site [chemical binding]; other site 350054014340 NAD binding site [chemical binding]; other site 350054014341 catalytic site [active] 350054014342 Cupin; Region: Cupin_6; pfam12852 350054014343 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 350054014344 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 350054014345 short chain dehydrogenase; Validated; Region: PRK06182 350054014346 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 350054014347 NADP binding site [chemical binding]; other site 350054014348 active site 350054014349 steroid binding site; other site 350054014350 PE-PPE domain; Region: PE-PPE; pfam08237 350054014351 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 350054014352 Fatty acid desaturase [Lipid metabolism]; Region: DesA; COG3239 350054014353 The membrane fatty acid desaturase (Membrane_FADS)-like CD includes membrane FADSs, alkane hydroxylases, beta carotene ketolases (CrtW-like), hydroxylases (CrtR-like), and other related proteins. They are present in all groups of organisms with the...; Region: Membrane-FADS-like; cl00615 350054014354 putative di-iron ligands [ion binding]; other site 350054014355 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 350054014356 Iron-sulfur binding ferredoxin reductase (FNR) proteins combine the FAD and NAD(P) binding regions of FNR with an iron-sulfur binding cluster domain. Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible electron...; Region: FNR_iron_sulfur_binding_2; cd06216 350054014357 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 350054014358 FAD binding pocket [chemical binding]; other site 350054014359 FAD binding motif [chemical binding]; other site 350054014360 phosphate binding motif [ion binding]; other site 350054014361 beta-alpha-beta structure motif; other site 350054014362 NAD binding pocket [chemical binding]; other site 350054014363 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 350054014364 catalytic loop [active] 350054014365 iron binding site [ion binding]; other site 350054014366 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1666 350054014367 Proteins similar to Escherichia coli YajQ; Region: YajQ_like; cd11740 350054014368 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Provisional; Region: PRK12439 350054014369 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 350054014370 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 350054014371 heat shock protein HtpX; Provisional; Region: PRK03072 350054014372 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 350054014373 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 350054014374 substrate binding pocket [chemical binding]; other site 350054014375 chain length determination region; other site 350054014376 substrate-Mg2+ binding site; other site 350054014377 catalytic residues [active] 350054014378 aspartate-rich region 1; other site 350054014379 active site lid residues [active] 350054014380 aspartate-rich region 2; other site 350054014381 geranylgeranyl reductase family; Region: GG-red-SF; TIGR02032 350054014382 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 350054014383 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 350054014384 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 350054014385 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 350054014386 S-adenosylmethionine binding site [chemical binding]; other site 350054014387 O-Methyltransferase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3315 350054014388 Leucine carboxyl methyltransferase; Region: LCM; pfam04072 350054014389 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 350054014390 This family is most closely related to the GT1 family of glycosyltransferases. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can...; Region: GT1_like_2; cd03814 350054014391 Thioredoxin; Region: Thioredoxin_4; cl17273 350054014392 Protein of unknown function (DUF3592); Region: DUF3592; pfam12158 350054014393 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1- carboxylate synthase; Validated; Region: PRK07449 350054014394 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 350054014395 dimer interface [polypeptide binding]; other site 350054014396 tetramer interface [polypeptide binding]; other site 350054014397 PYR/PP interface [polypeptide binding]; other site 350054014398 TPP binding site [chemical binding]; other site 350054014399 Thiamine pyrophosphate (TPP) family, SHCHC synthase subfamily, TPP-binding module; composed of proteins similar to Escherichia coli 2-succinyl-6-hydroxyl-2,4-cyclohexadiene-1-carboxylic acid (SHCHC) synthase (also called MenD). SHCHC synthase plays a key...; Region: TPP_SHCHC_synthase; cd02009 350054014400 TPP-binding site; other site 350054014401 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 350054014402 TAP-like protein; Region: Abhydrolase_4; pfam08386 350054014403 Domain of unknown function (DUF4095); Region: DUF4095; pfam13338 350054014404 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 350054014405 putative active site [active] 350054014406 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 350054014407 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_2; cd03139 350054014408 conserved cys residue [active] 350054014409 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 350054014410 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 350054014411 conserved cys residue [active] 350054014412 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 350054014413 O-succinylbenzoate synthase; Provisional; Region: PRK02901 350054014414 Enolase-superfamily, characterized by the presence of an enolate anion intermediate which is generated by abstraction of the alpha-proton of the carboxylate substrate by an active site residue and is stabilized by coordination to the essential Mg2+ ion; Region: enolase_like; cl17188 350054014415 metal binding site [ion binding]; metal-binding site 350054014416 substrate binding pocket [chemical binding]; other site 350054014417 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 350054014418 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 350054014419 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 350054014420 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 350054014421 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 350054014422 acyl-activating enzyme (AAE) consensus motif; other site 350054014423 acyl-activating enzyme (AAE) consensus motif; other site 350054014424 putative AMP binding site [chemical binding]; other site 350054014425 putative active site [active] 350054014426 putative CoA binding site [chemical binding]; other site 350054014427 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350054014428 Uncharacterized protein conserved in bacteria (DUF2236); Region: DUF2236; pfam09995 350054014429 Domain of unknown function (DUF4192); Region: DUF4192; pfam13830 350054014430 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 350054014431 S-adenosylmethionine binding site [chemical binding]; other site 350054014432 DNA methylase [Transcription / DNA replication, recombination, and repair]; Region: COG4646 350054014433 DEAD-like helicases superfamily; Region: DEXDc; smart00487 350054014434 DEAD-like helicases superfamily. A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region; Region: DEXDc; cl17251 350054014435 ATP binding site [chemical binding]; other site 350054014436 DNA methylase [Transcription / DNA replication, recombination, and repair]; Region: COG4646 350054014437 helicase superfamily c-terminal domain; Region: HELICc; smart00490 350054014438 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 350054014439 Mg2+ binding site [ion binding]; other site 350054014440 G-X-G motif; other site 350054014441 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 350054014442 Integrase core domain; Region: rve_3; pfam13683 350054014443 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 350054014444 Protein of unknown function (DUF2384); Region: DUF2384; cl17718 350054014445 Signal peptidase (SPase) II; Region: Peptidase_A8; cl00458 350054014446 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 350054014447 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 350054014448 IgD-like repeat domain of mycobacterial L,D-transpeptidases; Region: LDT_IgD_like_1; cd13431 350054014449 IgD-like repeat domain of mycobacterial L,D-transpeptidases; Region: LDT_IgD_like_2; cd13432 350054014450 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 350054014451 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 350054014452 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 350054014453 NlpC/P60 family; Region: NLPC_P60; pfam00877 350054014454 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 350054014455 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 350054014456 DNA binding site [nucleotide binding] 350054014457 Peptidase family M48; Region: Peptidase_M48; cl12018 350054014458 Penicillinase repressor; Region: Pencillinase_R; cl17580 350054014459 Protein of unknown function (DUF1090); Region: DUF1090; pfam06476 350054014460 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 350054014461 NlpC/P60 family; Region: NLPC_P60; pfam00877 350054014462 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 350054014463 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 350054014464 active site 350054014465 phosphorylation site [posttranslational modification] 350054014466 intermolecular recognition site; other site 350054014467 IgD-like repeat domain of mycobacterial L,D-transpeptidases; Region: LDT_IgD_like; cl17506 350054014468 Putative protein-S-isoprenylcysteine methyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: STE14; COG2020 350054014469 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 350054014470 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 350054014471 Walker A/P-loop; other site 350054014472 ATP binding site [chemical binding]; other site 350054014473 Q-loop/lid; other site 350054014474 ABC transporter signature motif; other site 350054014475 Walker B; other site 350054014476 D-loop; other site 350054014477 H-loop/switch region; other site 350054014478 Transcriptional regulators CsoR (copper-sensitive operon repressor), RcnR, and FrmR, and related domains; this domain superfamily was previously known as DUF156; Region: CsoR-like_DUF156; cd10148 350054014479 putative homodimer interface [polypeptide binding]; other site 350054014480 putative homotetramer interface [polypeptide binding]; other site 350054014481 putative allosteric switch controlling residues; other site 350054014482 putative metal binding site [ion binding]; other site 350054014483 putative homodimer-homodimer interface [polypeptide binding]; other site 350054014484 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 350054014485 metal-binding site [ion binding] 350054014486 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 350054014487 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 350054014488 metal-binding site [ion binding] 350054014489 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 350054014490 Soluble P-type ATPase [General function prediction only]; Region: COG4087 350054014491 Predicted membrane protein [Function unknown]; Region: COG3462 350054014492 Short C-terminal domain; Region: SHOCT; pfam09851 350054014493 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 350054014494 Multicopper oxidase; Region: Cu-oxidase; pfam00394 350054014495 Putative multicopper oxidases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: SufI; COG2132 350054014496 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 350054014497 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 350054014498 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 350054014499 active site 350054014500 phosphorylation site [posttranslational modification] 350054014501 intermolecular recognition site; other site 350054014502 dimerization interface [polypeptide binding]; other site 350054014503 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 350054014504 DNA binding site [nucleotide binding] 350054014505 HAMP domain; Region: HAMP; pfam00672 350054014506 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 350054014507 dimer interface [polypeptide binding]; other site 350054014508 phosphorylation site [posttranslational modification] 350054014509 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 350054014510 ATP binding site [chemical binding]; other site 350054014511 Mg2+ binding site [ion binding]; other site 350054014512 G-X-G motif; other site 350054014513 Domain of unknown function (DUF305); Region: DUF305; pfam03713 350054014514 Domain of unknown function DUF302; Region: DUF302; pfam03625 350054014515 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 350054014516 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 350054014517 metal-binding site [ion binding] 350054014518 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 350054014519 Soluble P-type ATPase [General function prediction only]; Region: COG4087 350054014520 putative transposase OrfB; Reviewed; Region: PHA02517 350054014521 HTH-like domain; Region: HTH_21; pfam13276 350054014522 Integrase core domain; Region: rve; pfam00665 350054014523 Integrase core domain; Region: rve_3; pfam13683 350054014524 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 350054014525 Transposase; Region: HTH_Tnp_1; pfam01527 350054014526 Protein of unknown function (DUF3703); Region: DUF3703; pfam12487 350054014527 heavy metal-(Cd/Co/Hg/Pb/Zn)-translocating P-type ATPase; Region: ATPase-IB2_Cd; TIGR01512 350054014528 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 350054014529 Soluble P-type ATPase [General function prediction only]; Region: COG4087 350054014530 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 350054014531 dimerization interface [polypeptide binding]; other site 350054014532 putative DNA binding site [nucleotide binding]; other site 350054014533 putative Zn2+ binding site [ion binding]; other site 350054014534 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 350054014535 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 350054014536 Helix-turn-helix domain; Region: HTH_18; pfam12833 350054014537 Putative protein-S-isoprenylcysteine methyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: STE14; COG2020 350054014538 cyclase homology domain; Region: CHD; cd07302 350054014539 nucleotidyl binding site; other site 350054014540 metal binding site [ion binding]; metal-binding site 350054014541 dimer interface [polypeptide binding]; other site 350054014542 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 350054014543 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 350054014544 NlpC/P60 family; Region: NLPC_P60; pfam00877 350054014545 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 350054014546 Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: DsbG; COG1651 350054014547 Thioredoxin; Region: Thioredoxin_4; pfam13462 350054014548 Domain of unknown function (DUF305); Region: DUF305; pfam03713 350054014549 Copper resistance protein D; Region: CopD; pfam05425 350054014550 Cytochrome c oxidase caa3 assembly factor (Caa3_CtaG); Region: Caa3_CtaG; pfam09678 350054014551 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 350054014552 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 350054014553 IgD-like repeat domain of mycobacterial L,D-transpeptidases; Region: LDT_IgD_like_1; cd13431 350054014554 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 350054014555 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 350054014556 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; cl17220 350054014557 dimerization interface [polypeptide binding]; other site 350054014558 Predicted membrane protein [Function unknown]; Region: COG3462 350054014559 Short C-terminal domain; Region: SHOCT; pfam09851 350054014560 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 350054014561 cyclase homology domain; Region: CHD; cd07302 350054014562 nucleotidyl binding site; other site 350054014563 metal binding site [ion binding]; metal-binding site 350054014564 dimer interface [polypeptide binding]; other site 350054014565 heavy metal translocating P-type ATPase; Region: ATPase-IB_hvy; TIGR01525 350054014566 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 350054014567 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 350054014568 cytochrome c-type biogenesis protein CcsB; Region: cytochr_II_ccsB; TIGR03144 350054014569 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 350054014570 Ubiquinol oxidase subunit I. Ubiquinol oxidase, the terminal oxidase in the respiratory chains of aerobic bacteria, is a multi-chain transmembrane protein located in the cell membrane. It catalyzes the reduction of O2 and simultaneously pumps protons...; Region: Ubiquinol_Oxidase_I; cd01662 350054014571 D-pathway; other site 350054014572 Putative ubiquinol binding site [chemical binding]; other site 350054014573 Low-spin heme (heme b) binding site [chemical binding]; other site 350054014574 Putative water exit pathway; other site 350054014575 Binuclear center (heme o3/CuB) [ion binding]; other site 350054014576 K-pathway; other site 350054014577 Putative proton exit pathway; other site 350054014578 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 350054014579 Peptidase family M23; Region: Peptidase_M23; pfam01551 350054014580 Penicillinase repressor; Region: Pencillinase_R; pfam03965 350054014581 Zn-dependent protease with chaperone function [Posttranslational modification, protein turnover, chaperones]; Region: HtpX; COG0501 350054014582 Domain of unknown function (DUF305); Region: DUF305; pfam03713 350054014583 Cytochrome c oxidase caa3 assembly factor (Caa3_CtaG); Region: Caa3_CtaG; pfam09678 350054014584 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 350054014585 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 350054014586 catalytic residues [active] 350054014587 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 350054014588 Subunit I/III interface [polypeptide binding]; other site 350054014589 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 350054014590 NlpC/P60 family; Region: NLPC_P60; pfam00877 350054014591 CopC domain; Region: CopC; pfam04234 350054014592 Membrane-bound lytic murein transglycosylase B [Cell envelope biogenesis, outer membrane]; Region: MltB; COG2951 350054014593 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 350054014594 N-acetyl-D-glucosamine binding site [chemical binding]; other site 350054014595 Probable cobalt transporter subunit (CbtA); Region: CbtA; cl02266 350054014596 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 350054014597 IgD-like repeat domain of mycobacterial L,D-transpeptidases; Region: LDT_IgD_like_2; cd13432 350054014598 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 350054014599 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 350054014600 Transposase, Mutator family; Region: Transposase_mut; pfam00872 350054014601 MULE transposase domain; Region: MULE; pfam10551 350054014602 Low molecular weight phosphatase family; Region: LMWPc; cl00105 350054014603 Transposase, Mutator family; Region: Transposase_mut; pfam00872 350054014604 MULE transposase domain; Region: MULE; pfam10551 350054014605 HTH-like domain; Region: HTH_21; pfam13276 350054014606 Integrase core domain; Region: rve; pfam00665 350054014607 Integrase core domain; Region: rve_3; pfam13683 350054014608 Transposase; Region: HTH_Tnp_1; pfam01527 350054014609 Putative protein-S-isoprenylcysteine methyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: STE14; COG2020 350054014610 Copper resistance protein D; Region: CopD; pfam05425 350054014611 Cytochrome c oxidase caa3 assembly factor (Caa3_CtaG); Region: Caa3_CtaG; pfam09678 350054014612 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 350054014613 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 350054014614 IgD-like repeat domain of mycobacterial L,D-transpeptidases; Region: LDT_IgD_like_1; cd13431 350054014615 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 350054014616 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 350054014617 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 350054014618 dimerization interface [polypeptide binding]; other site 350054014619 putative DNA binding site [nucleotide binding]; other site 350054014620 putative Zn2+ binding site [ion binding]; other site 350054014621 heavy metal-(Cd/Co/Hg/Pb/Zn)-translocating P-type ATPase; Region: ATPase-IB2_Cd; TIGR01512 350054014622 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 350054014623 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 350054014624 motif II; other site 350054014625 Predicted membrane protein [Function unknown]; Region: COG3462 350054014626 Short C-terminal domain; Region: SHOCT; pfam09851 350054014627 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 350054014628 cyclase homology domain; Region: CHD; cd07302 350054014629 nucleotidyl binding site; other site 350054014630 metal binding site [ion binding]; metal-binding site 350054014631 dimer interface [polypeptide binding]; other site 350054014632 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 350054014633 heavy metal translocating P-type ATPase; Region: ATPase-IB_hvy; TIGR01525 350054014634 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 350054014635 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 350054014636 Ubiquinol oxidase subunit I. Ubiquinol oxidase, the terminal oxidase in the respiratory chains of aerobic bacteria, is a multi-chain transmembrane protein located in the cell membrane. It catalyzes the reduction of O2 and simultaneously pumps protons...; Region: Ubiquinol_Oxidase_I; cd01662 350054014637 D-pathway; other site 350054014638 Putative ubiquinol binding site [chemical binding]; other site 350054014639 Low-spin heme (heme b) binding site [chemical binding]; other site 350054014640 Putative water exit pathway; other site 350054014641 Binuclear center (heme o3/CuB) [ion binding]; other site 350054014642 K-pathway; other site 350054014643 Putative proton exit pathway; other site 350054014644 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 350054014645 Peptidase family M23; Region: Peptidase_M23; pfam01551 350054014646 Penicillinase repressor; Region: Pencillinase_R; pfam03965 350054014647 Zn-dependent protease with chaperone function [Posttranslational modification, protein turnover, chaperones]; Region: HtpX; COG0501 350054014648 Cytochrome c oxidase caa3 assembly factor (Caa3_CtaG); Region: Caa3_CtaG; pfam09678 350054014649 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 350054014650 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 350054014651 catalytic residues [active] 350054014652 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 350054014653 Subunit I/III interface [polypeptide binding]; other site 350054014654 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 350054014655 NlpC/P60 family; Region: NLPC_P60; pfam00877 350054014656 CopC domain; Region: CopC; pfam04234 350054014657 Transposase, Mutator family; Region: Transposase_mut; pfam00872 350054014658 MULE transposase domain; Region: MULE; pfam10551 350054014659 proteobacterial dedicated sortase system histidine kinase; Region: marine_sort_HK; TIGR03785 350054014660 Domain of unknown function DUF302; Region: DUF302; cl01364 350054014661 heavy metal-(Cd/Co/Hg/Pb/Zn)-translocating P-type ATPase; Region: ATPase-IB2_Cd; TIGR01512 350054014662 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 350054014663 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 350054014664 motif II; other site 350054014665 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 350054014666 dimerization interface [polypeptide binding]; other site 350054014667 putative DNA binding site [nucleotide binding]; other site 350054014668 putative Zn2+ binding site [ion binding]; other site 350054014669 Predicted membrane protein [Function unknown]; Region: COG3462 350054014670 Short C-terminal domain; Region: SHOCT; pfam09851 350054014671 Uncharacterized copper-binding protein [Inorganic ion transport and metabolism]; Region: COG4454 350054014672 Domain of unknown function (DUF955); Region: DUF955; cl01076 350054014673 Phage integrase, N-terminal SAM-like domain; Region: Phage_integr_N; cl12235 350054014674 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 350054014675 active site 350054014676 DNA binding site [nucleotide binding] 350054014677 Int/Topo IB signature motif; other site 350054014678 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 350054014679 active site 350054014680 Int/Topo IB signature motif; other site 350054014681 DNA binding site [nucleotide binding] 350054014682 CAAX protease self-immunity; Region: Abi; pfam02517 350054014683 Membrane-bound lytic murein transglycosylase B [Cell envelope biogenesis, outer membrane]; Region: MltB; COG2951 350054014684 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 350054014685 N-acetyl-D-glucosamine binding site [chemical binding]; other site 350054014686 Probable cobalt transporter subunit (CbtA); Region: CbtA; cl02266 350054014687 Thioredoxin; Region: Thioredoxin_4; pfam13462 350054014688 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 350054014689 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 350054014690 IgD-like repeat domain of mycobacterial L,D-transpeptidases; Region: LDT_IgD_like_2; cd13432 350054014691 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 350054014692 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 350054014693 RES domain; Region: RES; cl02411 350054014694 Protein of unknown function (DUF2384); Region: DUF2384; pfam09722 350054014695 TniQ; Region: TniQ; pfam06527 350054014696 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 350054014697 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 350054014698 non-specific DNA binding site [nucleotide binding]; other site 350054014699 salt bridge; other site 350054014700 sequence-specific DNA binding site [nucleotide binding]; other site 350054014701 TniQ; Region: TniQ; pfam06527 350054014702 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cl17189 350054014703 AAA domain; Region: AAA_22; pfam13401 350054014704 Helix-turn-helix domain; Region: HTH_28; pfam13518 350054014705 Winged helix-turn helix; Region: HTH_29; pfam13551 350054014706 Integrase core domain; Region: rve; pfam00665 350054014707 Integrase core domain; Region: rve_3; cl15866 350054014708 DEAD-like helicases superfamily; Region: DEXDc; smart00487 350054014709 AAA domain; Region: AAA_30; pfam13604 350054014710 Superfamily I DNA and RNA helicases and helicase subunits [DNA replication, recombination, and repair]; Region: COG1112 350054014711 AAA domain; Region: AAA_12; pfam13087 350054014712 Putative metallopeptidase domain; Region: DUF2201_N; pfam13203 350054014713 VWA-like domain (DUF2201); Region: DUF2201; pfam09967 350054014714 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 350054014715 Walker A motif; other site 350054014716 ATP binding site [chemical binding]; other site 350054014717 Walker B motif; other site 350054014718 arginine finger; other site 350054014719 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 350054014720 Active Sites [active] 350054014721 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 350054014722 DNA binding site [nucleotide binding] 350054014723 Protein of unknown function (DUF664); Region: DUF664; pfam04978 350054014724 DinB superfamily; Region: DinB_2; pfam12867 350054014725 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 350054014726 active site 350054014727 catalytic motif [active] 350054014728 Zn binding site [ion binding]; other site 350054014729 Transposase; Region: HTH_Tnp_1; pfam01527 350054014730 putative transposase OrfB; Reviewed; Region: PHA02517 350054014731 HTH-like domain; Region: HTH_21; pfam13276 350054014732 Integrase core domain; Region: rve; pfam00665 350054014733 Integrase core domain; Region: rve_3; pfam13683 350054014734 proline iminopeptidase, Neisseria-type subfamily; Region: pro_imino_pep_1; TIGR01249 350054014735 Bleomycin binding protein (BLMA) and similar proteins; BLMA confers bleomycin (Bm) resistance by directly binding to Bm; Region: BLMA_like; cd08349 350054014736 dimer interface [polypeptide binding]; other site 350054014737 ligand binding site [chemical binding]; other site 350054014738 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 350054014739 Transposase; Region: HTH_Tnp_1; cl17663 350054014740 putative transposase OrfB; Reviewed; Region: PHA02517 350054014741 HTH-like domain; Region: HTH_21; pfam13276 350054014742 Integrase core domain; Region: rve; pfam00665 350054014743 Integrase core domain; Region: rve_3; pfam13683 350054014744 Helix-turn-helix domain; Region: HTH_28; pfam13518 350054014745 Winged helix-turn helix; Region: HTH_29; pfam13551 350054014746 Homeodomain-like domain; Region: HTH_32; pfam13565 350054014747 Integrase core domain; Region: rve; pfam00665 350054014748 Integrase core domain; Region: rve_3; pfam13683 350054014749 Mu transposase, C-terminal; Region: Mu-transpos_C; pfam09299 350054014750 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 350054014751 AAA domain; Region: AAA_22; pfam13401 350054014752 ATP-binding site [chemical binding]; other site 350054014753 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 350054014754 trimer interface [polypeptide binding]; other site 350054014755 active site 350054014756 substrate binding site [chemical binding]; other site 350054014757 CoA binding site [chemical binding]; other site 350054014758 Protein of unknown function (DUF2637); Region: DUF2637; pfam10935 350054014759 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 350054014760 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 350054014761 non-specific DNA binding site [nucleotide binding]; other site 350054014762 salt bridge; other site 350054014763 sequence-specific DNA binding site [nucleotide binding]; other site 350054014764 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 350054014765 salt bridge; other site 350054014766 non-specific DNA binding site [nucleotide binding]; other site 350054014767 sequence-specific DNA binding site [nucleotide binding]; other site 350054014768 Lsr2; Region: Lsr2; pfam11774 350054014769 type VII secretion protein EccE; Region: T7SS_EccE; TIGR03923 350054014770 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 350054014771 type VII secretion-associated serine protease mycosin; Region: T7SS_mycosin; TIGR03921 350054014772 active site 350054014773 catalytic residues [active] 350054014774 WXG100 protein secretion system (Wss), protein YukD; Region: YukD; pfam08817 350054014775 WXG100 protein secretion system (Wss), protein YukD; Region: YukD; cl17489 350054014776 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 350054014777 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 350054014778 P-loop; other site 350054014779 Magnesium ion binding site [ion binding]; other site 350054014780 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 350054014781 Proteins of 100 residues with WXG; Region: WXG100; cl02005 350054014782 PPE-repeat proteins [Cell motility and secretion]; Region: COG5651 350054014783 PPE family; Region: PPE; pfam00823 350054014784 PE family; Region: PE; pfam00934 350054014785 type VII secretion protein EccCa; Region: T7SS_EccC_a; TIGR03924 350054014786 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 350054014787 type VII secretion protein EccCb; Region: T7SS_EccC_b; TIGR03925 350054014788 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 350054014789 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 350054014790 type VII secretion protein EccB, Actinobacterial; Region: T7SS_EccB; TIGR03919 350054014791 type VII secretion AAA-ATPase EccA; Region: T7SS_EccA; TIGR03922 350054014792 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 350054014793 Walker A motif; other site 350054014794 ATP binding site [chemical binding]; other site 350054014795 Walker B motif; other site 350054014796 arginine finger; other site 350054014797 YbaB/EbfC DNA-binding family; Region: YbaB_DNA_bd; cl00494 350054014798 Protein of unknown function (DUF2580); Region: DUF2580; pfam10824 350054014799 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 350054014800 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 350054014801 salt bridge; other site 350054014802 non-specific DNA binding site [nucleotide binding]; other site 350054014803 sequence-specific DNA binding site [nucleotide binding]; other site 350054014804 Domain of unknown function (DUF4095); Region: DUF4095; pfam13338 350054014805 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; pfam08843 350054014806 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 350054014807 Zn2+ binding site [ion binding]; other site 350054014808 Mg2+ binding site [ion binding]; other site 350054014809 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 350054014810 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 350054014811 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 350054014812 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 350054014813 Probable transposase; Region: OrfB_IS605; pfam01385 350054014814 Transposase IS200 like; Region: Y1_Tnp; pfam01797 350054014815 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 350054014816 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 350054014817 Transposase IS200 like; Region: Y1_Tnp; pfam01797 350054014818 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 350054014819 non-specific DNA binding site [nucleotide binding]; other site 350054014820 salt bridge; other site 350054014821 sequence-specific DNA binding site [nucleotide binding]; other site 350054014822 Domain of unknown function (DUF1942); Region: DUF1942; pfam09167 350054014823 Probable transposase; Region: OrfB_IS605; pfam01385 350054014824 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 350054014825 Putative transposase DNA-binding domain; Region: OrfB_Zn_ribbon; pfam07282 350054014826 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 350054014827 non-specific DNA binding site [nucleotide binding]; other site 350054014828 salt bridge; other site 350054014829 sequence-specific DNA binding site [nucleotide binding]; other site 350054014830 RES domain; Region: RES; pfam08808 350054014831 Domain of unknown function (DUF4095); Region: DUF4095; pfam13338 350054014832 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; pfam08843 350054014833 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 350054014834 Sulfatase; Region: Sulfatase; pfam00884 350054014835 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 350054014836 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 350054014837 Transposase; Region: HTH_Tnp_1; pfam01527 350054014838 putative transposase OrfB; Reviewed; Region: PHA02517 350054014839 HTH-like domain; Region: HTH_21; pfam13276 350054014840 Integrase core domain; Region: rve; pfam00665 350054014841 Integrase core domain; Region: rve_3; pfam13683 350054014842 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 350054014843 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 350054014844 metal binding site [ion binding]; metal-binding site 350054014845 active site 350054014846 I-site; other site 350054014847 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 350054014848 putative catalytic site [active] 350054014849 putative metal binding site [ion binding]; other site 350054014850 putative phosphate binding site [ion binding]; other site 350054014851 Fic family protein [Function unknown]; Region: COG3177 350054014852 Fic/DOC family; Region: Fic; pfam02661 350054014853 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 350054014854 Predicted helicase [General function prediction only]; Region: COG4889 350054014855 AAA ATPase domain; Region: AAA_16; pfam13191 350054014856 Type II restriction enzyme, methylase subunits [Defense mechanisms]; Region: COG1002 350054014857 Transposase domain (DUF772); Region: DUF772; pfam05598 350054014858 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 350054014859 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 350054014860 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 350054014861 PLD-like domain; Region: PLDc_2; pfam13091 350054014862 N-terminal putative catalytic domain of uncharacterized HKD family nucleases fused to putative helicases from the Snf2-like family; Region: PLDc_N_Snf2_like; cd09178 350054014863 putative homodimer interface [polypeptide binding]; other site 350054014864 putative active site [active] 350054014865 catalytic site [active] 350054014866 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 350054014867 ATP binding site [chemical binding]; other site 350054014868 putative Mg++ binding site [ion binding]; other site 350054014869 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 350054014870 nucleotide binding region [chemical binding]; other site 350054014871 ATP-binding site [chemical binding]; other site 350054014872 Domain of unknown function (DUF955); Region: DUF955; pfam06114 350054014873 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 350054014874 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 350054014875 non-specific DNA binding site [nucleotide binding]; other site 350054014876 salt bridge; other site 350054014877 sequence-specific DNA binding site [nucleotide binding]; other site 350054014878 nucleoid occlusion protein; Region: nucleoid_noc; TIGR04285 350054014879 ParB-like nuclease domain; Region: ParBc; cl02129 350054014880 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 350054014881 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 350054014882 Magnesium ion binding site [ion binding]; other site 350054014883 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 350054014884 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 350054014885 P-loop; other site 350054014886 Magnesium ion binding site [ion binding]; other site 350054014887 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 350054014888 Magnesium ion binding site [ion binding]; other site 350054014889 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 350054014890 NlpC/P60 family; Region: NLPC_P60; pfam00877 350054014891 NlpC/P60 family; Region: NLPC_P60; cl17555 350054014892 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 350054014893 EspG family; Region: ESX-1_EspG; pfam14011 350054014894 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 350054014895 NlpC/P60 family; Region: NLPC_P60; pfam00877 350054014896 AAA-like domain; Region: AAA_10; pfam12846 350054014897 Conjugative transposon protein TcpC; Region: TpcC; pfam12642 350054014898 Protein of unknown function (DUF2580); Region: DUF2580; pfam10824 350054014899 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 350054014900 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 350054014901 non-specific DNA binding site [nucleotide binding]; other site 350054014902 salt bridge; other site 350054014903 sequence-specific DNA binding site [nucleotide binding]; other site 350054014904 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 350054014905 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 350054014906 non-specific DNA binding site [nucleotide binding]; other site 350054014907 salt bridge; other site 350054014908 sequence-specific DNA binding site [nucleotide binding]; other site 350054014909 Transcription factor WhiB; Region: Whib; pfam02467 350054014910 Transcription factor WhiB; Region: Whib; pfam02467 350054014911 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dam; COG0338 350054014912 replicative DNA helicase; Provisional; Region: PRK05636 350054014913 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 350054014914 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 350054014915 Walker A motif; other site 350054014916 ATP binding site [chemical binding]; other site 350054014917 Walker B motif; other site 350054014918 DNA binding loops [nucleotide binding] 350054014919 Protein of unknown function (DUF1524); Region: DUF1524; pfam07510 350054014920 Protein of unknown function (DUF2580); Region: DUF2580; pfam10824 350054014921 Thermus thermophilus TTHA0053 and related proteins, metallophosphatase domain; Region: MPP_TTHA0053; cd07403 350054014922 putative active site [active] 350054014923 putative metal binding site [ion binding]; other site 350054014924 RelA- and SpoT-like ppGpp Synthetases and Hydrolases, catalytic domain; Region: Rel-Spo_like; cl11966 350054014925 metal binding triad [ion binding]; metal-binding site 350054014926 Antitoxin of toxin-antitoxin stability system [Cell division and chromosome partitioning]; Region: Phd; COG4118 350054014927 PIN domain of ribonucleases (toxins), VapC and FitB, of prokaryotic toxin/antitoxin operons, Pyrococcus horikoshii protein PH0500, and other similar bacterial and archaeal homologs; Region: PIN_VapC-FitB; cd09881 350054014928 oligomeric interface; other site 350054014929 putative active site [active] 350054014930 homodimer interface [polypeptide binding]; other site 350054014931 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 350054014932 Transposase; Region: HTH_Tnp_1; pfam01527 350054014933 TrwC relaxase; Region: TrwC; pfam08751 350054014934 conjugative relaxase domain, TrwC/TraI family; Region: relax_trwC; TIGR02686 350054014935 AAA domain; Region: AAA_30; pfam13604 350054014936 Family description; Region: UvrD_C_2; pfam13538 350054014937 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 350054014938 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 350054014939 metal binding site [ion binding]; metal-binding site 350054014940 active site 350054014941 I-site; other site 350054014942 MMPL family; Region: MMPL; pfam03176 350054014943 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 350054014944 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350054014945 Protein of unknown function (DUF2910); Region: DUF2910; pfam11139 350054014946 Clp amino terminal domain; Region: Clp_N; pfam02861 350054014947 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 350054014948 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 350054014949 catalytic residues [active] 350054014950 catalytic nucleophile [active] 350054014951 Presynaptic Site I dimer interface [polypeptide binding]; other site 350054014952 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 350054014953 Synaptic Flat tetramer interface [polypeptide binding]; other site 350054014954 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 350054014955 DNA-binding interface [nucleotide binding]; DNA binding site 350054014956 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 350054014957 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 350054014958 non-specific DNA binding site [nucleotide binding]; other site 350054014959 salt bridge; other site 350054014960 sequence-specific DNA binding site [nucleotide binding]; other site 350054014961 Domain of unknown function (DUF955); Region: DUF955; cl01076 350054014962 Abi-like protein; Region: Abi_2; pfam07751 350054014963 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 350054014964 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 350054014965 P-loop; other site 350054014966 Magnesium ion binding site [ion binding]; other site 350054014967 LabA_like proteins; Region: LabA_like; cd06167 350054014968 putative metal binding site [ion binding]; other site 350054014969 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 350054014970 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 350054014971 P-loop; other site 350054014972 Magnesium ion binding site [ion binding]; other site 350054014973 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 350054014974 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 350054014975 catalytic residues [active] 350054014976 catalytic nucleophile [active] 350054014977 Presynaptic Site I dimer interface [polypeptide binding]; other site 350054014978 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 350054014979 Synaptic Flat tetramer interface [polypeptide binding]; other site 350054014980 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 350054014981 DNA-binding interface [nucleotide binding]; DNA binding site 350054014982 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 350054014983 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350054014984 WHG domain; Region: WHG; pfam13305 350054014985 Domain of unknown function (DUF4188); Region: DUF4188; pfam13826 350054014986 Predicted transcriptional regulators [Transcription]; Region: COG1695 350054014987 Transcriptional regulator PadR-like family; Region: PadR; cl17335 350054014988 Mycothiol maleylpyruvate isomerase N-terminal domain; Region: MDMPI_N; pfam11716 350054014989 Domain of unknown function (DUF385); Region: DUF385; cl04387 350054014990 TrwC relaxase; Region: TrwC; pfam08751 350054014991 conjugative relaxase domain, TrwC/TraI family; Region: relax_trwC; TIGR02686 350054014992 AAA domain; Region: AAA_30; pfam13604 350054014993 Family description; Region: UvrD_C_2; pfam13538