-- dump date 20140619_155451 -- class Genbank::misc_feature -- table misc_feature_note -- id note 350058000001 chromosomal replication initiator protein DnaA; Region: DnaA; TIGR00362 350058000002 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 350058000003 Walker A motif; other site 350058000004 ATP binding site [chemical binding]; other site 350058000005 Walker B motif; other site 350058000006 arginine finger; other site 350058000007 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 350058000008 DnaA box-binding interface [nucleotide binding]; other site 350058000009 DNA polymerase III subunit beta; Validated; Region: PRK07761 350058000010 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 350058000011 putative DNA binding surface [nucleotide binding]; other site 350058000012 dimer interface [polypeptide binding]; other site 350058000013 beta-clamp/clamp loader binding surface; other site 350058000014 beta-clamp/translesion DNA polymerase binding surface; other site 350058000015 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 350058000016 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK12490 350058000017 recombination protein F; Reviewed; Region: recF; PRK00064 350058000018 ATP-binding cassette domain of RecF; Region: ABC_RecF; cd03242 350058000019 Walker A/P-loop; other site 350058000020 ATP binding site [chemical binding]; other site 350058000021 Q-loop/lid; other site 350058000022 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 350058000023 ABC transporter signature motif; other site 350058000024 Walker B; other site 350058000025 D-loop; other site 350058000026 H-loop/switch region; other site 350058000027 hypothetical protein; Provisional; Region: PRK03195 350058000028 DNA gyrase subunit B; Validated; Region: gyrB; PRK05644 350058000029 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 350058000030 Mg2+ binding site [ion binding]; other site 350058000031 G-X-G motif; other site 350058000032 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 350058000033 anchoring element; other site 350058000034 dimer interface [polypeptide binding]; other site 350058000035 ATP binding site [chemical binding]; other site 350058000036 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 350058000037 active site 350058000038 putative metal-binding site [ion binding]; other site 350058000039 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 350058000040 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 350058000041 CAP-like domain; other site 350058000042 active site 350058000043 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 350058000044 protein-splicing catalytic site; other site 350058000045 thioester formation/cholesterol transfer; other site 350058000046 Intein/homing endonuclease [DNA replication, recombination, and repair]; Region: COG1372 350058000047 Hint (Hedgehog/Intein) domain C-terminal region; Region: HintC; smart00305 350058000048 DNA gyrase subunit A; Validated; Region: PRK05560 350058000049 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 350058000050 primary dimer interface [polypeptide binding]; other site 350058000051 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 350058000052 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 350058000053 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 350058000054 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 350058000055 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 350058000056 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 350058000057 Transmembrane domain of unknown function (DUF3566); Region: DUF3566; pfam12089 350058000058 Protein of unknown function (DUF1271); Region: DUF1271; cl01443 350058000059 4Fe-4S single cluster domain; Region: Fer4_15; pfam13459 350058000060 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 350058000061 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 350058000062 active site 350058000063 phosphorylation site [posttranslational modification] 350058000064 intermolecular recognition site; other site 350058000065 dimerization interface [polypeptide binding]; other site 350058000066 helix_turn_helix, Lux Regulon; Region: HTH_LUXR; smart00421 350058000067 DNA binding residues [nucleotide binding] 350058000068 dimerization interface [polypeptide binding]; other site 350058000069 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 350058000070 dimer interface [polypeptide binding]; other site 350058000071 His Kinase A (phospho-acceptor) domain; Region: HisKA; pfam00512 350058000072 phosphorylation site [posttranslational modification] 350058000073 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 350058000074 ATP binding site [chemical binding]; other site 350058000075 Mg2+ binding site [ion binding]; other site 350058000076 G-X-G motif; other site 350058000077 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 350058000078 Cytochrome P450; Region: p450; cl12078 350058000079 oxidoreductase, Rxyl_3153 family; Region: Rxyl_3153; TIGR03989 350058000080 Class III alcohol dehydrogenase; Region: Zn_ADH_class_III; cd08279 350058000081 NAD binding site [chemical binding]; other site 350058000082 catalytic Zn binding site [ion binding]; other site 350058000083 substrate binding site [chemical binding]; other site 350058000084 structural Zn binding site [ion binding]; other site 350058000085 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 350058000086 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 350058000087 NAD(P) binding site [chemical binding]; other site 350058000088 catalytic residues [active] 350058000089 acyl-CoA synthetase; Provisional; Region: PRK13390 350058000090 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 350058000091 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 350058000092 acyl-activating enzyme (AAE) consensus motif; other site 350058000093 putative AMP binding site [chemical binding]; other site 350058000094 putative active site [active] 350058000095 acyl-activating enzyme (AAE) consensus motif; other site 350058000096 putative CoA binding site [chemical binding]; other site 350058000097 CoA binding site [chemical binding]; other site 350058000098 Protein of unknown function (DUF2562); Region: DUF2562; pfam10814 350058000099 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 350058000100 active site 350058000101 Protein of unknown function (DUF2581); Region: DUF2581; pfam10756 350058000102 putative septation inhibitor protein; Reviewed; Region: PRK00159 350058000103 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3879 350058000104 Bacterial protein of unknown function (DUF881); Region: DUF881; pfam05949 350058000105 PE-PPE domain; Region: PE-PPE; pfam08237 350058000106 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 350058000107 Glutamine amidotransferase class-I; Region: GATase; pfam00117 350058000108 glutamine binding [chemical binding]; other site 350058000109 catalytic triad [active] 350058000110 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 350058000111 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 350058000112 active site 350058000113 ATP binding site [chemical binding]; other site 350058000114 substrate binding site [chemical binding]; other site 350058000115 activation loop (A-loop); other site 350058000116 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2815 350058000117 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 350058000118 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 350058000119 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 350058000120 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 350058000121 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 350058000122 Catalytic domain of Protein Kinases; Region: PKc; cd00180 350058000123 active site 350058000124 ATP binding site [chemical binding]; other site 350058000125 substrate binding site [chemical binding]; other site 350058000126 activation loop (A-loop); other site 350058000127 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 350058000128 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 350058000129 Bacterial cell division membrane protein [Cell division and chromosome partitioning]; Region: FtsW; COG0772 350058000130 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 350058000131 active site 350058000132 FOG: FHA domain [Signal transduction mechanisms]; Region: COG1716 350058000133 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 350058000134 phosphopeptide binding site; other site 350058000135 Protein of unknown function (DUF2662); Region: DUF3662; pfam12401 350058000136 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 350058000137 FOG: FHA domain [Signal transduction mechanisms]; Region: COG1716 350058000138 phosphopeptide binding site; other site 350058000139 HsdM N-terminal domain; Region: HsdM_N; pfam12161 350058000140 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 350058000141 Methyltransferase domain; Region: Methyltransf_26; pfam13659 350058000142 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 350058000143 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 350058000144 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 350058000145 Protein of unknown function (DUF1016); Region: DUF1016; pfam06250 350058000146 Predicted nuclease of restriction endonuclease-like fold [General function prediction only]; Region: COG4804 350058000147 Predicted nuclease of restriction endonuclease-like fold [General function prediction only]; Region: COG4804 350058000148 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 350058000149 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 350058000150 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 350058000151 ATP binding site [chemical binding]; other site 350058000152 putative Mg++ binding site [ion binding]; other site 350058000153 Domain of unknown function (DUF3387); Region: DUF3387; pfam11867 350058000154 GIY-YIG domain of uncharacterized hypothetical protein found in bacteria; Region: GIY-YIG_unchar_1; cd10446 350058000155 GIY-YIG motif/motif A; other site 350058000156 putative active site [active] 350058000157 putative metal binding site [ion binding]; other site 350058000158 Domain of unknown function (DUF222); Region: DUF222; pfam02720 350058000159 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 350058000160 active site 350058000161 PE-PPE domain; Region: PE-PPE; pfam08237 350058000162 Purine catabolism regulatory protein-like family; Region: PucR; pfam07905 350058000163 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 350058000164 permease, urea carboxylase system; Region: ureacarb_perm; TIGR03428 350058000165 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 350058000166 classical (c) SDRs; Region: SDR_c; cd05233 350058000167 NAD(P) binding site [chemical binding]; other site 350058000168 active site 350058000169 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK12825 350058000170 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 350058000171 NAD(P) binding site [chemical binding]; other site 350058000172 active site 350058000173 Agmatinase-like family includes proclavaminic acid amidinohydrolase; Region: Agmatinase_PAH; cd11592 350058000174 oligomer interface [polypeptide binding]; other site 350058000175 putative active site [active] 350058000176 Mn binding site [ion binding]; other site 350058000177 Catalytic domain of Helicobacter pylori peptidoglycan deacetylase (HpPgdA) and similar proteins; Region: CE4_HpPgdA_like; cd10938 350058000178 tetramer interface [polypeptide binding]; other site 350058000179 active site 350058000180 Alpha/beta hydrolase; Region: Abhydrolase_8; pfam06259 350058000181 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 350058000182 MgtE intracellular N domain; Region: MgtE_N; pfam03448 350058000183 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 350058000184 Divalent cation transporter; Region: MgtE; pfam01769 350058000185 phosphonatase-like hydrolase; Region: PhnX-like; TIGR03351 350058000186 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 350058000187 motif II; other site 350058000188 FAD dependent oxidoreductase TIGR03364; Region: HpnW_proposed 350058000189 hydroxyglutarate oxidase; Provisional; Region: PRK11728 350058000190 Predicted HD phosphohydrolase [General function prediction only]; Region: COG4341; cl17564 350058000191 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 350058000192 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 350058000193 DNA-binding site [nucleotide binding]; DNA binding site 350058000194 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 350058000195 uncharacterized Actinobacterial protein TIGR03083; Region: TIGR03083 350058000196 Mycothiol maleylpyruvate isomerase N-terminal domain; Region: MDMPI_N; pfam11716 350058000197 Protein of unknown function (DUF3072); Region: DUF3072; pfam11272 350058000198 PPOX class probable F420-dependent enzyme; Region: Rv1155_F420; TIGR03618 350058000199 Thioesterase-like superfamily; Region: 4HBT_3; pfam13622 350058000200 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 350058000201 active site 2 [active] 350058000202 Predicted acetyltransferase [General function prediction only]; Region: COG2388 350058000203 Pirin-related protein [General function prediction only]; Region: COG1741 350058000204 Pirin; Region: Pirin; pfam02678 350058000205 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 350058000206 hypothetical protein; Provisional; Region: PRK02268 350058000207 DivIVA domain; Region: DivI1A_domain; TIGR03544 350058000208 DivIVA domain; Region: DivI1A_domain; TIGR03544 350058000209 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 350058000210 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 350058000211 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 350058000212 Transcription factor WhiB; Region: Whib; pfam02467 350058000213 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 350058000214 EspG family; Region: ESX-1_EspG; pfam14011 350058000215 type VII secretion AAA-ATPase EccA; Region: T7SS_EccA; TIGR03922 350058000216 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 350058000217 Walker A motif; other site 350058000218 ATP binding site [chemical binding]; other site 350058000219 Walker B motif; other site 350058000220 arginine finger; other site 350058000221 type VII secretion protein EccB, Actinobacterial; Region: T7SS_EccB; TIGR03919 350058000222 type VII secretion protein EccCa; Region: T7SS_EccC_a; TIGR03924 350058000223 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 350058000224 type VII secretion protein EccCb; Region: T7SS_EccC_b; TIGR03925 350058000225 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 350058000226 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 350058000227 PPE-repeat proteins [Cell motility and secretion]; Region: COG5651 350058000228 PPE family; Region: PPE; pfam00823 350058000229 WXG100 family type VII secretion target; Region: WXG100_ESAT6; TIGR03930 350058000230 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 350058000231 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 350058000232 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 350058000233 P-loop; other site 350058000234 Magnesium ion binding site [ion binding]; other site 350058000235 type VII secretion integral membrane protein EccD; Region: T7SS_EccD; TIGR03920 350058000236 WXG100 protein secretion system (Wss), protein YukD; Region: YukD; cl17489 350058000237 Protein of unknown function (DUF2580); Region: DUF2580; pfam10824 350058000238 YbaB/EbfC DNA-binding family; Region: YbaB_DNA_bd; pfam02575 350058000239 Protein of unknown function (DUF2580); Region: DUF2580; pfam10824 350058000240 type VII secretion protein EccE; Region: T7SS_EccE; TIGR03923 350058000241 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 350058000242 type VII secretion-associated serine protease mycosin; Region: T7SS_mycosin; TIGR03921 350058000243 active site 350058000244 catalytic residues [active] 350058000245 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 350058000246 dimerization domain swap beta strand [polypeptide binding]; other site 350058000247 regulatory protein interface [polypeptide binding]; other site 350058000248 active site 350058000249 regulatory phosphorylation site [posttranslational modification]; other site 350058000250 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 350058000251 PTS system 2-O-a-mannosyl-D-glycerate specific transporter subunit IIABC; Provisional; Region: PRK09765 350058000252 active site 350058000253 phosphorylation site [posttranslational modification] 350058000254 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 350058000255 active site 350058000256 P-loop; other site 350058000257 phosphorylation site [posttranslational modification] 350058000258 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; COG1299 350058000259 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 350058000260 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 350058000261 putative substrate binding site [chemical binding]; other site 350058000262 putative ATP binding site [chemical binding]; other site 350058000263 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 350058000264 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; cl17531 350058000265 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 350058000266 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 350058000267 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 350058000268 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 350058000269 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 350058000270 Pirin-related protein [General function prediction only]; Region: COG1741 350058000271 Pirin; Region: Pirin; pfam02678 350058000272 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 350058000273 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 350058000274 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350058000275 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 350058000276 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 350058000277 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350058000278 O-Methyltransferase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3315 350058000279 methyltransferase, TIGR00027 family; Region: mthyl_TIGR00027 350058000280 aldehyde dehydrogenase family protein; Provisional; Region: PTZ00381 350058000281 ALDH subfamily: Coniferyl aldehyde dehydrogenase, ALDH families 3, 13, and 14, and other related proteins; Region: ALDH_F3-13-14_CALDH-like; cd07087 350058000282 NAD(P) binding site [chemical binding]; other site 350058000283 catalytic residues [active] 350058000284 short chain dehydrogenase; Provisional; Region: PRK07791 350058000285 (3R)-hydroxyacyl-CoA dehydrogenase-like, classical(c)-like SDRs; Region: hydroxyacyl-CoA-like_DH_SDR_c-like; cd05353 350058000286 NAD binding site [chemical binding]; other site 350058000287 homodimer interface [polypeptide binding]; other site 350058000288 active site 350058000289 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 350058000290 Quinone oxidoreductase (QOR); Region: QOR1; cd08241 350058000291 NAD(P) binding site [chemical binding]; other site 350058000292 2-haloalkanoic acid dehalogenase, type II; Region: HAD_type_II; TIGR01428 350058000293 Haloacid dehalogenase superfamily, subfamily IA, variant 2 with 3rd motif like haloacid dehalogenase; Region: HAD-SF-IA-v2; TIGR01493 350058000294 Methyltransferase domain; Region: Methyltransf_31; pfam13847 350058000295 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 350058000296 S-adenosylmethionine binding site [chemical binding]; other site 350058000297 Domain of unknown function (DUF1989); Region: DUF1989; pfam09347 350058000298 Protein of unknown function (DUF456); Region: DUF456; pfam04306 350058000299 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 350058000300 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 350058000301 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 350058000302 TipAS antibiotic-recognition domain; Region: TipAS; pfam07739 350058000303 Tyrosine phosphatase family; Region: Y_phosphatase3; pfam13350 350058000304 Tyrosine phosphatase family C-terminal region; Region: Y_phosphatase3C; pfam13348 350058000305 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 350058000306 Acyl-CoA dehydrogenases similar to fadE2; Region: ACAD_FadE2; cd01155 350058000307 FAD binding site [chemical binding]; other site 350058000308 substrate binding site [chemical binding]; other site 350058000309 catalytic base [active] 350058000310 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 350058000311 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 350058000312 YhfW family, C-terminal Rieske domain; YhfW is a protein of unknown function with an N-terminal DadA-like (glycine/D-amino acid dehydrogenase) domain and a C-terminal Rieske domain. The Rieske domain is a [2Fe-2S] cluster binding domain involved in...; Region: Rieske_YhfW_C; cd03477 350058000313 [2Fe-2S] cluster binding site [ion binding]; other site 350058000314 Helix-turn-helix domain; Region: HTH_18; pfam12833 350058000315 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 350058000316 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; cl00566 350058000317 NAD(P) transhydrogenase subunit alpha; Provisional; Region: pntA; PRK09424 350058000318 Rubrum transdehydrogenase NAD-binding and catalytic domains; Region: Rubrum_tdh; cd05304 350058000319 ligand binding site [chemical binding]; other site 350058000320 homodimer interface [polypeptide binding]; other site 350058000321 NAD(P) binding site [chemical binding]; other site 350058000322 trimer interface B [polypeptide binding]; other site 350058000323 trimer interface A [polypeptide binding]; other site 350058000324 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 350058000325 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 350058000326 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 350058000327 dimer interface [polypeptide binding]; other site 350058000328 conserved gate region; other site 350058000329 putative PBP binding loops; other site 350058000330 ABC-ATPase subunit interface; other site 350058000331 taurine ABC transporter, periplasmic binding protein; Region: taurine_ABC_bnd; TIGR01729 350058000332 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 350058000333 substrate binding pocket [chemical binding]; other site 350058000334 membrane-bound complex binding site; other site 350058000335 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 350058000336 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 350058000337 Walker A/P-loop; other site 350058000338 ATP binding site [chemical binding]; other site 350058000339 Q-loop/lid; other site 350058000340 ABC transporter signature motif; other site 350058000341 Walker B; other site 350058000342 D-loop; other site 350058000343 H-loop/switch region; other site 350058000344 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 350058000345 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350058000346 Protein of unknown function DUF72; Region: DUF72; pfam01904 350058000347 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 350058000348 Mechanosensitive ion channel; Region: MS_channel; pfam00924 350058000349 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_2; cd07819 350058000350 putative hydrophobic ligand binding site [chemical binding]; other site 350058000351 Transcriptional regulators [Transcription]; Region: GntR; COG1802 350058000352 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 350058000353 DNA-binding site [nucleotide binding]; DNA binding site 350058000354 FCD domain; Region: FCD; pfam07729 350058000355 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07786 350058000356 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 350058000357 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 350058000358 acyl-activating enzyme (AAE) consensus motif; other site 350058000359 acyl-activating enzyme (AAE) consensus motif; other site 350058000360 putative AMP binding site [chemical binding]; other site 350058000361 putative active site [active] 350058000362 putative CoA binding site [chemical binding]; other site 350058000363 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 350058000364 Permease; Region: Permease; pfam02405 350058000365 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 350058000366 Permease; Region: Permease; pfam02405 350058000367 virulence factor Mce family protein; Region: Mtu_fam_mce; TIGR00996 350058000368 mce related protein; Region: MCE; pfam02470 350058000369 Protein of unknown function (DUF3407); Region: DUF3407; pfam11887 350058000370 virulence factor Mce family protein; Region: Mtu_fam_mce; TIGR00996 350058000371 mce related protein; Region: MCE; pfam02470 350058000372 virulence factor Mce family protein; Region: Mtu_fam_mce; TIGR00996 350058000373 mce related protein; Region: MCE; pfam02470 350058000374 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 350058000375 mce related protein; Region: MCE; pfam02470 350058000376 virulence factor Mce family protein; Region: Mtu_fam_mce; TIGR00996 350058000377 mce related protein; Region: MCE; pfam02470 350058000378 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 350058000379 mce related protein; Region: MCE; pfam02470 350058000380 RDD family; Region: RDD; pfam06271 350058000381 Predicted periplasmic protein (DUF2233); Region: DUF2233; pfam09992 350058000382 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_10; cd08865 350058000383 putative hydrophobic ligand binding site [chemical binding]; other site 350058000384 Glucose/sorbosone dehydrogenases [Carbohydrate transport and metabolism]; Region: COG2133 350058000385 Pirin-related protein [General function prediction only]; Region: COG1741 350058000386 Pirin; Region: Pirin; pfam02678 350058000387 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 350058000388 Transcriptional regulators [Transcription]; Region: MarR; COG1846 350058000389 MarR family; Region: MarR_2; cl17246 350058000390 RNA polymerase factor sigma-70; Validated; Region: PRK08241 350058000391 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 350058000392 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 350058000393 DNA binding residues [nucleotide binding] 350058000394 SnoaL-like domain; Region: SnoaL_2; pfam12680 350058000395 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 350058000396 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 350058000397 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 350058000398 Protein of unknown function (DUF2786); Region: DUF2786; pfam10979 350058000399 putative metallohydrolase, TIGR04338 family; Region: HEXXH_Rv0185 350058000400 Predicted O-methyltransferase [General function prediction only]; Region: COG4122 350058000401 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 350058000402 S-adenosylmethionine binding site [chemical binding]; other site 350058000403 Transcriptional regulator [Transcription]; Region: IclR; COG1414 350058000404 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 350058000405 Bacterial transcriptional regulator; Region: IclR; pfam01614 350058000406 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 350058000407 FAD binding domain; Region: FAD_binding_4; pfam01565 350058000408 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 350058000409 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 350058000410 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 350058000411 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 350058000412 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 350058000413 AsnC family; Region: AsnC_trans_reg; pfam01037 350058000414 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 350058000415 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 350058000416 Na binding site [ion binding]; other site 350058000417 Agmatinase-like family includes proclavaminic acid amidinohydrolase; Region: Agmatinase_PAH; cd11592 350058000418 agmatinase; Region: agmatinase; TIGR01230 350058000419 oligomer interface [polypeptide binding]; other site 350058000420 putative active site [active] 350058000421 Mn binding site [ion binding]; other site 350058000422 RNA polymerase sigma factor SigZ; Provisional; Region: PRK09637 350058000423 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 350058000424 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 350058000425 DNA binding residues [nucleotide binding] 350058000426 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 350058000427 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 350058000428 putative metal binding site [ion binding]; other site 350058000429 Rifampin ADP-ribosyl transferase; Region: Arr-ms; pfam12120 350058000430 Uncharacterized protein conserved in bacteria (DUF2236); Region: DUF2236; pfam09995 350058000431 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 350058000432 dimer interface [polypeptide binding]; other site 350058000433 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 350058000434 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 350058000435 NAD(P) binding site [chemical binding]; other site 350058000436 active site 350058000437 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350058000438 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 350058000439 dihydroxy-acid dehydratase; Provisional; Region: PRK00911 350058000440 6-phosphogluconate dehydratase; Region: edd; TIGR01196 350058000441 Domain of unknown function (DUF305); Region: DUF305; pfam03713 350058000442 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 350058000443 putative homotetramer interface [polypeptide binding]; other site 350058000444 putative homodimer interface [polypeptide binding]; other site 350058000445 putative allosteric switch controlling residues; other site 350058000446 putative metal binding site [ion binding]; other site 350058000447 putative homodimer-homodimer interface [polypeptide binding]; other site 350058000448 Domain of unknown function DUF77; Region: DUF77; pfam01910 350058000449 IgD-like repeat domain of mycobacterial L,D-transpeptidases; Region: LDT_IgD_like_2; cd13432 350058000450 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 350058000451 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 350058000452 Domain of unknown function (DUF4129); Region: DUF4129; pfam13559 350058000453 MoxR-like ATPases [General function prediction only]; Region: COG0714 350058000454 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 350058000455 Walker A motif; other site 350058000456 ATP binding site [chemical binding]; other site 350058000457 Walker B motif; other site 350058000458 arginine finger; other site 350058000459 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 350058000460 Protein of unknown function DUF58; Region: DUF58; pfam01882 350058000461 Predicted metalloendopeptidase [Posttranslational modification, protein turnover, chaperones]; Region: PepO; COG3590 350058000462 Peptidase family M13 includes neprilysin, endothelin-converting enzyme I; Region: M13; cd08662 350058000463 active site 350058000464 Zn binding site [ion binding]; other site 350058000465 Predicted drug exporters of the RND superfamily [General function prediction only]; Region: COG2409 350058000466 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 350058000467 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 350058000468 active site 350058000469 phosphorylation site [posttranslational modification] 350058000470 intermolecular recognition site; other site 350058000471 dimerization interface [polypeptide binding]; other site 350058000472 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 350058000473 DNA binding site [nucleotide binding] 350058000474 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 350058000475 HAMP domain; Region: HAMP; pfam00672 350058000476 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 350058000477 phosphorylation site [posttranslational modification] 350058000478 dimer interface [polypeptide binding]; other site 350058000479 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 350058000480 Mg2+ binding site [ion binding]; other site 350058000481 G-X-G motif; other site 350058000482 Protein of unknown function (DUF3054); Region: DUF3054; pfam11255 350058000483 Predicted integral membrane protein [Function unknown]; Region: COG0392 350058000484 Domain of unknown function DUF20; Region: UPF0118; pfam01594 350058000485 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 350058000486 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 350058000487 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 350058000488 LabA_like proteins; Region: LabA_like; cd06167 350058000489 putative metal binding site [ion binding]; other site 350058000490 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 350058000491 S-adenosylmethionine binding site [chemical binding]; other site 350058000492 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 350058000493 active site 350058000494 substrate-binding site [chemical binding]; other site 350058000495 metal-binding site [ion binding] 350058000496 GTP binding site [chemical binding]; other site 350058000497 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 350058000498 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350058000499 Lignostilbene-alpha,beta-dioxygenase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3670 350058000500 Retinal pigment epithelial membrane protein; Region: RPE65; pfam03055 350058000501 hydroxyglutarate oxidase; Provisional; Region: PRK11728 350058000502 Predicted dehydrogenase [General function prediction only]; Region: COG0579 350058000503 probable F420-dependent oxidoreductase, MSMEG_2516 family; Region: F420_MSMEG_2516; TIGR03621 350058000504 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 350058000505 Protein of unknown function (DUF4038); Region: DUF4038; pfam13204 350058000506 Putative collagen-binding domain of a collagenase; Region: Collagen_bind_2; pfam12904 350058000507 glycosyl hydrolase family 16; Region: Glyco_hydrolase_16; cd00413 350058000508 active site 350058000509 catalytic residues [active] 350058000510 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 350058000511 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 350058000512 Glycosyl transferase family 2; Region: Glycos_transf_2; pfam00535 350058000513 active site 350058000514 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 350058000515 Glycosyl transferase family 2; Region: Glycos_transf_2; pfam00535 350058000516 active site 350058000517 Putative zinc binding domain; Region: Methyltransf_13; pfam08421 350058000518 C-methyltransferase C-terminal domain; Region: Methyltransf_14; pfam08484 350058000519 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: dTDP_sugar_isom; cl17405 350058000520 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 350058000521 extended (e) SDRs; Region: SDR_e; cd08946 350058000522 NAD(P) binding site [chemical binding]; other site 350058000523 active site 350058000524 substrate binding site [chemical binding]; other site 350058000525 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 350058000526 G1P_cytidylyltransferase catalyzes the production of CDP-D-Glucose; Region: G1P_cytidylyltransferase; cd02524 350058000527 substrate binding site; other site 350058000528 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 350058000529 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 350058000530 Ligand binding site; other site 350058000531 Putative Catalytic site; other site 350058000532 DXD motif; other site 350058000533 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 350058000534 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK08276 350058000535 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 350058000536 acyl-activating enzyme (AAE) consensus motif; other site 350058000537 acyl-activating enzyme (AAE) consensus motif; other site 350058000538 putative AMP binding site [chemical binding]; other site 350058000539 putative active site [active] 350058000540 putative CoA binding site [chemical binding]; other site 350058000541 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 350058000542 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 350058000543 substrate binding site [chemical binding]; other site 350058000544 oxyanion hole (OAH) forming residues; other site 350058000545 trimer interface [polypeptide binding]; other site 350058000546 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 350058000547 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 350058000548 DNA-binding site [nucleotide binding]; DNA binding site 350058000549 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 350058000550 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 350058000551 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 350058000552 active site 350058000553 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 350058000554 active site 2 [active] 350058000555 active site 1 [active] 350058000556 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 350058000557 active site 2 [active] 350058000558 active site 1 [active] 350058000559 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 350058000560 CoA-transferase family III; Region: CoA_transf_3; pfam02515 350058000561 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 350058000562 active site 350058000563 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 350058000564 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 350058000565 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 350058000566 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 350058000567 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 350058000568 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 350058000569 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 350058000570 active site 350058000571 Esterase/lipase [Lipid metabolism]; Region: Aes; COG0657 350058000572 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 350058000573 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 350058000574 acyltransferase, WS/DGAT/MGAT; Region: acyl_WS_DGAT; TIGR02946 350058000575 Wax ester synthase-like Acyl-CoA acyltransferase domain; Region: WES_acyltransf; pfam03007 350058000576 Protein of unknown function (DUF1298); Region: DUF1298; pfam06974 350058000577 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 350058000578 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350058000579 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 350058000580 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 350058000581 acyl-CoA synthetase; Provisional; Region: PRK13382 350058000582 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 350058000583 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 350058000584 acyl-activating enzyme (AAE) consensus motif; other site 350058000585 acyl-activating enzyme (AAE) consensus motif; other site 350058000586 putative AMP binding site [chemical binding]; other site 350058000587 putative active site [active] 350058000588 putative CoA binding site [chemical binding]; other site 350058000589 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 350058000590 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: MGAT-like; Region: LPLAT_MGAT-like; cd07987 350058000591 putative acyl-acceptor binding pocket; other site 350058000592 short chain dehydrogenase; Validated; Region: PRK08264 350058000593 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 350058000594 NAD(P) binding site [chemical binding]; other site 350058000595 active site 350058000596 Arylamine N-acetyltransferase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: NhoA; COG2162 350058000597 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 350058000598 DinB superfamily; Region: DinB_2; pfam12867 350058000599 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 350058000600 RibD C-terminal domain; Region: RibD_C; cl17279 350058000601 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 350058000602 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 350058000603 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 350058000604 active site 350058000605 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 350058000606 Ketosteroid isomerase homolog [Function unknown]; Region: COG4319 350058000607 SnoaL-like domain; Region: SnoaL_3; pfam13474 350058000608 Mycobacterium tuberculosis aldehyde dehydrogenase AldA-like; Region: ALDH_AldA-Rv0768; cd07139 350058000609 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 350058000610 NAD binding site [chemical binding]; other site 350058000611 catalytic residues [active] 350058000612 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 350058000613 S-adenosylmethionine binding site [chemical binding]; other site 350058000614 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 350058000615 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 350058000616 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 350058000617 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 350058000618 DNA binding residues [nucleotide binding] 350058000619 dimerization interface [polypeptide binding]; other site 350058000620 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 350058000621 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 350058000622 DNA binding residues [nucleotide binding] 350058000623 dimerization interface [polypeptide binding]; other site 350058000624 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 350058000625 Cytochrome P450; Region: p450; cl12078 350058000626 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 350058000627 Cytochrome P450; Region: p450; cl12078 350058000628 Uncharacterized protein conserved in bacteria (DUF2236); Region: DUF2236; cl01472 350058000629 Protein of unknown function (DUF3068); Region: DUF3068; pfam11271 350058000630 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 350058000631 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 350058000632 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK08276 350058000633 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 350058000634 putative AMP binding site [chemical binding]; other site 350058000635 putative active site [active] 350058000636 acyl-activating enzyme (AAE) consensus motif; other site 350058000637 putative CoA binding site [chemical binding]; other site 350058000638 Domain of unknown function (DUF3367); Region: DUF3367; pfam11847 350058000639 F5/8 type C domain; Region: F5_F8_type_C; pfam00754 350058000640 Protein of unknown function (DUF2613); Region: DUF2613; pfam11021 350058000641 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 350058000642 Ligand Binding Site [chemical binding]; other site 350058000643 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 350058000644 Ligand Binding Site [chemical binding]; other site 350058000645 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 350058000646 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 350058000647 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 350058000648 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350058000649 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 350058000650 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 350058000651 active site 2 [active] 350058000652 active site 1 [active] 350058000653 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK08261 350058000654 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 350058000655 active site 350058000656 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 350058000657 NAD(P) binding site [chemical binding]; other site 350058000658 active site 350058000659 acetyl-CoA acetyltransferase; Provisional; Region: PRK09268 350058000660 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 350058000661 dimer interface [polypeptide binding]; other site 350058000662 active site 350058000663 F420-dependent oxidoreductase, MSMEG_4879 family; Region: F420_MSMEG_4879; TIGR03564 350058000664 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 350058000665 Putative sensor; Region: Sensor; pfam13796 350058000666 Histidine kinase; Region: HisKA_3; pfam07730 350058000667 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 350058000668 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 350058000669 active site 350058000670 phosphorylation site [posttranslational modification] 350058000671 intermolecular recognition site; other site 350058000672 dimerization interface [polypeptide binding]; other site 350058000673 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 350058000674 DNA binding residues [nucleotide binding] 350058000675 dimerization interface [polypeptide binding]; other site 350058000676 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 350058000677 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 350058000678 Putative acyl-CoA dehydrogenases similar to fadE5; Region: ACAD_fadE5; cd01153 350058000679 FAD binding site [chemical binding]; other site 350058000680 substrate binding site [chemical binding]; other site 350058000681 catalytic residues [active] 350058000682 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 350058000683 Uncharacterized conserved protein related to dihydrodipicolinate reductase [Function unknown]; Region: COG3804 350058000684 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 350058000685 short chain dehydrogenase; Provisional; Region: PRK08267 350058000686 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 350058000687 NAD(P) binding site [chemical binding]; other site 350058000688 active site 350058000689 TspO/MBR family; Region: TspO_MBR; pfam03073 350058000690 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 350058000691 Beta-ketoacyl synthase; Region: PKS_KS; smart00825 350058000692 active site 350058000693 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 350058000694 Acyl transferase domain in polyketide synthase (PKS) enzymes; Region: PKS_AT; smart00827 350058000695 ketoreductase (KR), subgroup 1, complex (x) SDRs; Region: KR_1_SDR_x; cd08952 350058000696 KR domain; Region: KR; pfam08659 350058000697 NADP binding site [chemical binding]; other site 350058000698 active site 350058000699 Phosphopantetheine attachment site; Region: PKS_PP; smart00823 350058000700 Polyketide synthase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3321 350058000701 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 350058000702 active site 350058000703 Acyl transferase domain in polyketide synthase (PKS) enzymes; Region: PKS_AT; smart00827 350058000704 Dehydratase domain in polyketide synthase (PKS) enzymes; Region: PKS_DH; smart00826 350058000705 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 350058000706 enoyl reductase of polyketide synthase; Region: enoyl_red; cd05195 350058000707 Enoylreductase; Region: PKS_ER; smart00829 350058000708 NAD(P) binding site [chemical binding]; other site 350058000709 beta-ketoacyl reductase (KR) domain of fatty acid synthase (FAS), subgroup 2, complex (x); Region: KR_2_FAS_SDR_x; cd08955 350058000710 This enzymatic domain is part of bacterial polyketide synthases; Region: PKS_KR; smart00822 350058000711 putative NADP binding site [chemical binding]; other site 350058000712 active site 350058000713 Phosphopantetheine attachment site; Region: PKS_PP; smart00823 350058000714 Condensation domain; Region: Condensation; pfam00668 350058000715 Transport protein; Region: actII; TIGR00833 350058000716 acyl-CoA synthetase; Validated; Region: PRK05850 350058000717 Fatty acyl-AMP ligase (FAAL); Region: FAAL; cd05931 350058000718 acyl-activating enzyme (AAE) consensus motif; other site 350058000719 active site 350058000720 Domain of unknown function (DUF222); Region: DUF222; pfam02720 350058000721 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 350058000722 active site 350058000723 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 350058000724 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 350058000725 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350058000726 PE-PPE domain; Region: PE-PPE; pfam08237 350058000727 Protein of unknown function (DUF2910); Region: DUF2910; pfam11139 350058000728 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 350058000729 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 350058000730 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 350058000731 active site 350058000732 fumarate reductase iron-sulfur subunit; Provisional; Region: PRK12386 350058000733 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 350058000734 catalytic loop [active] 350058000735 iron binding site [ion binding]; other site 350058000736 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK07803 350058000737 L-aspartate oxidase; Provisional; Region: PRK06175 350058000738 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 350058000739 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 350058000740 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 350058000741 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 350058000742 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 350058000743 tetramer interface [polypeptide binding]; other site 350058000744 active site 350058000745 Mg2+/Mn2+ binding site [ion binding]; other site 350058000746 Predicted acetamidase/formamidase [Energy production and conversion]; Region: COG2421 350058000747 YjgF, YER057c, and UK114 belong to a large family of proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no...; Region: YjgF_YER057c_UK114_family; cd00448 350058000748 homotrimer interaction site [polypeptide binding]; other site 350058000749 putative active site [active] 350058000750 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 350058000751 dimer interface [polypeptide binding]; other site 350058000752 conserved gate region; other site 350058000753 putative PBP binding loops; other site 350058000754 ABC-ATPase subunit interface; other site 350058000755 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 350058000756 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 350058000757 Walker A/P-loop; other site 350058000758 ATP binding site [chemical binding]; other site 350058000759 Q-loop/lid; other site 350058000760 ABC transporter signature motif; other site 350058000761 Walker B; other site 350058000762 D-loop; other site 350058000763 H-loop/switch region; other site 350058000764 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 350058000765 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 350058000766 substrate binding pocket [chemical binding]; other site 350058000767 membrane-bound complex binding site; other site 350058000768 hinge residues; other site 350058000769 Transcriptional regulators [Transcription]; Region: FadR; COG2186 350058000770 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 350058000771 DNA-binding site [nucleotide binding]; DNA binding site 350058000772 FCD domain; Region: FCD; pfam07729 350058000773 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 350058000774 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 350058000775 putative dimer interface [polypeptide binding]; other site 350058000776 nitrite reductase [NAD(P)H], large subunit; Region: nitri_red_nirB; TIGR02374 350058000777 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 350058000778 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 350058000779 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 350058000780 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 350058000781 Ferredoxin [Energy production and conversion]; Region: COG1146 350058000782 4Fe-4S binding domain; Region: Fer4; cl02805 350058000783 Sirohydrochlorin ferrochelatase [Inorganic ion transport and metabolism]; Region: COG2138 350058000784 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 350058000785 putative active site [active] 350058000786 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 350058000787 putative active site [active] 350058000788 bifunctional uroporphyrinogen-III synthetase/response regulator domain protein; Validated; Region: PRK07239 350058000789 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 350058000790 active site 350058000791 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 350058000792 DNA binding site [nucleotide binding] 350058000793 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 350058000794 Coenzyme A binding pocket [chemical binding]; other site 350058000795 Allophanate hydrolase subunit 2 [Amino acid transport and metabolism]; Region: DUR1; COG1984 350058000796 Allophanate hydrolase subunit 1; Region: AHS1; pfam02682 350058000797 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; COG2049 350058000798 basic leucine zipper DNA-binding and multimerization region of GCN4 and related proteins; Region: B_zip1; cl02576 350058000799 Integrase core domain; Region: rve; pfam00665 350058000800 Integrase core domain; Region: rve_3; pfam13683 350058000801 Uncharacterized member of the PurR regulon [General function prediction only]; Region: yhhQ; COG1738 350058000802 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 350058000803 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 350058000804 intersubunit interface [polypeptide binding]; other site 350058000805 Lysine efflux permease [General function prediction only]; Region: COG1279 350058000806 Predicted drug exporters of the RND superfamily [General function prediction only]; Region: COG2409 350058000807 X-X-X-Leu-X-X-Gly heptad repeats; Region: xxxLxxG_by_4; TIGR03057 350058000808 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 350058000809 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350058000810 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG3687 350058000811 Predicted metal-dependent hydrolase; Region: Metal_hydrol; pfam10118 350058000812 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 350058000813 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 350058000814 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 350058000815 CoenzymeA binding site [chemical binding]; other site 350058000816 subunit interaction site [polypeptide binding]; other site 350058000817 PHB binding site; other site 350058000818 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 350058000819 Cytochrome P450; Region: p450; cl12078 350058000820 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 350058000821 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350058000822 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 350058000823 Regulator of G protein signaling (RGS) domain superfamily; Region: RGS; cl02565 350058000824 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350058000825 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 350058000826 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 350058000827 CoenzymeA binding site [chemical binding]; other site 350058000828 subunit interaction site [polypeptide binding]; other site 350058000829 PHB binding site; other site 350058000830 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 350058000831 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350058000832 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 350058000833 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 350058000834 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 350058000835 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 350058000836 classical (c) SDRs; Region: SDR_c; cd05233 350058000837 NAD(P) binding site [chemical binding]; other site 350058000838 active site 350058000839 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 350058000840 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 350058000841 choline dehydrogenase; Validated; Region: PRK02106 350058000842 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 350058000843 Transcriptional regulator [Transcription]; Region: LysR; COG0583 350058000844 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 350058000845 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 350058000846 putative dimerization interface [polypeptide binding]; other site 350058000847 yybP-ykoY element as predicted by Rfam (RF00080), score 37.36; Mvan_R0004 350058000848 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 350058000849 putative Zn2+ binding site [ion binding]; other site 350058000850 putative DNA binding site [nucleotide binding]; other site 350058000851 yybP-ykoY element as predicted by Rfam (RF00080), score 50.71; Mvan_R0005 350058000852 integral membrane protein, TerC family; Region: R_switched_Alx; TIGR03718 350058000853 Protein of unknown function (DUF1469); Region: DUF1469; pfam07332 350058000854 Protein of unknown function (DUF3618); Region: DUF3618; pfam12277 350058000855 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 350058000856 hopanoid-associated sugar epimerase; Region: HpnA; TIGR03466 350058000857 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 350058000858 NAD(P) binding site [chemical binding]; other site 350058000859 active site 350058000860 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 350058000861 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 350058000862 enoyl-CoA hydratase; Provisional; Region: PRK06688 350058000863 substrate binding site [chemical binding]; other site 350058000864 oxyanion hole (OAH) forming residues; other site 350058000865 trimer interface [polypeptide binding]; other site 350058000866 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 350058000867 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 350058000868 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 350058000869 active site 350058000870 Protein of unknown function (DUF1446); Region: DUF1446; pfam07287 350058000871 TIGR03084 family protein; Region: TIGR03084 350058000872 Mycothiol maleylpyruvate isomerase N-terminal domain; Region: MDMPI_N; pfam11716 350058000873 enoyl-CoA hydratase; Provisional; Region: PRK08252 350058000874 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 350058000875 substrate binding site [chemical binding]; other site 350058000876 oxyanion hole (OAH) forming residues; other site 350058000877 trimer interface [polypeptide binding]; other site 350058000878 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 350058000879 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 350058000880 ATP-grasp domain; Region: ATP-grasp_4; cl17255 350058000881 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; pfam02785 350058000882 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 350058000883 carboxyltransferase (CT) interaction site; other site 350058000884 biotinylation site [posttranslational modification]; other site 350058000885 3-methylcrotonyl-CoA carboxylase, beta chain; Region: PLN02820 350058000886 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 350058000887 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 350058000888 FMN binding site [chemical binding]; other site 350058000889 substrate binding site [chemical binding]; other site 350058000890 putative catalytic residue [active] 350058000891 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 350058000892 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 350058000893 dimerization interface [polypeptide binding]; other site 350058000894 DNA binding residues [nucleotide binding] 350058000895 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 350058000896 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 350058000897 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 350058000898 DNA binding residues [nucleotide binding] 350058000899 dimerization interface [polypeptide binding]; other site 350058000900 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 350058000901 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 350058000902 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 350058000903 NAD(P) binding site [chemical binding]; other site 350058000904 catalytic residues [active] 350058000905 acyl-CoA synthetase; Validated; Region: PRK06188 350058000906 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 350058000907 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 350058000908 acyl-activating enzyme (AAE) consensus motif; other site 350058000909 putative AMP binding site [chemical binding]; other site 350058000910 putative active site [active] 350058000911 putative CoA binding site [chemical binding]; other site 350058000912 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 350058000913 conserved hypothetical protein, steroid delta-isomerase-related; Region: TIGR02096 350058000914 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 350058000915 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 350058000916 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 350058000917 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 350058000918 coenzyme F420-dependent oxidoreductase, NP1902A family; Region: F420_NP1902A; TIGR04024 350058000919 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 350058000920 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 350058000921 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350058000922 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 350058000923 Permease; Region: Permease; pfam02405 350058000924 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 350058000925 Permease; Region: Permease; pfam02405 350058000926 virulence factor Mce family protein; Region: Mtu_fam_mce; TIGR00996 350058000927 mce related protein; Region: MCE; pfam02470 350058000928 Protein of unknown function (DUF3407); Region: DUF3407; pfam11887 350058000929 virulence factor Mce family protein; Region: Mtu_fam_mce; TIGR00996 350058000930 mce related protein; Region: MCE; pfam02470 350058000931 virulence factor Mce family protein; Region: Mtu_fam_mce; TIGR00996 350058000932 mce related protein; Region: MCE; pfam02470 350058000933 virulence factor Mce family protein; Region: Mtu_fam_mce; TIGR00996 350058000934 mce related protein; Region: MCE; pfam02470 350058000935 virulence factor Mce family protein; Region: Mtu_fam_mce; TIGR00996 350058000936 mce related protein; Region: MCE; pfam02470 350058000937 Protein of unknown function (DUF3407); Region: DUF3407; pfam11887 350058000938 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 350058000939 mce related protein; Region: MCE; pfam02470 350058000940 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 350058000941 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350058000942 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 350058000943 Cutinase; Region: Cutinase; pfam01083 350058000944 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 350058000945 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350058000946 Cytochrome P450; Region: p450; cl12078 350058000947 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 350058000948 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 350058000949 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 350058000950 metal binding site [ion binding]; metal-binding site 350058000951 active site 350058000952 I-site; other site 350058000953 chromosome replication initiation inhibitor protein; Validated; Region: PRK03635 350058000954 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 350058000955 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 350058000956 dimerization interface [polypeptide binding]; other site 350058000957 Precorrin-6A synthase, the cobalamin biosynthesis enzyme CobF; Region: Precorrin-6A-synthase; cd11643 350058000958 active site 350058000959 SAM binding site [chemical binding]; other site 350058000960 homodimer interface [polypeptide binding]; other site 350058000961 cobyric acid synthase; Provisional; Region: PRK00784 350058000962 Dethiobiotin synthetase [Coenzyme metabolism]; Region: BioD; COG0132 350058000963 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 350058000964 catalytic triad [active] 350058000965 Precorrin-6x reductase CbiJ/CobK; Region: CbiJ; pfam02571 350058000966 Cobinamide kinase / cobinamide phosphate guanyltransferase; Region: CobU; pfam02283 350058000967 Glyoxalase-like domain; Region: Glyoxalase_2; pfam12681 350058000968 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 350058000969 putative FMN binding site [chemical binding]; other site 350058000970 Precorrin-4 C11-methyltransferase (CbiF/CobM); Region: Precorrin-4_C11-MT; cd11641 350058000971 active site 350058000972 SAM binding site [chemical binding]; other site 350058000973 homodimer interface [polypeptide binding]; other site 350058000974 Amidohydrolase; Region: Amidohydro_2; pfam04909 350058000975 mycofactocin system transcriptional regulator; Region: mycofact_TetR; TIGR03968 350058000976 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350058000977 Transcriptional regulators [Transcription]; Region: PurR; COG1609 350058000978 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 350058000979 DNA binding site [nucleotide binding] 350058000980 domain linker motif; other site 350058000981 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 350058000982 dimerization interface [polypeptide binding]; other site 350058000983 ligand binding site [chemical binding]; other site 350058000984 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 350058000985 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 350058000986 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 350058000987 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 350058000988 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 350058000989 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 350058000990 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 350058000991 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 350058000992 active site 350058000993 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 350058000994 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 350058000995 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 350058000996 active site 350058000997 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 350058000998 active site 350058000999 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 350058001000 anti sigma factor interaction site; other site 350058001001 regulatory phosphorylation site [posttranslational modification]; other site 350058001002 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 350058001003 nucleotide binding site [chemical binding]; other site 350058001004 acyl-CoA synthetase; Validated; Region: PRK07788 350058001005 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 350058001006 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 350058001007 active site 350058001008 CoA binding site [chemical binding]; other site 350058001009 AMP binding site [chemical binding]; other site 350058001010 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 350058001011 classical (c) SDRs; Region: SDR_c; cd05233 350058001012 NAD(P) binding site [chemical binding]; other site 350058001013 active site 350058001014 4Fe-4S single cluster domain; Region: Fer4_15; pfam13459 350058001015 phenylpropionate dioxygenase ferredoxin reductase subunit; Provisional; Region: PRK09754 350058001016 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 350058001017 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 350058001018 Cytochrome P450; Region: p450; cl12078 350058001019 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 350058001020 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 350058001021 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 350058001022 active site 350058001023 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 350058001024 Putative acyl-CoA dehydrogenases similar to fadE6, fadE17, and fadE26; Region: ACAD_fadE6_17_26; cd01152 350058001025 FAD binding site [chemical binding]; other site 350058001026 substrate binding site [chemical binding]; other site 350058001027 catalytic base [active] 350058001028 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 350058001029 Putative D-isomer specific 2-hydroxyacid dehydrogenases, NAD-binding and catalytic domains; Region: 2-Hacid_dh_11; cd12175 350058001030 putative ligand binding site [chemical binding]; other site 350058001031 putative NAD binding site [chemical binding]; other site 350058001032 catalytic site [active] 350058001033 poly(R)-hydroxyalkanoic acid synthase, class III, PhaC subunit; Region: PHA_synth_III_C; TIGR01836 350058001034 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 350058001035 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350058001036 Transposase; Region: DEDD_Tnp_IS110; pfam01548 350058001037 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 350058001038 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 350058001039 N-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_N_like; cd08346 350058001040 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 350058001041 Zn binding site [ion binding]; other site 350058001042 Uncharacterized protein conserved in bacteria (DUF2236); Region: DUF2236; cl01472 350058001043 type VII secretion AAA-ATPase EccA; Region: T7SS_EccA; TIGR03922 350058001044 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 350058001045 Walker A motif; other site 350058001046 ATP binding site [chemical binding]; other site 350058001047 Walker B motif; other site 350058001048 arginine finger; other site 350058001049 Protein of unknown function (DUF690); Region: DUF690; cl04939 350058001050 type VII secretion protein EccCa; Region: T7SS_EccC_a; TIGR03924 350058001051 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 350058001052 type VII secretion protein EccCb; Region: T7SS_EccC_b; TIGR03925 350058001053 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 350058001054 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 350058001055 PPE-repeat proteins [Cell motility and secretion]; Region: COG5651 350058001056 PPE family; Region: PPE; pfam00823 350058001057 PPE-repeat proteins [Cell motility and secretion]; Region: COG5651 350058001058 Transposase; Region: DEDD_Tnp_IS110; pfam01548 350058001059 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 350058001060 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 350058001061 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4842 350058001062 EspG family; Region: ESX-1_EspG; pfam14011 350058001063 WXG100 protein secretion system (Wss), protein YukD; Region: YukD; cl17489 350058001064 WXG100 protein secretion system (Wss), protein YukD; Region: YukD; cl17489 350058001065 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 350058001066 type VII secretion-associated serine protease mycosin; Region: T7SS_mycosin; TIGR03921 350058001067 active site 350058001068 catalytic residues [active] 350058001069 type VII secretion protein EccE; Region: T7SS_EccE; TIGR03923 350058001070 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 350058001071 Uncharacterized conserved protein (DUF2048); Region: DUF2048; pfam09752 350058001072 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 350058001073 active site 350058001074 Trans-aconitate methyltransferase [General function prediction only]; Region: Tam; COG4106 350058001075 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 350058001076 S-adenosylmethionine binding site [chemical binding]; other site 350058001077 Domain of unknown function (DUF222); Region: DUF222; pfam02720 350058001078 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 350058001079 active site 350058001080 Predicted nucleoside-diphosphate sugar epimerase [General function prediction only]; Region: COG1090 350058001081 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 350058001082 NAD(P) binding site [chemical binding]; other site 350058001083 active site 350058001084 PAP2_like_2 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which is specific to bacteria, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_2; cd03392 350058001085 active site 350058001086 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 350058001087 active site 350058001088 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 350058001089 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]; Region: LCB5; COG1597 350058001090 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 350058001091 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3786 350058001092 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 350058001093 SnoaL-like domain; Region: SnoaL_3; pfam13474 350058001094 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 350058001095 nucleotide binding site [chemical binding]; other site 350058001096 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 350058001097 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 350058001098 Walker A/P-loop; other site 350058001099 ATP binding site [chemical binding]; other site 350058001100 Q-loop/lid; other site 350058001101 ABC transporter signature motif; other site 350058001102 Walker B; other site 350058001103 D-loop; other site 350058001104 H-loop/switch region; other site 350058001105 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 350058001106 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 350058001107 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 350058001108 Walker A/P-loop; other site 350058001109 ATP binding site [chemical binding]; other site 350058001110 Q-loop/lid; other site 350058001111 ABC transporter signature motif; other site 350058001112 Walker B; other site 350058001113 D-loop; other site 350058001114 H-loop/switch region; other site 350058001115 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 350058001116 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 350058001117 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 350058001118 dimer interface [polypeptide binding]; other site 350058001119 conserved gate region; other site 350058001120 putative PBP binding loops; other site 350058001121 ABC-ATPase subunit interface; other site 350058001122 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 350058001123 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 350058001124 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 350058001125 dimer interface [polypeptide binding]; other site 350058001126 conserved gate region; other site 350058001127 putative PBP binding loops; other site 350058001128 ABC-ATPase subunit interface; other site 350058001129 The substrate-binding domain of an oligopeptide binding protein (OppA2) from the biosynthesis pathway of the beta-lactamase inhibitor clavulanic acid contains the type 2 periplasmic binding fold; Region: PBP2_clavulanate_OppA2; cd08506 350058001130 peptide binding site [polypeptide binding]; other site 350058001131 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 350058001132 A subgroup of L-lactate dehydrogenases; Region: LDH_2; cd05292 350058001133 L-lactate dehydrogenase; Region: L-LDH-NAD; TIGR01771 350058001134 NAD binding site [chemical binding]; other site 350058001135 dimer interface [polypeptide binding]; other site 350058001136 substrate binding site [chemical binding]; other site 350058001137 tetramer (dimer of dimers) interface [polypeptide binding]; other site 350058001138 gluconate 5-dehydrogenase; Provisional; Region: PRK06124 350058001139 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 350058001140 NAD(P) binding site [chemical binding]; other site 350058001141 active site 350058001142 hypothetical protein; Provisional; Region: PRK06185 350058001143 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 350058001144 bifunctional acetaldehyde-CoA/alcohol dehydrogenase; Provisional; Region: PRK13805 350058001145 Coenzyme A acylating aldehyde dehydrogenase (ACDH), ALDH family 20-like; Region: ALDH_F20_ACDH; cd07122 350058001146 putative catalytic cysteine [active] 350058001147 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 350058001148 active site 350058001149 NAD binding site [chemical binding]; other site 350058001150 metal binding site [ion binding]; metal-binding site 350058001151 acyltransferase, WS/DGAT/MGAT; Region: acyl_WS_DGAT; TIGR02946 350058001152 Wax ester synthase-like Acyl-CoA acyltransferase domain; Region: WES_acyltransf; pfam03007 350058001153 Protein of unknown function (DUF1298); Region: DUF1298; pfam06974 350058001154 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 350058001155 Lipocalin-like domain; Region: Lipocalin_2; pfam08212 350058001156 Laminarinase, member of the glycosyl hydrolase family 16; Region: GH16_laminarinase_like; cd08023 350058001157 active site 350058001158 catalytic residues [active] 350058001159 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 350058001160 nucleophilic elbow; other site 350058001161 catalytic triad; other site 350058001162 nitrobindin heme-binding domain; Region: nitrobindin; cd07828 350058001163 heme-binding site [chemical binding]; other site 350058001164 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 350058001165 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 350058001166 non-specific DNA binding site [nucleotide binding]; other site 350058001167 salt bridge; other site 350058001168 sequence-specific DNA binding site [nucleotide binding]; other site 350058001169 Cupin domain; Region: Cupin_2; pfam07883 350058001170 class II aldolase/adducin domain protein; Provisional; Region: PRK07090 350058001171 intersubunit interface [polypeptide binding]; other site 350058001172 active site 350058001173 Zn2+ binding site [ion binding]; other site 350058001174 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 350058001175 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 350058001176 inhibitor site; inhibition site 350058001177 active site 350058001178 dimer interface [polypeptide binding]; other site 350058001179 catalytic residue [active] 350058001180 Transposase; Region: HTH_Tnp_1; cl17663 350058001181 Transposase, Mutator family; Region: Transposase_mut; pfam00872 350058001182 MULE transposase domain; Region: MULE; pfam10551 350058001183 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 350058001184 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 350058001185 active site 350058001186 DNA binding site [nucleotide binding] 350058001187 Int/Topo IB signature motif; other site 350058001188 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 350058001189 DNA binding site [nucleotide binding] 350058001190 Int/Topo IB signature motif; other site 350058001191 active site 350058001192 catalytic residues [active] 350058001193 Winged helix-turn helix; Region: HTH_29; pfam13551 350058001194 Helix-turn-helix domain; Region: HTH_28; pfam13518 350058001195 Homeodomain-like domain; Region: HTH_32; pfam13565 350058001196 Integrase core domain; Region: rve; pfam00665 350058001197 DDE domain; Region: DDE_Tnp_IS240; pfam13610 350058001198 Integrase core domain; Region: rve_3; pfam13683 350058001199 Transposase [DNA replication, recombination, and repair]; Region: COG5421 350058001200 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 350058001201 Transcriptional regulator [Transcription]; Region: IclR; COG1414 350058001202 Bacterial transcriptional regulator; Region: IclR; pfam01614 350058001203 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 350058001204 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 350058001205 iron-sulfur cluster [ion binding]; other site 350058001206 [2Fe-2S] cluster binding site [ion binding]; other site 350058001207 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 350058001208 beta subunit interface [polypeptide binding]; other site 350058001209 alpha subunit interface [polypeptide binding]; other site 350058001210 active site 350058001211 substrate binding site [chemical binding]; other site 350058001212 Fe binding site [ion binding]; other site 350058001213 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 350058001214 inter-subunit interface; other site 350058001215 2,3-dihydroxy-2,3-dihydrophenylpropionate dehydrogenase; Provisional; Region: PRK06200 350058001216 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 350058001217 NAD(P) binding site [chemical binding]; other site 350058001218 active site 350058001219 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 350058001220 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 350058001221 gentisate 1,2-dioxygenase; Region: gentisate_1_2; TIGR02272 350058001222 Cupin domain; Region: Cupin_2; pfam07883 350058001223 Cupin domain; Region: Cupin_2; pfam07883 350058001224 Trans-o-hydroxybenzylidenepyruvate hydratase-aldolase (HBPHA) and trans-2'-carboxybenzalpyruvate hydratase-aldolase (CBPHA); Region: CHBPH_aldolase; cd00952 350058001225 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 350058001226 putative active site [active] 350058001227 catalytic residue [active] 350058001228 2,3-dihydroxybiphenyl 1,2-dioxygenase; Region: 23dbph12diox; TIGR03213 350058001229 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 350058001230 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 350058001231 active site 350058001232 Fe binding site [ion binding]; other site 350058001233 SCP-2 sterol transfer family; Region: SCP2; pfam02036 350058001234 Class I aldolases; Region: Aldolase_Class_I; cl17187 350058001235 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 350058001236 catalytic residue [active] 350058001237 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 350058001238 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 350058001239 active site 350058001240 catalytic residues [active] 350058001241 DNA binding site [nucleotide binding] 350058001242 Int/Topo IB signature motif; other site 350058001243 Cro/C1-type HTH DNA-binding domain; Region: HTH_26; pfam13443 350058001244 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 350058001245 Phage integrase, N-terminal SAM-like domain; Region: Phage_integr_N; cl12235 350058001246 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 350058001247 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 350058001248 active site 350058001249 DNA binding site [nucleotide binding] 350058001250 Int/Topo IB signature motif; other site 350058001251 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 350058001252 active site 350058001253 DNA binding site [nucleotide binding] 350058001254 Int/Topo IB signature motif; other site 350058001255 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 350058001256 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 350058001257 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 350058001258 DNA-binding interface [nucleotide binding]; DNA binding site 350058001259 Integrase core domain; Region: rve; pfam00665 350058001260 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 350058001261 inter-subunit interface; other site 350058001262 Succinate dehydrogenase/fumarate reductase, flavoprotein subunit [Energy production and conversion]; Region: SdhA; COG1053 350058001263 L-aspartate oxidase; Provisional; Region: PRK06175 350058001264 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 350058001265 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 350058001266 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 350058001267 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 350058001268 Streptomyces aureofaciens putative aldehyde dehydrogenase AldA (AAD23400)-like; Region: ALDH_AldA-AAD23400; cd07106 350058001269 NAD(P) binding site [chemical binding]; other site 350058001270 catalytic residues [active] 350058001271 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 350058001272 inter-subunit interface; other site 350058001273 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 350058001274 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 350058001275 alpha subunit interaction site [polypeptide binding]; other site 350058001276 beta subunit interaction site [polypeptide binding]; other site 350058001277 iron-sulfur cluster [ion binding]; other site 350058001278 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 350058001279 beta subunit interface [polypeptide binding]; other site 350058001280 alpha subunit interface [polypeptide binding]; other site 350058001281 active site 350058001282 substrate binding site [chemical binding]; other site 350058001283 Fe binding site [ion binding]; other site 350058001284 short chain dehydrogenase; Provisional; Region: PRK06138 350058001285 classical (c) SDRs; Region: SDR_c; cd05233 350058001286 NAD(P) binding site [chemical binding]; other site 350058001287 active site 350058001288 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 350058001289 (2R,3R)-2,3-butanediol dehydrogenase; Region: butanediol_DH_like; cd08233 350058001290 putative NAD(P) binding site [chemical binding]; other site 350058001291 catalytic Zn binding site [ion binding]; other site 350058001292 VPS10 domain; Region: VPS10; smart00602 350058001293 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 350058001294 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 350058001295 [2Fe-2S] cluster binding site [ion binding]; other site 350058001296 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 350058001297 hydrophobic ligand binding site; other site 350058001298 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 350058001299 SCP-2 sterol transfer family; Region: SCP2; pfam02036 350058001300 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 350058001301 active site 350058001302 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 350058001303 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 350058001304 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 350058001305 Permease; Region: Permease; pfam02405 350058001306 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 350058001307 Permease; Region: Permease; pfam02405 350058001308 virulence factor Mce family protein; Region: Mtu_fam_mce; TIGR00996 350058001309 mce related protein; Region: MCE; pfam02470 350058001310 Protein of unknown function (DUF3407); Region: DUF3407; pfam11887 350058001311 virulence factor Mce family protein; Region: Mtu_fam_mce; TIGR00996 350058001312 mce related protein; Region: MCE; pfam02470 350058001313 Protein of unknown function (DUF3407); Region: DUF3407; pfam11887 350058001314 proteobacterial dedicated sortase system histidine kinase; Region: marine_sort_HK; TIGR03785 350058001315 Domain of unknown function DUF302; Region: DUF302; cl01364 350058001316 heavy metal-(Cd/Co/Hg/Pb/Zn)-translocating P-type ATPase; Region: ATPase-IB2_Cd; TIGR01512 350058001317 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 350058001318 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 350058001319 motif II; other site 350058001320 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 350058001321 dimerization interface [polypeptide binding]; other site 350058001322 putative DNA binding site [nucleotide binding]; other site 350058001323 putative Zn2+ binding site [ion binding]; other site 350058001324 Predicted membrane protein [Function unknown]; Region: COG3462 350058001325 Short C-terminal domain; Region: SHOCT; pfam09851 350058001326 Uncharacterized copper-binding protein [Inorganic ion transport and metabolism]; Region: COG4454 350058001327 Domain of unknown function (DUF955); Region: DUF955; cl01076 350058001328 Phage integrase, N-terminal SAM-like domain; Region: Phage_integr_N; cl12235 350058001329 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 350058001330 active site 350058001331 DNA binding site [nucleotide binding] 350058001332 Int/Topo IB signature motif; other site 350058001333 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 350058001334 active site 350058001335 Int/Topo IB signature motif; other site 350058001336 DNA binding site [nucleotide binding] 350058001337 virulence factor Mce family protein; Region: Mtu_fam_mce; TIGR00996 350058001338 mce related protein; Region: MCE; pfam02470 350058001339 virulence factor Mce family protein; Region: Mtu_fam_mce; TIGR00996 350058001340 mce related protein; Region: MCE; pfam02470 350058001341 Protein of unknown function (DUF3407); Region: DUF3407; pfam11887 350058001342 virulence factor Mce family protein; Region: Mtu_fam_mce; TIGR00996 350058001343 mce related protein; Region: MCE; pfam02470 350058001344 Protein of unknown function (DUF3407); Region: DUF3407; pfam11887 350058001345 virulence factor Mce family protein; Region: Mtu_fam_mce; TIGR00996 350058001346 mce related protein; Region: MCE; pfam02470 350058001347 Epoxide hydrolase N terminus; Region: EHN; pfam06441 350058001348 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 350058001349 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 350058001350 Nocardioides 2-carboxybenzaldehyde dehydrogenase, PhdK-like; Region: ALDH_PhdK-like; cd07107 350058001351 NAD(P) binding site [chemical binding]; other site 350058001352 catalytic residues [active] 350058001353 catalytic residues [active] 350058001354 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 350058001355 Major Facilitator Superfamily; Region: MFS_1; pfam07690 350058001356 putative substrate translocation pore; other site 350058001357 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 350058001358 MarR family; Region: MarR; pfam01047 350058001359 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 350058001360 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 350058001361 alpha subunit interaction site [polypeptide binding]; other site 350058001362 beta subunit interaction site [polypeptide binding]; other site 350058001363 iron-sulfur cluster [ion binding]; other site 350058001364 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 350058001365 beta subunit interface [polypeptide binding]; other site 350058001366 alpha subunit interface [polypeptide binding]; other site 350058001367 active site 350058001368 substrate binding site [chemical binding]; other site 350058001369 Fe binding site [ion binding]; other site 350058001370 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 350058001371 inter-subunit interface; other site 350058001372 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 350058001373 (2R,3R)-2,3-butanediol dehydrogenase; Region: butanediol_DH_like; cd08233 350058001374 putative NAD(P) binding site [chemical binding]; other site 350058001375 catalytic Zn binding site [ion binding]; other site 350058001376 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 350058001377 CoA-transferase family III; Region: CoA_transf_3; pfam02515 350058001378 lipid-transfer protein; Provisional; Region: PRK07855 350058001379 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 350058001380 active site 350058001381 Rubredoxin-like zinc ribbon domain (DUF35_N); Region: DUF35_N; pfam12172 350058001382 DUF35 OB-fold domain; Region: DUF35; pfam01796 350058001383 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 350058001384 Ferredoxin [Energy production and conversion]; Region: Fer; COG1141 350058001385 Protein of unknown function (DUF1271); Region: DUF1271; cl01443 350058001386 anthranilate 1,2-dioxygenase, large subunit; Region: anthran_1_2_A; TIGR03228 350058001387 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 350058001388 iron-sulfur cluster [ion binding]; other site 350058001389 [2Fe-2S] cluster binding site [ion binding]; other site 350058001390 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 350058001391 beta subunit interface [polypeptide binding]; other site 350058001392 alpha subunit interface [polypeptide binding]; other site 350058001393 active site 350058001394 substrate binding site [chemical binding]; other site 350058001395 Fe binding site [ion binding]; other site 350058001396 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 350058001397 inter-subunit interface; other site 350058001398 Cupin domain; Region: Cupin_2; pfam07883 350058001399 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 350058001400 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 350058001401 MarR family; Region: MarR; pfam01047 350058001402 MarR family; Region: MarR_2; cl17246 350058001403 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 350058001404 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 350058001405 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 350058001406 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 350058001407 iron-sulfur cluster [ion binding]; other site 350058001408 [2Fe-2S] cluster binding site [ion binding]; other site 350058001409 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 350058001410 beta subunit interface [polypeptide binding]; other site 350058001411 alpha subunit interface [polypeptide binding]; other site 350058001412 active site 350058001413 substrate binding site [chemical binding]; other site 350058001414 Fe binding site [ion binding]; other site 350058001415 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 350058001416 inter-subunit interface; other site 350058001417 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 350058001418 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 350058001419 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 350058001420 Subunit B of Class III Extradiol ring-cleavage dioxygenases; Region: Extradiol_Dioxygenase_3B_like; cl00599 350058001421 active site 350058001422 metal binding site [ion binding]; metal-binding site 350058001423 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 350058001424 Class II Aldolase and Adducin N-terminal domain; Region: Aldolase_II; pfam00596 350058001425 intersubunit interface [polypeptide binding]; other site 350058001426 active site 350058001427 Zn2+ binding site [ion binding]; other site 350058001428 2,3-dihydroxy-2,3-dihydrophenylpropionate dehydrogenase; Provisional; Region: PRK06200 350058001429 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 350058001430 NAD(P) binding site [chemical binding]; other site 350058001431 active site 350058001432 2,3-dihydroxybiphenyl 1,2-dioxygenase; Region: 23dbph12diox; TIGR03213 350058001433 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 350058001434 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 350058001435 active site 350058001436 Fe binding site [ion binding]; other site 350058001437 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 350058001438 alpha subunit interaction site [polypeptide binding]; other site 350058001439 beta subunit interaction site [polypeptide binding]; other site 350058001440 iron-sulfur cluster [ion binding]; other site 350058001441 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 350058001442 beta subunit interface [polypeptide binding]; other site 350058001443 alpha subunit interface [polypeptide binding]; other site 350058001444 active site 350058001445 substrate binding site [chemical binding]; other site 350058001446 Fe binding site [ion binding]; other site 350058001447 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 350058001448 inter-subunit interface; other site 350058001449 4Fe-4S single cluster domain; Region: Fer4_15; pfam13459 350058001450 Transposase, Mutator family; Region: Transposase_mut; pfam00872 350058001451 MULE transposase domain; Region: MULE; pfam10551 350058001452 Helix-turn-helix domain; Region: HTH_28; pfam13518 350058001453 Transposase domain (DUF772); Region: DUF772; pfam05598 350058001454 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 350058001455 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 350058001456 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 350058001457 AAA domain; Region: AAA_22; pfam13401 350058001458 ATP-binding site [chemical binding]; other site 350058001459 2-dehydropantoate 2-reductase; Region: apbA_panE; TIGR00745 350058001460 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 350058001461 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 350058001462 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 350058001463 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 350058001464 active site 350058001465 inhibitor site; inhibition site 350058001466 dimer interface [polypeptide binding]; other site 350058001467 catalytic residue [active] 350058001468 Transcriptional regulator [Transcription]; Region: IclR; COG1414 350058001469 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 350058001470 Bacterial transcriptional regulator; Region: IclR; pfam01614 350058001471 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 350058001472 protocatechuate 3,4-dioxygenase, beta subunit; Region: protocat_beta; TIGR02422 350058001473 active site 350058001474 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 350058001475 active site 350058001476 3-carboxy-cis,cis-muconate cycloisomerase; Region: protocat_pcaB; TIGR02426 350058001477 Lyase; Region: Lyase_1; pfam00206 350058001478 tetramer interface [polypeptide binding]; other site 350058001479 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 350058001480 4-carboxymuconolactone decarboxylase; Region: decarb_PcaC; TIGR02425 350058001481 Coenzyme A transferase; Region: CoA_trans; cl17247 350058001482 Coenzyme A transferase; Region: CoA_trans; cl17247 350058001483 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 350058001484 Cupin domain; Region: Cupin_2; pfam07883 350058001485 Protein of unknown function (DUF732); Region: DUF732; pfam05305 350058001486 Helix-turn-helix domain; Region: HTH_28; pfam13518 350058001487 Winged helix-turn helix; Region: HTH_29; pfam13551 350058001488 Homeodomain-like domain; Region: HTH_32; pfam13565 350058001489 Integrase core domain; Region: rve; pfam00665 350058001490 Mu transposase, C-terminal; Region: Mu-transpos_C; pfam09299 350058001491 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 350058001492 AAA domain; Region: AAA_22; pfam13401 350058001493 ATP-binding site [chemical binding]; other site 350058001494 Helix-turn-helix domain; Region: HTH_28; pfam13518 350058001495 Winged helix-turn helix; Region: HTH_29; pfam13551 350058001496 Homeodomain-like domain; Region: HTH_32; pfam13565 350058001497 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 350058001498 Integrase core domain; Region: rve; pfam00665 350058001499 Integrase core domain; Region: rve_3; pfam13683 350058001500 Transposase [DNA replication, recombination, and repair]; Region: COG5421 350058001501 HTH-like domain; Region: HTH_21; pfam13276 350058001502 Integrase core domain; Region: rve; pfam00665 350058001503 Integrase core domain; Region: rve_3; pfam13683 350058001504 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 350058001505 Transposase; Region: HTH_Tnp_1; pfam01527 350058001506 Transposase; Region: HTH_Tnp_1; pfam01527 350058001507 Transposase [DNA replication, recombination, and repair]; Region: COG5421 350058001508 Transposase, Mutator family; Region: Transposase_mut; pfam00872 350058001509 MULE transposase domain; Region: MULE; pfam10551 350058001510 Transposase; Region: HTH_Tnp_1; cl17663 350058001511 HTH-like domain; Region: HTH_21; pfam13276 350058001512 Integrase core domain; Region: rve; pfam00665 350058001513 Integrase core domain; Region: rve_3; pfam13683 350058001514 Transposase, Mutator family; Region: Transposase_mut; pfam00872 350058001515 MULE transposase domain; Region: MULE; pfam10551 350058001516 nucleotide sugar dehydrogenase; Region: NDP-sugDHase; TIGR03026 350058001517 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 350058001518 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 350058001519 cytidylate kinase, putative; Region: cyt_kin_arch; TIGR02173 350058001520 Cupin domain; Region: Cupin_2; pfam07883 350058001521 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 350058001522 trimer interface [polypeptide binding]; other site 350058001523 active site 350058001524 2,3-dihydroxybiphenyl 1,2-dioxygenase; Region: 23dbph12diox; TIGR03213 350058001525 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 350058001526 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 350058001527 active site 350058001528 Fe binding site [ion binding]; other site 350058001529 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 350058001530 3-(3-hydroxyphenyl)propionate hydroxylase; Validated; Region: mhpA; PRK06183 350058001531 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 350058001532 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 350058001533 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 350058001534 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350058001535 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 350058001536 acetaldehyde dehydrogenase; Validated; Region: PRK08300 350058001537 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 350058001538 Prokaryotic acetaldehyde dehydrogenase, dimerisation; Region: AcetDehyd-dimer; pfam09290 350058001539 4-hyroxy-2-oxovalerate/4-hydroxy-2-oxopentanoic acid aldolase,; Validated; Region: PRK08195 350058001540 4-hydroxy-2-oxovalerate aldolase, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_HOA; cd07943 350058001541 active site 350058001542 catalytic residues [active] 350058001543 metal binding site [ion binding]; metal-binding site 350058001544 DmpG-like communication domain; Region: DmpG_comm; pfam07836 350058001545 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 350058001546 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 350058001547 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 350058001548 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 350058001549 Protein of unknown function (DUF1330); Region: DUF1330; cl02288 350058001550 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 350058001551 Cytochrome P450; Region: p450; cl12078 350058001552 Mycothiol maleylpyruvate isomerase N-terminal domain; Region: MDMPI_N; pfam11716 350058001553 uncharacterized Actinobacterial protein TIGR03083; Region: TIGR03083 350058001554 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 350058001555 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 350058001556 substrate binding site; other site 350058001557 tetramer interface; other site 350058001558 Transposase, Mutator family; Region: Transposase_mut; pfam00872 350058001559 MULE transposase domain; Region: MULE; pfam10551 350058001560 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 350058001561 Transcriptional regulators [Transcription]; Region: FadR; COG2186 350058001562 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 350058001563 DNA-binding site [nucleotide binding]; DNA binding site 350058001564 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 350058001565 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 350058001566 classical (c) SDRs; Region: SDR_c; cd05233 350058001567 NAD(P) binding site [chemical binding]; other site 350058001568 active site 350058001569 Protein of unknown function (DUF1116); Region: DUF1116; pfam06545 350058001570 3-ketoacyl-(acyl-carrier-protein) reductase; Reviewed; Region: PRK12826 350058001571 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 350058001572 NAD(P) binding site [chemical binding]; other site 350058001573 active site 350058001574 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 350058001575 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 350058001576 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 350058001577 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 350058001578 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 350058001579 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 350058001580 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 350058001581 substrate binding pocket [chemical binding]; other site 350058001582 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 350058001583 classical (c) SDRs; Region: SDR_c; cd05233 350058001584 NAD(P) binding site [chemical binding]; other site 350058001585 active site 350058001586 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 350058001587 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 350058001588 Predicted glutamine amidotransferases [General function prediction only]; Region: COG2071 350058001589 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 350058001590 catalytic triad [active] 350058001591 YibE/F-like protein; Region: YibE_F; pfam07907 350058001592 aminotransferase AlaT; Validated; Region: PRK09265 350058001593 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 350058001594 pyridoxal 5'-phosphate binding site [chemical binding]; other site 350058001595 homodimer interface [polypeptide binding]; other site 350058001596 catalytic residue [active] 350058001597 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 350058001598 4Fe-4S binding domain; Region: Fer4; cl02805 350058001599 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 350058001600 4Fe-4S binding domain; Region: Fer4; pfam00037 350058001601 Cysteine-rich domain; Region: CCG; pfam02754 350058001602 Cysteine-rich domain; Region: CCG; pfam02754 350058001603 AAA domain; Region: AAA_30; pfam13604 350058001604 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 350058001605 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 350058001606 DNA binding residues [nucleotide binding] 350058001607 dimerization interface [polypeptide binding]; other site 350058001608 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 350058001609 Predicted GTPases (dynamin-related) [General function prediction only]; Region: COG0699 350058001610 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 350058001611 G1 box; other site 350058001612 GTP/Mg2+ binding site [chemical binding]; other site 350058001613 G2 box; other site 350058001614 Switch I region; other site 350058001615 G3 box; other site 350058001616 Switch II region; other site 350058001617 G4 box; other site 350058001618 G5 box; other site 350058001619 Predicted GTPases (dynamin-related) [General function prediction only]; Region: COG0699 350058001620 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 350058001621 G1 box; other site 350058001622 GTP/Mg2+ binding site [chemical binding]; other site 350058001623 G2 box; other site 350058001624 Switch I region; other site 350058001625 G3 box; other site 350058001626 Switch II region; other site 350058001627 G4 box; other site 350058001628 G5 box; other site 350058001629 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 350058001630 nucleotide binding site [chemical binding]; other site 350058001631 probable F420-dependent oxidoreductase, Rv1855c family; Region: F420_Rv1855c; TIGR03560 350058001632 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 350058001633 TIGR03085 family protein; Region: TIGR03085 350058001634 Mycothiol maleylpyruvate isomerase N-terminal domain; Region: MDMPI_N; pfam11716 350058001635 pyruvate kinase; Provisional; Region: PRK14725 350058001636 domain interfaces; other site 350058001637 active site 350058001638 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_ox_2; pfam12900 350058001639 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 350058001640 Nucleotide-binding domain of human HSPA9 and similar proteins; Region: HSPA9-Ssq1-like_NBD; cd10234 350058001641 nucleotide binding site [chemical binding]; other site 350058001642 NEF interaction site [polypeptide binding]; other site 350058001643 SBD interface [polypeptide binding]; other site 350058001644 Molecular chaperone GrpE (heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: GrpE; COG0576 350058001645 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 350058001646 dimer interface [polypeptide binding]; other site 350058001647 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 350058001648 chaperone protein DnaJ; Provisional; Region: PRK14279 350058001649 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 350058001650 HSP70 interaction site [polypeptide binding]; other site 350058001651 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 350058001652 Zn binding sites [ion binding]; other site 350058001653 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 350058001654 dimer interface [polypeptide binding]; other site 350058001655 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 350058001656 DNA binding residues [nucleotide binding] 350058001657 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 350058001658 aldose 1-epimerase superfamily; Region: Aldose_epim; cd01081 350058001659 active site 350058001660 catalytic residues [active] 350058001661 superfamily containing globins and truncated hemoglobins; Region: globin_like; cl00280 350058001662 heme-binding site [chemical binding]; other site 350058001663 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 350058001664 FMN reductase; Validated; Region: fre; PRK08051 350058001665 FAD binding pocket [chemical binding]; other site 350058001666 FAD binding motif [chemical binding]; other site 350058001667 phosphate binding motif [ion binding]; other site 350058001668 beta-alpha-beta structure motif; other site 350058001669 NAD binding pocket [chemical binding]; other site 350058001670 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350058001671 Protein of unknown function (DUF2910); Region: DUF2910; pfam11139 350058001672 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3224 350058001673 Predicted acetamidase/formamidase [Energy production and conversion]; Region: COG2421 350058001674 Probable cobalt transporter subunit (CbtA); Region: CbtA; cl02266 350058001675 Nitrile hydratase beta subunit; Region: NHase_beta; pfam02211 350058001676 nitrile hydratase, beta subunit; Region: nitrile_beta; TIGR03888 350058001677 Nitrile hydratase, alpha chain; Region: NHase_alpha; pfam02979 350058001678 NHLP leader peptide domain; Region: TOMM_pelo; TIGR03793 350058001679 nitrile hydratase accessory protein; Region: nitrile_acc; TIGR03889 350058001680 Protein of unknown function (DUF1097); Region: DUF1097; pfam06496 350058001681 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 350058001682 MarR family; Region: MarR_2; pfam12802 350058001683 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 350058001684 Type I periplasmic-binding protein of the nitrile hydratase (NHase) system that selectively converts nitriles to corresponding amides; Region: PBP1_NHase; cd06358 350058001685 putative ligand binding site [chemical binding]; other site 350058001686 GtrA-like protein; Region: GtrA; pfam04138 350058001687 Protein of unknown function (DUF2580); Region: DUF2580; pfam10824 350058001688 CYTH-like Clostridium thermocellum TTM-like subgroup 1; Region: CYTH-like_CthTTM-like_1; cd07891 350058001689 putative active site [active] 350058001690 putative metal binding residues [ion binding]; other site 350058001691 signature motif; other site 350058001692 putative dimer interface [polypeptide binding]; other site 350058001693 putative phosphate binding site [ion binding]; other site 350058001694 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 350058001695 Clp amino terminal domain; Region: Clp_N; pfam02861 350058001696 Clp amino terminal domain; Region: Clp_N; pfam02861 350058001697 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 350058001698 Walker A motif; other site 350058001699 ATP binding site [chemical binding]; other site 350058001700 Walker B motif; other site 350058001701 arginine finger; other site 350058001702 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 350058001703 Walker A motif; other site 350058001704 ATP binding site [chemical binding]; other site 350058001705 Walker B motif; other site 350058001706 arginine finger; other site 350058001707 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 350058001708 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 350058001709 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 350058001710 NAD(P) binding site [chemical binding]; other site 350058001711 active site 350058001712 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 350058001713 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 350058001714 methyl viologen resistance protein SmvA; Provisional; Region: PRK14995 350058001715 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 350058001716 putative substrate translocation pore; other site 350058001717 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 350058001718 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350058001719 Glycosyl hydrolase family 76; Region: Glyco_hydro_76; cl01996 350058001720 Na+/H+ antiporter 1; Region: Na_H_antiport_1; cl01133 350058001721 Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: DsbG; COG1651 350058001722 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 350058001723 catalytic residues [active] 350058001724 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 350058001725 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 350058001726 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 350058001727 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 350058001728 NAD(P) binding site [chemical binding]; other site 350058001729 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 350058001730 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 350058001731 active site 350058001732 intersubunit interface [polypeptide binding]; other site 350058001733 zinc binding site [ion binding]; other site 350058001734 Na+ binding site [ion binding]; other site 350058001735 Protein of unknown function (DUF3151); Region: DUF3151; pfam11349 350058001736 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 350058001737 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 350058001738 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 350058001739 Peptidase family M50; Region: Peptidase_M50; pfam02163 350058001740 active site 350058001741 putative substrate binding region [chemical binding]; other site 350058001742 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 350058001743 Cytochrome P450; Region: p450; cl12078 350058001744 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 350058001745 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 350058001746 GDP-binding site [chemical binding]; other site 350058001747 ACT binding site; other site 350058001748 IMP binding site; other site 350058001749 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 350058001750 CoenzymeA binding site [chemical binding]; other site 350058001751 subunit interaction site [polypeptide binding]; other site 350058001752 PHB binding site; other site 350058001753 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 350058001754 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 350058001755 metal binding site [ion binding]; metal-binding site 350058001756 active site 350058001757 I-site; other site 350058001758 Ferredoxin [Energy production and conversion]; Region: Fer; COG1141 350058001759 Protein of unknown function (DUF1271); Region: DUF1271; cl01443 350058001760 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 350058001761 Cytochrome P450; Region: p450; cl12078 350058001762 MMPL family; Region: MMPL; pfam03176 350058001763 Transcriptional regulators [Transcription]; Region: MarR; COG1846 350058001764 MarR family; Region: MarR_2; pfam12802 350058001765 ATP-grasp domain; Region: ATP-grasp_4; cl17255 350058001766 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 350058001767 active site residue [active] 350058001768 O-succinylhomoserine sulfhydrylase; Provisional; Region: PRK07810 350058001769 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 350058001770 homodimer interface [polypeptide binding]; other site 350058001771 substrate-cofactor binding pocket; other site 350058001772 pyridoxal 5'-phosphate binding site [chemical binding]; other site 350058001773 catalytic residue [active] 350058001774 short chain dehydrogenase; Provisional; Region: PRK07825 350058001775 classical (c) SDRs; Region: SDR_c; cd05233 350058001776 NAD(P) binding site [chemical binding]; other site 350058001777 active site 350058001778 uncharacterized Actinobacterial protein TIGR03083; Region: TIGR03083 350058001779 Mycothiol maleylpyruvate isomerase N-terminal domain; Region: MDMPI_N; pfam11716 350058001780 Bacterial protein of unknown function (DUF899); Region: DUF899; pfam05988 350058001781 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 350058001782 putative DNA binding site [nucleotide binding]; other site 350058001783 dimerization interface [polypeptide binding]; other site 350058001784 putative Zn2+ binding site [ion binding]; other site 350058001785 Putative hydrophobic ligand-binding SRPBCC domain of Micromonospora echinospora CalC, human Aha1, and related proteins; Region: SRPBCC_CalC_Aha1-like; cd07814 350058001786 putative hydrophobic ligand binding site [chemical binding]; other site 350058001787 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 350058001788 Coenzyme A binding pocket [chemical binding]; other site 350058001789 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 350058001790 glucose-6-phosphate dehydrogenase (coenzyme-F420); Region: F420_G6P_DH; TIGR03554 350058001791 probable F420-dependent oxidoreductase, MSMEG_4141 family; Region: F420_MSMEG_4141; TIGR03620 350058001792 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 350058001793 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 350058001794 putative catalytic site [active] 350058001795 putative metal binding site [ion binding]; other site 350058001796 putative phosphate binding site [ion binding]; other site 350058001797 phosphate acetyltransferase; Reviewed; Region: PRK05632 350058001798 DRTGG domain; Region: DRTGG; pfam07085 350058001799 phosphotransacetylase; Reviewed; Region: eutD; PRK09653 350058001800 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 350058001801 propionate/acetate kinase; Provisional; Region: PRK12379 350058001802 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 350058001803 anti sigma factor interaction site; other site 350058001804 regulatory phosphorylation site [posttranslational modification]; other site 350058001805 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 350058001806 Catalytic domain of Protein Kinases; Region: PKc; cd00180 350058001807 active site 350058001808 ATP binding site [chemical binding]; other site 350058001809 substrate binding site [chemical binding]; other site 350058001810 activation loop (A-loop); other site 350058001811 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 350058001812 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 350058001813 substrate binding pocket [chemical binding]; other site 350058001814 membrane-bound complex binding site; other site 350058001815 hinge residues; other site 350058001816 CobD/Cbib protein; Region: CobD_Cbib; cl00561 350058001817 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 350058001818 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 350058001819 nudix motif; other site 350058001820 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 350058001821 thiamine phosphate binding site [chemical binding]; other site 350058001822 active site 350058001823 pyrophosphate binding site [ion binding]; other site 350058001824 glycine oxidase ThiO; Region: thiamin_ThiO; TIGR02352 350058001825 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 350058001826 thiS-thiF/thiG interaction site; other site 350058001827 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 350058001828 ThiS interaction site; other site 350058001829 putative active site [active] 350058001830 tetramer interface [polypeptide binding]; other site 350058001831 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 350058001832 active site 350058001833 catalytic triad [active] 350058001834 oxyanion hole [active] 350058001835 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 350058001836 ATP-binding cassette domain of the bacitracin-resistance transporter; Region: ABC_BcrA_bacitracin_resist; cd03268 350058001837 Walker A/P-loop; other site 350058001838 ATP binding site [chemical binding]; other site 350058001839 Q-loop/lid; other site 350058001840 ABC transporter signature motif; other site 350058001841 Walker B; other site 350058001842 D-loop; other site 350058001843 H-loop/switch region; other site 350058001844 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 350058001845 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 350058001846 Predicted aminopeptidases [General function prediction only]; Region: Iap; COG2234 350058001847 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 350058001848 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 350058001849 PA/protease or protease-like domain interface [polypeptide binding]; other site 350058001850 M28 Zn-peptidase Streptomyces griseus Aminopeptidase and similar proteins; Region: M28_SGAP_like; cd03876 350058001851 active site 350058001852 metal binding site [ion binding]; metal-binding site 350058001853 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 350058001854 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 350058001855 PA/protease or protease-like domain interface [polypeptide binding]; other site 350058001856 M28 Zn-peptidase Streptomyces griseus Aminopeptidase and similar proteins; Region: M28_SGAP_like; cd03876 350058001857 Peptidase family M28; Region: Peptidase_M28; pfam04389 350058001858 active site 350058001859 metal binding site [ion binding]; metal-binding site 350058001860 pyrimidine utilization transport protein G; Region: RutG; TIGR03616 350058001861 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 350058001862 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 350058001863 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350058001864 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 350058001865 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350058001866 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 350058001867 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 350058001868 Domain of unknown function (DUF4190); Region: DUF4190; pfam13828 350058001869 Septum formation; Region: Septum_form; pfam13845 350058001870 Predicted hydrolase of the alpha/beta-hydrolase fold [General function prediction only]; Region: COG3571 350058001871 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 350058001872 dimer interface [polypeptide binding]; other site 350058001873 substrate binding site [chemical binding]; other site 350058001874 ATP binding site [chemical binding]; other site 350058001875 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 350058001876 ThiC-associated domain; Region: ThiC-associated; pfam13667 350058001877 ThiC family; Region: ThiC; pfam01964 350058001878 benzoate transport; Region: 2A0115; TIGR00895 350058001879 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 350058001880 putative substrate translocation pore; other site 350058001881 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 350058001882 putative substrate translocation pore; other site 350058001883 Domain of unknown function (DUF222); Region: DUF222; pfam02720 350058001884 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 350058001885 active site 350058001886 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 350058001887 putative catalytic site [active] 350058001888 putative phosphate binding site [ion binding]; other site 350058001889 active site 350058001890 metal binding site A [ion binding]; metal-binding site 350058001891 DNA binding site [nucleotide binding] 350058001892 putative AP binding site [nucleotide binding]; other site 350058001893 putative metal binding site B [ion binding]; other site 350058001894 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 350058001895 Coenzyme A binding pocket [chemical binding]; other site 350058001896 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 350058001897 active site 350058001898 catalytic residues [active] 350058001899 metal binding site [ion binding]; metal-binding site 350058001900 Protein of unknown function (DUF3263); Region: DUF3263; pfam11662 350058001901 Cu/Zn superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodC; COG2032 350058001902 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 350058001903 E-class dimer interface [polypeptide binding]; other site 350058001904 P-class dimer interface [polypeptide binding]; other site 350058001905 active site 350058001906 Cu2+ binding site [ion binding]; other site 350058001907 Zn2+ binding site [ion binding]; other site 350058001908 carboxylate-amine ligase; Provisional; Region: PRK13517 350058001909 carboxylate-amine ligase, YbdK family; Region: gshA_cyan_rel; TIGR02050 350058001910 Uncharacterized protein, similar to the N-terminal domain of Lon protease [General function prediction only]; Region: COG2802 350058001911 Citrate synthase (CS), citryl-CoA lyase (CCL), the C-terminal portion of the single-subunit type ATP-citrate lyase (ACL) and the C-terminal portion of the large subunit of the two-subunit type ACL. CS catalyzes the condensation of acetyl coenzyme A; Region: CS_ACL-C_CCL; cl00416 350058001912 O-Methyltransferase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3315 350058001913 Leucine carboxyl methyltransferase; Region: LCM; cl01306 350058001914 putative monovalent cation/H+ antiporter subunit G; Reviewed; Region: PRK12674 350058001915 putative monovalent cation/H+ antiporter subunit F; Reviewed; Region: PRK07948 350058001916 putative monovalent cation/H+ antiporter subunit E; Reviewed; Region: PRK08965 350058001917 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK12665 350058001918 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 350058001919 putative monovalent cation/H+ antiporter subunit C; Reviewed; Region: PRK07946 350058001920 putative monovalent cation/H+ antiporter subunit A; Reviewed; Region: PRK12644 350058001921 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 350058001922 Multisubunit Na+/H+ antiporter, MnhB subunit [Inorganic ion transport and metabolism]; Region: MnhB; COG2111 350058001923 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 350058001924 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 350058001925 TrkA-N domain; Region: TrkA_N; pfam02254 350058001926 TrkA-C domain; Region: TrkA_C; pfam02080 350058001927 potassium/proton antiporter; Reviewed; Region: PRK05326 350058001928 TrkA-C domain; Region: TrkA_C; pfam02080 350058001929 Transposase domain (DUF772); Region: DUF772; pfam05598 350058001930 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 350058001931 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 350058001932 Domain of unknown function (DUF1707); Region: DUF1707; pfam08044 350058001933 2TM domain; Region: 2TM; pfam13239 350058001934 AAA family ATPase, CDC48 subfamily; Region: CDC48; TIGR01243 350058001935 Cell division protein 48 (CDC48), N-terminal domain; Region: CDC48_N; pfam02359 350058001936 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 350058001937 Walker A motif; other site 350058001938 ATP binding site [chemical binding]; other site 350058001939 Walker B motif; other site 350058001940 arginine finger; other site 350058001941 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 350058001942 Walker A motif; other site 350058001943 ATP binding site [chemical binding]; other site 350058001944 Walker B motif; other site 350058001945 arginine finger; other site 350058001946 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 350058001947 phosphatidylserine decarboxylase; Provisional; Region: PRK05305 350058001948 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 350058001949 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 350058001950 dimer interface [polypeptide binding]; other site 350058001951 putative functional site; other site 350058001952 putative MPT binding site; other site 350058001953 short chain dehydrogenase; Provisional; Region: PRK06197 350058001954 retinol dehydrogenase (retinol-DH), Light dependent Protochlorophyllide (Pchlide) OxidoReductase (LPOR) and related proteins, classical (c) SDRs; Region: retinol-DH_like_SDR_c_like; cd05327 350058001955 putative NAD(P) binding site [chemical binding]; other site 350058001956 active site 350058001957 Uncharacterized conserved protein [Function unknown]; Region: COG3402 350058001958 Predicted membrane protein [Function unknown]; Region: COG3428 350058001959 Bacterial PH domain; Region: DUF304; pfam03703 350058001960 Predicted sugar phosphatases of the HAD superfamily [Carbohydrate transport and metabolism]; Region: NagD; COG0647 350058001961 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 350058001962 active site 350058001963 motif I; other site 350058001964 motif II; other site 350058001965 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 350058001966 probable F420-dependent oxidoreductase, MSMEG_2516 family; Region: F420_MSMEG_2516; TIGR03621 350058001967 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 350058001968 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_7; cd07825 350058001969 putative hydrophobic ligand binding site [chemical binding]; other site 350058001970 DNA phosphorothioation system restriction enzyme; Region: dnd_restrict_1; TIGR04095 350058001971 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 350058001972 ATP binding site [chemical binding]; other site 350058001973 putative Mg++ binding site [ion binding]; other site 350058001974 Cupin domain; Region: Cupin_2; pfam07883 350058001975 PE-PPE domain; Region: PE-PPE; pfam08237 350058001976 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 350058001977 short chain dehydrogenase; Provisional; Region: PRK06197 350058001978 retinol dehydrogenase (retinol-DH), Light dependent Protochlorophyllide (Pchlide) OxidoReductase (LPOR) and related proteins, classical (c) SDRs; Region: retinol-DH_like_SDR_c_like; cd05327 350058001979 putative NAD(P) binding site [chemical binding]; other site 350058001980 active site 350058001981 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 350058001982 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350058001983 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 350058001984 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 350058001985 ring oligomerisation interface [polypeptide binding]; other site 350058001986 ATP/Mg binding site [chemical binding]; other site 350058001987 stacking interactions; other site 350058001988 hinge regions; other site 350058001989 Protein of unknown function (DUF2510); Region: DUF2510; pfam10708 350058001990 Domain of unknown function (DUF4352); Region: DUF4352; pfam11611 350058001991 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 350058001992 N-acyl-D-aspartate/D-glutamate deacylase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3653 350058001993 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 350058001994 active site 350058001995 putative substrate binding pocket [chemical binding]; other site 350058001996 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 350058001997 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 350058001998 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 350058001999 Protein of unknown function (DUF664); Region: DUF664; pfam04978 350058002000 DinB superfamily; Region: DinB_2; pfam12867 350058002001 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 350058002002 Methylomonas sp. 4,4'-diapolycopene-dialdehyde dehydrogenase-like; Region: ALDH_DDALDH; cd07099 350058002003 NAD(P) binding site [chemical binding]; other site 350058002004 catalytic residues [active] 350058002005 polyphosphate kinase 2, PA0141 family; Region: PPK2_P_aer; TIGR03707 350058002006 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 350058002007 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 350058002008 Walker A/P-loop; other site 350058002009 ATP binding site [chemical binding]; other site 350058002010 Q-loop/lid; other site 350058002011 ABC transporter signature motif; other site 350058002012 Walker B; other site 350058002013 D-loop; other site 350058002014 H-loop/switch region; other site 350058002015 MarR family; Region: MarR_2; pfam12802 350058002016 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 350058002017 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350058002018 hypothetical protein; Provisional; Region: PRK06184 350058002019 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 350058002020 enoyl-CoA hydratase; Provisional; Region: PRK12478 350058002021 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 350058002022 substrate binding site [chemical binding]; other site 350058002023 oxyanion hole (OAH) forming residues; other site 350058002024 trimer interface [polypeptide binding]; other site 350058002025 Putative zinc-finger; Region: zf-HC2; pfam13490 350058002026 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 350058002027 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 350058002028 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 350058002029 DNA binding residues [nucleotide binding] 350058002030 Protein of unknown function, DUF417; Region: DUF417; cl01162 350058002031 Serine proteases of the peptidase family S9A [Amino acid transport and metabolism]; Region: COG1505 350058002032 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 350058002033 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; cl00364 350058002034 L11 interface [polypeptide binding]; other site 350058002035 putative EF-Tu interaction site [polypeptide binding]; other site 350058002036 putative EF-G interaction site [polypeptide binding]; other site 350058002037 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 350058002038 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 350058002039 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 350058002040 (2R,3R)-2,3-butanediol dehydrogenase; Region: butanediol_DH_like; cd08233 350058002041 putative NAD(P) binding site [chemical binding]; other site 350058002042 catalytic Zn binding site [ion binding]; other site 350058002043 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 350058002044 acetoin reductases; Region: 23BDH; TIGR02415 350058002045 NAD(P) binding site [chemical binding]; other site 350058002046 active site 350058002047 GAF domain; Region: GAF; pfam01590 350058002048 Protein of unknown function (DUF779); Region: DUF779; pfam05610 350058002049 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK07818 350058002050 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; cl17730 350058002051 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 350058002052 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 350058002053 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 350058002054 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 350058002055 metal binding site [ion binding]; metal-binding site 350058002056 active site 350058002057 I-site; other site 350058002058 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 350058002059 Uncharacterized conserved protein [Function unknown]; Region: COG2128 350058002060 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 350058002061 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 350058002062 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 350058002063 non-specific DNA binding site [nucleotide binding]; other site 350058002064 salt bridge; other site 350058002065 sequence-specific DNA binding site [nucleotide binding]; other site 350058002066 Predicted transcriptional regulator [General function prediction only]; Region: COG3800 350058002067 Domain of unknown function (DUF955); Region: DUF955; pfam06114 350058002068 Predicted transcriptional regulator (DUF2083); Region: DUF2083; pfam09856 350058002069 Acyl-ACP thioesterase [Lipid metabolism]; Region: FatA; COG3884 350058002070 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 350058002071 active site 2 [active] 350058002072 active site 1 [active] 350058002073 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 350058002074 active site 2 [active] 350058002075 active site 1 [active] 350058002076 isocitrate lyase; Provisional; Region: PRK15063 350058002077 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 350058002078 tetramer interface [polypeptide binding]; other site 350058002079 active site 350058002080 Mg2+/Mn2+ binding site [ion binding]; other site 350058002081 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK07819 350058002082 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 350058002083 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 350058002084 Mycolic acid cyclopropane synthetase; Region: CMAS; pfam02353 350058002085 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 350058002086 S-adenosylmethionine binding site [chemical binding]; other site 350058002087 polyphosphate:nucleotide phosphotransferase, PPK2 family; Region: PPK2_rel_1; TIGR03709 350058002088 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 350058002089 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 350058002090 DNA-binding interface [nucleotide binding]; DNA binding site 350058002091 Predicted membrane protein [Function unknown]; Region: COG2733 350058002092 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 350058002093 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 350058002094 non-specific DNA binding site [nucleotide binding]; other site 350058002095 salt bridge; other site 350058002096 sequence-specific DNA binding site [nucleotide binding]; other site 350058002097 Protein of unknown function (DUF2516); Region: DUF2516; pfam10724 350058002098 Protein of unknown function (DUF2599); Region: DUF2599; pfam10783 350058002099 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 350058002100 intersubunit interface [polypeptide binding]; other site 350058002101 active site 350058002102 catalytic residue [active] 350058002103 Protein of unknown function (DUF2993); Region: DUF2993; pfam11209 350058002104 Predicted amidohydrolase [General function prediction only]; Region: COG0388 350058002105 Uncharacterized subgroup of the nitrilase superfamily (putative class 13 nitrilases); Region: nitrilase_3; cd07581 350058002106 putative active site [active] 350058002107 catalytic triad [active] 350058002108 putative dimer interface [polypeptide binding]; other site 350058002109 agmatinase; Region: agmatinase; TIGR01230 350058002110 Agmatinase-like family; Region: Agmatinase-like; cd09990 350058002111 active site 350058002112 oligomer interface [polypeptide binding]; other site 350058002113 Mn binding site [ion binding]; other site 350058002114 ykkC-yxkD element as predicted by Rfam (RF00442), score 66.72; Mvan_R0008 350058002115 Na(+)- and Cl(-)-dependent choline cotransporter CHT and related proteins; solute-binding domain; Region: SLC5sbd_CHT; cd11474 350058002116 Na binding site [ion binding]; other site 350058002117 putative glycosylation site [posttranslational modification]; other site 350058002118 putative glycosylation site [posttranslational modification]; other site 350058002119 Uncharacterized protein conserved in bacteria (DUF2330); Region: DUF2330; pfam10092 350058002120 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 350058002121 Subunit I/III interface [polypeptide binding]; other site 350058002122 Prokaryotic Cytochrome C oxidase subunit IV; Region: COX4_pro; pfam03626 350058002123 Protein of unknown function (DUF2505); Region: DUF2505; pfam10698 350058002124 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13903 350058002125 FAD binding domain; Region: FAD_binding_4; pfam01565 350058002126 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 350058002127 IgD-like repeat domain of mycobacterial L,D-transpeptidases; Region: LDT_IgD_like_1; cd13431 350058002128 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 350058002129 IgD-like repeat domain of mycobacterial L,D-transpeptidases; Region: LDT_IgD_like_2; cd13432 350058002130 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 350058002131 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 350058002132 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 350058002133 NAD(P) binding site [chemical binding]; other site 350058002134 active site 350058002135 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 350058002136 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 350058002137 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 350058002138 D-inositol-3-phosphate glycosyltransferase; Region: mycothiol_MshA; TIGR03449 350058002139 putative ADP-binding pocket [chemical binding]; other site 350058002140 Putative bacterial sensory transduction regulator; Region: YbjN; pfam10722 350058002141 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 350058002142 catalytic core [active] 350058002143 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 350058002144 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 350058002145 dimer interface [polypeptide binding]; other site 350058002146 phosphorylation site [posttranslational modification] 350058002147 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 350058002148 ATP binding site [chemical binding]; other site 350058002149 Mg2+ binding site [ion binding]; other site 350058002150 G-X-G motif; other site 350058002151 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 350058002152 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 350058002153 active site 350058002154 phosphorylation site [posttranslational modification] 350058002155 intermolecular recognition site; other site 350058002156 dimerization interface [polypeptide binding]; other site 350058002157 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 350058002158 DNA binding site [nucleotide binding] 350058002159 exopolyphosphatase; Region: exo_poly_only; TIGR03706 350058002160 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 350058002161 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 350058002162 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 350058002163 DNA interaction; other site 350058002164 Metal-binding active site; metal-binding site 350058002165 AP (apurinic/apyrimidinic) site pocket; other site 350058002166 Thioesterase-like superfamily; Region: 4HBT_3; pfam13622 350058002167 pyrroline-5-carboxylate reductase; Region: proC; TIGR00112 350058002168 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 350058002169 DNA binding domain, excisionase family; Region: excise; TIGR01764 350058002170 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 350058002171 UDP-glucose 4 epimerase (G4E), subgroup 3, extended (e) SDRs; Region: UDP_G4E_3_SDR_e; cd05240 350058002172 putative NAD(P) binding site [chemical binding]; other site 350058002173 active site 350058002174 putative substrate binding site [chemical binding]; other site 350058002175 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 350058002176 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: MGAT-like; Region: LPLAT_MGAT-like; cd07987 350058002177 putative acyl-acceptor binding pocket; other site 350058002178 (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 350058002179 active site 350058002180 catalytic site [active] 350058002181 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 350058002182 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 350058002183 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 350058002184 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 350058002185 tRNA; other site 350058002186 putative tRNA binding site [nucleotide binding]; other site 350058002187 putative NADP binding site [chemical binding]; other site 350058002188 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 350058002189 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 350058002190 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 350058002191 domain interfaces; other site 350058002192 active site 350058002193 S-AdoMet dependent tetrapyrrole methylases; Region: TP_methylase; cd09815 350058002194 active site 350058002195 homodimer interface [polypeptide binding]; other site 350058002196 SAM binding site [chemical binding]; other site 350058002197 Uroporphyrinogen-III synthase [Coenzyme metabolism]; Region: HemD; COG1587 350058002198 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 350058002199 active site 350058002200 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 350058002201 dimer interface [polypeptide binding]; other site 350058002202 active site 350058002203 Schiff base residues; other site 350058002204 short chain dehydrogenase; Provisional; Region: PRK07825 350058002205 classical (c) SDRs; Region: SDR_c; cd05233 350058002206 NAD(P) binding site [chemical binding]; other site 350058002207 active site 350058002208 Uncharacterized protein conserved in bacteria (DUF2236); Region: DUF2236; pfam09995 350058002209 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 350058002210 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350058002211 Cytochrome P450; Region: p450; cl12078 350058002212 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 350058002213 Domain of unknown function (DUF385); Region: DUF385; cl04387 350058002214 Purine catabolism regulatory protein-like family; Region: PucR; pfam07905 350058002215 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 350058002216 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 350058002217 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 350058002218 N-ethylammeline chlorohydrolase; Provisional; Region: PRK06038 350058002219 TRZ/ATZ family contains enzymes from the atrazine degradation pathway and related hydrolases. Atrazine, a chlorinated herbizide, can be catabolized by a variety of different bacteria. The first three steps of the atrazine dehalogenation pathway are...; Region: ATZ_TRZ_like; cd01298 350058002220 active site 350058002221 putative substrate binding pocket [chemical binding]; other site 350058002222 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 350058002223 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 350058002224 inhibitor-cofactor binding pocket; inhibition site 350058002225 pyridoxal 5'-phosphate binding site [chemical binding]; other site 350058002226 catalytic residue [active] 350058002227 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 350058002228 catalytic core [active] 350058002229 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 350058002230 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 350058002231 catalytic residues [active] 350058002232 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 350058002233 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 350058002234 ResB protein required for cytochrome c biosynthesis [Posttranslational modification, protein turnover, chaperones]; Region: ResB; COG1333 350058002235 ResB-like family; Region: ResB; pfam05140 350058002236 cytochrome c-type biogenesis protein CcsB; Region: cytochr_II_ccsB; TIGR03144 350058002237 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 350058002238 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 350058002239 P-loop; other site 350058002240 Magnesium ion binding site [ion binding]; other site 350058002241 Protein of unknown function (DUF4229); Region: DUF4229; pfam14012 350058002242 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 350058002243 von Willebrand factor type A domain; Region: VWA_2; pfam13519 350058002244 VWFA-related Acidobacterial domain; Region: acidobact_VWFA; TIGR03436 350058002245 Protein of unknown function DUF58; Region: DUF58; pfam01882 350058002246 MoxR-like ATPases [General function prediction only]; Region: COG0714 350058002247 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 350058002248 ATP binding site [chemical binding]; other site 350058002249 Walker A motif; other site 350058002250 Walker B motif; other site 350058002251 arginine finger; other site 350058002252 1,4-dihydroxy-2-naphthoate octaprenyltransferase; Validated; Region: PRK06080 350058002253 UbiA prenyltransferase family; Region: UbiA; pfam01040 350058002254 5'-methylthioadenosine phosphorylase; Validated; Region: PRK07823 350058002255 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 350058002256 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 350058002257 NAD(P) binding site [chemical binding]; other site 350058002258 active site 350058002259 Nitronate monooxygenase; Region: NMO; pfam03060 350058002260 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 350058002261 FMN binding site [chemical binding]; other site 350058002262 substrate binding site [chemical binding]; other site 350058002263 putative catalytic residue [active] 350058002264 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 350058002265 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 350058002266 dimer interface [polypeptide binding]; other site 350058002267 phosphorylation site [posttranslational modification] 350058002268 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 350058002269 ATP binding site [chemical binding]; other site 350058002270 Mg2+ binding site [ion binding]; other site 350058002271 G-X-G motif; other site 350058002272 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 350058002273 DNA-binding transcriptional regulator CpxR; Provisional; Region: PRK10955 350058002274 active site 350058002275 phosphorylation site [posttranslational modification] 350058002276 intermolecular recognition site; other site 350058002277 dimerization interface [polypeptide binding]; other site 350058002278 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 350058002279 DNA binding site [nucleotide binding] 350058002280 dolichyl-phosphate beta-D-mannosyltransferase; Region: PLN02726 350058002281 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 350058002282 Ligand binding site; other site 350058002283 Putative Catalytic site; other site 350058002284 DXD motif; other site 350058002285 Uncharacterized protein conserved in bacteria (DUF2064); Region: DUF2064; cl17492 350058002286 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 350058002287 S-adenosylmethionine binding site [chemical binding]; other site 350058002288 Oxidoreductase molybdopterin binding domain; Region: Oxidored_molyb; pfam00174 350058002289 Moco binding site; other site 350058002290 metal coordination site [ion binding]; other site 350058002291 Isochorismatase family; Region: Isochorismatase; pfam00857 350058002292 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 350058002293 catalytic triad [active] 350058002294 conserved cis-peptide bond; other site 350058002295 gluconate 5-dehydrogenase; Provisional; Region: PRK08213 350058002296 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 350058002297 NAD(P) binding site [chemical binding]; other site 350058002298 active site 350058002299 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 350058002300 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350058002301 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 350058002302 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 350058002303 Bacterial transcriptional regulator; Region: IclR; pfam01614 350058002304 crotonobetaine/carnitine-CoA ligase; Provisional; Region: PRK06155 350058002305 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_DitJ_like; cd05934 350058002306 acyl-activating enzyme (AAE) consensus motif; other site 350058002307 putative AMP binding site [chemical binding]; other site 350058002308 putative active site [active] 350058002309 putative CoA binding site [chemical binding]; other site 350058002310 lipid-transfer protein; Provisional; Region: PRK07855 350058002311 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 350058002312 active site 350058002313 acetyl-CoA acetyltransferase; Provisional; Region: PRK06289 350058002314 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 350058002315 active site 350058002316 Amidohydrolase; Region: Amidohydro_2; pfam04909 350058002317 DUF35 OB-fold domain; Region: DUF35; pfam01796 350058002318 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 350058002319 aldehyde dehydrogenase, Rv0768 family; Region: aldehy_Rv0768; TIGR04284 350058002320 Rhodococcus ruber 6-oxolauric acid dehydrogenase-like and related proteins; Region: ALDH_CddD-AldA-like; cd07089 350058002321 NAD binding site [chemical binding]; other site 350058002322 catalytic residues [active] 350058002323 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 350058002324 Fatty acyl-CoA synthetases similar to LC-FACS from Thermus thermophiles; Region: ttLC_FACS_AlkK_like; cd12119 350058002325 dimer interface [polypeptide binding]; other site 350058002326 acyl-activating enzyme (AAE) consensus motif; other site 350058002327 putative active site [active] 350058002328 AMP binding site [chemical binding]; other site 350058002329 putative CoA binding site [chemical binding]; other site 350058002330 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 350058002331 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 350058002332 active site 350058002333 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 350058002334 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 350058002335 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 350058002336 [2Fe-2S] cluster binding site [ion binding]; other site 350058002337 C-terminal catalytic domain of Pseudomonas fluorescens MupW and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_MupW-like; cd08882 350058002338 putative alpha subunit interface [polypeptide binding]; other site 350058002339 putative active site [active] 350058002340 putative substrate binding site [chemical binding]; other site 350058002341 Fe binding site [ion binding]; other site 350058002342 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 350058002343 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 350058002344 catalytic loop [active] 350058002345 iron binding site [ion binding]; other site 350058002346 O-Methyltransferase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3315 350058002347 methyltransferase, TIGR00027 family; Region: mthyl_TIGR00027 350058002348 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_y; TIGR03182 350058002349 Thiamine pyrophosphate (TPP) family, E1 of PDC_ADC_BCADC subfamily, TPP-binding module; composed of proteins similar to the E1 components of the human pyruvate dehydrogenase complex (PDC), the acetoin dehydrogenase complex (ADC) and the branched chain...; Region: TPP_E1_PDC_ADC_BCADC; cd02000 350058002350 tetramer interface [polypeptide binding]; other site 350058002351 TPP-binding site [chemical binding]; other site 350058002352 heterodimer interface [polypeptide binding]; other site 350058002353 phosphorylation loop region [posttranslational modification] 350058002354 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 350058002355 Pyrimidine (PYR) binding domain of the beta subunits of the E1 components of human pyruvate dehydrogenase complex (E1- PDHc) and related proteins; Region: TPP_PYR_E1-PDHc-beta_like; cd07036 350058002356 alpha subunit interface [polypeptide binding]; other site 350058002357 TPP binding site [chemical binding]; other site 350058002358 heterodimer interface [polypeptide binding]; other site 350058002359 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 350058002360 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 350058002361 E3 interaction surface; other site 350058002362 lipoyl attachment site [posttranslational modification]; other site 350058002363 lipoyl synthase; Provisional; Region: PRK05481 350058002364 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 350058002365 FeS/SAM binding site; other site 350058002366 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 350058002367 substrate binding site [chemical binding]; other site 350058002368 oxyanion hole (OAH) forming residues; other site 350058002369 trimer interface [polypeptide binding]; other site 350058002370 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 350058002371 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK08269 350058002372 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 350058002373 acetyl-CoA acetyltransferase; Validated; Region: PRK08242 350058002374 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 350058002375 dimer interface [polypeptide binding]; other site 350058002376 active site 350058002377 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 350058002378 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 350058002379 Permease; Region: Permease; pfam02405 350058002380 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 350058002381 Permease; Region: Permease; pfam02405 350058002382 virulence factor Mce family protein; Region: Mtu_fam_mce; TIGR00996 350058002383 mce related protein; Region: MCE; pfam02470 350058002384 Protein of unknown function (DUF3407); Region: DUF3407; pfam11887 350058002385 mce related protein; Region: MCE; pfam02470 350058002386 Protein of unknown function (DUF3407); Region: DUF3407; pfam11887 350058002387 virulence factor Mce family protein; Region: Mtu_fam_mce; TIGR00996 350058002388 mce related protein; Region: MCE; pfam02470 350058002389 virulence factor Mce family protein; Region: Mtu_fam_mce; TIGR00996 350058002390 mce related protein; Region: MCE; pfam02470 350058002391 virulence factor Mce family protein; Region: Mtu_fam_mce; TIGR00996 350058002392 mce related protein; Region: MCE; pfam02470 350058002393 Protein of unknown function (DUF3407); Region: DUF3407; pfam11887 350058002394 virulence factor Mce family protein; Region: Mtu_fam_mce; TIGR00996 350058002395 mce related protein; Region: MCE; pfam02470 350058002396 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 350058002397 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 350058002398 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 350058002399 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350058002400 Helix-turn-helix domain; Region: HTH_31; pfam13560 350058002401 Transcriptional regulators [Transcription]; Region: GntR; COG1802 350058002402 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 350058002403 DNA-binding site [nucleotide binding]; DNA binding site 350058002404 FCD domain; Region: FCD; pfam07729 350058002405 uncharacterized nucleobase-cation-symport-1 (NCS1) transporter subfamily; solute-binding domain; Region: SLC-NCS1sbd_u1; cd11555 350058002406 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 350058002407 Na binding site [ion binding]; other site 350058002408 putative substrate binding site [chemical binding]; other site 350058002409 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 350058002410 putative urate catabolism protein; Region: uraD_N-term-dom; TIGR03212 350058002411 Catalytic domain of bacterial PuuE allantoinases, Schizosaccharomyces pombe chitin deacetylase 1 (SpCDA1), and similar proteins; Region: CE4_PuuE_SpCDA1; cd10977 350058002412 active site 350058002413 catalytic site [active] 350058002414 tetramer interface [polypeptide binding]; other site 350058002415 allantoicase; Provisional; Region: PRK13257 350058002416 Allantoicase repeat; Region: Allantoicase; pfam03561 350058002417 Allantoicase repeat; Region: Allantoicase; pfam03561 350058002418 PPOX class probable FMN-dependent enzyme, DR_2398 family; Region: PPOX_FMN_DR2398; TIGR04025 350058002419 O-succinylbenzoic acid--CoA ligase; Provisional; Region: PRK07824 350058002420 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 350058002421 acyl-activating enzyme (AAE) consensus motif; other site 350058002422 AMP binding site [chemical binding]; other site 350058002423 active site 350058002424 CoA binding site [chemical binding]; other site 350058002425 Protein of unknown function (DUF3349); Region: DUF3349; pfam11829 350058002426 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 350058002427 Protein of unknown function (DUF3349); Region: DUF3349; pfam11829 350058002428 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 350058002429 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 350058002430 active site 350058002431 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 350058002432 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 350058002433 acyl-activating enzyme (AAE) consensus motif; other site 350058002434 putative AMP binding site [chemical binding]; other site 350058002435 putative active site [active] 350058002436 putative CoA binding site [chemical binding]; other site 350058002437 short chain dehydrogenase; Provisional; Region: PRK05866 350058002438 classical (c) SDRs; Region: SDR_c; cd05233 350058002439 NAD(P) binding site [chemical binding]; other site 350058002440 active site 350058002441 oxidoreductase; Provisional; Region: PRK06196 350058002442 retinol dehydrogenase (retinol-DH), Light dependent Protochlorophyllide (Pchlide) OxidoReductase (LPOR) and related proteins, classical (c) SDRs; Region: retinol-DH_like_SDR_c_like; cd05327 350058002443 putative NAD(P) binding site [chemical binding]; other site 350058002444 active site 350058002445 Cupin; Region: Cupin_6; pfam12852 350058002446 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 350058002447 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 350058002448 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 350058002449 Enoyl-CoA hydratase/isomerase family; Region: ECH; pfam00378 350058002450 substrate binding site [chemical binding]; other site 350058002451 oxyanion hole (OAH) forming residues; other site 350058002452 trimer interface [polypeptide binding]; other site 350058002453 Domain of unknown function (DUF385); Region: DUF385; cl04387 350058002454 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 350058002455 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 350058002456 motif II; other site 350058002457 Cyanate permease [Inorganic ion transport and metabolism]; Region: CynX; COG2807 350058002458 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 350058002459 Transcriptional regulators [Transcription]; Region: FadR; COG2186 350058002460 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 350058002461 DNA-binding site [nucleotide binding]; DNA binding site 350058002462 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 350058002463 acyl-CoA synthetase; Validated; Region: PRK06188 350058002464 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 350058002465 putative active site [active] 350058002466 putative CoA binding site [chemical binding]; other site 350058002467 putative AMP binding site [chemical binding]; other site 350058002468 Uncharacterized protein conserved in bacteria (DUF2236); Region: DUF2236; pfam09995 350058002469 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 350058002470 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350058002471 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 350058002472 Permease; Region: Permease; pfam02405 350058002473 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 350058002474 Permease; Region: Permease; pfam02405 350058002475 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 350058002476 mce related protein; Region: MCE; pfam02470 350058002477 virulence factor Mce family protein; Region: Mtu_fam_mce; TIGR00996 350058002478 mce related protein; Region: MCE; pfam02470 350058002479 mce related protein; Region: MCE; pfam02470 350058002480 virulence factor Mce family protein; Region: Mtu_fam_mce; TIGR00996 350058002481 virulence factor Mce family protein; Region: Mtu_fam_mce; TIGR00996 350058002482 mce related protein; Region: MCE; pfam02470 350058002483 virulence factor Mce family protein; Region: Mtu_fam_mce; TIGR00996 350058002484 mce related protein; Region: MCE; pfam02470 350058002485 virulence factor Mce family protein; Region: Mtu_fam_mce; TIGR00996 350058002486 mce related protein; Region: MCE; pfam02470 350058002487 Mannan-binding protein; Region: MVL; pfam12151 350058002488 Protein of unknown function (DUF3298); Region: DUF3298; pfam11738 350058002489 Uncharacterized protein conserved in bacteria (DUF2236); Region: DUF2236; pfam09995 350058002490 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350058002491 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 350058002492 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 350058002493 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 350058002494 acyl-activating enzyme (AAE) consensus motif; other site 350058002495 acyl-activating enzyme (AAE) consensus motif; other site 350058002496 putative AMP binding site [chemical binding]; other site 350058002497 putative active site [active] 350058002498 putative CoA binding site [chemical binding]; other site 350058002499 O-succinylbenzoate synthase; Provisional; Region: PRK02901 350058002500 o-Succinylbenzoate synthase (OSBS) catalyzes the conversion of 2-succinyl-6-hydroxy-2,4-cyclohexadiene-1-carboxylate (SHCHC) to 4-(2'-carboxyphenyl)-4-oxobutyrate (o-succinylbenzoate or OSB), a reaction in the menaquinone biosynthetic pathway; Region: OSBS; cd03320 350058002501 active site 350058002502 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 350058002503 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 350058002504 conserved cys residue [active] 350058002505 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 350058002506 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 350058002507 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_2; cd03139 350058002508 conserved cys residue [active] 350058002509 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 350058002510 TAP-like protein; Region: Abhydrolase_4; pfam08386 350058002511 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1- carboxylate synthase; Validated; Region: PRK07449 350058002512 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 350058002513 dimer interface [polypeptide binding]; other site 350058002514 tetramer interface [polypeptide binding]; other site 350058002515 PYR/PP interface [polypeptide binding]; other site 350058002516 TPP binding site [chemical binding]; other site 350058002517 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 350058002518 TPP-binding site; other site 350058002519 Protein of unknown function (DUF3592); Region: DUF3592; pfam12158 350058002520 Thioredoxin; Region: Thioredoxin_4; cl17273 350058002521 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 350058002522 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 350058002523 O-Methyltransferase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3315 350058002524 Leucine carboxyl methyltransferase; Region: LCM; pfam04072 350058002525 Domain of unknown function (DUF385); Region: DUF385; cl04387 350058002526 short chain dehydrogenase; Provisional; Region: PRK08263 350058002527 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 350058002528 NADP binding site [chemical binding]; other site 350058002529 active site 350058002530 steroid binding site; other site 350058002531 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 350058002532 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 350058002533 S-adenosylmethionine binding site [chemical binding]; other site 350058002534 Predicted membrane protein (DUF2254); Region: DUF2254; pfam10011 350058002535 Predicted membrane protein [Function unknown]; Region: COG4325 350058002536 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 350058002537 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 350058002538 Phytoene dehydrogenase and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG1233 350058002539 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 350058002540 mycofactocin system transcriptional regulator; Region: mycofact_TetR; TIGR03968 350058002541 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350058002542 geranylgeranyl reductase family; Region: GG-red-SF; TIGR02032 350058002543 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 350058002544 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 350058002545 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 350058002546 substrate binding pocket [chemical binding]; other site 350058002547 chain length determination region; other site 350058002548 substrate-Mg2+ binding site; other site 350058002549 catalytic residues [active] 350058002550 aspartate-rich region 1; other site 350058002551 active site lid residues [active] 350058002552 aspartate-rich region 2; other site 350058002553 heat shock protein HtpX; Provisional; Region: PRK03072 350058002554 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Provisional; Region: PRK12439 350058002555 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 350058002556 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 350058002557 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1666 350058002558 Proteins similar to Escherichia coli YajQ; Region: YajQ_like; cd11740 350058002559 Glycerophosphodiester phosphodiesterase domain of putative Silicibacter pomeroyi glycerophosphodiester phosphodiesterase and similar proteins; Region: GDPD_SpGDE_like; cd08567 350058002560 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 350058002561 active site 350058002562 catalytic site [active] 350058002563 metal binding site [ion binding]; metal-binding site 350058002564 acyl-CoA synthetase; Validated; Region: PRK05850 350058002565 Fatty acyl-AMP ligase (FAAL); Region: FAAL; cd05931 350058002566 acyl-activating enzyme (AAE) consensus motif; other site 350058002567 active site 350058002568 Phosphopantetheine attachment site; Region: PKS_PP; smart00823 350058002569 Beta-ketoacyl synthase; Region: PKS_KS; smart00825 350058002570 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 350058002571 active site 350058002572 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 350058002573 Acyl transferase domain in polyketide synthase (PKS) enzymes; Region: PKS_AT; smart00827 350058002574 Phosphopantetheine attachment site; Region: PKS_PP; smart00823 350058002575 Condensation domain; Region: Condensation; pfam00668 350058002576 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 350058002577 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 350058002578 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 350058002579 acyl-activating enzyme (AAE) consensus motif; other site 350058002580 AMP binding site [chemical binding]; other site 350058002581 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 350058002582 Condensation domain; Region: Condensation; pfam00668 350058002583 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 350058002584 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 350058002585 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 350058002586 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 350058002587 iron-sulfur cluster [ion binding]; other site 350058002588 [2Fe-2S] cluster binding site [ion binding]; other site 350058002589 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 350058002590 hydrophobic ligand binding site; other site 350058002591 SCP-2 sterol transfer family; Region: SCP2; pfam02036 350058002592 Beta-ketoacyl synthase; Region: PKS_KS; smart00825 350058002593 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 350058002594 active site 350058002595 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 350058002596 Acyl transferase domain in polyketide synthase (PKS) enzymes; Region: PKS_AT; smart00827 350058002597 ketoreductase (KR), subgroup 1, complex (x) SDRs; Region: KR_1_SDR_x; cd08952 350058002598 NADP binding site [chemical binding]; other site 350058002599 KR domain; Region: KR; pfam08659 350058002600 active site 350058002601 Phosphopantetheine attachment site; Region: PKS_PP; smart00823 350058002602 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 350058002603 Beta-ketoacyl synthase; Region: PKS_KS; smart00825 350058002604 active site 350058002605 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 350058002606 Acyl transferase domain in polyketide synthase (PKS) enzymes; Region: PKS_AT; smart00827 350058002607 Dehydratase domain in polyketide synthase (PKS) enzymes; Region: PKS_DH; smart00826 350058002608 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 350058002609 enoyl reductase of polyketide synthase; Region: enoyl_red; cd05195 350058002610 Enoylreductase; Region: PKS_ER; smart00829 350058002611 NAD(P) binding site [chemical binding]; other site 350058002612 beta-ketoacyl reductase (KR) domain of fatty acid synthase (FAS), subgroup 2, complex (x); Region: KR_2_FAS_SDR_x; cd08955 350058002613 putative NADP binding site [chemical binding]; other site 350058002614 This enzymatic domain is part of bacterial polyketide synthases; Region: PKS_KR; smart00822 350058002615 active site 350058002616 Phosphopantetheine attachment site; Region: PKS_PP; smart00823 350058002617 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 350058002618 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 350058002619 Walker A/P-loop; other site 350058002620 ATP binding site [chemical binding]; other site 350058002621 Q-loop/lid; other site 350058002622 ABC transporter signature motif; other site 350058002623 Walker B; other site 350058002624 D-loop; other site 350058002625 H-loop/switch region; other site 350058002626 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 350058002627 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 350058002628 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 350058002629 FtsX-like permease family; Region: FtsX; pfam02687 350058002630 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 350058002631 Domain of unknown function (DUF385); Region: DUF385; pfam04075 350058002632 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 350058002633 active site 350058002634 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 350058002635 catalytic triad [active] 350058002636 dimer interface [polypeptide binding]; other site 350058002637 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 350058002638 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 350058002639 PE-PPE domain; Region: PE-PPE; pfam08237 350058002640 short chain dehydrogenase; Validated; Region: PRK06182 350058002641 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 350058002642 NADP binding site [chemical binding]; other site 350058002643 active site 350058002644 steroid binding site; other site 350058002645 Cupin; Region: Cupin_6; pfam12852 350058002646 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 350058002647 NYN domain; Region: NYN; pfam01936 350058002648 Uncharacterized conserved protein [Function unknown]; Region: COG1432 350058002649 putative metal binding site [ion binding]; other site 350058002650 C-terminal domain of LabA_like proteins; Region: LabA_like_C; cd10146 350058002651 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 350058002652 Putative D-isomer specific 2-hydroxyacid dehydrogenases; Region: 2-Hacid_dh_6; cd12165 350058002653 putative ligand binding site [chemical binding]; other site 350058002654 NAD binding site [chemical binding]; other site 350058002655 dimer interface [polypeptide binding]; other site 350058002656 putative catalytic site [active] 350058002657 glucarate dehydratase; Region: glucar-dehydr; TIGR03247 350058002658 D-Glucarate dehydratase (GlucD) catalyzes the dehydration of both D-glucarate and L-idarate to form 5-keto-4-deoxy-D-glucarate (5-KDG) , the initial reaction of the catabolic pathway for (D)-glucarate. GlucD belongs to the enolase superfamily of enzymes; Region: D-glucarate_dehydratase; cd03323 350058002659 active site 350058002660 tetramer interface [polypeptide binding]; other site 350058002661 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 350058002662 Transcriptional regulator [Transcription]; Region: IclR; COG1414 350058002663 Bacterial transcriptional regulator; Region: IclR; pfam01614 350058002664 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 350058002665 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 350058002666 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 350058002667 Walker A/P-loop; other site 350058002668 ATP binding site [chemical binding]; other site 350058002669 Q-loop/lid; other site 350058002670 ABC transporter signature motif; other site 350058002671 Walker B; other site 350058002672 D-loop; other site 350058002673 H-loop/switch region; other site 350058002674 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 350058002675 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 350058002676 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 350058002677 Walker A/P-loop; other site 350058002678 ATP binding site [chemical binding]; other site 350058002679 Q-loop/lid; other site 350058002680 ABC transporter signature motif; other site 350058002681 Walker B; other site 350058002682 D-loop; other site 350058002683 H-loop/switch region; other site 350058002684 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 350058002685 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 350058002686 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 350058002687 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 350058002688 dimer interface [polypeptide binding]; other site 350058002689 conserved gate region; other site 350058002690 putative PBP binding loops; other site 350058002691 ABC-ATPase subunit interface; other site 350058002692 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 350058002693 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 350058002694 dimer interface [polypeptide binding]; other site 350058002695 conserved gate region; other site 350058002696 putative PBP binding loops; other site 350058002697 ABC-ATPase subunit interface; other site 350058002698 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 350058002699 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_12; cd08491 350058002700 Hydroxy(phenyl)pyruvate Reductase, D-isomer-specific 2-hydroxyacid-related dehydrogenase; Region: HPPR; cd12156 350058002701 2-hydroxyacid dehydrogenase; Provisional; Region: PRK08410 350058002702 putative ligand binding site [chemical binding]; other site 350058002703 NAD binding site [chemical binding]; other site 350058002704 catalytic site [active] 350058002705 PhoD-like phosphatase; Region: PhoD; pfam09423 350058002706 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 350058002707 putative active site [active] 350058002708 putative metal binding site [ion binding]; other site 350058002709 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 350058002710 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 350058002711 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator similar to regulators involved in the catabolism of aromatic compounds, contains type 2 periplasmic binding fold; Region: PBP2_LTTR_aromatics_like_1; cd08447 350058002712 putative dimerization interface [polypeptide binding]; other site 350058002713 putative substrate binding pocket [chemical binding]; other site 350058002714 Domain of unknown function (DUF385); Region: DUF385; cl04387 350058002715 glucarate dehydratase; Region: glucar-dehydr; TIGR03247 350058002716 D-Glucarate dehydratase (GlucD) catalyzes the dehydration of both D-glucarate and L-idarate to form 5-keto-4-deoxy-D-glucarate (5-KDG) , the initial reaction of the catabolic pathway for (D)-glucarate. GlucD belongs to the enolase superfamily of enzymes; Region: D-glucarate_dehydratase; cd03323 350058002717 active site 350058002718 tetramer interface [polypeptide binding]; other site 350058002719 5-dehydro-4-deoxyglucarate dehydratase; Provisional; Region: PRK03620 350058002720 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 350058002721 catalytic residue [active] 350058002722 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 350058002723 Alpha-Ketoglutaric Semialdehyde Dehydrogenase; Region: ALDH_KGSADH; cd07129 350058002724 dimer interface [polypeptide binding]; other site 350058002725 NADP binding site [chemical binding]; other site 350058002726 catalytic residues [active] 350058002727 Predicted transcriptional regulators [Transcription]; Region: COG1733 350058002728 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 350058002729 dimerization interface [polypeptide binding]; other site 350058002730 putative DNA binding site [nucleotide binding]; other site 350058002731 putative Zn2+ binding site [ion binding]; other site 350058002732 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 350058002733 Catalytic domain of Protein Kinases; Region: PKc; cd00180 350058002734 active site 350058002735 ATP binding site [chemical binding]; other site 350058002736 substrate binding site [chemical binding]; other site 350058002737 activation loop (A-loop); other site 350058002738 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 350058002739 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 350058002740 substrate binding pocket [chemical binding]; other site 350058002741 membrane-bound complex binding site; other site 350058002742 hinge residues; other site 350058002743 translation initiation factor IF-2; Validated; Region: infB; PRK05306 350058002744 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 350058002745 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 350058002746 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 350058002747 Cytochrome P450; Region: p450; cl12078 350058002748 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 350058002749 DNA-binding site [nucleotide binding]; DNA binding site 350058002750 RNA-binding motif; other site 350058002751 X-Pro dipeptidyl-peptidase C-terminal non-catalytic domain; Region: PepX_C; smart00939 350058002752 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 350058002753 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 350058002754 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 350058002755 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 350058002756 N(5)-(carboxyethyl)ornithine synthase; Region: ceo_syn; cd12181 350058002757 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 350058002758 putative active site [active] 350058002759 putative ligand binding site [chemical binding]; other site 350058002760 putative NAD(P) binding site [chemical binding]; other site 350058002761 Fatty acid desaturase [Lipid metabolism]; Region: DesA; COG3239 350058002762 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 350058002763 putative di-iron ligands [ion binding]; other site 350058002764 ANTAR (AmiR and NasR transcription antitermination regulators) is an RNA-binding domain found in bacterial transcription antitermination regulatory proteins; Region: ANTAR; smart01012 350058002765 GAF domain; Region: GAF; cl17456 350058002766 ANTAR (AmiR and NasR transcription antitermination regulators) is an RNA-binding domain found in bacterial transcription antitermination regulatory proteins; Region: ANTAR; smart01012 350058002767 GAF domain; Region: GAF; pfam01590 350058002768 GAF domain; Region: GAF_2; pfam13185 350058002769 ANTAR (AmiR and NasR transcription antitermination regulators) is an RNA-binding domain found in bacterial transcription antitermination regulatory proteins; Region: ANTAR; smart01012 350058002770 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07768 350058002771 Fatty acyl-AMP ligase (FAAL); Region: FAAL; cd05931 350058002772 acyl-activating enzyme (AAE) consensus motif; other site 350058002773 active site 350058002774 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 350058002775 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 350058002776 Glycosyl hydrolase families: GH43, GH62, GH32, GH68; Region: GH43_62_32_68; cl14647 350058002777 active site 350058002778 Fatty acid desaturase [Lipid metabolism]; Region: DesA; COG3239 350058002779 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 350058002780 putative di-iron ligands [ion binding]; other site 350058002781 Protein of unknown function (DUF2782); Region: DUF2782; pfam11191 350058002782 Predicted drug exporters of the RND superfamily [General function prediction only]; Region: COG2409 350058002783 Mycobacterium membrane protein; Region: Mycobact_memb; pfam05423 350058002784 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 350058002785 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350058002786 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350058002787 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 350058002788 short chain dehydrogenase; Provisional; Region: PRK05854 350058002789 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 350058002790 NAD(P) binding site [chemical binding]; other site 350058002791 active site 350058002792 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 350058002793 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 350058002794 sequence-specific DNA binding site [nucleotide binding]; other site 350058002795 salt bridge; other site 350058002796 acyltransferase, WS/DGAT/MGAT; Region: acyl_WS_DGAT; TIGR02946 350058002797 Wax ester synthase-like Acyl-CoA acyltransferase domain; Region: WES_acyltransf; pfam03007 350058002798 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 350058002799 Catalytic domain of Protein Kinases; Region: PKc; cd00180 350058002800 active site 350058002801 ATP binding site [chemical binding]; other site 350058002802 substrate binding site [chemical binding]; other site 350058002803 activation loop (A-loop); other site 350058002804 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 350058002805 X-Pro dipeptidyl-peptidase C-terminal non-catalytic domain; Region: PepX_C; smart00939 350058002806 Transglycosylase; Region: Transgly; pfam00912 350058002807 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 350058002808 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 350058002809 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 350058002810 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 350058002811 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 350058002812 Beta-lactamase; Region: Beta-lactamase; pfam00144 350058002813 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 350058002814 Glutamate-cysteine ligase family 2(GCS2); Region: GCS2; cl00954 350058002815 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 350058002816 FOG: FHA domain [Signal transduction mechanisms]; Region: COG1716 350058002817 phosphopeptide binding site; other site 350058002818 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 350058002819 helix_turn_helix, Lux Regulon; Region: HTH_LUXR; smart00421 350058002820 DNA binding residues [nucleotide binding] 350058002821 dimerization interface [polypeptide binding]; other site 350058002822 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 350058002823 Catalytic domain of Protein Kinases; Region: PKc; cd00180 350058002824 active site 350058002825 ATP binding site [chemical binding]; other site 350058002826 substrate binding site [chemical binding]; other site 350058002827 activation loop (A-loop); other site 350058002828 N-acetylneuraminic acid mutarotase; Provisional; Region: PRK14131 350058002829 Kelch motif; Region: Kelch_6; pfam13964 350058002830 Kelch domain; Region: Kelch; smart00612 350058002831 Kelch motif; Region: Kelch_1; pfam01344 350058002832 Kelch motif; Region: Kelch_1; pfam01344 350058002833 Kelch domain; Region: Kelch; smart00612 350058002834 Galactose oxidase, central domain; Region: Kelch_4; pfam13418 350058002835 Kelch motif; Region: Kelch_1; pfam01344 350058002836 Concanavalin A-like lectin/glucanases superfamily; Region: Laminin_G_3; pfam13385 350058002837 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 350058002838 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 350058002839 peptide synthase; Provisional; Region: PRK09274 350058002840 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 350058002841 acyl-activating enzyme (AAE) consensus motif; other site 350058002842 AMP binding site [chemical binding]; other site 350058002843 active site 350058002844 CoA binding site [chemical binding]; other site 350058002845 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 350058002846 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 350058002847 putative active site [active] 350058002848 AAA-like domain; Region: AAA_10; pfam12846 350058002849 TraM recognition site of TraD and TraG; Region: TraG-D_C; cl17375 350058002850 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 350058002851 Transposase; Region: HTH_Tnp_1; pfam01527 350058002852 putative transposase OrfB; Reviewed; Region: PHA02517 350058002853 HTH-like domain; Region: HTH_21; pfam13276 350058002854 Integrase core domain; Region: rve; pfam00665 350058002855 Integrase core domain; Region: rve_3; pfam13683 350058002856 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 350058002857 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 350058002858 cofactor binding site; other site 350058002859 DNA binding site [nucleotide binding] 350058002860 substrate interaction site [chemical binding]; other site 350058002861 putative transposase OrfB; Reviewed; Region: PHA02517 350058002862 Integrase core domain; Region: rve; pfam00665 350058002863 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 350058002864 Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]; Region: HepA; COG0553 350058002865 ATP binding site [chemical binding]; other site 350058002866 putative Mg++ binding site [ion binding]; other site 350058002867 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 350058002868 nucleotide binding region [chemical binding]; other site 350058002869 ATP-binding site [chemical binding]; other site 350058002870 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 350058002871 AAA domain; Region: AAA_23; pfam13476 350058002872 Walker A/P-loop; other site 350058002873 ATP binding site [chemical binding]; other site 350058002874 ADP-ribosylglycohydrolase; Region: ADP_ribosyl_GH; pfam03747 350058002875 Protein tyrosine phosphatases (PTP) catalyze the dephosphorylation of phosphotyrosine peptides; they regulate phosphotyrosine levels in signal transduction pathways. The depth of the active site cleft renders the enzyme specific for phosphorylated Tyr; Region: PTPc; cl00053 350058002876 active site 350058002877 catalytic residues [active] 350058002878 ADP-ribose pyrophosphatase [Nucleotide transport and metabolism]; Region: COG1051 350058002879 nudix motif; other site 350058002880 Uncharacterized conserved protein [General function prediction only]; Region: COG4111 350058002881 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 350058002882 active site 350058002883 metal binding site [ion binding]; metal-binding site 350058002884 ADP-ribosylglycohydrolase; Region: ADP_ribosyl_GH; pfam03747 350058002885 Protein tyrosine phosphatases (PTP) catalyze the dephosphorylation of phosphotyrosine peptides; they regulate phosphotyrosine levels in signal transduction pathways. The depth of the active site cleft renders the enzyme specific for phosphorylated Tyr; Region: PTPc; cl00053 350058002886 active site 350058002887 catalytic residues [active] 350058002888 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 350058002889 RecB family nuclease, putative, TM0106 family; Region: TIGR03491 350058002890 RNase_H superfamily; Region: RNase_H_2; pfam13482 350058002891 Superfamily I DNA and RNA helicases and helicase subunits [DNA replication, recombination, and repair]; Region: COG1112 350058002892 Part of AAA domain; Region: AAA_19; pfam13245 350058002893 AAA domain; Region: AAA_12; pfam13087 350058002894 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 350058002895 Transposase; Region: HTH_Tnp_1; pfam01527 350058002896 putative transposase OrfB; Reviewed; Region: PHA02517 350058002897 HTH-like domain; Region: HTH_21; pfam13276 350058002898 Integrase core domain; Region: rve; pfam00665 350058002899 Integrase core domain; Region: rve_3; pfam13683 350058002900 HTH-like domain; Region: HTH_21; pfam13276 350058002901 Integrase core domain; Region: rve; pfam00665 350058002902 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 350058002903 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 350058002904 active site 350058002905 DNA binding site [nucleotide binding] 350058002906 Int/Topo IB signature motif; other site 350058002907 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 350058002908 active site 350058002909 catalytic residues [active] 350058002910 DNA binding site [nucleotide binding] 350058002911 Int/Topo IB signature motif; other site 350058002912 Cell division protein FtsQ; Region: FtsQ; pfam03799 350058002913 Proteins of 100 residues with WXG; Region: WXG100; pfam06013 350058002914 WXG100 family type VII secretion target; Region: WXG100_ESAT6; TIGR03930 350058002915 Mycothiol maleylpyruvate isomerase N-terminal domain; Region: MDMPI_N; pfam11716 350058002916 uncharacterized Actinobacterial protein TIGR03083; Region: TIGR03083 350058002917 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 350058002918 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 350058002919 Putative peptidoglycan binding domain; Region: PG_binding_4; pfam12229 350058002920 VanW like protein; Region: VanW; pfam04294 350058002921 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 350058002922 CoA-transferase family III; Region: CoA_transf_3; pfam02515 350058002923 Protein of unknown function (DUF732); Region: DUF732; pfam05305 350058002924 Protein of unknown function (DUF732); Region: DUF732; pfam05305 350058002925 ExoU and VipD-like proteins; homologus to patatin, cPLA2, and iPLA2; Region: Pat_ExoU_VipD_like; cd07207 350058002926 Protein of unknown function (DUF3375); Region: DUF3375; pfam11855 350058002927 Domain of unknown function (DUF4194); Region: DUF4194; pfam13835 350058002928 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4913 350058002929 P-loop containing region of AAA domain; Region: AAA_29; pfam13555 350058002930 Putative exonuclease SbcCD, C subunit; Region: SbcCD_C; pfam13558 350058002931 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4924 350058002932 Uncharacterized protein conserved in bacteria N-term (DUF3322); Region: DUF3322; pfam11795 350058002933 Uncharacterized protein conserved in bacteria C-term(DUF2220); Region: DUF2220; pfam09983 350058002934 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 350058002935 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 350058002936 non-specific DNA binding site [nucleotide binding]; other site 350058002937 salt bridge; other site 350058002938 sequence-specific DNA binding site [nucleotide binding]; other site 350058002939 HipA N-terminal domain; Region: couple_hipA; TIGR03071 350058002940 Toxin module HipA, protein kinase of phosphatidylinositol 3/4-kinase superfamily [General function prediction only]; Region: HipA; COG3550 350058002941 HipA-like N-terminal domain; Region: HipA_N; pfam07805 350058002942 HipA-like C-terminal domain; Region: HipA_C; pfam07804 350058002943 Plasmid pRiA4b ORF-3-like protein; Region: PRiA4_ORF3; pfam07929 350058002944 SWIM zinc finger; Region: SWIM; pfam04434 350058002945 Protein of unknown function (DUF3423); Region: DUF3423; pfam11903 350058002946 non-LTR RNase HI domain of reverse transcriptases; Region: Rnase_HI_RT_non_LTR; cd09276 350058002947 RNA/DNA hybrid binding site [nucleotide binding]; other site 350058002948 active site 350058002949 SEC-C motif; Region: SEC-C; pfam02810 350058002950 Growth inhibitor [Signal transduction mechanisms]; Region: MazF; COG2337 350058002951 Ribbon-helix-helix protein, copG family; Region: RHH_1; pfam01402 350058002952 Nuclease-related domain; Region: NERD; pfam08378 350058002953 Part of AAA domain; Region: AAA_19; pfam13245 350058002954 Family description; Region: UvrD_C_2; pfam13538 350058002955 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 350058002956 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 350058002957 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 350058002958 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 350058002959 PAS domain; Region: PAS_9; pfam13426 350058002960 putative active site [active] 350058002961 heme pocket [chemical binding]; other site 350058002962 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 350058002963 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 350058002964 metal binding site [ion binding]; metal-binding site 350058002965 active site 350058002966 I-site; other site 350058002967 Esterase-like activity of phytase; Region: Phytase-like; pfam13449 350058002968 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350058002969 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350058002970 YjgF, YER057c, and UK114 belong to a large family of proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no...; Region: YjgF_YER057c_UK114_family; cd00448 350058002971 homotrimer interaction site [polypeptide binding]; other site 350058002972 putative active site [active] 350058002973 high affinity sulphate transporter 1; Region: sulP; TIGR00815 350058002974 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 350058002975 Sulfate transporter family; Region: Sulfate_transp; pfam00916 350058002976 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 350058002977 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 350058002978 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 350058002979 DNA binding residues [nucleotide binding] 350058002980 dihydroxy-acid dehydratase; Provisional; Region: PRK12448 350058002981 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 350058002982 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 350058002983 sequence-specific DNA binding site [nucleotide binding]; other site 350058002984 salt bridge; other site 350058002985 Integral membrane protein TerC family; Region: TerC; cl10468 350058002986 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 350058002987 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 350058002988 YceI-like domain; Region: YceI; smart00867 350058002989 Transmembrane secretion effector; Region: MFS_3; pfam05977 350058002990 Luciferase-like monooxygenase; Region: Bac_luciferase; pfam00296 350058002991 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 350058002992 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 350058002993 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350058002994 Rv0623-like transcription factor; Region: PSK_trans_fac; pfam07704 350058002995 PIN domain of the VapC-like UPF0110 protein Mb0640 and homologs; Region: PIN_UPF0110; cd09871 350058002996 putative active site [active] 350058002997 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4913 350058002998 P-loop containing region of AAA domain; Region: AAA_29; cl17516 350058002999 Putative exonuclease SbcCD, C subunit; Region: SbcCD_C; pfam13558 350058003000 Domain of unknown function (DUF4194); Region: DUF4194; pfam13835 350058003001 Protein of unknown function (DUF3375); Region: DUF3375; pfam11855 350058003002 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 350058003003 Protein of unknown function (DUF1345); Region: DUF1345; pfam07077 350058003004 Monoamine oxidase [Amino acid transport and metabolism]; Region: COG1231 350058003005 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 350058003006 hydroxyglutarate oxidase; Provisional; Region: PRK11728 350058003007 Threonine aldolase [Amino acid transport and metabolism]; Region: GLY1; COG2008 350058003008 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 350058003009 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 350058003010 catalytic residue [active] 350058003011 AAA domain; Region: AAA_30; pfam13604 350058003012 Family description; Region: UvrD_C_2; pfam13538 350058003013 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 350058003014 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; cl00038 350058003015 Uncharacterized conserved protein [Function unknown]; Region: COG0398 350058003016 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 350058003017 AAA ATPase domain; Region: AAA_16; pfam13191 350058003018 Domain of unknown function DUF87; Region: DUF87; pfam01935 350058003019 AAA-like domain; Region: AAA_10; pfam12846 350058003020 Zonular occludens toxin (Zot); Region: Zot; cl17485 350058003021 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 350058003022 Amidohydrolase family; Region: Amidohydro_3; pfam07969 350058003023 active site 350058003024 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 350058003025 classical (c) SDRs; Region: SDR_c; cd05233 350058003026 NAD(P) binding site [chemical binding]; other site 350058003027 active site 350058003028 Predicted acetamidase/formamidase [Energy production and conversion]; Region: COG2421 350058003029 Domain of unknown function (DUF385); Region: DUF385; pfam04075 350058003030 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 350058003031 Domain of unknown function (DUF4344); Region: DUF4344; pfam14247 350058003032 Putative esterase; Region: Esterase; pfam00756 350058003033 S-formylglutathione hydrolase; Region: PLN02442 350058003034 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 350058003035 homodimer interface [polypeptide binding]; other site 350058003036 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 350058003037 active site pocket [active] 350058003038 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 350058003039 PAS fold; Region: PAS_4; pfam08448 350058003040 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 350058003041 putative active site [active] 350058003042 heme pocket [chemical binding]; other site 350058003043 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 350058003044 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 350058003045 metal binding site [ion binding]; metal-binding site 350058003046 active site 350058003047 I-site; other site 350058003048 geranylgeranyl reductase family; Region: GG-red-SF; TIGR02032 350058003049 Phospholipid methyltransferase; Region: PEMT; cl17370 350058003050 Predicted naringenin-chalcone synthase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: BcsA; COG3424 350058003051 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 350058003052 malonyl-CoA binding site [chemical binding]; other site 350058003053 dimer interface [polypeptide binding]; other site 350058003054 active site 350058003055 product binding site; other site 350058003056 MMPL family; Region: MMPL; pfam03176 350058003057 MMPL family; Region: MMPL; pfam03176 350058003058 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_M15_4; pfam13539 350058003059 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 350058003060 alkanesulfonate monooxygenase, FMNH(2)-dependent; Region: alk_sulf_monoox; TIGR03565 350058003061 active site 350058003062 dimer interface [polypeptide binding]; other site 350058003063 non-prolyl cis peptide bond; other site 350058003064 insertion regions; other site 350058003065 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 350058003066 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 350058003067 Domain of unknown function (DUF1989); Region: DUF1989; cl01474 350058003068 urea carboxylase-associated protein 1; Region: urea_degr_1; TIGR03424 350058003069 Glycine cleavage system T protein (aminomethyltransferase) [Amino acid transport and metabolism]; Region: GcvT; COG0404 350058003070 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 350058003071 ethanolamine utilization protein EutQ; Provisional; Region: PRK15457 350058003072 Uncharacterized protein family (UPF0104); Region: UPF0104; pfam03706 350058003073 exodeoxyribonuclease V, alpha subunit; Region: recD; TIGR01447 350058003074 AAA domain; Region: AAA_30; pfam13604 350058003075 Family description; Region: UvrD_C_2; pfam13538 350058003076 exodeoxyribonuclease V, beta subunit; Region: recB; TIGR00609 350058003077 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 350058003078 Walker A motif; other site 350058003079 ATP binding site [chemical binding]; other site 350058003080 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 350058003081 exodeoxyribonuclease V, gamma subunit; Region: recC; TIGR01450 350058003082 exonuclease V subunit gamma; Provisional; Region: recC; PRK11069 350058003083 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 350058003084 HD domain; Region: HD_4; pfam13328 350058003085 classical (c) SDRs; Region: SDR_c; cd05233 350058003086 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 350058003087 NAD(P) binding site [chemical binding]; other site 350058003088 active site 350058003089 Nitroreductase family. Members of this family utilize FMN as a cofactor and catalyze reduction of a variety of nitroaromatic compounds, including nitrofurans, nitrobenzens, nitrophenol, nitrobenzoate and quinones by using either NADH or NADPH as a source...; Region: Nitroreductase; cd02136 350058003090 putative FMN binding site [chemical binding]; other site 350058003091 AAA ATPase domain; Region: AAA_16; pfam13191 350058003092 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 350058003093 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 350058003094 DNA binding residues [nucleotide binding] 350058003095 dimerization interface [polypeptide binding]; other site 350058003096 Protein of unknown function (DUF3060); Region: DUF3060; pfam11259 350058003097 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 350058003098 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 350058003099 Thermotoga maritima CorA-like family; Region: TmCorA-like; cd12822 350058003100 oligomer interface [polypeptide binding]; other site 350058003101 metal binding site [ion binding]; metal-binding site 350058003102 metal binding site [ion binding]; metal-binding site 350058003103 putative Cl binding site [ion binding]; other site 350058003104 aspartate ring; other site 350058003105 basic sphincter; other site 350058003106 hydrophobic gate; other site 350058003107 periplasmic entrance; other site 350058003108 glycosyltransferase, MSMEG_0565 family; Region: MSMEG_0565_glyc; TIGR04047 350058003109 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 350058003110 Predicted amidohydrolase [General function prediction only]; Region: COG0388 350058003111 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cd07197 350058003112 active site 350058003113 catalytic triad [active] 350058003114 dimer interface [polypeptide binding]; other site 350058003115 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 350058003116 AIR (aminoimidazole ribonucleotide) synthase related protein. This family includes Hydrogen expression/formation protein HypE, AIR synthases, FGAM (formylglycinamidine ribonucleotide) synthase and Selenophosphate synthetase (SelD). The N-terminal domain...; Region: PurM-like; cl10019 350058003117 AIR synthase-related protein, MSMEG_0567 C-terminal family; Region: MSMEG_0567_Cter; TIGR04050 350058003118 dimerization interface [polypeptide binding]; other site 350058003119 ATP binding site [chemical binding]; other site 350058003120 radical SAM protein, MSMEG_0568 family; Region: rSAM_MSMEG_0568; TIGR04043 350058003121 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 350058003122 FeS/SAM binding site; other site 350058003123 flavin-dependent oxidoreductase, MSMEG_0569 family; Region: MSMEG_0569_nitr; TIGR04046 350058003124 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 350058003125 MSMEG_0570 family protein; Region: MSMEG_0570_fam; TIGR04042 350058003126 Predicted amidohydrolase [General function prediction only]; Region: COG0388 350058003127 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cd07197 350058003128 active site 350058003129 catalytic triad [active] 350058003130 dimer interface [polypeptide binding]; other site 350058003131 MSMEG_0572 family protein; Region: MSMEG_0572_fam; TIGR04044 350058003132 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 350058003133 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 350058003134 substrate binding site [chemical binding]; other site 350058003135 oxyanion hole (OAH) forming residues; other site 350058003136 trimer interface [polypeptide binding]; other site 350058003137 Uncharacterized conserved protein (DUF2235); Region: DUF2235; pfam09994 350058003138 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 350058003139 50S ribosomal protein L33; Validated; Region: rpmG; PRK00504 350058003140 (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 350058003141 active site 350058003142 catalytic site [active] 350058003143 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 350058003144 active site 350058003145 catalytic site [active] 350058003146 (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 350058003147 active site 350058003148 catalytic site [active] 350058003149 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK07597 350058003150 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 350058003151 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 350058003152 putative homodimer interface [polypeptide binding]; other site 350058003153 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 350058003154 heterodimer interface [polypeptide binding]; other site 350058003155 homodimer interface [polypeptide binding]; other site 350058003156 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 350058003157 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 350058003158 23S rRNA interface [nucleotide binding]; other site 350058003159 L7/L12 interface [polypeptide binding]; other site 350058003160 putative thiostrepton binding site; other site 350058003161 L25 interface [polypeptide binding]; other site 350058003162 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 350058003163 mRNA/rRNA interface [nucleotide binding]; other site 350058003164 PE-PPE domain; Region: PE-PPE; pfam08237 350058003165 Mycolic acid cyclopropane synthetase; Region: CMAS; pfam02353 350058003166 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 350058003167 S-adenosylmethionine binding site [chemical binding]; other site 350058003168 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 350058003169 Predicted unusual protein kinase [General function prediction only]; Region: AarF; COG0661 350058003170 ABC1 family; Region: ABC1; pfam03109 350058003171 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 350058003172 active site 350058003173 ATP binding site [chemical binding]; other site 350058003174 Uncharacterized protein conserved in bacteria (DUF2236); Region: DUF2236; pfam09995 350058003175 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 350058003176 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350058003177 Protein of unknown function (DUF664); Region: DUF664; pfam04978 350058003178 DinB superfamily; Region: DinB_2; pfam12867 350058003179 DinB superfamily; Region: DinB_2; pfam12867 350058003180 Predicted transcriptional regulator [Transcription]; Region: COG2378 350058003181 WYL domain; Region: WYL; pfam13280 350058003182 N-terminal catalytic domain of class II alpha-mannosidases and similar proteins; glycoside hydrolase family 38 (GH38); Region: GH38N_AMII_like; cd10786 350058003183 active site 350058003184 catalytic site [active] 350058003185 Alpha mannosidase, middle domain; Region: Alpha-mann_mid; smart00872 350058003186 NPCBM-associated, NEW3 domain of alpha-galactosidase; Region: NPCBM_assoc; pfam10633 350058003187 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 350058003188 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 350058003189 nucleotide binding site [chemical binding]; other site 350058003190 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 350058003191 23S rRNA interface [nucleotide binding]; other site 350058003192 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 350058003193 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 350058003194 core dimer interface [polypeptide binding]; other site 350058003195 peripheral dimer interface [polypeptide binding]; other site 350058003196 L10 interface [polypeptide binding]; other site 350058003197 L11 interface [polypeptide binding]; other site 350058003198 putative EF-Tu interaction site [polypeptide binding]; other site 350058003199 putative EF-G interaction site [polypeptide binding]; other site 350058003200 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 350058003201 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 350058003202 Walker A/P-loop; other site 350058003203 ATP binding site [chemical binding]; other site 350058003204 Q-loop/lid; other site 350058003205 ABC transporter signature motif; other site 350058003206 Walker B; other site 350058003207 D-loop; other site 350058003208 H-loop/switch region; other site 350058003209 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 350058003210 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 350058003211 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 350058003212 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 350058003213 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 350058003214 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 350058003215 RPB10 interaction site [polypeptide binding]; other site 350058003216 RPB1 interaction site [polypeptide binding]; other site 350058003217 RPB11 interaction site [polypeptide binding]; other site 350058003218 RPB3 interaction site [polypeptide binding]; other site 350058003219 RPB12 interaction site [polypeptide binding]; other site 350058003220 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 350058003221 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 350058003222 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 350058003223 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 350058003224 RNA polymerase Rpb1, domain 5; Region: RNA_pol_Rpb1_5; pfam04998 350058003225 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 350058003226 Rpb1 (beta') - Rpb6 (omega) interaction site [polypeptide binding]; other site 350058003227 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 350058003228 G-loop; other site 350058003229 DNA binding site [nucleotide binding] 350058003230 RibD C-terminal domain; Region: RibD_C; cl17279 350058003231 RibD C-terminal domain; Region: RibD_C; cl17279 350058003232 endonuclease IV; Provisional; Region: PRK01060 350058003233 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 350058003234 AP (apurinic/apyrimidinic) site pocket; other site 350058003235 DNA interaction; other site 350058003236 Metal-binding active site; metal-binding site 350058003237 PAP2_like proteins, Aur1_like subfamily. Yeast Aur1p or Ipc1p is necessary for the addition of inositol phosphate to ceramide, an essential step in yeast sphingolipid synthesis, and is the target of several antifungal compounds such as aureobasidin; Region: PAP2_Aur1_like; cd03386 350058003238 active site 350058003239 methyltransferase, FkbM family; Region: fkbM_fam; TIGR01444 350058003240 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 350058003241 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 350058003242 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 350058003243 putative active site [active] 350058003244 putative substrate binding site [chemical binding]; other site 350058003245 putative cosubstrate binding site; other site 350058003246 catalytic site [active] 350058003247 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 350058003248 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 350058003249 active site 350058003250 FOG: TPR repeat [General function prediction only]; Region: NrfG; COG0457 350058003251 Methyltransferase domain; Region: Methyltransf_23; pfam13489 350058003252 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 350058003253 S-adenosylmethionine binding site [chemical binding]; other site 350058003254 isovaleryl CoA dehydrogenase; Provisional; Region: PRK11561 350058003255 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 350058003256 active site 350058003257 enoyl-CoA hydratase; Provisional; Region: PRK12478 350058003258 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 350058003259 substrate binding site [chemical binding]; other site 350058003260 oxyanion hole (OAH) forming residues; other site 350058003261 trimer interface [polypeptide binding]; other site 350058003262 PaaX-like protein; Region: PaaX; pfam07848 350058003263 PaaX-like protein C-terminal domain; Region: PaaX_C; pfam08223 350058003264 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 350058003265 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 350058003266 substrate binding site [chemical binding]; other site 350058003267 oxyanion hole (OAH) forming residues; other site 350058003268 trimer interface [polypeptide binding]; other site 350058003269 Protein of unknown function (DUF3060); Region: DUF3060; pfam11259 350058003270 Protein of unknown function (DUF3060); Region: DUF3060; pfam11259 350058003271 Protein of unknown function (DUF3558); Region: DUF3558; pfam12079 350058003272 Protein of unknown function (DUF3558); Region: DUF3558; pfam12079 350058003273 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 350058003274 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350058003275 WHG domain; Region: WHG; pfam13305 350058003276 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 350058003277 S17 interaction site [polypeptide binding]; other site 350058003278 S8 interaction site; other site 350058003279 16S rRNA interaction site [nucleotide binding]; other site 350058003280 streptomycin interaction site [chemical binding]; other site 350058003281 23S rRNA interaction site [nucleotide binding]; other site 350058003282 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 350058003283 30S ribosomal protein S7; Validated; Region: PRK05302 350058003284 elongation factor G; Reviewed; Region: PRK00007 350058003285 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 350058003286 G1 box; other site 350058003287 putative GEF interaction site [polypeptide binding]; other site 350058003288 GTP/Mg2+ binding site [chemical binding]; other site 350058003289 Switch I region; other site 350058003290 G2 box; other site 350058003291 G3 box; other site 350058003292 Switch II region; other site 350058003293 G4 box; other site 350058003294 G5 box; other site 350058003295 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 350058003296 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 350058003297 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 350058003298 elongation factor Tu; Reviewed; Region: PRK00049 350058003299 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 350058003300 G1 box; other site 350058003301 GEF interaction site [polypeptide binding]; other site 350058003302 GTP/Mg2+ binding site [chemical binding]; other site 350058003303 Switch I region; other site 350058003304 G2 box; other site 350058003305 G3 box; other site 350058003306 Switch II region; other site 350058003307 G4 box; other site 350058003308 G5 box; other site 350058003309 EFTU_II: Elongation factor Tu domain II. Elongation factors Tu (EF-Tu) are three-domain GTPases with an essential function in the elongation phase of mRNA translation. The GTPase center of EF-Tu is in the N-terminal domain (domain I), also known as the...; Region: EFTU_II; cd03697 350058003310 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 350058003311 Antibiotic Binding Site [chemical binding]; other site 350058003312 Cutinase; Region: Cutinase; pfam01083 350058003313 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 350058003314 putative substrate translocation pore; other site 350058003315 Short C-terminal domain; Region: SHOCT; pfam09851 350058003316 oxidoreductase, SDR family; Region: SDR_subfam_1; TIGR03971 350058003317 classical (c) SDRs; Region: SDR_c; cd05233 350058003318 NAD(P) binding site [chemical binding]; other site 350058003319 active site 350058003320 ornithine--oxo-acid transaminase; Provisional; Region: rocD; PRK04073 350058003321 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 350058003322 inhibitor-cofactor binding pocket; inhibition site 350058003323 pyridoxal 5'-phosphate binding site [chemical binding]; other site 350058003324 catalytic residue [active] 350058003325 N-Dimethylarginine dimethylaminohydrolase [Amino acid transport and metabolism]; Region: COG1834 350058003326 Amidinotransferase; Region: Amidinotransf; pfam02274 350058003327 helix_turn_helix ASNC type; Region: HTH_ASNC; smart00344 350058003328 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 350058003329 putative DNA binding site [nucleotide binding]; other site 350058003330 putative Zn2+ binding site [ion binding]; other site 350058003331 AsnC family; Region: AsnC_trans_reg; pfam01037 350058003332 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 350058003333 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 350058003334 Domain of unknown function (DUF222); Region: DUF222; pfam02720 350058003335 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 350058003336 active site 350058003337 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 350058003338 putative dimer interface [polypeptide binding]; other site 350058003339 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 350058003340 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 350058003341 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 350058003342 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 350058003343 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 350058003344 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 350058003345 mycofactocin system transcriptional regulator; Region: mycofact_TetR; TIGR03968 350058003346 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350058003347 putative mycofactocin binding protein MftB; Region: mycofact_MftB; TIGR03967 350058003348 mycofactocin radical SAM maturase; Region: mycofact_rSAM; TIGR03962 350058003349 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 350058003350 FeS/SAM binding site; other site 350058003351 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 350058003352 heme/flavin dehydrogenase, mycofactocin system; Region: actino_HemFlav; TIGR03966 350058003353 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 350058003354 phosphate binding site [ion binding]; other site 350058003355 mycofactocin system creatininase family protein; Region: mycofact_creat; TIGR03964 350058003356 mycofactocin system glycosyltransferase; Region: mycofact_glyco; TIGR03965 350058003357 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 350058003358 active site 350058003359 dehydrogenase, Rv0697 family; Region: Rv0697; TIGR03970 350058003360 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 350058003361 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 350058003362 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 350058003363 Cytochrome P450; Region: p450; cl12078 350058003364 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 350058003365 Cytochrome P450; Region: p450; cl12078 350058003366 Carboxylesterase family; Region: COesterase; pfam00135 350058003367 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 350058003368 substrate binding pocket [chemical binding]; other site 350058003369 catalytic triad [active] 350058003370 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 350058003371 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 350058003372 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 350058003373 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 350058003374 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 350058003375 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 350058003376 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 350058003377 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 350058003378 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 350058003379 putative translocon binding site; other site 350058003380 protein-rRNA interface [nucleotide binding]; other site 350058003381 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 350058003382 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 350058003383 G-X-X-G motif; other site 350058003384 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 350058003385 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 350058003386 23S rRNA interface [nucleotide binding]; other site 350058003387 5S rRNA interface [nucleotide binding]; other site 350058003388 putative antibiotic binding site [chemical binding]; other site 350058003389 L25 interface [polypeptide binding]; other site 350058003390 L27 interface [polypeptide binding]; other site 350058003391 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 350058003392 putative translocon interaction site; other site 350058003393 signal recognition particle (SRP54) interaction site; other site 350058003394 L23 interface [polypeptide binding]; other site 350058003395 trigger factor interaction site; other site 350058003396 23S rRNA interface [nucleotide binding]; other site 350058003397 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 350058003398 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350058003399 Tetracyclin repressor, C-terminal all-alpha domain; Region: TetR_C; pfam02909 350058003400 Predicted membrane protein (DUF2306); Region: DUF2306; pfam10067 350058003401 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 350058003402 Sulfatase; Region: Sulfatase; pfam00884 350058003403 Uncharacterized conserved protein [Function unknown]; Region: COG1262 350058003404 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 350058003405 Protein of unknown function (DUF1275); Region: DUF1275; pfam06912 350058003406 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 350058003407 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 350058003408 putative substrate translocation pore; other site 350058003409 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 350058003410 Domain of unknown function (DUF336); Region: DUF336; pfam03928 350058003411 TENA/THI-4/PQQC family; Region: TENA_THI-4; cl15243 350058003412 Ferredoxin subunits of nitrite reductase and ring-hydroxylating dioxygenases [Inorganic ion transport and metabolism / General function prediction only]; Region: {NirD}; COG2146 350058003413 iron-sulfur cluster [ion binding]; other site 350058003414 [2Fe-2S] cluster binding site [ion binding]; other site 350058003415 phenylpropionate dioxygenase ferredoxin reductase subunit; Provisional; Region: PRK09754 350058003416 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 350058003417 Maf_Ham1. Maf, a nucleotide binding protein, has been implicated in inhibition of septum formation in eukaryotes, bacteria and archaea. A Ham1-related protein from Methanococcus jannaschii is a novel NTPase that has been shown to hydrolyze nonstandard...; Region: Maf_Ham1; cl00276 350058003418 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 350058003419 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 350058003420 NAD(P) binding site [chemical binding]; other site 350058003421 catalytic residues [active] 350058003422 Rieske non-heme iron oxygenase (RO) family, Rieske ferredoxin component; composed of the Rieske ferredoxin component of some three-component RO systems including biphenyl dioxygenase (BPDO) and carbazole 1,9a-dioxygenase (CARDO). The RO family comprise a...; Region: Rieske_RO_ferredoxin; cd03528 350058003423 [2Fe-2S] cluster binding site [ion binding]; other site 350058003424 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; cl08040 350058003425 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 350058003426 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 350058003427 homotrimer interaction site [polypeptide binding]; other site 350058003428 putative active site [active] 350058003429 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 350058003430 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 350058003431 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 350058003432 RNA binding site [nucleotide binding]; other site 350058003433 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 350058003434 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 350058003435 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 350058003436 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08061 350058003437 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 350058003438 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 350058003439 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 350058003440 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 350058003441 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 350058003442 5S rRNA interface [nucleotide binding]; other site 350058003443 L27 interface [polypeptide binding]; other site 350058003444 23S rRNA interface [nucleotide binding]; other site 350058003445 L5 interface [polypeptide binding]; other site 350058003446 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 350058003447 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 350058003448 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 350058003449 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 350058003450 23S rRNA binding site [nucleotide binding]; other site 350058003451 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 350058003452 Protein of unknown function (DUF732); Region: DUF732; pfam05305 350058003453 Signal peptide peptidase A (SppA) 67K type, a serine protease, has catalytic Ser-Lys dyad; Region: S49_SppA_67K_type; cd07018 350058003454 tandem repeat interface [polypeptide binding]; other site 350058003455 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 350058003456 oligomer interface [polypeptide binding]; other site 350058003457 active site residues [active] 350058003458 Periplasmic serine proteases (ClpP class) [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: SppA; COG0616 350058003459 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 350058003460 tandem repeat interface [polypeptide binding]; other site 350058003461 oligomer interface [polypeptide binding]; other site 350058003462 active site residues [active] 350058003463 O-Methyltransferase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3315 350058003464 methyltransferase, TIGR00027 family; Region: mthyl_TIGR00027 350058003465 O-Methyltransferase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3315 350058003466 methyltransferase, TIGR00027 family; Region: mthyl_TIGR00027 350058003467 O-Methyltransferase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3315 350058003468 methyltransferase, TIGR00027 family; Region: mthyl_TIGR00027 350058003469 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 350058003470 SecY translocase; Region: SecY; pfam00344 350058003471 adenylate kinase; Reviewed; Region: adk; PRK00279 350058003472 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 350058003473 AMP-binding site [chemical binding]; other site 350058003474 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 350058003475 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 350058003476 active site 350058003477 RNA polymerase sigma factor SigL; Provisional; Region: PRK09645 350058003478 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 350058003479 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 350058003480 DNA binding residues [nucleotide binding] 350058003481 Putative zinc-finger; Region: zf-HC2; pfam13490 350058003482 Thiamine pyrophosphate-requiring enzymes [acetolactate synthase, pyruvate dehydrogenase (cytochrome), glyoxylate carboligase, phosphonopyruvate decarboxylase] [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvB; COG0028 350058003483 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 350058003484 PYR/PP interface [polypeptide binding]; other site 350058003485 dimer interface [polypeptide binding]; other site 350058003486 TPP binding site [chemical binding]; other site 350058003487 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 350058003488 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cd00568 350058003489 TPP-binding site [chemical binding]; other site 350058003490 3-oxoacyl-[acyl-carrier-protein]; Region: FabH; COG0332 350058003491 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 350058003492 active site 350058003493 Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]; Region: HisC; COG0079 350058003494 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 350058003495 pyridoxal 5'-phosphate binding site [chemical binding]; other site 350058003496 homodimer interface [polypeptide binding]; other site 350058003497 catalytic residue [active] 350058003498 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 350058003499 MarR family; Region: MarR; pfam01047 350058003500 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 350058003501 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 350058003502 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 350058003503 Histidine kinase; Region: HisKA_3; pfam07730 350058003504 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 350058003505 ATP binding site [chemical binding]; other site 350058003506 Mg2+ binding site [ion binding]; other site 350058003507 G-X-G motif; other site 350058003508 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 350058003509 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 350058003510 active site 350058003511 phosphorylation site [posttranslational modification] 350058003512 intermolecular recognition site; other site 350058003513 dimerization interface [polypeptide binding]; other site 350058003514 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 350058003515 DNA binding residues [nucleotide binding] 350058003516 dimerization interface [polypeptide binding]; other site 350058003517 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 350058003518 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 350058003519 3-hydroxyisobutyrate dehydrogenase; Region: HIBADH; TIGR01692 350058003520 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 350058003521 Isobutyryl-CoA dehydrogenase; Region: IBD; cd01162 350058003522 substrate binding pocket [chemical binding]; other site 350058003523 FAD binding site [chemical binding]; other site 350058003524 catalytic base [active] 350058003525 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 350058003526 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 350058003527 tetrameric interface [polypeptide binding]; other site 350058003528 NAD binding site [chemical binding]; other site 350058003529 catalytic residues [active] 350058003530 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: dTDP_sugar_isom; cl17405 350058003531 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 350058003532 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 350058003533 NAD binding site [chemical binding]; other site 350058003534 substrate binding site [chemical binding]; other site 350058003535 homodimer interface [polypeptide binding]; other site 350058003536 active site 350058003537 Probable lipoprotein LpqN; Region: Lpp-LpqN; pfam10738 350058003538 probable F420-dependent oxidoreductase, MSMEG_4141 family; Region: F420_MSMEG_4141; TIGR03620 350058003539 F420-dependent oxidoreductase, MSMEG_4879 family; Region: F420_MSMEG_4879; TIGR03564 350058003540 probable F420-dependent oxidoreductase, MSMEG_4141 family; Region: F420_MSMEG_4141; TIGR03620 350058003541 F420-dependent oxidoreductase, MSMEG_4879 family; Region: F420_MSMEG_4879; TIGR03564 350058003542 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 350058003543 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 350058003544 ligand binding site [chemical binding]; other site 350058003545 flexible hinge region; other site 350058003546 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 350058003547 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 350058003548 ATP binding site [chemical binding]; other site 350058003549 Mg2+ binding site [ion binding]; other site 350058003550 G-X-G motif; other site 350058003551 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 350058003552 ligand binding site [chemical binding]; other site 350058003553 flexible hinge region; other site 350058003554 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 350058003555 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 350058003556 ATP binding site [chemical binding]; other site 350058003557 Mg2+ binding site [ion binding]; other site 350058003558 G-X-G motif; other site 350058003559 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 350058003560 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 350058003561 active site 350058003562 phosphorylation site [posttranslational modification] 350058003563 intermolecular recognition site; other site 350058003564 dimerization interface [polypeptide binding]; other site 350058003565 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 350058003566 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 350058003567 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 350058003568 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 350058003569 Ligand Binding Site [chemical binding]; other site 350058003570 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 350058003571 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 350058003572 putative dimer interface [polypeptide binding]; other site 350058003573 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; smart00831 350058003574 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 350058003575 ATPase, P-type (transporting), HAD superfamily, subfamily IC; Region: ATPase_P-type; TIGR01494 350058003576 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 350058003577 Soluble P-type ATPase [General function prediction only]; Region: COG4087 350058003578 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 350058003579 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 350058003580 hydrophobic ligand binding site; other site 350058003581 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 350058003582 30S subunit binding site; other site 350058003583 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 350058003584 Ligand Binding Site [chemical binding]; other site 350058003585 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 350058003586 Ligand Binding Site [chemical binding]; other site 350058003587 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 350058003588 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 350058003589 NAD(P) binding site [chemical binding]; other site 350058003590 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 350058003591 Ligand Binding Site [chemical binding]; other site 350058003592 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 350058003593 dimer interface [polypeptide binding]; other site 350058003594 Red chlorophyll catabolite reductase (RCC reductase); Region: RCC_reductase; cl05747 350058003595 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2187 350058003596 Predicted kinase [General function prediction only]; Region: COG0645 350058003597 heavy metal translocating P-type ATPase; Region: ATPase-IB_hvy; TIGR01525 350058003598 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 350058003599 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 350058003600 Ligand Binding Site [chemical binding]; other site 350058003601 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 350058003602 Ligand Binding Site [chemical binding]; other site 350058003603 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 350058003604 Ligand Binding Site [chemical binding]; other site 350058003605 magnesium-transporting ATPase MgtA; Provisional; Region: PRK10517 350058003606 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; smart00831 350058003607 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 350058003608 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 350058003609 Soluble P-type ATPase [General function prediction only]; Region: COG4087 350058003610 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 350058003611 carbamate kinase-like carbamoyl phosphate synthetase; Reviewed; Region: PRK12454 350058003612 AAK_CK: Carbamate kinase (CK) catalyzes both the ATP-phosphorylation of carbamate and carbamoyl phosphate (CP) utilization with the production of ATP from ADP and CP. Both CK (this CD) and nonhomologous CP synthetase synthesize carbamoyl phosphate, an...; Region: AAK_CK; cd04235 350058003613 putative substrate binding site [chemical binding]; other site 350058003614 nucleotide binding site [chemical binding]; other site 350058003615 nucleotide binding site [chemical binding]; other site 350058003616 homodimer interface [polypeptide binding]; other site 350058003617 ornithine carbamoyltransferase; Validated; Region: PRK02102 350058003618 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 350058003619 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 350058003620 arginine deiminase; Provisional; Region: PRK01388 350058003621 arginine-ornithine antiporter; Region: arg_ornith_anti; TIGR03810 350058003622 Predicted membrane protein [Function unknown]; Region: COG2261 350058003623 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 350058003624 active site 350058003625 Erythromycin esterase; Region: Erythro_esteras; pfam05139 350058003626 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 350058003627 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 350058003628 putative substrate binding site [chemical binding]; other site 350058003629 putative ATP binding site [chemical binding]; other site 350058003630 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 350058003631 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 350058003632 GAF domain; Region: GAF_3; pfam13492 350058003633 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 350058003634 Histidine kinase; Region: HisKA_3; pfam07730 350058003635 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 350058003636 ATP binding site [chemical binding]; other site 350058003637 Mg2+ binding site [ion binding]; other site 350058003638 G-X-G motif; other site 350058003639 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 350058003640 ATP cone domain; Region: ATP-cone; pfam03477 350058003641 Ribonucleotide reductase, all-alpha domain; Region: Ribonuc_red_lgN; pfam00317 350058003642 ribonucleoside-diphosphate reductase, adenosylcobalamin-dependent; Region: NrdJ_Z; TIGR02504 350058003643 Class II ribonucleotide reductase, dimeric form; Region: RNR_II_dimer; cd02888 350058003644 active site 350058003645 dimer interface [polypeptide binding]; other site 350058003646 effector binding site; other site 350058003647 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 350058003648 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 350058003649 FOG: CBS domain [General function prediction only]; Region: COG0517 350058003650 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_9; cd04622 350058003651 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 350058003652 Ligand Binding Site [chemical binding]; other site 350058003653 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 350058003654 Ligand Binding Site [chemical binding]; other site 350058003655 Uncharacterized conserved protein (DUF2267); Region: DUF2267; pfam10025 350058003656 peptide chain release factor 1, archaeal and eukaryotic forms; Region: aRF1/eRF1; TIGR03676 350058003657 acetyl-CoA synthetase; Provisional; Region: PRK04319 350058003658 Uncharacterized subfamily of Acetyl-CoA synthetase like family (ACS); Region: MACS_like_4; cd05969 350058003659 active site 350058003660 acyl-activating enzyme (AAE) consensus motif; other site 350058003661 putative CoA binding site [chemical binding]; other site 350058003662 AMP binding site [chemical binding]; other site 350058003663 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_y; TIGR03182 350058003664 Thiamine pyrophosphate (TPP) family, E1 of PDC_ADC_BCADC subfamily, TPP-binding module; composed of proteins similar to the E1 components of the human pyruvate dehydrogenase complex (PDC), the acetoin dehydrogenase complex (ADC) and the branched chain...; Region: TPP_E1_PDC_ADC_BCADC; cd02000 350058003665 tetramer interface [polypeptide binding]; other site 350058003666 TPP-binding site [chemical binding]; other site 350058003667 heterodimer interface [polypeptide binding]; other site 350058003668 phosphorylation loop region [posttranslational modification] 350058003669 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 350058003670 Pyrimidine (PYR) binding domain of the beta subunits of the E1 components of human pyruvate dehydrogenase complex (E1- PDHc) and related proteins; Region: TPP_PYR_E1-PDHc-beta_like; cd07036 350058003671 alpha subunit interface [polypeptide binding]; other site 350058003672 TPP binding site [chemical binding]; other site 350058003673 heterodimer interface [polypeptide binding]; other site 350058003674 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 350058003675 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 350058003676 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 350058003677 E3 interaction surface; other site 350058003678 lipoyl attachment site [posttranslational modification]; other site 350058003679 e3 binding domain; Region: E3_binding; pfam02817 350058003680 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 350058003681 Phosphopantetheine attachment site; Region: PP-binding; cl09936 350058003682 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 350058003683 active site 350058003684 putative substrate binding region [chemical binding]; other site 350058003685 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with either the SpoIVFB domain (sporulation protein, stage IV cell wall formation, F locus, promoter-distal B) or the chloride channel protein EriC; Region: CBS_pair_SpoIVFB_EriC_assoc; cd04612 350058003686 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 350058003687 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 350058003688 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 350058003689 GAF domain; Region: GAF_3; pfam13492 350058003690 Histidine kinase; Region: HisKA_3; pfam07730 350058003691 Histidine kinase-like ATPases; Region: HATPase_c; smart00387 350058003692 Mg2+ binding site [ion binding]; other site 350058003693 G-X-G motif; other site 350058003694 Domain of unknown function (DUF1876); Region: DUF1876; pfam08962 350058003695 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 350058003696 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 350058003697 Ligand Binding Site [chemical binding]; other site 350058003698 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 350058003699 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 350058003700 Uncharacterized conserved protein (DUF2048); Region: DUF2048; pfam09752 350058003701 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 350058003702 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428 350058003703 peroxiredoxin; Provisional; Region: PRK13189 350058003704 Peroxiredoxin (PRX) family, 1-cys PRX subfamily; composed of PRXs containing only one conserved cysteine, which serves as the peroxidatic cysteine. They are homodimeric thiol-specific antioxidant (TSA) proteins that confer a protective role in cells by...; Region: PRX_1cys; cd03016 350058003705 dimer interface [polypeptide binding]; other site 350058003706 decamer (pentamer of dimers) interface [polypeptide binding]; other site 350058003707 catalytic triad [active] 350058003708 CHASE3 domain; Region: CHASE3; pfam05227 350058003709 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 350058003710 dimerization interface [polypeptide binding]; other site 350058003711 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 350058003712 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 350058003713 Mg2+ binding site [ion binding]; other site 350058003714 G-X-G motif; other site 350058003715 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 350058003716 Domain of unknown function DUF21; Region: DUF21; pfam01595 350058003717 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 350058003718 Transporter associated domain; Region: CorC_HlyC; smart01091 350058003719 phosphoglycolate phosphatase; Provisional; Region: PRK01158 350058003720 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 350058003721 active site 350058003722 motif I; other site 350058003723 motif II; other site 350058003724 Domain of unknown function DUF87; Region: DUF87; pfam01935 350058003725 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 350058003726 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 350058003727 TrkA-N domain; Region: TrkA_N; pfam02254 350058003728 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 350058003729 Ligand Binding Site [chemical binding]; other site 350058003730 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 350058003731 Ligand Binding Site [chemical binding]; other site 350058003732 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 350058003733 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 350058003734 Divalent cation transporter; Region: MgtE; cl00786 350058003735 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 350058003736 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 350058003737 active site 350058003738 phosphorylation site [posttranslational modification] 350058003739 intermolecular recognition site; other site 350058003740 dimerization interface [polypeptide binding]; other site 350058003741 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 350058003742 DNA binding residues [nucleotide binding] 350058003743 dimerization interface [polypeptide binding]; other site 350058003744 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 350058003745 Band_7_flotillin: a subgroup of the band 7 domain of flotillin (reggie) like proteins. This subgroup contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. These two proteins are lipid raft-associated. Individual proteins of...; Region: Band_7_flotillin; cd03399 350058003746 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 350058003747 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 350058003748 Sulfate transporter family; Region: Sulfate_transp; pfam00916 350058003749 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 350058003750 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 350058003751 rRNA binding site [nucleotide binding]; other site 350058003752 predicted 30S ribosome binding site; other site 350058003753 50S ribosomal protein L36; Reviewed; Region: rpmJ; PRK00465 350058003754 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 350058003755 30S ribosomal protein S13; Region: bact_S13; TIGR03631 350058003756 30S ribosomal protein S11; Validated; Region: PRK05309 350058003757 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 350058003758 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 350058003759 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 350058003760 RNA binding surface [nucleotide binding]; other site 350058003761 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 350058003762 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 350058003763 alphaNTD - beta interaction site [polypeptide binding]; other site 350058003764 alphaNTD homodimer interface [polypeptide binding]; other site 350058003765 alphaNTD - beta' interaction site [polypeptide binding]; other site 350058003766 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 350058003767 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 350058003768 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 350058003769 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 350058003770 dimerization interface 3.5A [polypeptide binding]; other site 350058003771 active site 350058003772 Cutinase; Region: Cutinase; pfam01083 350058003773 Cutinase; Region: Cutinase; pfam01083 350058003774 Cutinase; Region: Cutinase; pfam01083 350058003775 EamA-like transporter family; Region: EamA; pfam00892 350058003776 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 350058003777 EamA-like transporter family; Region: EamA; pfam00892 350058003778 Protein of unknown function (DUF1470); Region: DUF1470; pfam07336 350058003779 CGNR zinc finger; Region: zf-CGNR; pfam11706 350058003780 type VII secretion protein EccB, Actinobacterial; Region: T7SS_EccB; TIGR03919 350058003781 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 350058003782 type VII secretion-associated serine protease mycosin; Region: T7SS_mycosin; TIGR03921 350058003783 active site 350058003784 catalytic residues [active] 350058003785 WXG100 protein secretion system (Wss), protein YukD; Region: YukD; pfam08817 350058003786 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 350058003787 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 350058003788 catalytic residues [active] 350058003789 catalytic nucleophile [active] 350058003790 Recombinase; Region: Recombinase; pfam07508 350058003791 Protein of unknown function (DUF2742); Region: DUF2742; pfam10888 350058003792 Protein of unknown function (DUF3631); Region: DUF3631; pfam12307 350058003793 Helix-turn-helix domain; Region: HTH_17; pfam12728 350058003794 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 350058003795 Phage-related minor tail protein; Region: PhageMin_Tail; pfam10145 350058003796 Transglycosylase-like domain; Region: Transglycosylas; pfam06737 350058003797 Protein of unknown function (DUF3037); Region: DUF3037; pfam11236 350058003798 type VII secretion-associated protein, Rv3446c family, C-terminal domain; Region: T7SS_Rv3446c; TIGR03931 350058003799 Proteins of 100 residues with WXG; Region: WXG100; cl02005 350058003800 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4842 350058003801 Transcriptional regulatory protein, C terminal; Region: Trans_reg_C; smart00862 350058003802 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 350058003803 Ralstonia eutrophus NAD+-dependent acetaldehyde dehydrogenase II-like; Region: ALDH_ACDHII-AcoD; cd07116 350058003804 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 350058003805 NAD(P) binding site [chemical binding]; other site 350058003806 catalytic residues [active] 350058003807 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 350058003808 23S rRNA interface [nucleotide binding]; other site 350058003809 L3 interface [polypeptide binding]; other site 350058003810 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 350058003811 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14318 350058003812 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 350058003813 active site 350058003814 substrate binding site [chemical binding]; other site 350058003815 metal binding site [ion binding]; metal-binding site 350058003816 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 350058003817 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 350058003818 active site 350058003819 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 350058003820 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350058003821 probable F420-dependent oxidoreductase, Rv3520c family; Region: F420_Rv3520c; TIGR03559 350058003822 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 350058003823 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 350058003824 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 350058003825 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 350058003826 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 350058003827 glutaminase active site [active] 350058003828 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 350058003829 dimer interface [polypeptide binding]; other site 350058003830 active site 350058003831 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 350058003832 dimer interface [polypeptide binding]; other site 350058003833 active site 350058003834 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 350058003835 anti sigma factor interaction site; other site 350058003836 regulatory phosphorylation site [posttranslational modification]; other site 350058003837 Uncharacterized conserved protein [Function unknown]; Region: COG0062 350058003838 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 350058003839 putative substrate binding site [chemical binding]; other site 350058003840 putative ATP binding site [chemical binding]; other site 350058003841 DOPA decarboxylase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to DOPA/tyrosine decarboxylase (DDC), histidine decarboxylase (HDC), and...; Region: DOPA_deC_like; cd06450 350058003842 pyridoxal 5'-phosphate binding site [chemical binding]; other site 350058003843 catalytic residue [active] 350058003844 alanine racemase; Reviewed; Region: alr; PRK00053 350058003845 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 350058003846 active site 350058003847 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 350058003848 dimer interface [polypeptide binding]; other site 350058003849 substrate binding site [chemical binding]; other site 350058003850 catalytic residues [active] 350058003851 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 350058003852 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 350058003853 TAP-like protein; Region: Abhydrolase_4; pfam08386 350058003854 Uncharacterized P-loop hydrolase UPF0079; Region: UPF0079; pfam02367 350058003855 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 350058003856 Glycoprotease family; Region: Peptidase_M22; pfam00814 350058003857 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 350058003858 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 350058003859 Coenzyme A binding pocket [chemical binding]; other site 350058003860 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 350058003861 UGMP family protein; Validated; Region: PRK09604 350058003862 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 350058003863 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 350058003864 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350058003865 short chain dehydrogenase; Validated; Region: PRK08264 350058003866 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 350058003867 NAD(P) binding site [chemical binding]; other site 350058003868 active site 350058003869 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 350058003870 oligomerisation interface [polypeptide binding]; other site 350058003871 mobile loop; other site 350058003872 roof hairpin; other site 350058003873 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 350058003874 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 350058003875 ring oligomerisation interface [polypeptide binding]; other site 350058003876 ATP/Mg binding site [chemical binding]; other site 350058003877 stacking interactions; other site 350058003878 hinge regions; other site 350058003879 Lipocalin-like domain; Region: Lipocalin_2; pfam08212 350058003880 phospho-2-dehydro-3-deoxyheptonate aldolase; Validated; Region: PRK09261 350058003881 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 350058003882 Domain of unknown function (DUF4349); Region: DUF4349; pfam14257 350058003883 thiocyanate hydrolase, gamma subunit; Region: thiocyan_alph; TIGR03887 350058003884 NHLP leader peptide domain; Region: TOMM_pelo; TIGR03793 350058003885 Nitrile hydratase beta subunit; Region: NHase_beta; pfam02211 350058003886 nitrile hydratase, beta subunit; Region: nitrile_beta; TIGR03888 350058003887 Transcription factor WhiB; Region: Whib; pfam02467 350058003888 RNA polymerase sigma factor SigD; Reviewed; Region: PRK09648 350058003889 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 350058003890 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 350058003891 DNA binding residues [nucleotide binding] 350058003892 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 350058003893 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 350058003894 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 350058003895 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 350058003896 active site 350058003897 inosine 5-monophosphate dehydrogenase; Validated; Region: PRK08649 350058003898 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 350058003899 phosphate binding site [ion binding]; other site 350058003900 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 350058003901 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 350058003902 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 350058003903 Response regulator receiver domain; Region: Response_reg; pfam00072 350058003904 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 350058003905 active site 350058003906 phosphorylation site [posttranslational modification] 350058003907 dimerization interface [polypeptide binding]; other site 350058003908 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 350058003909 DNA binding residues [nucleotide binding] 350058003910 GMP synthase; Reviewed; Region: guaA; PRK00074 350058003911 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 350058003912 AMP/PPi binding site [chemical binding]; other site 350058003913 candidate oxyanion hole; other site 350058003914 catalytic triad [active] 350058003915 potential glutamine specificity residues [chemical binding]; other site 350058003916 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 350058003917 ATP Binding subdomain [chemical binding]; other site 350058003918 Ligand Binding sites [chemical binding]; other site 350058003919 Dimerization subdomain; other site 350058003920 TENA/THI-4/PQQC family; Region: TENA_THI-4; cl15243 350058003921 Helix-Turn-Helix DNA binding domain of putative transcription regulators from the MerR superfamily; Region: HTH_MerR-like_sg2; cd04778 350058003922 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 350058003923 DNA binding residues [nucleotide binding] 350058003924 putative dimer interface [polypeptide binding]; other site 350058003925 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 350058003926 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 350058003927 classical (c) SDRs; Region: SDR_c; cd05233 350058003928 short chain dehydrogenase; Provisional; Region: PRK05650 350058003929 NAD(P) binding site [chemical binding]; other site 350058003930 active site 350058003931 DNA Polymerase Y-family; Region: PolY_like; cd03468 350058003932 Nucleotidyltransferase/DNA polymerase involved in DNA repair [DNA replication, recombination, and repair]; Region: DinP; COG0389 350058003933 DNA binding site [nucleotide binding] 350058003934 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 350058003935 MarR family; Region: MarR; pfam01047 350058003936 peroxiredoxin, Ohr subfamily; Region: organ_hyd_perox; TIGR03561 350058003937 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 350058003938 active site 350058003939 short chain dehydrogenase; Provisional; Region: PRK07201 350058003940 Pseudomonas fluorescens MupV-like, extended (e) SDRs; Region: MupV_like_SDR_e; cd05263 350058003941 putative NAD(P) binding site [chemical binding]; other site 350058003942 active site 350058003943 putative substrate binding site [chemical binding]; other site 350058003944 classical (c) SDRs; Region: SDR_c; cd05233 350058003945 NAD(P) binding site [chemical binding]; other site 350058003946 active site 350058003947 enoyl-CoA hydratase; Region: PLN02864 350058003948 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 350058003949 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 350058003950 dimer interaction site [polypeptide binding]; other site 350058003951 substrate-binding tunnel; other site 350058003952 active site 350058003953 catalytic site [active] 350058003954 substrate binding site [chemical binding]; other site 350058003955 error-prone DNA polymerase; Validated; Region: dnaE2; PRK05672 350058003956 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 350058003957 active site 350058003958 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 350058003959 generic binding surface II; other site 350058003960 generic binding surface I; other site 350058003961 Helix-turn-helix domain; Region: HTH_38; pfam13936 350058003962 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 350058003963 Integrase core domain; Region: rve; pfam00665 350058003964 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 350058003965 FMN binding site [chemical binding]; other site 350058003966 dimer interface [polypeptide binding]; other site 350058003967 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 350058003968 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 350058003969 S-adenosylmethionine binding site [chemical binding]; other site 350058003970 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 350058003971 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 350058003972 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 350058003973 ATP binding site [chemical binding]; other site 350058003974 Mg2+ binding site [ion binding]; other site 350058003975 G-X-G motif; other site 350058003976 Uncharacterized distant relative of homeotic protein bithoraxoid [General function prediction only]; Region: COG2018 350058003977 Protein of unknown function (DUF742); Region: DUF742; pfam05331 350058003978 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 350058003979 Conserved hypothetical ATP binding protein; Region: ATP_bind_1; pfam03029 350058003980 G2 box; other site 350058003981 Switch I region; other site 350058003982 G3 box; other site 350058003983 Switch II region; other site 350058003984 GTP/Mg2+ binding site [chemical binding]; other site 350058003985 G4 box; other site 350058003986 G5 box; other site 350058003987 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 350058003988 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 350058003989 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 350058003990 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 350058003991 bifunctional nitric oxide dioxygenase/dihydropteridine reductase 2; Provisional; Region: PRK13289 350058003992 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 350058003993 heme-binding site [chemical binding]; other site 350058003994 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 350058003995 FAD binding pocket [chemical binding]; other site 350058003996 FAD binding motif [chemical binding]; other site 350058003997 phosphate binding motif [ion binding]; other site 350058003998 beta-alpha-beta structure motif; other site 350058003999 NAD binding pocket [chemical binding]; other site 350058004000 Heme binding pocket [chemical binding]; other site 350058004001 Transposase zinc-ribbon domain; Region: Zn_Tnp_IS1595; pfam12760 350058004002 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; pfam12762 350058004003 copper exporting ATPase; Provisional; Region: copA; PRK10671 350058004004 FOG: FHA domain [Signal transduction mechanisms]; Region: COG1716 350058004005 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 350058004006 phosphopeptide binding site; other site 350058004007 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 350058004008 FOG: FHA domain [Signal transduction mechanisms]; Region: COG1716 350058004009 phosphopeptide binding site; other site 350058004010 Eye pigment and drug resistance transporter subfamily G of the ATP-binding cassette superfamily; Region: ABCG_EPDR; cd03213 350058004011 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 350058004012 Walker A/P-loop; other site 350058004013 ATP binding site [chemical binding]; other site 350058004014 Q-loop/lid; other site 350058004015 ABC transporter signature motif; other site 350058004016 Walker B; other site 350058004017 D-loop; other site 350058004018 H-loop/switch region; other site 350058004019 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 350058004020 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 350058004021 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 350058004022 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 350058004023 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350058004024 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 350058004025 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 350058004026 active site 350058004027 FMN binding site [chemical binding]; other site 350058004028 substrate binding site [chemical binding]; other site 350058004029 putative catalytic residue [active] 350058004030 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14193 350058004031 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 350058004032 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 350058004033 homodimer interface [polypeptide binding]; other site 350058004034 NADP binding site [chemical binding]; other site 350058004035 substrate binding site [chemical binding]; other site 350058004036 Protein of unknown function (DUF3017); Region: DUF3017; pfam11222 350058004037 Methyltransferase domain; Region: Methyltransf_23; pfam13489 350058004038 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 350058004039 S-adenosylmethionine binding site [chemical binding]; other site 350058004040 homoserine O-acetyltransferase; Provisional; Region: metX; PRK00175 350058004041 homoserine O-acetyltransferase; Region: homoserO_Ac_trn; TIGR01392 350058004042 O-acetylhomoserine aminocarboxypropyltransferase; Validated; Region: PRK07812 350058004043 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 350058004044 homodimer interface [polypeptide binding]; other site 350058004045 substrate-cofactor binding pocket; other site 350058004046 pyridoxal 5'-phosphate binding site [chemical binding]; other site 350058004047 catalytic residue [active] 350058004048 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 350058004049 Neisseria meningitides Nape-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Nape_like_AP-endo; cd10281 350058004050 putative active site [active] 350058004051 putative catalytic site [active] 350058004052 putative DNA binding site [nucleotide binding]; other site 350058004053 putative phosphate binding site [ion binding]; other site 350058004054 metal binding site A [ion binding]; metal-binding site 350058004055 putative AP binding site [nucleotide binding]; other site 350058004056 putative metal binding site B [ion binding]; other site 350058004057 Predicted acetyltransferases and hydrolases with the alpha/beta hydrolase fold [General function prediction only]; Region: LipA; COG1075 350058004058 uncharacterized Actinobacterial protein TIGR03083; Region: TIGR03083 350058004059 TIGR03086 family protein; Region: TIGR03086 350058004060 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 350058004061 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 350058004062 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 350058004063 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 350058004064 active site 350058004065 HIGH motif; other site 350058004066 dimer interface [polypeptide binding]; other site 350058004067 KMSKS motif; other site 350058004068 Virulence factor BrkB; Region: Virul_fac_BrkB; cl07918 350058004069 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 350058004070 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 350058004071 AMP-binding domain protein; Validated; Region: PRK08315 350058004072 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 350058004073 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_2; cd05917 350058004074 acyl-activating enzyme (AAE) consensus motif; other site 350058004075 acyl-activating enzyme (AAE) consensus motif; other site 350058004076 putative AMP binding site [chemical binding]; other site 350058004077 putative active site [active] 350058004078 putative CoA binding site [chemical binding]; other site 350058004079 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 350058004080 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 350058004081 acyl-activating enzyme (AAE) consensus motif; other site 350058004082 AMP binding site [chemical binding]; other site 350058004083 active site 350058004084 CoA binding site [chemical binding]; other site 350058004085 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 350058004086 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 350058004087 DNA binding residues [nucleotide binding] 350058004088 dimerization interface [polypeptide binding]; other site 350058004089 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 350058004090 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 350058004091 Gluconolactonase [Carbohydrate transport and metabolism]; Region: COG3386 350058004092 Strictosidine synthase; Region: Str_synth; pfam03088 350058004093 hypothetical protein; Provisional; Region: PRK06541 350058004094 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 350058004095 inhibitor-cofactor binding pocket; inhibition site 350058004096 pyridoxal 5'-phosphate binding site [chemical binding]; other site 350058004097 catalytic residue [active] 350058004098 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 350058004099 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 350058004100 AsnC family; Region: AsnC_trans_reg; pfam01037 350058004101 gamma-aminobutyraldehyde dehydrogenase; Provisional; Region: PRK13473 350058004102 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 350058004103 NAD(P) binding site [chemical binding]; other site 350058004104 catalytic residues [active] 350058004105 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 350058004106 Ligand Binding Site [chemical binding]; other site 350058004107 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 350058004108 Ligand Binding Site [chemical binding]; other site 350058004109 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 350058004110 RNA polymerase sigma factor SigJ; Provisional; Region: PRK09636 350058004111 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 350058004112 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 350058004113 Uncharacterized conserved protein [Function unknown]; Region: COG2128 350058004114 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 350058004115 MMPL family; Region: MMPL; pfam03176 350058004116 MMPL family; Region: MMPL; pfam03176 350058004117 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 350058004118 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 350058004119 substrate binding pocket [chemical binding]; other site 350058004120 chain length determination region; other site 350058004121 substrate-Mg2+ binding site; other site 350058004122 catalytic residues [active] 350058004123 aspartate-rich region 1; other site 350058004124 active site lid residues [active] 350058004125 aspartate-rich region 2; other site 350058004126 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 350058004127 phytoene desaturase; Region: crtI_fam; TIGR02734 350058004128 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 350058004129 active site lid residues [active] 350058004130 substrate binding pocket [chemical binding]; other site 350058004131 catalytic residues [active] 350058004132 substrate-Mg2+ binding site; other site 350058004133 aspartate-rich region 1; other site 350058004134 aspartate-rich region 2; other site 350058004135 Uncharacterized conserved protein [Function unknown]; Region: COG3349 350058004136 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 350058004137 Streptococcal 67 kDa myosin-cross-reactive antigen like family; Region: Strep_67kDa_ant; cl17487 350058004138 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 350058004139 iron-sulfur cluster [ion binding]; other site 350058004140 [2Fe-2S] cluster binding site [ion binding]; other site 350058004141 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 350058004142 isopentenyl-diphosphate delta-isomerase, type 1; Region: IPP_isom_1; TIGR02150 350058004143 active site 350058004144 metal binding site [ion binding]; metal-binding site 350058004145 nudix motif; other site 350058004146 Transposase IS200 like; Region: Y1_Tnp; pfam01797 350058004147 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 350058004148 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 350058004149 Probable transposase; Region: OrfB_IS605; pfam01385 350058004150 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 350058004151 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 350058004152 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 350058004153 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK08205 350058004154 L-aspartate oxidase; Provisional; Region: PRK06175 350058004155 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 350058004156 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 350058004157 putative Iron-sulfur protein interface [polypeptide binding]; other site 350058004158 putative proximal heme binding site [chemical binding]; other site 350058004159 putative SdhC-like subunit interface [polypeptide binding]; other site 350058004160 putative distal heme binding site [chemical binding]; other site 350058004161 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 350058004162 putative Iron-sulfur protein interface [polypeptide binding]; other site 350058004163 putative proximal heme binding site [chemical binding]; other site 350058004164 putative SdhD-like interface [polypeptide binding]; other site 350058004165 putative distal heme binding site [chemical binding]; other site 350058004166 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 350058004167 active site 350058004168 catalytic motif [active] 350058004169 Zn binding site [ion binding]; other site 350058004170 thymidine phosphorylase; Reviewed; Region: deoA; PRK05820 350058004171 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 350058004172 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 350058004173 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; smart00941 350058004174 adenosine deaminase; Provisional; Region: PRK09358 350058004175 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 350058004176 active site 350058004177 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 350058004178 Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907 350058004179 acyl-activating enzyme (AAE) consensus motif; other site 350058004180 putative AMP binding site [chemical binding]; other site 350058004181 putative active site [active] 350058004182 putative CoA binding site [chemical binding]; other site 350058004183 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 350058004184 Permease; Region: Permease; pfam02405 350058004185 PE-PPE domain; Region: PE-PPE; pfam08237 350058004186 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 350058004187 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 350058004188 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 350058004189 NlpC/P60 family; Region: NLPC_P60; pfam00877 350058004190 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 350058004191 active site 350058004192 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 350058004193 Serine hydrolase; Region: Ser_hydrolase; cl17834 350058004194 Creatinine amidohydrolase; Region: Creatininase; pfam02633 350058004195 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 350058004196 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 350058004197 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 350058004198 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 350058004199 GAF domain; Region: GAF; pfam01590 350058004200 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 350058004201 GAF domain; Region: GAF_3; pfam13492 350058004202 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 350058004203 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 350058004204 choline dehydrogenase; Validated; Region: PRK02106 350058004205 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 350058004206 phosphoglucomutase-2-like protein; Provisional; Region: PTZ00150 350058004207 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 350058004208 active site 350058004209 substrate binding site [chemical binding]; other site 350058004210 metal binding site [ion binding]; metal-binding site 350058004211 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 350058004212 MarR family; Region: MarR_2; cl17246 350058004213 Putative ammonia monooxygenase [General function prediction only]; Region: AbrB; COG3180 350058004214 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 350058004215 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 350058004216 purine nucleoside phosphorylase; Provisional; Region: PRK08202 350058004217 M20 Peptidase Aminoacylase 1-like protein 2-like, amidohydrolase subfamily; Region: M20_ACY1L2_like; cd05672 350058004218 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 350058004219 metal binding site [ion binding]; metal-binding site 350058004220 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 350058004221 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like4; cd08014 350058004222 metal binding site [ion binding]; metal-binding site 350058004223 putative dimer interface [polypeptide binding]; other site 350058004224 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 350058004225 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350058004226 Predicted drug exporters of the RND superfamily [General function prediction only]; Region: COG2409 350058004227 short chain dehydrogenase; Provisional; Region: PRK07806 350058004228 NAD(P) binding site [chemical binding]; other site 350058004229 active site 350058004230 short chain dehydrogenase; Provisional; Region: PRK06500 350058004231 classical (c) SDRs; Region: SDR_c; cd05233 350058004232 NAD(P) binding site [chemical binding]; other site 350058004233 active site 350058004234 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 350058004235 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350058004236 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 350058004237 putative active site pocket [active] 350058004238 dimerization interface [polypeptide binding]; other site 350058004239 putative catalytic residue [active] 350058004240 flavoprotein disulfide reductase; Reviewed; Region: PRK07845 350058004241 Formate/glycerate dehydrogenases, D-specific 2-hydroxy acid dehydrogenases and related dehydrogenases; Region: FDH_GDH_like; cl17240 350058004242 NAD binding site [chemical binding]; other site 350058004243 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 350058004244 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 350058004245 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 350058004246 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GlpA; COG0578 350058004247 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 350058004248 Pseudouridine synthase, a subgroup of the RluA family; Region: PSRA_1; cd02558 350058004249 probable active site [active] 350058004250 Fic/DOC family; Region: Fic; cl00960 350058004251 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 350058004252 classical (c) SDRs; Region: SDR_c; cd05233 350058004253 NAD(P) binding site [chemical binding]; other site 350058004254 active site 350058004255 enoyl-CoA hydratase; Provisional; Region: PRK09245 350058004256 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 350058004257 substrate binding site [chemical binding]; other site 350058004258 oxyanion hole (OAH) forming residues; other site 350058004259 trimer interface [polypeptide binding]; other site 350058004260 DNA-binding transcriptional repressor FabR; Provisional; Region: PRK11202 350058004261 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350058004262 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 350058004263 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 350058004264 FAD binding pocket [chemical binding]; other site 350058004265 FAD binding motif [chemical binding]; other site 350058004266 phosphate binding motif [ion binding]; other site 350058004267 beta-alpha-beta structure motif; other site 350058004268 NAD binding pocket [chemical binding]; other site 350058004269 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 350058004270 catalytic loop [active] 350058004271 iron binding site [ion binding]; other site 350058004272 Fatty acid desaturase [Lipid metabolism]; Region: DesA; COG3239 350058004273 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 350058004274 putative di-iron ligands [ion binding]; other site 350058004275 Formamidopyrimidine-DNA glycosylase [DNA replication, recombination, and repair]; Region: Nei; COG0266 350058004276 N-terminal domain of the actinomycetal Nei2 and related DNA glycosylases; Region: AcNei2_N; cd08971 350058004277 putative DNA binding site [nucleotide binding]; other site 350058004278 catalytic residue [active] 350058004279 putative H2TH interface [polypeptide binding]; other site 350058004280 putative catalytic residues [active] 350058004281 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 350058004282 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 350058004283 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 350058004284 putative ATP-dependent helicase Lhr; Provisional; Region: PRK09751 350058004285 ATP binding site [chemical binding]; other site 350058004286 putative Mg++ binding site [ion binding]; other site 350058004287 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 350058004288 nucleotide binding region [chemical binding]; other site 350058004289 ATP-binding site [chemical binding]; other site 350058004290 DEAD/H associated; Region: DEAD_assoc; pfam08494 350058004291 ATP-dependent transcriptional regulator [Transcription]; Region: MalT; COG2909 350058004292 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 350058004293 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 350058004294 DNA binding residues [nucleotide binding] 350058004295 dimerization interface [polypeptide binding]; other site 350058004296 Dyp-type peroxidase family; Region: Dyp_perox; cl01067 350058004297 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 350058004298 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350058004299 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 350058004300 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 350058004301 classical (c) SDRs; Region: SDR_c; cd05233 350058004302 NAD(P) binding site [chemical binding]; other site 350058004303 active site 350058004304 NAD+-dependent alpha-aminoadipic semialdehyde dehydrogenase, ALDH family members 7A1 and 7B; Region: ALDH_F7_AASADH; cd07130 350058004305 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 350058004306 tetrameric interface [polypeptide binding]; other site 350058004307 NAD binding site [chemical binding]; other site 350058004308 catalytic residues [active] 350058004309 Domain of unknown function (DUF1338); Region: DUF1338; pfam07063 350058004310 helix_turn_helix ASNC type; Region: HTH_ASNC; smart00344 350058004311 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 350058004312 AsnC family; Region: AsnC_trans_reg; pfam01037 350058004313 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 350058004314 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 350058004315 active site 350058004316 phosphorylation site [posttranslational modification] 350058004317 intermolecular recognition site; other site 350058004318 dimerization interface [polypeptide binding]; other site 350058004319 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 350058004320 DNA binding residues [nucleotide binding] 350058004321 dimerization interface [polypeptide binding]; other site 350058004322 HAMP domain; Region: HAMP; pfam00672 350058004323 dimerization interface [polypeptide binding]; other site 350058004324 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 350058004325 Histidine kinase; Region: HisKA_3; pfam07730 350058004326 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 350058004327 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; smart00831 350058004328 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 350058004329 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 350058004330 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 350058004331 motif II; other site 350058004332 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 350058004333 universal stress protein UspE; Provisional; Region: PRK11175 350058004334 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 350058004335 Ligand Binding Site [chemical binding]; other site 350058004336 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 350058004337 Ligand Binding Site [chemical binding]; other site 350058004338 ATPase, P-type (transporting), HAD superfamily, subfamily IC; Region: ATPase_P-type; TIGR01494 350058004339 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 350058004340 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 350058004341 L-lysine aminotransferase; Provisional; Region: PRK08297 350058004342 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 350058004343 inhibitor-cofactor binding pocket; inhibition site 350058004344 pyridoxal 5'-phosphate binding site [chemical binding]; other site 350058004345 catalytic residue [active] 350058004346 Restriction endonuclease; Region: Mrr_cat; pfam04471 350058004347 CsbD-like; Region: CsbD; cl17424 350058004348 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 350058004349 Anti-sigma regulatory factor (Ser/Thr protein kinase) [Signal transduction mechanisms]; Region: RsbW; COG2172 350058004350 RNA polymerase sigma factor SigF; Reviewed; Region: PRK07122 350058004351 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 350058004352 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 350058004353 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 350058004354 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 350058004355 anti sigma factor interaction site; other site 350058004356 regulatory phosphorylation site [posttranslational modification]; other site 350058004357 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 350058004358 active site 350058004359 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 350058004360 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 350058004361 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 350058004362 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 350058004363 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 350058004364 carboxyltransferase (CT) interaction site; other site 350058004365 biotinylation site [posttranslational modification]; other site 350058004366 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 350058004367 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 350058004368 metal binding site [ion binding]; metal-binding site 350058004369 active site 350058004370 I-site; other site 350058004371 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 350058004372 Sensory domain found in DIguanylate Cyclases & Two-component systems; Region: DICT; pfam10069 350058004373 Fe-S metabolism associated domain; Region: SufE; cl00951 350058004374 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 350058004375 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 350058004376 active site residue [active] 350058004377 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 350058004378 active site residue [active] 350058004379 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 350058004380 Maf-like protein; Region: Maf; pfam02545 350058004381 Nucleotide binding protein Maf. Maf has been implicated in inhibition of septum formation in eukaryotes, bacteria and archaea, but homologs in B.subtilis and S.cerevisiae are nonessential for cell division. Maf has been predicted to be a nucleotide- or...; Region: Maf; cd00555 350058004382 active site 350058004383 dimer interface [polypeptide binding]; other site 350058004384 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 350058004385 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 350058004386 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 350058004387 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 350058004388 putative catalytic site [active] 350058004389 putative phosphate binding site [ion binding]; other site 350058004390 putative metal binding site [ion binding]; other site 350058004391 Protein of unknown function (DUF4012); Region: DUF4012; pfam13196 350058004392 Capsular polysaccharide biosynthesis protein [Cell envelope biogenesis, outer membrane]; Region: COG3944 350058004393 Chain length determinant protein; Region: Wzz; cl15801 350058004394 capsular exopolysaccharide family; Region: eps_fam; TIGR01007 350058004395 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 350058004396 sugar transferase, PEP-CTERM/EpsH1 system associated; Region: stp1; TIGR03087 350058004397 Glycosyl transferases group 1; Region: Glyco_trans_1_4; pfam13692 350058004398 2-desacetyl-2-hydroxyethyl bacteriochlorophyllide and other MDR family members; Region: 2-desacetyl-2-hydroxyethyl_bacteriochlorophyllide_; cd08255 350058004399 putative NAD(P) binding site [chemical binding]; other site 350058004400 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 350058004401 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 350058004402 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 350058004403 Heparinase II/III-like protein; Region: Hepar_II_III; cl15421 350058004404 Heparinase II/III-like protein; Region: Hepar_II_III; pfam07940 350058004405 Helix-turn-helix domain; Region: HTH_28; pfam13518 350058004406 Winged helix-turn helix; Region: HTH_29; pfam13551 350058004407 Homeodomain-like domain; Region: HTH_32; pfam13565 350058004408 Integrase core domain; Region: rve; pfam00665 350058004409 Mu transposase, C-terminal; Region: Mu-transpos_C; pfam09299 350058004410 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 350058004411 AAA domain; Region: AAA_22; pfam13401 350058004412 ATP-binding site [chemical binding]; other site 350058004413 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 350058004414 Transposase; Region: HTH_Tnp_1; pfam01527 350058004415 putative transposase OrfB; Reviewed; Region: PHA02517 350058004416 HTH-like domain; Region: HTH_21; pfam13276 350058004417 Integrase core domain; Region: rve; pfam00665 350058004418 Integrase core domain; Region: rve_3; pfam13683 350058004419 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 350058004420 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 350058004421 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 350058004422 UDP-N-acetyl-D-mannosaminuronate dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: WecC; COG0677 350058004423 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 350058004424 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 350058004425 Methyltransferase domain; Region: Methyltransf_23; pfam13489 350058004426 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 350058004427 S-adenosylmethionine binding site [chemical binding]; other site 350058004428 Low molecular weight phosphatase family; Region: LMWPc; cl00105 350058004429 exopolysaccharide biosynthesis polyprenyl glycosylphosphotransferase; Region: EPS_sugtrans; TIGR03025 350058004430 Bacterial sugar transferase; Region: Bac_transf; pfam02397 350058004431 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 350058004432 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 350058004433 catalytic residue [active] 350058004434 putative FPP diphosphate binding site; other site 350058004435 putative FPP binding hydrophobic cleft; other site 350058004436 dimer interface [polypeptide binding]; other site 350058004437 putative IPP diphosphate binding site; other site 350058004438 hypothetical protein; Provisional; Region: PRK07208 350058004439 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 350058004440 Bacterial PH domain; Region: DUF304; pfam03703 350058004441 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 350058004442 putative active site [active] 350058004443 Plasmid stability protein [General function prediction only]; Region: StbC; COG4691 350058004444 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 350058004445 oligomeric interface; other site 350058004446 putative active site [active] 350058004447 homodimer interface [polypeptide binding]; other site 350058004448 Predicted membrane protein [Function unknown]; Region: COG2246 350058004449 GtrA-like protein; Region: GtrA; pfam04138 350058004450 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 350058004451 ATP-grasp domain; Region: ATP-grasp; pfam02222 350058004452 Phosphoribosylcarboxyaminoimidazole (NCAIR) mutase [Nucleotide transport and metabolism]; Region: PurE; COG0041 350058004453 Antitoxin of toxin-antitoxin stability system [Cell division and chromosome partitioning]; Region: Phd; COG4118 350058004454 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 350058004455 putative active site [active] 350058004456 CHAP domain; Region: CHAP; cl17642 350058004457 Bacterial SH3 domain; Region: SH3_5; pfam08460 350058004458 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 350058004459 Short chain acyl-CoA dehydrogenases and eukaryotic short/branched chain acyl-CoA dehydrogenases; Region: SCAD_SBCAD; cd01158 350058004460 FAD binding site [chemical binding]; other site 350058004461 homotetramer interface [polypeptide binding]; other site 350058004462 substrate binding pocket [chemical binding]; other site 350058004463 catalytic base [active] 350058004464 Uncharacterized conserved protein [Function unknown]; Region: COG3391 350058004465 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 350058004466 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 350058004467 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 350058004468 TIGR03089 family protein; Region: TIGR03089 350058004469 Transcriptional regulator [Transcription]; Region: LytR; COG1316 350058004470 LytR cell envelope-related transcriptional attenuator; Region: LytR_C; pfam13399 350058004471 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 350058004472 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 350058004473 NADP binding site [chemical binding]; other site 350058004474 active site 350058004475 putative substrate binding site [chemical binding]; other site 350058004476 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 350058004477 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 350058004478 Probable Catalytic site; other site 350058004479 metal-binding site 350058004480 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 350058004481 NTP_transferases catalyze the transfer of nucleotides onto phosphosugars; Region: NTP_transferase; cd04181 350058004482 active site 350058004483 Substrate binding site; other site 350058004484 Mg++ binding site; other site 350058004485 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 350058004486 dimer interface [polypeptide binding]; other site 350058004487 N-terminal domain interface [polypeptide binding]; other site 350058004488 sulfate 1 binding site; other site 350058004489 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 350058004490 nudix motif; other site 350058004491 F420-0--gamma-glutamyl ligase; Provisional; Region: PRK13294 350058004492 F420-0:Gamma-glutamyl ligase; Region: F420_ligase; cl00644 350058004493 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 350058004494 putative FMN binding site [chemical binding]; other site 350058004495 LPPG:FO 2-phospho-L-lactate transferase; important in F420 biosynthesis; Region: CofD_like; cd07186 350058004496 Uncharacterized protein family UPF0052; Region: UPF0052; pfam01933 350058004497 dimer interface [polypeptide binding]; other site 350058004498 substrate binding site [chemical binding]; other site 350058004499 phosphate binding site [ion binding]; other site 350058004500 Transcription factor WhiB; Region: Whib; pfam02467 350058004501 Minimal MMP-like domain found in a group of hypothetical proteins from alphaproteobacteria and actinobacteria; Region: MMP_TTHA0227_like_1; cd12954 350058004502 Protein of unknown function (DUF3499); Region: DUF3499; pfam12005 350058004503 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 350058004504 phosphomannomutase/phosphoglucomutase; Reviewed; Region: manB; PRK09542 350058004505 active site 350058004506 substrate binding site [chemical binding]; other site 350058004507 metal binding site [ion binding]; metal-binding site 350058004508 mannose-6-phosphate isomerase; Provisional; Region: PRK15131 350058004509 Alpha-Mannosidase Binding Domain of Atg19/34; Region: ABD; cl15429 350058004510 Alpha-Mannosidase Binding Domain of Atg19/34; Region: ABD; cl15429 350058004511 amino acid transporter; Region: 2A0306; TIGR00909 350058004512 C-terminus of AA_permease; Region: AA_permease_C; pfam13906 350058004513 Transcription factor WhiB; Region: Whib; pfam02467 350058004514 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 350058004515 Fatty acid desaturase; Region: FA_desaturase; pfam00487 350058004516 Di-iron ligands [ion binding]; other site 350058004517 Rubredoxin [Energy production and conversion]; Region: COG1773 350058004518 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 350058004519 iron binding site [ion binding]; other site 350058004520 Rubredoxin [Energy production and conversion]; Region: COG1773 350058004521 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 350058004522 iron binding site [ion binding]; other site 350058004523 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 350058004524 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350058004525 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 350058004526 S-Adenosylhomocysteine Hydrolase, NAD-binding and catalytic domains; Region: SAHH; cd00401 350058004527 homotetramer interface [polypeptide binding]; other site 350058004528 ligand binding site [chemical binding]; other site 350058004529 catalytic site [active] 350058004530 NAD binding site [chemical binding]; other site 350058004531 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 350058004532 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 350058004533 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 350058004534 TMP-binding site; other site 350058004535 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 350058004536 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 350058004537 active site 350058004538 phosphorylation site [posttranslational modification] 350058004539 intermolecular recognition site; other site 350058004540 dimerization interface [polypeptide binding]; other site 350058004541 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 350058004542 DNA binding site [nucleotide binding] 350058004543 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 350058004544 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 350058004545 dimerization interface [polypeptide binding]; other site 350058004546 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 350058004547 dimer interface [polypeptide binding]; other site 350058004548 phosphorylation site [posttranslational modification] 350058004549 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 350058004550 ATP binding site [chemical binding]; other site 350058004551 Mg2+ binding site [ion binding]; other site 350058004552 G-X-G motif; other site 350058004553 lipoprotein LpqB; Provisional; Region: PRK13616 350058004554 Sporulation and spore germination; Region: Germane; pfam10646 350058004555 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 350058004556 iron-sulfur cluster [ion binding]; other site 350058004557 [2Fe-2S] cluster binding site [ion binding]; other site 350058004558 Proteins of 100 residues with WXG; Region: WXG100; pfam06013 350058004559 Transposase [DNA replication, recombination, and repair]; Region: COG5421 350058004560 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 350058004561 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 350058004562 30S subunit binding site; other site 350058004563 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 350058004564 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 350058004565 ATP binding site [chemical binding]; other site 350058004566 putative Mg++ binding site [ion binding]; other site 350058004567 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 350058004568 acyltransferase, WS/DGAT/MGAT; Region: acyl_WS_DGAT; TIGR02946 350058004569 Wax ester synthase-like Acyl-CoA acyltransferase domain; Region: WES_acyltransf; pfam03007 350058004570 Protein of unknown function (DUF1298); Region: DUF1298; pfam06974 350058004571 BCCT family transporter; Region: BCCT; pfam02028 350058004572 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 350058004573 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 350058004574 FAD binding pocket [chemical binding]; other site 350058004575 FAD binding motif [chemical binding]; other site 350058004576 phosphate binding motif [ion binding]; other site 350058004577 beta-alpha-beta structure motif; other site 350058004578 NAD binding pocket [chemical binding]; other site 350058004579 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 350058004580 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 350058004581 catalytic loop [active] 350058004582 iron binding site [ion binding]; other site 350058004583 Fatty acid desaturase [Lipid metabolism]; Region: DesA; COG3239 350058004584 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 350058004585 putative di-iron ligands [ion binding]; other site 350058004586 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 350058004587 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 350058004588 active site 350058004589 catalytic tetrad [active] 350058004590 Predicted GTPases [General function prediction only]; Region: COG1162 350058004591 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 350058004592 GTPase/Zn-binding domain interface [polypeptide binding]; other site 350058004593 GTP/Mg2+ binding site [chemical binding]; other site 350058004594 G4 box; other site 350058004595 G5 box; other site 350058004596 G1 box; other site 350058004597 Switch I region; other site 350058004598 G2 box; other site 350058004599 G3 box; other site 350058004600 Switch II region; other site 350058004601 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 350058004602 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 350058004603 hinge; other site 350058004604 active site 350058004605 Uncharacterized conserved protein [Function unknown]; Region: COG2135 350058004606 Methylase of polypeptide chain release factors [Translation, ribosomal structure and biogenesis]; Region: HemK; COG2890 350058004607 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 350058004608 S-adenosylmethionine binding site [chemical binding]; other site 350058004609 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 350058004610 Uncharacterized conserved protein (COG2071); Region: DUF2071; cl01329 350058004611 short chain dehydrogenase; Provisional; Region: PRK08278 350058004612 human hydroxysteroid dehydrogenase-like protein 2 (HSDL2), classical (c) SDRs; Region: HSDL2_SDR_c; cd09762 350058004613 NAD(P) binding site [chemical binding]; other site 350058004614 homodimer interface [polypeptide binding]; other site 350058004615 active site 350058004616 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 350058004617 putative deacylase active site [active] 350058004618 RNA polymerase sigma-70 factor, TIGR02947 family; Region: SigH_actino 350058004619 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 350058004620 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 350058004621 DNA binding residues [nucleotide binding] 350058004622 mycothiol system anti-sigma-R factor; Region: antisig_RsrA; TIGR03988 350058004623 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 350058004624 carboxyltransferase (CT) interaction site; other site 350058004625 biotinylation site [posttranslational modification]; other site 350058004626 Signal transduction histidine kinase; Region: H_kinase_N; pfam12282 350058004627 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 350058004628 Histidine kinase; Region: HisKA_2; pfam07568 350058004629 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 350058004630 ATP binding site [chemical binding]; other site 350058004631 Mg2+ binding site [ion binding]; other site 350058004632 G-X-G motif; other site 350058004633 Transcription factor WhiB; Region: Whib; pfam02467 350058004634 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]; Region: LCB5; COG1597 350058004635 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 350058004636 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 350058004637 Dehydroquinase class II; Region: DHquinase_II; pfam01220 350058004638 active site 350058004639 trimer interface [polypeptide binding]; other site 350058004640 dimer interface [polypeptide binding]; other site 350058004641 Histone acetyltransferase HPA2 and related acetyltransferases [Transcription / General function prediction only]; Region: WecD; COG0454 350058004642 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 350058004643 Coenzyme A binding pocket [chemical binding]; other site 350058004644 isochorismate synthase DhbC; Validated; Region: PRK06923 350058004645 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 350058004646 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 350058004647 catalytic core [active] 350058004648 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 350058004649 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 350058004650 P-loop; other site 350058004651 Magnesium ion binding site [ion binding]; other site 350058004652 transport-energizing ATPase, TRC40/GET3/ArsA family; Region: GET3_arsA_TRC40; TIGR00345 350058004653 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 350058004654 Magnesium ion binding site [ion binding]; other site 350058004655 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 350058004656 DEAD-like helicases superfamily; Region: DEXDc; smart00487 350058004657 ATP binding site [chemical binding]; other site 350058004658 Mg++ binding site [ion binding]; other site 350058004659 motif III; other site 350058004660 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 350058004661 nucleotide binding region [chemical binding]; other site 350058004662 ATP-binding site [chemical binding]; other site 350058004663 tRNA-(MS[2]IO[6]A)-hydroxylase (MiaE)-like; Region: MiaE_2; pfam13794 350058004664 Protein of unknown function (DUF3107); Region: DUF3107; pfam11305 350058004665 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 350058004666 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350058004667 Protein of unknown function (DUF3152); Region: DUF3152; pfam11350 350058004668 molybdopterin biosynthesis-like protein MoeZ; Validated; Region: PRK07878 350058004669 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 350058004670 ATP binding site [chemical binding]; other site 350058004671 substrate interface [chemical binding]; other site 350058004672 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 350058004673 active site residue [active] 350058004674 TIGR02569 family protein; Region: TIGR02569_actnb 350058004675 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 350058004676 active site 350058004677 DNA binding site [nucleotide binding] 350058004678 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 350058004679 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 350058004680 catalytic site [active] 350058004681 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 350058004682 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 350058004683 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 350058004684 Part of AAA domain; Region: AAA_19; pfam13245 350058004685 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 350058004686 Predicted membrane protein [Function unknown]; Region: COG4270 350058004687 Ion channel; Region: Ion_trans_2; pfam07885 350058004688 Kef-type K+ transport systems, predicted NAD-binding component [Inorganic ion transport and metabolism]; Region: Kch; COG1226 350058004689 TrkA-N domain; Region: TrkA_N; pfam02254 350058004690 NADH pyrophosphatase; Reviewed; Region: nudC; PRK00241 350058004691 NADH pyrophosphatase-like rudimentary NUDIX domain; Region: NUDIX-like; pfam09296 350058004692 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 350058004693 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 350058004694 putative NADH binding site [chemical binding]; other site 350058004695 putative active site [active] 350058004696 nudix motif; other site 350058004697 putative metal binding site [ion binding]; other site 350058004698 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 350058004699 catalytic residues [active] 350058004700 UvrD/REP helicase N-terminal domain; Region: UvrD-helicase; pfam00580 350058004701 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 350058004702 Family description; Region: UvrD_C_2; pfam13538 350058004703 HRDC domain; Region: HRDC; pfam00570 350058004704 Transcription factor WhiB; Region: Whib; pfam02467 350058004705 Predicted unusual protein kinase [General function prediction only]; Region: AarF; COG0661 350058004706 ABC1 family; Region: ABC1; pfam03109 350058004707 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 350058004708 active site 350058004709 ATP binding site [chemical binding]; other site 350058004710 bacteriocin biosynthesis cyclodehydratase domain; Region: cyclo_dehyd_2; TIGR03882 350058004711 uncharacterized protein, coenzyme F420 biosynthesis associated; Region: DUF2342_F420; TIGR03883 350058004712 Uncharacterized conserved protein (DUF2342); Region: DUF2342; pfam10103 350058004713 Predicted secreted protein containing a PDZ domain [Signal transduction mechanisms]; Region: SdrC; COG3480 350058004714 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 350058004715 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 350058004716 Uncharacterized conserved protein [Function unknown]; Region: COG1615; cl09133 350058004717 hypothetical protein; Validated; Region: PRK00068 350058004718 Uncharacterized conserved protein [Function unknown]; Region: COG1615; cl09133 350058004719 Transcriptional regulatory protein, C terminal; Region: Trans_reg_C; smart00862 350058004720 DNA binding site [nucleotide binding] 350058004721 Bacterial transcriptional activator domain; Region: BTAD; smart01043 350058004722 AAA ATPase domain; Region: AAA_16; pfam13191 350058004723 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 350058004724 FAD binding domain; Region: FAD_binding_4; pfam01565 350058004725 heat shock protein 90; Provisional; Region: PRK05218 350058004726 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 350058004727 ATP binding site [chemical binding]; other site 350058004728 Mg2+ binding site [ion binding]; other site 350058004729 G-X-G motif; other site 350058004730 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 350058004731 phosphoenolpyruvate synthase; Validated; Region: PRK06241 350058004732 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl17700 350058004733 probable F420-dependent oxidoreductase, Rv3520c family; Region: F420_Rv3520c; TIGR03559 350058004734 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 350058004735 Protein of unknown function (DUF2424); Region: DUF2424; pfam10340 350058004736 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 350058004737 hypothetical protein; Provisional; Region: PRK06062 350058004738 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 350058004739 inhibitor-cofactor binding pocket; inhibition site 350058004740 pyridoxal 5'-phosphate binding site [chemical binding]; other site 350058004741 catalytic residue [active] 350058004742 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 350058004743 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 350058004744 tetrameric interface [polypeptide binding]; other site 350058004745 NAD binding site [chemical binding]; other site 350058004746 catalytic residues [active] 350058004747 Purine catabolism regulatory protein-like family; Region: PucR; pfam07905 350058004748 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 350058004749 Domain of unknown function DUF302; Region: DUF302; pfam03625 350058004750 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 350058004751 putative homotetramer interface [polypeptide binding]; other site 350058004752 putative homodimer interface [polypeptide binding]; other site 350058004753 putative allosteric switch controlling residues; other site 350058004754 putative metal binding site [ion binding]; other site 350058004755 putative homodimer-homodimer interface [polypeptide binding]; other site 350058004756 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 350058004757 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 350058004758 active site residue [active] 350058004759 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 350058004760 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 350058004761 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 350058004762 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 350058004763 active site residue [active] 350058004764 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 350058004765 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 350058004766 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 350058004767 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 350058004768 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 350058004769 catalytic residues [active] 350058004770 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 350058004771 dimer interface [polypeptide binding]; other site 350058004772 phosphorylation site [posttranslational modification] 350058004773 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 350058004774 ATP binding site [chemical binding]; other site 350058004775 Mg2+ binding site [ion binding]; other site 350058004776 G-X-G motif; other site 350058004777 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 350058004778 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 350058004779 active site 350058004780 phosphorylation site [posttranslational modification] 350058004781 intermolecular recognition site; other site 350058004782 dimerization interface [polypeptide binding]; other site 350058004783 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 350058004784 DNA binding site [nucleotide binding] 350058004785 MspA; Region: MspA; pfam09203 350058004786 Protein of unknown function (DUF4239); Region: DUF4239; pfam14023 350058004787 PE-PPE domain; Region: PE-PPE; pfam08237 350058004788 Helix-turn-helix domain; Region: HTH_18; pfam12833 350058004789 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 350058004790 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 350058004791 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 350058004792 NAD(P) binding site [chemical binding]; other site 350058004793 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 350058004794 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 350058004795 Pyrimidine reductase, riboflavin biosynthesis [Coenzyme metabolism]; Region: RibD; COG1985 350058004796 RibD C-terminal domain; Region: RibD_C; cl17279 350058004797 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 350058004798 Mycobacterium tuberculosis succinate-semialdehyde dehydrogenase 1-like; Region: ALDH_SSADH1_GabD1; cd07100 350058004799 NAD(P) binding site [chemical binding]; other site 350058004800 catalytic residues [active] 350058004801 permease, urea carboxylase system; Region: ureacarb_perm; TIGR03428 350058004802 Transcriptional regulators [Transcription]; Region: FadR; COG2186 350058004803 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 350058004804 DNA-binding site [nucleotide binding]; DNA binding site 350058004805 Cache domain; Region: Cache_1; pfam02743 350058004806 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 350058004807 Cytochrome P450; Region: p450; cl12078 350058004808 Protein of unknown function (DUF1271); Region: DUF1271; cl01443 350058004809 4Fe-4S single cluster domain; Region: Fer4_15; pfam13459 350058004810 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 350058004811 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 350058004812 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 350058004813 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 350058004814 substrate binding pocket [chemical binding]; other site 350058004815 membrane-bound complex binding site; other site 350058004816 hinge residues; other site 350058004817 Predicted glutamine amidotransferases [General function prediction only]; Region: COG2071 350058004818 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 350058004819 catalytic triad [active] 350058004820 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 350058004821 conserved cys residue [active] 350058004822 Purine catabolism regulatory protein-like family; Region: PucR; pfam07905 350058004823 Regulator of polyketide synthase expression [Signal transduction mechanisms / Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2508 350058004824 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 350058004825 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 350058004826 CoA-transferase family III; Region: CoA_transf_3; pfam02515 350058004827 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 350058004828 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 350058004829 NAD(P) binding site [chemical binding]; other site 350058004830 catalytic residues [active] 350058004831 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 350058004832 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 350058004833 active site 350058004834 4-aminobutyrate aminotransferase; Provisional; Region: PRK06058 350058004835 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 350058004836 inhibitor-cofactor binding pocket; inhibition site 350058004837 pyridoxal 5'-phosphate binding site [chemical binding]; other site 350058004838 catalytic residue [active] 350058004839 Isochorismatase family; Region: Isochorismatase; pfam00857 350058004840 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 350058004841 catalytic triad [active] 350058004842 conserved cis-peptide bond; other site 350058004843 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 350058004844 classical (c) SDRs; Region: SDR_c; cd05233 350058004845 NAD(P) binding site [chemical binding]; other site 350058004846 active site 350058004847 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 350058004848 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 350058004849 AAA ATPase domain; Region: AAA_16; pfam13191 350058004850 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 350058004851 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 350058004852 DNA binding residues [nucleotide binding] 350058004853 dimerization interface [polypeptide binding]; other site 350058004854 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 350058004855 Quinone oxidoreductase (QOR); Region: QOR1; cd08241 350058004856 NAD(P) binding site [chemical binding]; other site 350058004857 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 350058004858 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 350058004859 Monoamine oxidase [Amino acid transport and metabolism]; Region: COG1231 350058004860 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 350058004861 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 350058004862 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 350058004863 putative active site [active] 350058004864 putative substrate binding site [chemical binding]; other site 350058004865 ATP binding site [chemical binding]; other site 350058004866 Phosphotransferase enzyme family; Region: APH; pfam01636 350058004867 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 350058004868 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350058004869 enoyl-CoA hydratase; Provisional; Region: PRK06190 350058004870 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 350058004871 substrate binding site [chemical binding]; other site 350058004872 oxyanion hole (OAH) forming residues; other site 350058004873 trimer interface [polypeptide binding]; other site 350058004874 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 350058004875 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 350058004876 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 350058004877 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 350058004878 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 350058004879 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 350058004880 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 350058004881 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 350058004882 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 350058004883 NADH dehydrogenase subunit J; Provisional; Region: PRK06433 350058004884 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 350058004885 4Fe-4S binding domain; Region: Fer4; pfam00037 350058004886 4Fe-4S binding domain; Region: Fer4; pfam00037 350058004887 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 350058004888 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 350058004889 NADH dehydrogenase subunit G; Validated; Region: PRK07860 350058004890 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 350058004891 catalytic loop [active] 350058004892 iron binding site [ion binding]; other site 350058004893 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 350058004894 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 350058004895 molybdopterin cofactor binding site; other site 350058004896 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 350058004897 NADH-quinone oxidoreductase, F subunit; Region: nuoF_fam; TIGR01959 350058004898 SLBB domain; Region: SLBB; pfam10531 350058004899 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; pfam10589 350058004900 NADH dehydrogenase subunit E; Validated; Region: PRK07539 350058004901 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 350058004902 putative dimer interface [polypeptide binding]; other site 350058004903 [2Fe-2S] cluster binding site [ion binding]; other site 350058004904 NADH dehydrogenase I, D subunit; Region: NuoD; TIGR01962 350058004905 NADH dehydrogenase subunit D; Validated; Region: PRK06075 350058004906 NADH dehydrogenase subunit C; Provisional; Region: PRK07785 350058004907 NADH (or F420H2) dehydrogenase, subunit C; Region: NuoC_fam; TIGR01961 350058004908 NADH dehydrogenase subunit B; Validated; Region: PRK06411 350058004909 NADH dehydrogenase subunit A; Validated; Region: PRK07928 350058004910 Response regulator receiver domain; Region: Response_reg; pfam00072 350058004911 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 350058004912 active site 350058004913 phosphorylation site [posttranslational modification] 350058004914 intermolecular recognition site; other site 350058004915 dimerization interface [polypeptide binding]; other site 350058004916 Methyltransferase domain; Region: Methyltransf_31; pfam13847 350058004917 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 350058004918 S-adenosylmethionine binding site [chemical binding]; other site 350058004919 Streptogramin lyase [Defense mechanisms]; Region: Vgb; COG4257 350058004920 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 350058004921 putative active site [active] 350058004922 putative substrate binding site [chemical binding]; other site 350058004923 ATP binding site [chemical binding]; other site 350058004924 Phosphotransferase enzyme family; Region: APH; pfam01636 350058004925 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 350058004926 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 350058004927 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 350058004928 active site 350058004929 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 350058004930 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350058004931 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 350058004932 active site 350058004933 catalytic residues [active] 350058004934 metal binding site [ion binding]; metal-binding site 350058004935 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 350058004936 CoA-transferase family III; Region: CoA_transf_3; pfam02515 350058004937 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 350058004938 homogentisate 1,2-dioxygenase; Region: HgmA; cl17306 350058004939 Domain of unknown function (DUF385); Region: DUF385; pfam04075 350058004940 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 350058004941 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 350058004942 active site 350058004943 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 350058004944 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350058004945 Putative esterase; Region: Esterase; pfam00756 350058004946 Yhdh putative quinone oxidoreductases; Region: MDR_yhdh; cd08288 350058004947 putative quinone oxidoreductase, YhdH/YhfP family; Region: oxido_YhdH; TIGR02823 350058004948 NADP binding site [chemical binding]; other site 350058004949 dimer interface [polypeptide binding]; other site 350058004950 cyclase homology domain; Region: CHD; cd07302 350058004951 nucleotidyl binding site; other site 350058004952 metal binding site [ion binding]; metal-binding site 350058004953 dimer interface [polypeptide binding]; other site 350058004954 Predicted ATPase [General function prediction only]; Region: COG3899 350058004955 AAA ATPase domain; Region: AAA_16; pfam13191 350058004956 Glycosyl transferases, related to UDP-glucuronosyltransferase [Carbohydrate transport and metabolism / Signal transduction mechanisms]; Region: COG1819 350058004957 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 350058004958 active site 350058004959 TDP-binding site; other site 350058004960 acceptor substrate-binding pocket; other site 350058004961 homodimer interface [polypeptide binding]; other site 350058004962 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 350058004963 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 350058004964 active site 350058004965 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 350058004966 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 350058004967 active site 350058004968 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 350058004969 Predominantly bacterial family of Mg++ dependend phosphatases, related to inositol monophosphatases. These enzymes may dephosphorylate fructose-1,6-bisphosphate, inositol monophospate, 3'-phosphoadenosine-5'-phosphate, or similar substrates; Region: Bacterial_IMPase_like_1; cd01641 350058004970 active site 350058004971 ferredoxin-NADP+ reductase; Region: PLN02852 350058004972 peptide chain release factor 2; Validated; Region: prfB; PRK00578 350058004973 This domain is found in peptide chain release factors; Region: PCRF; smart00937 350058004974 RF-1 domain; Region: RF-1; pfam00472 350058004975 Mechanosensitive ion channel; Region: MS_channel; pfam00924 350058004976 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 350058004977 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 350058004978 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 350058004979 Walker A/P-loop; other site 350058004980 ATP binding site [chemical binding]; other site 350058004981 Q-loop/lid; other site 350058004982 ABC transporter signature motif; other site 350058004983 Walker B; other site 350058004984 D-loop; other site 350058004985 H-loop/switch region; other site 350058004986 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 350058004987 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 350058004988 FtsX-like permease family; Region: FtsX; pfam02687 350058004989 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 350058004990 SmpB-tmRNA interface; other site 350058004991 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 350058004992 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 350058004993 metal binding site [ion binding]; metal-binding site 350058004994 active site 350058004995 I-site; other site 350058004996 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 350058004997 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 350058004998 Helix-Turn-Helix DNA binding domain of the transcription regulators TipAL, Mta, and SkgA; Region: HTH_TipAL-Mta; cd01106 350058004999 DNA binding residues [nucleotide binding] 350058005000 dimer interface [polypeptide binding]; other site 350058005001 TipAS antibiotic-recognition domain; Region: TipAS; pfam07739 350058005002 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 350058005003 NAD(P) binding site [chemical binding]; other site 350058005004 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 350058005005 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 350058005006 active site 350058005007 Cupin; Region: Cupin_1; smart00835 350058005008 Cupin; Region: Cupin_1; smart00835 350058005009 Protein of unknown function (DUF2993); Region: DUF2993; pfam11209 350058005010 Cutinase; Region: Cutinase; pfam01083 350058005011 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 350058005012 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 350058005013 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 350058005014 atypical (a) SDRs, subgroup 7; Region: SDR_a7; cd05262 350058005015 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 350058005016 putative NAD(P) binding site [chemical binding]; other site 350058005017 mycofactocin system transcriptional regulator; Region: mycofact_TetR; TIGR03968 350058005018 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350058005019 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 350058005020 AAA ATPase domain; Region: AAA_16; pfam13191 350058005021 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 350058005022 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 350058005023 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 350058005024 DNA binding residues [nucleotide binding] 350058005025 dimerization interface [polypeptide binding]; other site 350058005026 Protein of unknown function (DUF4242); Region: DUF4242; pfam14026 350058005027 PAS domain; Region: PAS_9; pfam13426 350058005028 GAF domain; Region: GAF_3; pfam13492 350058005029 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 350058005030 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 350058005031 dimer interface [polypeptide binding]; other site 350058005032 phosphorylation site [posttranslational modification] 350058005033 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 350058005034 ATP binding site [chemical binding]; other site 350058005035 Mg2+ binding site [ion binding]; other site 350058005036 G-X-G motif; other site 350058005037 Response regulator receiver domain; Region: Response_reg; pfam00072 350058005038 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 350058005039 active site 350058005040 phosphorylation site [posttranslational modification] 350058005041 intermolecular recognition site; other site 350058005042 dimerization interface [polypeptide binding]; other site 350058005043 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 350058005044 putative active site [active] 350058005045 heme pocket [chemical binding]; other site 350058005046 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 350058005047 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 350058005048 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 350058005049 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 350058005050 anti sigma factor interaction site; other site 350058005051 regulatory phosphorylation site [posttranslational modification]; other site 350058005052 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 350058005053 nucleotide binding site [chemical binding]; other site 350058005054 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 350058005055 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 350058005056 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 350058005057 Predicted drug exporters of the RND superfamily [General function prediction only]; Region: COG2409 350058005058 Rifin/stevor family; Region: Rifin_STEVOR; cl14106 350058005059 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 350058005060 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 350058005061 motif II; other site 350058005062 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2354 350058005063 Acetyltransferase (GNAT) domain; Region: Acetyltransf_8; pfam13523 350058005064 Siderophore biosynthesis protein domain; Region: AlcB; smart01006 350058005065 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 350058005066 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 350058005067 active site 350058005068 long-chain-fatty-acid--[acyl-carrier-protein] ligase; Validated; Region: PRK05851 350058005069 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 350058005070 acyl-activating enzyme (AAE) consensus motif; other site 350058005071 AMP binding site [chemical binding]; other site 350058005072 active site 350058005073 CoA binding site [chemical binding]; other site 350058005074 Phosphopantetheine attachment site; Region: PP-binding; cl09936 350058005075 Uncharacterized ACR, COG1993; Region: DUF190; cl00872 350058005076 Uncharacterized ACR, COG1993; Region: DUF190; cl00872 350058005077 camphor resistance protein CrcB; Provisional; Region: PRK14228 350058005078 camphor resistance protein CrcB; Provisional; Region: PRK14216 350058005079 phosphoglucomutase; Validated; Region: PRK07564 350058005080 The alpha-D-phosphohexomutase superfamily includes several related enzymes that catalyze a reversible intramolecular phosphoryl transfer on their sugar substrates. Members of this family include the phosphoglucomutases (PGM1 and PGM2), phosphoglucosamine...; Region: phosphohexomutase; cl03757 350058005081 active site 350058005082 substrate binding site [chemical binding]; other site 350058005083 metal binding site [ion binding]; metal-binding site 350058005084 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 350058005085 Major Facilitator Superfamily; Region: MFS_1; pfam07690 350058005086 putative substrate translocation pore; other site 350058005087 Protein of unknown function (DUF3297); Region: DUF3297; pfam11730 350058005088 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 350058005089 Transposase; Region: HTH_Tnp_1; pfam01527 350058005090 putative transposase OrfB; Reviewed; Region: PHA02517 350058005091 HTH-like domain; Region: HTH_21; pfam13276 350058005092 Integrase core domain; Region: rve; pfam00665 350058005093 Integrase core domain; Region: rve_3; pfam13683 350058005094 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; pfam12762 350058005095 Predicted membrane protein (DUF2243); Region: DUF2243; pfam10002 350058005096 putative adenylate-forming enzyme; Region: aden_form_hyp; TIGR02304 350058005097 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 350058005098 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350058005099 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 350058005100 Ligand Binding Site [chemical binding]; other site 350058005101 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 350058005102 Ligand Binding Site [chemical binding]; other site 350058005103 pimeloyl-CoA dehydrogenase, small subunit; Region: pimD_small; TIGR03203 350058005104 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 350058005105 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 350058005106 active site 350058005107 pimeloyl-CoA dehydrogenase, large subunit; Region: pimC_large; TIGR03204 350058005108 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 350058005109 active site 350058005110 putative FAD-binding dehydrogenase; Reviewed; Region: PRK06134 350058005111 GAF domain; Region: GAF; pfam01590 350058005112 GAF domain; Region: GAF_2; pfam13185 350058005113 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 350058005114 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 350058005115 metal binding site [ion binding]; metal-binding site 350058005116 active site 350058005117 I-site; other site 350058005118 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 350058005119 hypothetical protein; Provisional; Region: PRK07877 350058005120 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 350058005121 ATP binding site [chemical binding]; other site 350058005122 substrate interface [chemical binding]; other site 350058005123 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 350058005124 putative active site [active] 350058005125 putative catalytic site [active] 350058005126 Flavin-binding monooxygenase-like; Region: FMO-like; pfam00743 350058005127 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 350058005128 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 350058005129 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 350058005130 oxidoreductase, SDR family; Region: SDR_subfam_1; TIGR03971 350058005131 classical (c) SDRs; Region: SDR_c; cd05233 350058005132 NAD(P) binding site [chemical binding]; other site 350058005133 active site 350058005134 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 350058005135 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 350058005136 active site 350058005137 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 350058005138 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 350058005139 NAD(P) binding site [chemical binding]; other site 350058005140 active site 350058005141 acetyl-CoA acetyltransferase; Provisional; Region: PRK06205 350058005142 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 350058005143 dimer interface [polypeptide binding]; other site 350058005144 active site 350058005145 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 350058005146 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 350058005147 active site 350058005148 Transcriptional regulators [Transcription]; Region: FadR; COG2186 350058005149 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 350058005150 DNA-binding site [nucleotide binding]; DNA binding site 350058005151 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 350058005152 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 350058005153 CoA-transferase family III; Region: CoA_transf_3; pfam02515 350058005154 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 350058005155 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 350058005156 acyl-activating enzyme (AAE) consensus motif; other site 350058005157 AMP binding site [chemical binding]; other site 350058005158 active site 350058005159 CoA binding site [chemical binding]; other site 350058005160 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 350058005161 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 350058005162 acyl-activating enzyme (AAE) consensus motif; other site 350058005163 AMP binding site [chemical binding]; other site 350058005164 active site 350058005165 CoA binding site [chemical binding]; other site 350058005166 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 350058005167 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 350058005168 acyl-activating enzyme (AAE) consensus motif; other site 350058005169 AMP binding site [chemical binding]; other site 350058005170 active site 350058005171 CoA binding site [chemical binding]; other site 350058005172 enoyl-CoA hydratase; Provisional; Region: PRK08290 350058005173 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 350058005174 substrate binding site [chemical binding]; other site 350058005175 oxyanion hole (OAH) forming residues; other site 350058005176 trimer interface [polypeptide binding]; other site 350058005177 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 350058005178 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 350058005179 substrate binding site [chemical binding]; other site 350058005180 oxyanion hole (OAH) forming residues; other site 350058005181 trimer interface [polypeptide binding]; other site 350058005182 enoyl-CoA hydratase; Provisional; Region: PRK06688 350058005183 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 350058005184 substrate binding site [chemical binding]; other site 350058005185 oxyanion hole (OAH) forming residues; other site 350058005186 trimer interface [polypeptide binding]; other site 350058005187 Transcriptional regulators [Transcription]; Region: FadR; COG2186 350058005188 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 350058005189 DNA-binding site [nucleotide binding]; DNA binding site 350058005190 FCD domain; Region: FCD; pfam07729 350058005191 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 350058005192 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 350058005193 substrate binding site [chemical binding]; other site 350058005194 oxyanion hole (OAH) forming residues; other site 350058005195 trimer interface [polypeptide binding]; other site 350058005196 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 350058005197 acetyl-CoA acetyltransferases; Region: AcCoA-C-Actrans; TIGR01930 350058005198 dimer interface [polypeptide binding]; other site 350058005199 active site 350058005200 tetracycline repressor protein TetR; Provisional; Region: PRK13756 350058005201 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350058005202 Tetracyclin repressor, C-terminal all-alpha domain; Region: TetR_C; pfam02909 350058005203 enoyl-CoA hydratase; Provisional; Region: PRK08252 350058005204 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 350058005205 substrate binding site [chemical binding]; other site 350058005206 oxyanion hole (OAH) forming residues; other site 350058005207 trimer interface [polypeptide binding]; other site 350058005208 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 350058005209 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 350058005210 NAD(P) binding site [chemical binding]; other site 350058005211 active site 350058005212 enoyl-CoA hydratase; Provisional; Region: PRK06210 350058005213 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 350058005214 substrate binding site [chemical binding]; other site 350058005215 oxyanion hole (OAH) forming residues; other site 350058005216 trimer interface [polypeptide binding]; other site 350058005217 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 350058005218 Amidohydrolase; Region: Amidohydro_2; pfam04909 350058005219 acyl-CoA synthetase; Validated; Region: PRK07798 350058005220 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 350058005221 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_5; cd05924 350058005222 acyl-activating enzyme (AAE) consensus motif; other site 350058005223 acyl-activating enzyme (AAE) consensus motif; other site 350058005224 putative AMP binding site [chemical binding]; other site 350058005225 putative active site [active] 350058005226 putative CoA binding site [chemical binding]; other site 350058005227 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG2159 350058005228 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 350058005229 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 350058005230 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 350058005231 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 350058005232 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 350058005233 active site 350058005234 acetyl-CoA acetyltransferase; Provisional; Region: PRK06064 350058005235 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 350058005236 active site 350058005237 Thioesterase-like superfamily; Region: 4HBT_3; pfam13622 350058005238 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 350058005239 Cytochrome P450; Region: p450; cl12078 350058005240 YacP-like NYN domain; Region: NYN_YacP; cl01491 350058005241 Formylmethanofuran dehydrogenase subunit B [Energy production and conversion]; Region: FwdB; COG1029 350058005242 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 350058005243 molybdopterin cofactor binding site; other site 350058005244 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 350058005245 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 350058005246 molybdopterin cofactor binding site; other site 350058005247 aldehyde dehydrogenase, Rv0768 family; Region: aldehy_Rv0768; TIGR04284 350058005248 Rhodococcus ruber 6-oxolauric acid dehydrogenase-like and related proteins; Region: ALDH_CddD-AldA-like; cd07089 350058005249 NAD binding site [chemical binding]; other site 350058005250 catalytic residues [active] 350058005251 oxidoreductase, SDR family; Region: SDR_subfam_1; TIGR03971 350058005252 classical (c) SDRs; Region: SDR_c; cd05233 350058005253 NAD(P) binding site [chemical binding]; other site 350058005254 active site 350058005255 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 350058005256 Cytochrome P450; Region: p450; cl12078 350058005257 alpha hydroxysteroid dehydrogenase (3alpha_HSD), classical (c) SDRs; Region: 3alpha_HSD_SDR_c; cd05328 350058005258 NAD binding site [chemical binding]; other site 350058005259 active site 350058005260 homodimer interface [polypeptide binding]; other site 350058005261 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 350058005262 Coniferyl aldehyde dehydrogenase-like; Region: ALDH_CALDH_CalB; cd07133 350058005263 NAD(P) binding site [chemical binding]; other site 350058005264 catalytic residues [active] 350058005265 acyl-CoA synthetase; Validated; Region: PRK07798 350058005266 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 350058005267 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_5; cd05924 350058005268 acyl-activating enzyme (AAE) consensus motif; other site 350058005269 acyl-activating enzyme (AAE) consensus motif; other site 350058005270 putative AMP binding site [chemical binding]; other site 350058005271 putative active site [active] 350058005272 putative CoA binding site [chemical binding]; other site 350058005273 Isochorismatase family; Region: Isochorismatase; pfam00857 350058005274 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 350058005275 catalytic triad [active] 350058005276 conserved cis-peptide bond; other site 350058005277 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 350058005278 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 350058005279 [2Fe-2S] cluster binding site [ion binding]; other site 350058005280 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 350058005281 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 350058005282 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 350058005283 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 350058005284 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350058005285 Ecdysteroid kinase; Region: EcKinase; cl17738 350058005286 SnoaL-like domain; Region: SnoaL_2; pfam12680 350058005287 probable F420-dependent oxidoreductase, MSMEG_2249 family; Region: F420_MSMEG_2249; TIGR03857 350058005288 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 350058005289 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 350058005290 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 350058005291 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 350058005292 methylenetetrahydromethanopterin reductase; Provisional; Region: PRK02271 350058005293 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 350058005294 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 350058005295 Cytochrome P450; Region: p450; cl12078 350058005296 Amidohydrolase; Region: Amidohydro_2; pfam04909 350058005297 Protein of unknown function (DUF466); Region: DUF466; cl01082 350058005298 carbon starvation protein A; Provisional; Region: PRK15015 350058005299 Carbon starvation protein CstA; Region: CstA; pfam02554 350058005300 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 350058005301 ATP-dependent DNA ligase; Reviewed; Region: ligB; PRK03180 350058005302 Adenylation domain of archaeal and bacterial LigB-like DNA ligases; Region: Adenylation_DNA_ligase_Arch_LigB; cd07901 350058005303 active site 350058005304 DNA binding site [nucleotide binding] 350058005305 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 350058005306 DNA binding site [nucleotide binding] 350058005307 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 350058005308 Sulfite oxidase and related enzymes [General function prediction only]; Region: COG2041 350058005309 Moco binding site; other site 350058005310 metal coordination site [ion binding]; other site 350058005311 dimerization interface [polypeptide binding]; other site 350058005312 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK08217 350058005313 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 350058005314 NAD(P) binding site [chemical binding]; other site 350058005315 active site 350058005316 Phosphotransferase enzyme family; Region: APH; pfam01636 350058005317 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 350058005318 putative active site [active] 350058005319 putative substrate binding site [chemical binding]; other site 350058005320 ATP binding site [chemical binding]; other site 350058005321 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 350058005322 active site 350058005323 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 350058005324 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 350058005325 Cytochrome P450; Region: p450; cl12078 350058005326 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 350058005327 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350058005328 short chain dehydrogenase; Provisional; Region: PRK07832 350058005329 classical (c) SDRs; Region: SDR_c; cd05233 350058005330 NAD(P) binding site [chemical binding]; other site 350058005331 active site 350058005332 Predicted ATPase [General function prediction only]; Region: COG4637 350058005333 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 350058005334 Walker A/P-loop; other site 350058005335 ATP binding site [chemical binding]; other site 350058005336 GAF domain; Region: GAF; pfam01590 350058005337 DNA polymerase IV; Validated; Region: PRK03352 350058005338 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 350058005339 active site 350058005340 DNA binding site [nucleotide binding] 350058005341 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350058005342 Predicted flavoprotein [General function prediction only]; Region: COG0431 350058005343 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 350058005344 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 350058005345 catalytic residues [active] 350058005346 ribonucleotide reductase stimulatory protein; Reviewed; Region: nrdI; PRK03600 350058005347 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK08188 350058005348 Ribonucleotide reductase N-terminal; Region: RNR_N; pfam08343 350058005349 Class I ribonucleotide reductase; Region: RNR_I; cd01679 350058005350 active site 350058005351 dimer interface [polypeptide binding]; other site 350058005352 catalytic residues [active] 350058005353 effector binding site; other site 350058005354 R2 peptide binding site; other site 350058005355 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 350058005356 dimerization interface [polypeptide binding]; other site 350058005357 substrate binding pocket [chemical binding]; other site 350058005358 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 350058005359 gallidermin-class lantibiotic protection ABC transporter, ATP-binding subunit; Region: galliderm_ABC; TIGR03740 350058005360 Walker A/P-loop; other site 350058005361 ATP binding site [chemical binding]; other site 350058005362 ABC transporter signature motif; other site 350058005363 Walker B; other site 350058005364 D-loop; other site 350058005365 H-loop/switch region; other site 350058005366 Methyltransferase domain; Region: Methyltransf_31; pfam13847 350058005367 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 350058005368 S-adenosylmethionine binding site [chemical binding]; other site 350058005369 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 350058005370 Predicted transcriptional regulator [Transcription]; Region: COG2345 350058005371 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 350058005372 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 350058005373 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 350058005374 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 350058005375 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_14; cd08355 350058005376 geranylgeranyl reductase family; Region: GG-red-SF; TIGR02032 350058005377 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 350058005378 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350058005379 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 350058005380 Zn2+ binding site [ion binding]; other site 350058005381 Mg2+ binding site [ion binding]; other site 350058005382 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 350058005383 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 350058005384 DNA binding residues [nucleotide binding] 350058005385 dimerization interface [polypeptide binding]; other site 350058005386 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 350058005387 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 350058005388 ribonucleotide-diphosphate reductase subunit beta; Provisional; Region: nrdF2; PRK13966 350058005389 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 350058005390 dimer interface [polypeptide binding]; other site 350058005391 putative radical transfer pathway; other site 350058005392 diiron center [ion binding]; other site 350058005393 tyrosyl radical; other site 350058005394 Transposase, Mutator family; Region: Transposase_mut; pfam00872 350058005395 MULE transposase domain; Region: MULE; pfam10551 350058005396 PE-PPE domain; Region: PE-PPE; pfam08237 350058005397 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 350058005398 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 350058005399 PAS domain; Region: PAS_9; pfam13426 350058005400 putative active site [active] 350058005401 heme pocket [chemical binding]; other site 350058005402 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 350058005403 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 350058005404 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 350058005405 Histidine kinase; Region: HisKA_3; pfam07730 350058005406 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 350058005407 Response regulator receiver domain; Region: Response_reg; pfam00072 350058005408 active site 350058005409 phosphorylation site [posttranslational modification] 350058005410 intermolecular recognition site; other site 350058005411 dimerization interface [polypeptide binding]; other site 350058005412 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 350058005413 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 350058005414 active site 350058005415 phosphorylation site [posttranslational modification] 350058005416 intermolecular recognition site; other site 350058005417 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 350058005418 DNA binding residues [nucleotide binding] 350058005419 dimerization interface [polypeptide binding]; other site 350058005420 Transposase domain (DUF772); Region: DUF772; pfam05598 350058005421 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 350058005422 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 350058005423 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 350058005424 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 350058005425 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 350058005426 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 350058005427 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 350058005428 catalytic loop [active] 350058005429 iron binding site [ion binding]; other site 350058005430 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 350058005431 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 350058005432 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; smart01092 350058005433 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 350058005434 Protein of unknown function (DUF3349); Region: DUF3349; pfam11829 350058005435 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 350058005436 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD1; cd05283 350058005437 putative NAD(P) binding site [chemical binding]; other site 350058005438 putative substrate binding site [chemical binding]; other site 350058005439 catalytic Zn binding site [ion binding]; other site 350058005440 structural Zn binding site [ion binding]; other site 350058005441 dimer interface [polypeptide binding]; other site 350058005442 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 350058005443 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 350058005444 siderophore binding site; other site 350058005445 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 350058005446 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 350058005447 D-pathway; other site 350058005448 Putative ubiquinol binding site [chemical binding]; other site 350058005449 Low-spin heme (heme b) binding site [chemical binding]; other site 350058005450 Putative water exit pathway; other site 350058005451 Binuclear center (heme o3/CuB) [ion binding]; other site 350058005452 K-pathway; other site 350058005453 Putative proton exit pathway; other site 350058005454 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 350058005455 ACT domains found N-terminal of phosphoserine phosphatase (PSP, SerB); Region: ACT_PSP_2; cd04871 350058005456 phosphoserine phosphatase SerB; Region: serB; TIGR00338 350058005457 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 350058005458 motif II; other site 350058005459 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 350058005460 DNA-binding site [nucleotide binding]; DNA binding site 350058005461 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 350058005462 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 350058005463 pyridoxal 5'-phosphate binding site [chemical binding]; other site 350058005464 homodimer interface [polypeptide binding]; other site 350058005465 catalytic residue [active] 350058005466 Predicted membrane protein [Function unknown]; Region: COG2364 350058005467 nucleoside triphosphate hydrolase domain-containing protein; Reviewed; Region: PRK09270 350058005468 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 350058005469 active site 350058005470 ABC-type molybdenum transport system, ATPase component/photorepair protein PhrA [Inorganic ion transport and metabolism]; Region: ModF; COG1119 350058005471 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 350058005472 Walker A/P-loop; other site 350058005473 ATP binding site [chemical binding]; other site 350058005474 Q-loop/lid; other site 350058005475 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 350058005476 ABC transporter signature motif; other site 350058005477 ABC transporter signature motif; other site 350058005478 Walker B; other site 350058005479 Walker B; other site 350058005480 D-loop; other site 350058005481 D-loop; other site 350058005482 H-loop/switch region; other site 350058005483 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 350058005484 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 350058005485 substrate binding site [chemical binding]; other site 350058005486 oxyanion hole (OAH) forming residues; other site 350058005487 trimer interface [polypeptide binding]; other site 350058005488 Methyltransferase domain; Region: Methyltransf_31; pfam13847 350058005489 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 350058005490 S-adenosylmethionine binding site [chemical binding]; other site 350058005491 Protein of unknown function (DUF3298); Region: DUF3298; pfam11738 350058005492 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 350058005493 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 350058005494 FOG: WD40-like repeat [Function unknown]; Region: COG1520 350058005495 Acetyltransferase (isoleucine patch superfamily) [General function prediction only]; Region: WbbJ; COG0110 350058005496 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 350058005497 trimer interface [polypeptide binding]; other site 350058005498 active site 350058005499 substrate binding site [chemical binding]; other site 350058005500 CoA binding site [chemical binding]; other site 350058005501 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 350058005502 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 350058005503 Uncharacterized conserved protein [Function unknown]; Region: COG1543 350058005504 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 350058005505 Domain of unknown function (DUF1957); Region: DUF1957; pfam09210 350058005506 Methyltransferase domain; Region: Methyltransf_23; pfam13489 350058005507 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 350058005508 S-adenosylmethionine binding site [chemical binding]; other site 350058005509 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 350058005510 Ligand binding site [chemical binding]; other site 350058005511 Electron transfer flavoprotein domain; Region: ETF; pfam01012 350058005512 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 350058005513 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 350058005514 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 350058005515 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 350058005516 NADH(P)-binding; Region: NAD_binding_10; pfam13460 350058005517 NAD(P) binding site [chemical binding]; other site 350058005518 active site 350058005519 Acetyltransferase (GNAT) domain; Region: Acetyltransf_5; cl17496 350058005520 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 350058005521 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 350058005522 putative acyl-acceptor binding pocket; other site 350058005523 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 350058005524 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 350058005525 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 350058005526 catalytic residue [active] 350058005527 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 350058005528 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 350058005529 Ligand Binding Site [chemical binding]; other site 350058005530 PknH-like extracellular domain; Region: PknH_C; pfam14032 350058005531 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 350058005532 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 350058005533 GAF domain; Region: GAF; pfam01590 350058005534 PAS fold; Region: PAS_4; pfam08448 350058005535 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 350058005536 putative active site [active] 350058005537 heme pocket [chemical binding]; other site 350058005538 PAS fold; Region: PAS; pfam00989 350058005539 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 350058005540 putative active site [active] 350058005541 heme pocket [chemical binding]; other site 350058005542 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 350058005543 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 350058005544 metal binding site [ion binding]; metal-binding site 350058005545 active site 350058005546 I-site; other site 350058005547 4-coumarate--CoA ligase; Region: PLN02246 350058005548 4-Coumarate-CoA Ligase (4CL); Region: 4CL; cd05904 350058005549 acyl-activating enzyme (AAE) consensus motif; other site 350058005550 active site 350058005551 putative CoA binding site [chemical binding]; other site 350058005552 AMP binding site [chemical binding]; other site 350058005553 Protein of unknown function (DUF419); Region: DUF419; pfam04237 350058005554 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 350058005555 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 350058005556 nucleotide binding pocket [chemical binding]; other site 350058005557 K-X-D-G motif; other site 350058005558 catalytic site [active] 350058005559 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 350058005560 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 350058005561 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 350058005562 Dimer interface [polypeptide binding]; other site 350058005563 BRCT sequence motif; other site 350058005564 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 350058005565 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 350058005566 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 350058005567 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 350058005568 6-phosphofructokinase; Provisional; Region: PRK03202 350058005569 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 350058005570 active site 350058005571 ADP/pyrophosphate binding site [chemical binding]; other site 350058005572 dimerization interface [polypeptide binding]; other site 350058005573 allosteric effector site; other site 350058005574 fructose-1,6-bisphosphate binding site; other site 350058005575 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 350058005576 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 350058005577 GatB domain; Region: GatB_Yqey; smart00845 350058005578 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 350058005579 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 350058005580 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 350058005581 dimer interface [polypeptide binding]; other site 350058005582 phosphorylation site [posttranslational modification] 350058005583 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 350058005584 ATP binding site [chemical binding]; other site 350058005585 Mg2+ binding site [ion binding]; other site 350058005586 G-X-G motif; other site 350058005587 Glucose/sorbosone dehydrogenases [Carbohydrate transport and metabolism]; Region: COG2133 350058005588 Predicted membrane protein [Function unknown]; Region: COG2259 350058005589 Protein of unknown function (DUF2581); Region: DUF2581; pfam10756 350058005590 acetolactate synthase 1 catalytic subunit; Validated; Region: PRK07789 350058005591 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 350058005592 PYR/PP interface [polypeptide binding]; other site 350058005593 dimer interface [polypeptide binding]; other site 350058005594 TPP binding site [chemical binding]; other site 350058005595 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 350058005596 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 350058005597 TPP-binding site [chemical binding]; other site 350058005598 dimer interface [polypeptide binding]; other site 350058005599 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 350058005600 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 350058005601 putative valine binding site [chemical binding]; other site 350058005602 dimer interface [polypeptide binding]; other site 350058005603 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 350058005604 ketol-acid reductoisomerase; Provisional; Region: PRK05479 350058005605 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 350058005606 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 350058005607 Protein of unknown function (DUF3159); Region: DUF3159; pfam11361 350058005608 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 350058005609 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 350058005610 Phytoene dehydrogenase and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG1233 350058005611 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 350058005612 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK13581 350058005613 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_4; cd12173 350058005614 ligand binding site [chemical binding]; other site 350058005615 NAD binding site [chemical binding]; other site 350058005616 dimerization interface [polypeptide binding]; other site 350058005617 catalytic site [active] 350058005618 C-terminal ACT (regulatory) domain of D-3-phosphoglycerate dehydrogenase (3PGDH); Region: ACT_3PGDH-xct; cd04902 350058005619 putative L-serine binding site [chemical binding]; other site 350058005620 3-isopropylmalate dehydrogenase; Provisional; Region: PRK03437 350058005621 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 350058005622 putative substrate translocation pore; other site 350058005623 D-galactonate transporter; Region: 2A0114; TIGR00893 350058005624 Domain of unknown function (DUF2437); Region: DUF2437; pfam10370 350058005625 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 350058005626 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 350058005627 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 350058005628 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 350058005629 HIGH motif; other site 350058005630 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 350058005631 active site 350058005632 KMSKS motif; other site 350058005633 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 350058005634 Transcriptional regulator [Transcription]; Region: IclR; COG1414 350058005635 Bacterial transcriptional regulator; Region: IclR; pfam01614 350058005636 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 350058005637 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 350058005638 substrate binding site [chemical binding]; other site 350058005639 ligand binding site [chemical binding]; other site 350058005640 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 350058005641 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 350058005642 substrate binding site [chemical binding]; other site 350058005643 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 350058005644 IHF - DNA interface [nucleotide binding]; other site 350058005645 IHF dimer interface [polypeptide binding]; other site 350058005646 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 350058005647 active site 350058005648 Ap6A binding site [chemical binding]; other site 350058005649 nudix motif; other site 350058005650 metal binding site [ion binding]; metal-binding site 350058005651 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 350058005652 catalytic core [active] 350058005653 polyphosphate kinase; Provisional; Region: PRK05443 350058005654 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 350058005655 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 350058005656 Catalytic C-terminal domain, first repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C1_like; cd09165 350058005657 putative domain interface [polypeptide binding]; other site 350058005658 putative active site [active] 350058005659 catalytic site [active] 350058005660 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 350058005661 putative active site [active] 350058005662 catalytic site [active] 350058005663 2-phospho-L-lactate guanylyltransferase; Region: F420_cofC; TIGR03552 350058005664 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 350058005665 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 350058005666 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 350058005667 cystathionine gamma-lyase; Validated; Region: PRK07582 350058005668 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 350058005669 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 350058005670 catalytic residue [active] 350058005671 D-alanyl-alanine synthetase A; Reviewed; Region: ddl; PRK01966 350058005672 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 350058005673 D-ala D-ala ligase C-terminus; Region: Dala_Dala_lig_C; pfam07478 350058005674 Domain of unknown function (DUF222); Region: DUF222; pfam02720 350058005675 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 350058005676 active site 350058005677 Central kinetochore-associated; Region: Kinetocho_Slk19; pfam12709 350058005678 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 350058005679 active site 350058005680 DNA binding site [nucleotide binding] 350058005681 Int/Topo IB signature motif; other site 350058005682 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 350058005683 Phage integrase, N-terminal SAM-like domain; Region: Phage_integr_N; pfam02899 350058005684 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 350058005685 active site 350058005686 DNA binding site [nucleotide binding] 350058005687 Int/Topo IB signature motif; other site 350058005688 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 350058005689 methyl indole-3-acetate methyltransferase; Region: PLN02211; cl17657 350058005690 Protein of unknown function (DUF3515); Region: DUF3515; pfam12028 350058005691 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 350058005692 AsnC family; Region: AsnC_trans_reg; pfam01037 350058005693 thiamine monophosphate kinase; Provisional; Region: PRK05731 350058005694 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 350058005695 ATP binding site [chemical binding]; other site 350058005696 dimerization interface [polypeptide binding]; other site 350058005697 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 350058005698 ligand binding site [chemical binding]; other site 350058005699 active site 350058005700 UGI interface [polypeptide binding]; other site 350058005701 catalytic site [active] 350058005702 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 350058005703 DAK2 domain fusion protein YloV; Region: YloV; TIGR03599 350058005704 DAK2 domain; Region: Dak2; pfam02734 350058005705 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 350058005706 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 350058005707 generic binding surface II; other site 350058005708 ssDNA binding site; other site 350058005709 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 350058005710 ATP binding site [chemical binding]; other site 350058005711 putative Mg++ binding site [ion binding]; other site 350058005712 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 350058005713 nucleotide binding region [chemical binding]; other site 350058005714 ATP-binding site [chemical binding]; other site 350058005715 Protein of unknown function (DUF1524); Region: DUF1524; pfam07510 350058005716 Dyp-type peroxidase family; Region: Dyp_perox; cl01067 350058005717 Protein of unknown function (DUF461); Region: DUF461; pfam04314 350058005718 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 350058005719 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 350058005720 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 350058005721 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 350058005722 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 350058005723 active site 350058005724 catalytic tetrad [active] 350058005725 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 350058005726 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 350058005727 substrate binding pocket [chemical binding]; other site 350058005728 Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: DsbG; COG1651 350058005729 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 350058005730 catalytic residues [active] 350058005731 Vitamin K epoxide reductase family in bacteria; Region: VKOR_5; cd12922 350058005732 putative active site [active] 350058005733 redox center [active] 350058005734 pyruvate carboxylase; Reviewed; Region: PRK12999 350058005735 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 350058005736 ATP-grasp domain; Region: ATP-grasp_4; cl17255 350058005737 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 350058005738 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 350058005739 active site 350058005740 catalytic residues [active] 350058005741 metal binding site [ion binding]; metal-binding site 350058005742 homodimer binding site [polypeptide binding]; other site 350058005743 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 350058005744 carboxyltransferase (CT) interaction site; other site 350058005745 biotinylation site [posttranslational modification]; other site 350058005746 Conserved hypothetical protein 95; Region: Cons_hypoth95; pfam03602 350058005747 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 350058005748 S-adenosylmethionine binding site [chemical binding]; other site 350058005749 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 350058005750 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 350058005751 active site 350058005752 (T/H)XGH motif; other site 350058005753 Hemerythrin-like domain; Region: Hr-like; cd12108 350058005754 Cell division initiation protein [Cell division and chromosome partitioning]; Region: DivIVA; COG3599 350058005755 Predicted metal-binding, possibly nucleic acid-binding protein [General function prediction only]; Region: COG1399 350058005756 ribonuclease III; Reviewed; Region: rnc; PRK00102 350058005757 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 350058005758 dimerization interface [polypeptide binding]; other site 350058005759 active site 350058005760 metal binding site [ion binding]; metal-binding site 350058005761 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 350058005762 dsRNA binding site [nucleotide binding]; other site 350058005763 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 350058005764 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 350058005765 DNA binding site [nucleotide binding] 350058005766 catalytic residue [active] 350058005767 H2TH interface [polypeptide binding]; other site 350058005768 putative catalytic residues [active] 350058005769 turnover-facilitating residue; other site 350058005770 intercalation triad [nucleotide binding]; other site 350058005771 8OG recognition residue [nucleotide binding]; other site 350058005772 putative reading head residues; other site 350058005773 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 350058005774 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 350058005775 Predicted redox protein, regulator of disulfide bond formation [Posttranslational modification, protein turnover, chaperones]; Region: COG1765 350058005776 acylphosphatase; Provisional; Region: PRK14422 350058005777 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 350058005778 AAA domain; Region: AAA_23; pfam13476 350058005779 Walker A/P-loop; other site 350058005780 ATP binding site [chemical binding]; other site 350058005781 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 350058005782 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; smart00968 350058005783 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 350058005784 ABC transporter signature motif; other site 350058005785 Walker B; other site 350058005786 D-loop; other site 350058005787 H-loop/switch region; other site 350058005788 isopentenyl pyrophosphate isomerase; Provisional; Region: PRK05437 350058005789 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 350058005790 homotetramer interface [polypeptide binding]; other site 350058005791 FMN binding site [chemical binding]; other site 350058005792 homodimer contacts [polypeptide binding]; other site 350058005793 putative active site [active] 350058005794 putative substrate binding site [chemical binding]; other site 350058005795 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 350058005796 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 350058005797 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 350058005798 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 350058005799 Nitrogen regulatory protein P-II; Region: P-II; pfam00543 350058005800 Nitrogen regulatory protein P-II; Region: P-II; smart00938 350058005801 PII uridylyl-transferase; Provisional; Region: PRK03381 350058005802 RelA- and SpoT-like ppGpp Synthetases and Hydrolases, catalytic domain; Region: Rel-Spo_like; cl11966 350058005803 metal binding triad [ion binding]; metal-binding site 350058005804 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 350058005805 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl17215 350058005806 ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD; Region: ACT_UUR-ACR-like; cd04873 350058005807 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 350058005808 signal recognition particle protein; Provisional; Region: PRK10867 350058005809 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 350058005810 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 350058005811 P loop; other site 350058005812 GTP binding site [chemical binding]; other site 350058005813 Signal peptide binding domain; Region: SRP_SPB; pfam02978 350058005814 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 350058005815 Amidohydrolase; Region: Amidohydro_4; pfam13147 350058005816 active site 350058005817 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 350058005818 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 350058005819 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 350058005820 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 350058005821 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 350058005822 SnoaL-like domain; Region: SnoaL_3; pfam13474 350058005823 SnoaL-like domain; Region: SnoaL_4; pfam13577 350058005824 SnoaL-like domain; Region: SnoaL_3; pfam13474 350058005825 30S ribosomal protein S16; Provisional; Region: rpsP; PRK14520 350058005826 hypothetical protein; Provisional; Region: PRK02821 350058005827 Predicted RNA-binding protein (contains KH domain) [General function prediction only]; Region: COG1837 350058005828 G-X-X-G motif; other site 350058005829 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 350058005830 RimM N-terminal domain; Region: RimM; pfam01782 350058005831 PRC-barrel domain; Region: PRC; pfam05239 350058005832 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 350058005833 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 350058005834 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 350058005835 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 350058005836 Catalytic site [active] 350058005837 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 350058005838 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 350058005839 RNA/DNA hybrid binding site [nucleotide binding]; other site 350058005840 active site 350058005841 Protein of unknown function (DUF2469); Region: DUF2469; pfam10611 350058005842 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 350058005843 UMP phosphatase; Provisional; Region: PRK10444 350058005844 active site 350058005845 motif I; other site 350058005846 motif II; other site 350058005847 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 350058005848 mesaconyl-CoA isomerase; Region: mesacon_CoA_iso; TIGR04253 350058005849 CoA-transferase family III; Region: CoA_transf_3; pfam02515 350058005850 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 350058005851 active site 350058005852 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 350058005853 catalytic triad [active] 350058005854 dimer interface [polypeptide binding]; other site 350058005855 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 350058005856 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 350058005857 AMP binding site [chemical binding]; other site 350058005858 active site 350058005859 acyl-activating enzyme (AAE) consensus motif; other site 350058005860 CoA binding site [chemical binding]; other site 350058005861 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 350058005862 Acyltransferase family; Region: Acyl_transf_3; pfam01757 350058005863 Domain of Unknown Function (DUF1206); Region: DUF1206; pfam06724 350058005864 Domain of Unknown Function (DUF1206); Region: DUF1206; pfam06724 350058005865 hypothetical protein; Reviewed; Region: PRK12497 350058005866 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 350058005867 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 350058005868 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 350058005869 Walker A motif; other site 350058005870 ATP binding site [chemical binding]; other site 350058005871 Walker B motif; other site 350058005872 arginine finger; other site 350058005873 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 350058005874 DNA protecting protein DprA; Region: dprA; TIGR00732 350058005875 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 350058005876 Sugar-specific transcriptional regulator TrmB; Region: TrmB; cl17775 350058005877 Siderophore-interacting protein [Inorganic ion transport and metabolism]; Region: ViuB; COG2375 350058005878 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 350058005879 FAD binding pocket [chemical binding]; other site 350058005880 FAD binding motif [chemical binding]; other site 350058005881 phosphate binding motif [ion binding]; other site 350058005882 NAD binding pocket [chemical binding]; other site 350058005883 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 350058005884 FMN-dependent dehydrogenase; Region: FMN_dh; pfam01070 350058005885 putative active site [active] 350058005886 putative substrate binding site [chemical binding]; other site 350058005887 putative FMN binding site [chemical binding]; other site 350058005888 putative catalytic residues [active] 350058005889 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 350058005890 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 350058005891 active site 350058005892 DNA binding site [nucleotide binding] 350058005893 Int/Topo IB signature motif; other site 350058005894 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 350058005895 Peptidase family M23; Region: Peptidase_M23; pfam01551 350058005896 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 350058005897 rRNA interaction site [nucleotide binding]; other site 350058005898 S8 interaction site; other site 350058005899 putative laminin-1 binding site; other site 350058005900 elongation factor Ts; Provisional; Region: tsf; PRK09377 350058005901 Ubiquitin Associated domain. The UBA domain is a commonly occurring sequence motif in some members of the ubiquitination pathway, UV excision repair proteins, and certain protein kinases. Although its specific role is so far unknown, it has been...; Region: UBA; cl00153 350058005902 Elongation factor TS; Region: EF_TS; pfam00889 350058005903 Elongation factor TS; Region: EF_TS; pfam00889 350058005904 exopolysaccharide biosynthesis polyprenyl glycosylphosphotransferase; Region: EPS_sugtrans; TIGR03025 350058005905 Bacterial sugar transferase; Region: Bac_transf; pfam02397 350058005906 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 350058005907 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 350058005908 putative active site [active] 350058005909 putative NTP binding site [chemical binding]; other site 350058005910 putative nucleic acid binding site [nucleotide binding]; other site 350058005911 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 350058005912 amidase; Provisional; Region: PRK07869 350058005913 Amidase; Region: Amidase; pfam01425 350058005914 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 350058005915 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 350058005916 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 350058005917 Walker A/P-loop; other site 350058005918 ATP binding site [chemical binding]; other site 350058005919 Q-loop/lid; other site 350058005920 ABC transporter signature motif; other site 350058005921 Walker B; other site 350058005922 D-loop; other site 350058005923 H-loop/switch region; other site 350058005924 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 350058005925 tyramine oxidase; Provisional; Region: tynA; PRK11504 350058005926 Copper amine oxidase, N2 domain; Region: Cu_amine_oxidN2; pfam02727 350058005927 Copper amine oxidase, N3 domain; Region: Cu_amine_oxidN3; pfam02728 350058005928 Copper amine oxidase, enzyme domain; Region: Cu_amine_oxid; pfam01179 350058005929 alkylhydroperoxidase AhpD family core domain; Region: ahpD_dom; TIGR00778 350058005930 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 350058005931 putative nucleotide binding site [chemical binding]; other site 350058005932 uridine monophosphate binding site [chemical binding]; other site 350058005933 homohexameric interface [polypeptide binding]; other site 350058005934 ribosome recycling factor; Reviewed; Region: frr; PRK00083 350058005935 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 350058005936 hinge region; other site 350058005937 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 350058005938 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 350058005939 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK14459 350058005940 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 350058005941 FeS/SAM binding site; other site 350058005942 SnoaL-like domain; Region: SnoaL_3; pfam13474 350058005943 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 350058005944 aldehyde dehydrogenase, Rv0768 family; Region: aldehy_Rv0768; TIGR04284 350058005945 Rhodococcus ruber 6-oxolauric acid dehydrogenase-like and related proteins; Region: ALDH_CddD-AldA-like; cd07089 350058005946 NAD binding site [chemical binding]; other site 350058005947 catalytic residues [active] 350058005948 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 350058005949 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350058005950 Ecdysteroid kinase; Region: EcKinase; cl17738 350058005951 Phosphotransferase enzyme family; Region: APH; pfam01636 350058005952 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 350058005953 CoA-transferase family III; Region: CoA_transf_3; pfam02515 350058005954 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350058005955 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 350058005956 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350058005957 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 350058005958 Cytochrome P450; Region: p450; cl12078 350058005959 Protein of unknown function (DUF1271); Region: DUF1271; cl01443 350058005960 4Fe-4S single cluster domain; Region: Fer4_13; pfam13370 350058005961 Thioesterase-like superfamily; Region: 4HBT_3; pfam13622 350058005962 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 350058005963 Strictosidine synthase; Region: Str_synth; pfam03088 350058005964 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 350058005965 Cytochrome P450; Region: p450; cl12078 350058005966 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 350058005967 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 350058005968 NAD(P) binding site [chemical binding]; other site 350058005969 HpcH/HpaI aldolase/citrate lyase family; Region: HpcH_HpaI; cl17231 350058005970 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 350058005971 classical (c) SDRs; Region: SDR_c; cd05233 350058005972 NAD(P) binding site [chemical binding]; other site 350058005973 active site 350058005974 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 350058005975 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 350058005976 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 350058005977 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 350058005978 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 350058005979 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 350058005980 active site 350058005981 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 350058005982 probable F420-dependent oxidoreductase, Rv1855c family; Region: F420_Rv1855c; TIGR03560 350058005983 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 350058005984 probable F420-dependent oxidoreductase, Rv2161c family; Region: F420_Rv2161c; TIGR03619 350058005985 Putative NADP-dependent oxidoreductases [General function prediction only]; Region: COG2130 350058005986 Prostaglandin dehydrogenases; Region: PGDH; cd05288 350058005987 NAD(P) binding site [chemical binding]; other site 350058005988 substrate binding site [chemical binding]; other site 350058005989 dimer interface [polypeptide binding]; other site 350058005990 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 350058005991 acyl-CoA thioesterase II; Region: tesB; TIGR00189 350058005992 active site 350058005993 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 350058005994 catalytic triad [active] 350058005995 dimer interface [polypeptide binding]; other site 350058005996 Pyrabactin resistance 1 (PYR1), PYR1-like (PYL), regulatory component of abscisic acid receptors (RCARs), and related proteins; Region: PYR_PYL_RCAR_like; cd07821 350058005997 putative hydrophobic ligand binding site [chemical binding]; other site 350058005998 protein interface [polypeptide binding]; other site 350058005999 gate; other site 350058006000 Domain of unknown function (DUF427); Region: DUF427; pfam04248 350058006001 acyltransferase, WS/DGAT/MGAT; Region: acyl_WS_DGAT; TIGR02946 350058006002 Wax ester synthase-like Acyl-CoA acyltransferase domain; Region: WES_acyltransf; pfam03007 350058006003 Protein of unknown function (DUF1298); Region: DUF1298; pfam06974 350058006004 Protein of unknown function (DUF2631); Region: DUF2631; pfam10939 350058006005 oxidoreductase, SDR family; Region: SDR_subfam_1; TIGR03971 350058006006 classical (c) SDRs; Region: SDR_c; cd05233 350058006007 NAD(P) binding site [chemical binding]; other site 350058006008 active site 350058006009 DNA photolyase; Region: DNA_photolyase; pfam00875 350058006010 FAD binding domain of DNA photolyase; Region: FAD_binding_7; pfam03441 350058006011 Secreted and surface protein containing fasciclin-like repeats [Cell envelope biogenesis, outer membrane]; Region: COG2335 350058006012 Fasciclin domain; Region: Fasciclin; pfam02469 350058006013 Secreted and surface protein containing fasciclin-like repeats [Cell envelope biogenesis, outer membrane]; Region: COG2335 350058006014 Fasciclin domain; Region: Fasciclin; pfam02469 350058006015 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 350058006016 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 350058006017 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 350058006018 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 350058006019 Predicted membrane-associated Zn-dependent proteases 1 [Cell envelope biogenesis, outer membrane]; Region: COG0750 350058006020 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 350058006021 active site 350058006022 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 350058006023 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 350058006024 putative substrate binding region [chemical binding]; other site 350058006025 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 350058006026 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 350058006027 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 350058006028 Predicted acetyltransferase [General function prediction only]; Region: COG3393 350058006029 Domain of unknown function (DUF4081); Region: DUF4081; pfam13312 350058006030 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 350058006031 ESCO1/2 acetyl-transferase; Region: Acetyltransf_13; pfam13880 350058006032 Transposase; Region: DEDD_Tnp_IS110; pfam01548 350058006033 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 350058006034 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 350058006035 NTF2-like N-terminal transpeptidase domain; Region: MecA_N; pfam05223 350058006036 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 350058006037 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 350058006038 Domain of unknown function (DUF1707); Region: DUF1707; pfam08044 350058006039 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 350058006040 Thioesterase-like superfamily; Region: 4HBT_3; pfam13622 350058006041 CoenzymeA binding site [chemical binding]; other site 350058006042 subunit interaction site [polypeptide binding]; other site 350058006043 PHB binding site; other site 350058006044 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 350058006045 active site 350058006046 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 350058006047 GNAT-family acetyltransferase TIGR03103; Region: trio_acet_GNAT 350058006048 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 350058006049 ATP-grasp domain; Region: ATP-grasp_4; cl17255 350058006050 asparagine synthase family amidotransferase; Region: trio_amidotrans; TIGR03104 350058006051 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 350058006052 active site 350058006053 dimer interface [polypeptide binding]; other site 350058006054 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 350058006055 Ligand Binding Site [chemical binding]; other site 350058006056 Molecular Tunnel; other site 350058006057 amino acid permease (GABA permease); Region: 2A0304; TIGR00907 350058006058 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 350058006059 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 350058006060 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 350058006061 Predicted glutamine amidotransferases [General function prediction only]; Region: COG2071 350058006062 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 350058006063 catalytic triad [active] 350058006064 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 350058006065 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 350058006066 NAD(P) binding site [chemical binding]; other site 350058006067 catalytic residues [active] 350058006068 short chain dehydrogenase; Provisional; Region: PRK06057 350058006069 classical (c) SDRs; Region: SDR_c; cd05233 350058006070 NAD(P) binding site [chemical binding]; other site 350058006071 active site 350058006072 Transcriptional regulators [Transcription]; Region: FadR; COG2186 350058006073 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 350058006074 DNA-binding site [nucleotide binding]; DNA binding site 350058006075 FCD domain; Region: FCD; pfam07729 350058006076 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 350058006077 dimerization interface [polypeptide binding]; other site 350058006078 putative DNA binding site [nucleotide binding]; other site 350058006079 putative Zn2+ binding site [ion binding]; other site 350058006080 Transcriptional regulatory protein, C terminal; Region: Trans_reg_C; pfam00486 350058006081 Bacterial transcriptional activator domain; Region: BTAD; pfam03704 350058006082 AAA ATPase domain; Region: AAA_16; pfam13191 350058006083 Predicted ATPase [General function prediction only]; Region: COG3903 350058006084 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 350058006085 S-adenosylmethionine binding site [chemical binding]; other site 350058006086 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 350058006087 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 350058006088 DNA-binding site [nucleotide binding]; DNA binding site 350058006089 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 350058006090 Choline Kinase (ChoK). The ChoK 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), RIO kinases, actin-fragmin kinase (AFK), and...; Region: ChoK; cd05151 350058006091 thiamine kinase; Region: ycfN_thiK; TIGR02721 350058006092 active site 350058006093 ATP binding site [chemical binding]; other site 350058006094 substrate binding site [chemical binding]; other site 350058006095 dimer interface [polypeptide binding]; other site 350058006096 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 350058006097 hydroxyglutarate oxidase; Provisional; Region: PRK11728 350058006098 Glycine cleavage system T protein (aminomethyltransferase) [Amino acid transport and metabolism]; Region: GcvT; COG0404 350058006099 Sarcosine oxidase, gamma subunit family; Region: SoxG; cl01893 350058006100 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 350058006101 ABC-type Co2+ transport system, permease component [Inorganic ion transport and metabolism]; Region: CbiM; COG0310 350058006102 Cobalt uptake substrate-specific transmembrane region; Region: CbiM; pfam01891 350058006103 PDGLE domain; Region: PDGLE; pfam13190 350058006104 cobalt ABC transporter, permease protein CbiQ; Region: CbiQ_TIGR; TIGR02454 350058006105 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 350058006106 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 350058006107 Walker A/P-loop; other site 350058006108 ATP binding site [chemical binding]; other site 350058006109 Q-loop/lid; other site 350058006110 ABC transporter signature motif; other site 350058006111 Walker B; other site 350058006112 D-loop; other site 350058006113 H-loop/switch region; other site 350058006114 HAMP domain; Region: HAMP; pfam00672 350058006115 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 350058006116 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 350058006117 dimer interface [polypeptide binding]; other site 350058006118 phosphorylation site [posttranslational modification] 350058006119 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 350058006120 ATP binding site [chemical binding]; other site 350058006121 Mg2+ binding site [ion binding]; other site 350058006122 G-X-G motif; other site 350058006123 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 350058006124 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 350058006125 active site 350058006126 phosphorylation site [posttranslational modification] 350058006127 intermolecular recognition site; other site 350058006128 dimerization interface [polypeptide binding]; other site 350058006129 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 350058006130 DNA binding site [nucleotide binding] 350058006131 RNA polymerase sigma-70 factor, TIGR02947 family; Region: SigH_actino 350058006132 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 350058006133 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 350058006134 DNA binding residues [nucleotide binding] 350058006135 mycothione reductase; Reviewed; Region: PRK07846 350058006136 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 350058006137 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 350058006138 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 350058006139 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 350058006140 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 350058006141 malate:quinone oxidoreductase; Validated; Region: PRK05257 350058006142 malate:quinone-oxidoreductase; Region: mal_quin_oxido; TIGR01320 350058006143 Predicted acyltransferase [General function prediction only]; Region: ElaA; COG2153 350058006144 magnesium chelatase ATPase subunit I; Region: BchI-ChlI; TIGR02030 350058006145 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 350058006146 Walker A motif; other site 350058006147 ATP binding site [chemical binding]; other site 350058006148 Walker B motif; other site 350058006149 arginine finger; other site 350058006150 Mg-chelatase subunit ChlD [Coenzyme metabolism]; Region: ChlD; COG1240 350058006151 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 350058006152 metal ion-dependent adhesion site (MIDAS); other site 350058006153 ATP:corrinoid adenosyltransferase [Coenzyme metabolism]; Region: BtuR; COG2109 350058006154 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 350058006155 Walker A motif; other site 350058006156 homodimer interface [polypeptide binding]; other site 350058006157 ATP binding site [chemical binding]; other site 350058006158 hydroxycobalamin binding site [chemical binding]; other site 350058006159 Walker B motif; other site 350058006160 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 350058006161 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 350058006162 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 350058006163 catalytic triad [active] 350058006164 Siroheme synthase (precorrin-2 oxidase/ferrochelatase domain) [Coenzyme metabolism]; Region: CysG; COG1648 350058006165 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 350058006166 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 350058006167 active site 350058006168 SAM binding site [chemical binding]; other site 350058006169 homodimer interface [polypeptide binding]; other site 350058006170 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 350058006171 Major Facilitator Superfamily; Region: MFS_1; pfam07690 350058006172 putative substrate translocation pore; other site 350058006173 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 350058006174 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 350058006175 prolyl-tRNA synthetase; Provisional; Region: PRK09194 350058006176 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 350058006177 dimer interface [polypeptide binding]; other site 350058006178 motif 1; other site 350058006179 active site 350058006180 motif 2; other site 350058006181 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 350058006182 putative deacylase active site [active] 350058006183 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 350058006184 active site 350058006185 motif 3; other site 350058006186 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 350058006187 anticodon binding site; other site 350058006188 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 350058006189 dinuclear metal binding motif [ion binding]; other site 350058006190 ribosome maturation protein RimP; Reviewed; Region: PRK00092 350058006191 Sm and related proteins; Region: Sm_like; cl00259 350058006192 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 350058006193 putative oligomer interface [polypeptide binding]; other site 350058006194 putative RNA binding site [nucleotide binding]; other site 350058006195 transcription elongation factor NusA; Provisional; Region: nusA; PRK12327 350058006196 NusA N-terminal domain; Region: NusA_N; pfam08529 350058006197 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 350058006198 RNA binding site [nucleotide binding]; other site 350058006199 homodimer interface [polypeptide binding]; other site 350058006200 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 350058006201 G-X-X-G motif; other site 350058006202 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 350058006203 G-X-X-G motif; other site 350058006204 Protein of unknown function (DUF448); Region: DUF448; pfam04296 350058006205 putative RNA binding cleft [nucleotide binding]; other site 350058006206 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 350058006207 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 350058006208 Translation initiation factor 2 (IF-2; GTPase) [Translation, ribosomal structure and biogenesis]; Region: InfB; COG0532 350058006209 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 350058006210 G1 box; other site 350058006211 putative GEF interaction site [polypeptide binding]; other site 350058006212 GTP/Mg2+ binding site [chemical binding]; other site 350058006213 Switch I region; other site 350058006214 G2 box; other site 350058006215 G3 box; other site 350058006216 Switch II region; other site 350058006217 G4 box; other site 350058006218 G5 box; other site 350058006219 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 350058006220 Translation-initiation factor 2; Region: IF-2; pfam11987 350058006221 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 350058006222 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 350058006223 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 350058006224 DHH family; Region: DHH; pfam01368 350058006225 DHHA1 domain; Region: DHHA1; pfam02272 350058006226 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 350058006227 DinF and similar proteins, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_DinF_like; cd13136 350058006228 Methyltransferase domain; Region: Methyltransf_31; pfam13847 350058006229 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 350058006230 S-adenosylmethionine binding site [chemical binding]; other site 350058006231 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 350058006232 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 350058006233 S-adenosylmethionine binding site [chemical binding]; other site 350058006234 enoyl-CoA hydratase; Provisional; Region: PRK06190 350058006235 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 350058006236 substrate binding site [chemical binding]; other site 350058006237 oxyanion hole (OAH) forming residues; other site 350058006238 trimer interface [polypeptide binding]; other site 350058006239 Domain of unknown function (DUF1802); Region: DUF1802; pfam08819 350058006240 putative hydrolase, CocE/NonD family; Region: /NonD; TIGR00976 350058006241 X-Pro dipeptidyl-peptidase C-terminal non-catalytic domain; Region: PepX_C; smart00939 350058006242 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350058006243 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 350058006244 Protein of unknown function (DUF3558); Region: DUF3558; pfam12079 350058006245 Predicted phosphohydrolases [General function prediction only]; Region: Icc; COG1409 350058006246 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 350058006247 active site 350058006248 metal binding site [ion binding]; metal-binding site 350058006249 Phosphopantetheinyl transferase component of siderophore synthetase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntD; COG2977 350058006250 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 350058006251 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK03287 350058006252 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 350058006253 RNA binding site [nucleotide binding]; other site 350058006254 active site 350058006255 tRNA Pseudouridine synthase II, C terminal; Region: TruB_C; pfam09142 350058006256 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cl15354 350058006257 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 350058006258 NlpC/P60 family; Region: NLPC_P60; pfam00877 350058006259 Bacterial Ig-like domain (group 1); Region: Big_1; cl17740 350058006260 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 350058006261 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 350058006262 dimer interface [polypeptide binding]; other site 350058006263 phosphorylation site [posttranslational modification] 350058006264 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 350058006265 ATP binding site [chemical binding]; other site 350058006266 Mg2+ binding site [ion binding]; other site 350058006267 G-X-G motif; other site 350058006268 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 350058006269 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 350058006270 active site 350058006271 phosphorylation site [posttranslational modification] 350058006272 intermolecular recognition site; other site 350058006273 dimerization interface [polypeptide binding]; other site 350058006274 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 350058006275 DNA binding site [nucleotide binding] 350058006276 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 350058006277 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350058006278 lipid-transfer protein; Provisional; Region: PRK08256 350058006279 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 350058006280 active site 350058006281 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cd07812 350058006282 hydrophobic ligand binding site; other site 350058006283 (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 350058006284 active site 350058006285 catalytic site [active] 350058006286 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 350058006287 active site 2 [active] 350058006288 active site 1 [active] 350058006289 short chain dehydrogenase; Provisional; Region: PRK07791 350058006290 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 350058006291 NAD(P) binding site [chemical binding]; other site 350058006292 active site 350058006293 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 350058006294 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 350058006295 active site 350058006296 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 350058006297 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 350058006298 acyl-CoA synthetase; Validated; Region: PRK07788 350058006299 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 350058006300 active site 350058006301 CoA binding site [chemical binding]; other site 350058006302 AMP binding site [chemical binding]; other site 350058006303 short chain dehydrogenase; Provisional; Region: PRK07825 350058006304 classical (c) SDRs; Region: SDR_c; cd05233 350058006305 NAD(P) binding site [chemical binding]; other site 350058006306 active site 350058006307 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cd07812 350058006308 hydrophobic ligand binding site; other site 350058006309 Mn-dependent transcriptional regulator [Transcription]; Region: TroR; COG1321 350058006310 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 350058006311 putative DNA binding site [nucleotide binding]; other site 350058006312 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 350058006313 FeoA domain; Region: FeoA; pfam04023 350058006314 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 350058006315 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 350058006316 active site 350058006317 Riboflavin kinase; Region: Flavokinase; pfam01687 350058006318 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 350058006319 16S/18S rRNA binding site [nucleotide binding]; other site 350058006320 S13e-L30e interaction site [polypeptide binding]; other site 350058006321 25S rRNA binding site [nucleotide binding]; other site 350058006322 guanosine pentaphosphate synthetase I/polynucleotide phosphorylase; Region: pppGpp_PNP; TIGR02696 350058006323 RNase PH-like 3'-5' exoribonucleases; Region: RNase_PH; cl03114 350058006324 oligomer interface [polypeptide binding]; other site 350058006325 RNA binding site [nucleotide binding]; other site 350058006326 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 350058006327 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 350058006328 RNase E interface [polypeptide binding]; other site 350058006329 trimer interface [polypeptide binding]; other site 350058006330 active site 350058006331 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 350058006332 putative nucleic acid binding region [nucleotide binding]; other site 350058006333 G-X-X-G motif; other site 350058006334 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 350058006335 RNA binding site [nucleotide binding]; other site 350058006336 domain interface; other site 350058006337 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 350058006338 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 350058006339 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 350058006340 Beta-lactamase enzyme family; Region: Beta-lactamase2; pfam13354 350058006341 GXWXG protein; Region: GXWXG; pfam14231 350058006342 Domain of unknown function (DUF4334); Region: DUF4334; pfam14232 350058006343 hypothetical protein; Provisional; Region: PRK04233 350058006344 SEC-C motif; Region: SEC-C; pfam02810 350058006345 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 350058006346 Alanine dehydrogenase NAD-binding and catalytic domains; Region: L-AlaDH; cd05305 350058006347 hexamer interface [polypeptide binding]; other site 350058006348 ligand binding site [chemical binding]; other site 350058006349 putative active site [active] 350058006350 NAD(P) binding site [chemical binding]; other site 350058006351 helix_turn_helix ASNC type; Region: HTH_ASNC; smart00344 350058006352 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 350058006353 putative DNA binding site [nucleotide binding]; other site 350058006354 putative Zn2+ binding site [ion binding]; other site 350058006355 AsnC family; Region: AsnC_trans_reg; pfam01037 350058006356 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 350058006357 Zn finger protein HypA/HybF (possibly regulating hydrogenase expression) [General function prediction only]; Region: HybF; COG0375 350058006358 Hydrogenase expression/synthesis hypA family; Region: HypA; pfam01155 350058006359 Acylphosphatase; Region: Acylphosphatase; pfam00708 350058006360 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypF; COG0068 350058006361 HypF finger; Region: zf-HYPF; pfam07503 350058006362 HypF finger; Region: zf-HYPF; pfam07503 350058006363 Telomere recombination; Region: Sua5_yciO_yrdC; pfam01300 350058006364 HupF/HypC family; Region: HupF_HypC; pfam01455 350058006365 hydrogenase isoenzymes formation protein HypD; Provisional; Region: PRK15062 350058006366 hydrogenase expression/formation protein HypD; Region: hypD; TIGR00075 350058006367 hydrogenase expression/formation protein HypE; Region: hypE; TIGR02124 350058006368 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 350058006369 dimerization interface [polypeptide binding]; other site 350058006370 ATP binding site [chemical binding]; other site 350058006371 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 350058006372 Helix-turn-helix domain; Region: HTH_18; pfam12833 350058006373 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 350058006374 Uncharacterized conserved protein [Function unknown]; Region: COG2427 350058006375 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; pfam01058 350058006376 Ni,Fe-hydrogenase I large subunit [Energy production and conversion]; Region: HyaB; COG0374 350058006377 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; pfam00374 350058006378 coenzyme F420-reducing hydrogenase delta subunit (putative coenzyme F420 hydrogenase processing subunit); Region: frhD; TIGR00130 350058006379 Hydrogenase specific C-terminal endopeptidases, also called Hydrogen Maturation Proteases (H2MP). These enzymes belong to the peptidase family M52. Maturation of [FeNi] hydrogenases includes formation of the nickel metallocenter, proteolytic processing...; Region: H2MP; cl00477 350058006380 nickel binding site [ion binding]; other site 350058006381 Tetratricopeptide repeat; Region: TPR_12; pfam13424 350058006382 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 350058006383 binding surface 350058006384 TPR motif; other site 350058006385 NifU-like domain; Region: NifU; cl00484 350058006386 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 350058006387 iron-sulfur cluster [ion binding]; other site 350058006388 [2Fe-2S] cluster binding site [ion binding]; other site 350058006389 Domain of unknown function (DUF222); Region: DUF222; pfam02720 350058006390 Domain of unknown function (DUF222); Region: DUF222; pfam02720 350058006391 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 350058006392 active site 350058006393 dihydrodipicolinate reductase; Provisional; Region: PRK00048 350058006394 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 350058006395 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 350058006396 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 350058006397 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 350058006398 Citrate lyase beta subunit [Carbohydrate transport and metabolism]; Region: CitE; COG2301 350058006399 Dienelactone hydrolase family; Region: DLH; pfam01738 350058006400 thymidylate synthase; Reviewed; Region: thyA; PRK01827 350058006401 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 350058006402 dimerization interface [polypeptide binding]; other site 350058006403 active site 350058006404 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 350058006405 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 350058006406 folate binding site [chemical binding]; other site 350058006407 NADP+ binding site [chemical binding]; other site 350058006408 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3214 350058006409 Protein of unknown function (DUF1006); Region: DUF1006; pfam06224 350058006410 haloalkane dehalogenase; Provisional; Region: PRK00870 350058006411 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 350058006412 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 350058006413 metal binding site [ion binding]; metal-binding site 350058006414 active site 350058006415 I-site; other site 350058006416 FAD-dependent thymidylate synthase; Reviewed; Region: thyX; PRK00847 350058006417 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 350058006418 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 350058006419 dimer interface [polypeptide binding]; other site 350058006420 active site 350058006421 catalytic residue [active] 350058006422 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 350058006423 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 350058006424 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 350058006425 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 350058006426 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 350058006427 active site 350058006428 phosphorylation site [posttranslational modification] 350058006429 intermolecular recognition site; other site 350058006430 dimerization interface [polypeptide binding]; other site 350058006431 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 350058006432 DNA binding site [nucleotide binding] 350058006433 O-Methyltransferase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3315 350058006434 Leucine carboxyl methyltransferase; Region: LCM; cl01306 350058006435 3-ketoacyl-(acyl-carrier-protein) reductase; Reviewed; Region: PRK12826 350058006436 classical (c) SDRs; Region: SDR_c; cd05233 350058006437 NAD(P) binding site [chemical binding]; other site 350058006438 active site 350058006439 Uncharacterized conserved protein [Function unknown]; Region: COG1359 350058006440 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 350058006441 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 350058006442 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 350058006443 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 350058006444 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 350058006445 Coenzyme A binding pocket [chemical binding]; other site 350058006446 Phosphatidylglycerophosphate synthase [Lipid metabolism]; Region: PgsA; COG0558 350058006447 Competence-damaged protein; Region: CinA; pfam02464 350058006448 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 350058006449 non-specific DNA binding site [nucleotide binding]; other site 350058006450 salt bridge; other site 350058006451 sequence-specific DNA binding site [nucleotide binding]; other site 350058006452 Phage shock protein A (IM30), suppresses sigma54-dependent transcription [Transcription / Signal transduction mechanisms]; Region: PspA; COG1842 350058006453 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 350058006454 Glycosyl transferases, related to UDP-glucuronosyltransferase [Carbohydrate transport and metabolism / Signal transduction mechanisms]; Region: COG1819 350058006455 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 350058006456 Protein of unknown function (DUF3046); Region: DUF3046; pfam11248 350058006457 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 350058006458 dimerization interface [polypeptide binding]; other site 350058006459 hydrogenase expression/formation protein HypE; Region: hypE; TIGR02124 350058006460 ATP binding site [chemical binding]; other site 350058006461 hydrogenase isoenzymes formation protein HypD; Provisional; Region: PRK15062 350058006462 hydrogenase expression/formation protein HypD; Region: hypD; TIGR00075 350058006463 HupF/HypC family; Region: HupF_HypC; pfam01455 350058006464 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypF; COG0068 350058006465 Acylphosphatase; Region: Acylphosphatase; pfam00708 350058006466 HypF finger; Region: zf-HYPF; pfam07503 350058006467 HypF finger; Region: zf-HYPF; pfam07503 350058006468 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 350058006469 HupF/HypC family; Region: HupF_HypC; pfam01455 350058006470 Putative [NiFe] hydrogenase-specific C-terminal protease. Sequence comparison shows similarity to hydrogenase specific C-terminal endopeptidases, also called Hydrogen Maturation Proteases (H2MP). Maturation of [FeNi] hydrogenases includes formation of...; Region: H2MP_like-1; cd06068 350058006471 nickel binding site [ion binding]; other site 350058006472 NifU-like domain; Region: NifU; cl00484 350058006473 Integrase core domain; Region: rve; pfam00665 350058006474 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; pfam01058 350058006475 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 350058006476 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 350058006477 Zn finger protein HypA/HybF (possibly regulating hydrogenase expression) [General function prediction only]; Region: HybF; COG0375 350058006478 Hydrogenase expression/synthesis hypA family; Region: HypA; pfam01155 350058006479 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 350058006480 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 350058006481 recombinase A; Provisional; Region: recA; PRK09354 350058006482 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 350058006483 hexamer interface [polypeptide binding]; other site 350058006484 Walker A motif; other site 350058006485 ATP binding site [chemical binding]; other site 350058006486 Walker B motif; other site 350058006487 recombination regulator RecX; Reviewed; Region: recX; PRK00117 350058006488 hypothetical protein; Provisional; Region: PRK06834 350058006489 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 350058006490 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 350058006491 Protein of unknown function (DUF1622); Region: DUF1622; pfam07784 350058006492 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 350058006493 dimer interface [polypeptide binding]; other site 350058006494 conserved gate region; other site 350058006495 putative PBP binding loops; other site 350058006496 ABC-ATPase subunit interface; other site 350058006497 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 350058006498 dimer interface [polypeptide binding]; other site 350058006499 conserved gate region; other site 350058006500 putative PBP binding loops; other site 350058006501 ABC-ATPase subunit interface; other site 350058006502 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 350058006503 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 350058006504 substrate binding pocket [chemical binding]; other site 350058006505 membrane-bound complex binding site; other site 350058006506 hinge residues; other site 350058006507 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 350058006508 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 350058006509 Walker A/P-loop; other site 350058006510 ATP binding site [chemical binding]; other site 350058006511 Q-loop/lid; other site 350058006512 ABC transporter signature motif; other site 350058006513 Walker B; other site 350058006514 D-loop; other site 350058006515 H-loop/switch region; other site 350058006516 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14326 350058006517 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 350058006518 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 350058006519 FeS/SAM binding site; other site 350058006520 Domain of Unknown Function (DUF349); Region: DUF349; pfam03993 350058006521 Domain of Unknown Function (DUF349); Region: DUF349; pfam03993 350058006522 Domain of Unknown Function (DUF349); Region: DUF349; pfam03993 350058006523 Subunit B of Class III Extradiol ring-cleavage dioxygenases; Region: Extradiol_Dioxygenase_3B_like; cl00599 350058006524 active site 350058006525 metal binding site [ion binding]; metal-binding site 350058006526 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 350058006527 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 350058006528 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 350058006529 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 350058006530 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 350058006531 GTPases [General function prediction only]; Region: HflX; COG2262 350058006532 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 350058006533 HflX GTPase family; Region: HflX; cd01878 350058006534 G1 box; other site 350058006535 GTP/Mg2+ binding site [chemical binding]; other site 350058006536 Switch I region; other site 350058006537 G2 box; other site 350058006538 G3 box; other site 350058006539 Switch II region; other site 350058006540 G4 box; other site 350058006541 G5 box; other site 350058006542 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 350058006543 DEAD-like helicases superfamily; Region: DEXDc; smart00487 350058006544 ATP binding site [chemical binding]; other site 350058006545 Mg++ binding site [ion binding]; other site 350058006546 motif III; other site 350058006547 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 350058006548 nucleotide binding region [chemical binding]; other site 350058006549 ATP-binding site [chemical binding]; other site 350058006550 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 350058006551 molybdopterin guanine dinucleotide-containing S/N-oxide reductases; Region: bisC_fam; TIGR00509 350058006552 molybdopterin cofactor binding site [chemical binding]; other site 350058006553 substrate binding site [chemical binding]; other site 350058006554 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 350058006555 molybdopterin cofactor binding site; other site 350058006556 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 350058006557 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 350058006558 active site 350058006559 Uncharacterized protein potentially involved in peptidoglycan biosynthesis [Cell envelope biogenesis, outer membrane]; Region: COG5479 350058006560 LGFP repeat; Region: LGFP; pfam08310 350058006561 LGFP repeat; Region: LGFP; pfam08310 350058006562 LGFP repeat; Region: LGFP; pfam08310 350058006563 LGFP repeat; Region: LGFP; pfam08310 350058006564 LGFP repeat; Region: LGFP; pfam08310 350058006565 Ribosomal protein L4/L1 family; Region: Ribosomal_L4; cl00325 350058006566 LexA repressor; Validated; Region: PRK00215 350058006567 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 350058006568 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 350058006569 Catalytic site [active] 350058006570 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cl00107 350058006571 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 350058006572 ATP cone domain; Region: ATP-cone; pfam03477 350058006573 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 350058006574 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 350058006575 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 350058006576 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 350058006577 nucleophilic elbow; other site 350058006578 catalytic triad; other site 350058006579 PAC2 family; Region: PAC2; pfam09754 350058006580 soluble pyridine nucleotide transhydrogenase; Provisional; Region: PRK05249 350058006581 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 350058006582 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 350058006583 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 350058006584 Domain of unknown function (DUF4192); Region: DUF4192; pfam13830 350058006585 Mn-dependent transcriptional regulator [Transcription]; Region: TroR; COG1321 350058006586 Iron dependent repressor, N-terminal DNA binding domain; Region: Fe_dep_repress; pfam01325 350058006587 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 350058006588 This entry represents the core domain of the ferrous iron (Fe2+) transport protein FeoA found in bacteria; Region: FeoA; smart00899 350058006589 RNA polymerase sigma factor SigB; Reviewed; Region: PRK07921 350058006590 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 350058006591 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 350058006592 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 350058006593 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 350058006594 DNA binding residues [nucleotide binding] 350058006595 Protein of unknown function (DUF3099); Region: DUF3099; pfam11298 350058006596 Protein of unknown function (DUF3039); Region: DUF3039; pfam11238 350058006597 Ribonuclease BN family enzyme [Replication, recombination, and repair]; Region: Rbn; COG1295 350058006598 Protein of unknown function (DUF952); Region: DUF952; pfam06108 350058006599 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 350058006600 homotrimer interaction site [polypeptide binding]; other site 350058006601 putative active site [active] 350058006602 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 350058006603 putative DNA binding site [nucleotide binding]; other site 350058006604 putative Zn2+ binding site [ion binding]; other site 350058006605 O-methyltransferase; Region: Methyltransf_2; pfam00891 350058006606 RNA polymerase sigma factor SigB; Reviewed; Region: PRK07921 350058006607 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 350058006608 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 350058006609 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 350058006610 DNA binding residues [nucleotide binding] 350058006611 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 350058006612 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 350058006613 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 350058006614 active site 350058006615 LytR cell envelope-related transcriptional attenuator; Region: LytR_C; pfam13399 350058006616 Domain of unknown function (DUF4193); Region: DUF4193; pfam13834 350058006617 Protein of unknown function (DUF3093); Region: DUF3093; pfam11292 350058006618 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 350058006619 trimer interface [polypeptide binding]; other site 350058006620 active site 350058006621 Protein of unknown function (DUF3710); Region: DUF3710; pfam12502 350058006622 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 350058006623 generic binding surface II; other site 350058006624 ssDNA binding site; other site 350058006625 Protein of unknown function (DUF3159); Region: DUF3159; pfam11361 350058006626 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 350058006627 TrkA-N domain; Region: TrkA_N; pfam02254 350058006628 TrkA-C domain; Region: TrkA_C; pfam02080 350058006629 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 350058006630 TrkA-N domain; Region: TrkA_N; pfam02254 350058006631 TrkA-C domain; Region: TrkA_C; pfam02080 350058006632 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 350058006633 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 350058006634 TRAM domain; Region: TRAM; cl01282 350058006635 pH-dependent sodium/proton antiporter; Provisional; Region: nhaA; PRK14853 350058006636 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 350058006637 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 350058006638 TPP-binding site; other site 350058006639 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 350058006640 PYR/PP interface [polypeptide binding]; other site 350058006641 dimer interface [polypeptide binding]; other site 350058006642 TPP binding site [chemical binding]; other site 350058006643 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 350058006644 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 350058006645 Ribonuclease D [Translation, ribosomal structure and biogenesis]; Region: Rnd; COG0349 350058006646 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 350058006647 catalytic site [active] 350058006648 putative active site [active] 350058006649 putative substrate binding site [chemical binding]; other site 350058006650 Helicase and RNase D C-terminal; Region: HRDC; smart00341 350058006651 Protein of unknown function (DUF3000); Region: DUF3000; pfam11452 350058006652 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 350058006653 substrate binding site [chemical binding]; other site 350058006654 active site 350058006655 protoporphyrinogen oxidase; Reviewed; Region: PRK11883 350058006656 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 350058006657 Predicted heme peroxidase involved in anaerobic stress response [General function prediction only]; Region: ywfI; COG3253 350058006658 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 350058006659 Conserved domain frequently associated with peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: COG0229 350058006660 SelR domain; Region: SelR; pfam01641 350058006661 Protein of unknown function (DUF2029); Region: DUF2029; pfam09594 350058006662 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 350058006663 TAP-like protein; Region: Abhydrolase_4; pfam08386 350058006664 hypothetical protein; Provisional; Region: PRK14059 350058006665 Pyrimidine reductase, riboflavin biosynthesis [Coenzyme metabolism]; Region: RibD; COG1985 350058006666 AFG1-like ATPase; Region: AFG1_ATPase; pfam03969 350058006667 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 350058006668 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 350058006669 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 350058006670 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 350058006671 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 350058006672 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 350058006673 DNA binding site [nucleotide binding] 350058006674 active site 350058006675 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 350058006676 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 350058006677 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 350058006678 DNA binding residues [nucleotide binding] 350058006679 Clp amino terminal domain; Region: Clp_N; pfam02861 350058006680 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 350058006681 hydrophobic ligand binding site; other site 350058006682 Helix-turn-helix domain; Region: HTH_28; pfam13518 350058006683 Winged helix-turn helix; Region: HTH_29; pfam13551 350058006684 Homeodomain-like domain; Region: HTH_32; pfam13565 350058006685 Integrase core domain; Region: rve; pfam00665 350058006686 Mu transposase, C-terminal; Region: Mu-transpos_C; pfam09299 350058006687 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 350058006688 AAA domain; Region: AAA_22; pfam13401 350058006689 ATP-binding site [chemical binding]; other site 350058006690 Transposase zinc-ribbon domain; Region: Zn_Tnp_IS1595; pfam12760 350058006691 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; pfam12762 350058006692 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 350058006693 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 350058006694 active site 350058006695 Int/Topo IB signature motif; other site 350058006696 DNA binding site [nucleotide binding] 350058006697 Helix-turn-helix domain; Region: HTH_17; pfam12728 350058006698 AAA domain; Region: AAA_25; pfam13481 350058006699 Transcription factor WhiB; Region: Whib; pfam02467 350058006700 Phage capsid family; Region: Phage_capsid; pfam05065 350058006701 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 350058006702 active site 350058006703 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 350058006704 Transposase; Region: HTH_Tnp_1; pfam01527 350058006705 putative transposase OrfB; Reviewed; Region: PHA02517 350058006706 HTH-like domain; Region: HTH_21; pfam13276 350058006707 Integrase core domain; Region: rve; pfam00665 350058006708 Integrase core domain; Region: rve_3; pfam13683 350058006709 Protein of unknown function (DUF1664); Region: DUF1664; pfam07889 350058006710 Fic family protein [Function unknown]; Region: COG3177 350058006711 Fic/DOC family; Region: Fic; pfam02661 350058006712 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 350058006713 anti sigma factor interaction site; other site 350058006714 regulatory phosphorylation site [posttranslational modification]; other site 350058006715 RNA polymerase sigma-70 factor, sigma-B/F/G subfamily; Region: SigBFG; TIGR02980 350058006716 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 350058006717 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 350058006718 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 350058006719 DNA binding residues [nucleotide binding] 350058006720 PE-PPE domain; Region: PE-PPE; pfam08237 350058006721 ABC-type sulfate/molybdate transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: CysA; COG1118 350058006722 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 350058006723 Walker A/P-loop; other site 350058006724 ATP binding site [chemical binding]; other site 350058006725 Q-loop/lid; other site 350058006726 ABC transporter signature motif; other site 350058006727 Walker B; other site 350058006728 D-loop; other site 350058006729 H-loop/switch region; other site 350058006730 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 350058006731 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 350058006732 dimer interface [polypeptide binding]; other site 350058006733 conserved gate region; other site 350058006734 putative PBP binding loops; other site 350058006735 ABC-ATPase subunit interface; other site 350058006736 ABC-type molybdate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: ModA; COG0725 350058006737 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 350058006738 Helix-Turn-Helix DNA binding domain of truncated MerR-like proteins; Region: HTH_MerR-trunc; cd04762 350058006739 DNA binding residues [nucleotide binding] 350058006740 TOBE domain; Region: TOBE; cl01440 350058006741 Lipopolysaccharide kinase (Kdo/WaaP) family; Region: Kdo; cl17488 350058006742 Domain of unknown function (DUF4032); Region: DUF4032; pfam13224 350058006743 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 350058006744 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 350058006745 Walker A/P-loop; other site 350058006746 ATP binding site [chemical binding]; other site 350058006747 Q-loop/lid; other site 350058006748 ABC transporter signature motif; other site 350058006749 Walker B; other site 350058006750 D-loop; other site 350058006751 H-loop/switch region; other site 350058006752 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 350058006753 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 350058006754 dimer interface [polypeptide binding]; other site 350058006755 conserved gate region; other site 350058006756 putative PBP binding loops; other site 350058006757 ABC-ATPase subunit interface; other site 350058006758 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 350058006759 dimer interface [polypeptide binding]; other site 350058006760 conserved gate region; other site 350058006761 putative PBP binding loops; other site 350058006762 ABC-ATPase subunit interface; other site 350058006763 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 350058006764 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 350058006765 Transcriptional regulators [Transcription]; Region: PurR; COG1609 350058006766 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 350058006767 DNA binding site [nucleotide binding] 350058006768 domain linker motif; other site 350058006769 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 350058006770 ligand binding site [chemical binding]; other site 350058006771 dimerization interface [polypeptide binding]; other site 350058006772 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 350058006773 active site 350058006774 catalytic site [active] 350058006775 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 350058006776 dimer interface [polypeptide binding]; other site 350058006777 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 350058006778 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 350058006779 active site 350058006780 phosphorylation site [posttranslational modification] 350058006781 intermolecular recognition site; other site 350058006782 dimerization interface [polypeptide binding]; other site 350058006783 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 350058006784 DNA binding residues [nucleotide binding] 350058006785 dimerization interface [polypeptide binding]; other site 350058006786 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 350058006787 Ligand Binding Site [chemical binding]; other site 350058006788 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 350058006789 dimer interface [polypeptide binding]; other site 350058006790 GAF domain; Region: GAF; pfam01590 350058006791 GAF domain; Region: GAF_2; pfam13185 350058006792 ANTAR (AmiR and NasR transcription antitermination regulators) is an RNA-binding domain found in bacterial transcription antitermination regulatory proteins; Region: ANTAR; smart01012 350058006793 Domain of unknown function (DUF1990); Region: DUF1990; pfam09348 350058006794 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 350058006795 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 350058006796 active site 350058006797 catalytic tetrad [active] 350058006798 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 350058006799 CoenzymeA binding site [chemical binding]; other site 350058006800 subunit interaction site [polypeptide binding]; other site 350058006801 PHB binding site; other site 350058006802 Putative transmembrane protein (PGPGW); Region: PGPGW; cl09870 350058006803 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK12305 350058006804 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; pfam07973 350058006805 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 350058006806 active site 350058006807 dimer interface [polypeptide binding]; other site 350058006808 motif 1; other site 350058006809 motif 2; other site 350058006810 motif 3; other site 350058006811 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 350058006812 anticodon binding site; other site 350058006813 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 350058006814 nucleotide binding site/active site [active] 350058006815 HIT family signature motif; other site 350058006816 catalytic residue [active] 350058006817 Phosphatidylglycerophosphate synthase [Lipid metabolism]; Region: PgsA; COG0558 350058006818 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 350058006819 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 350058006820 putative acyl-acceptor binding pocket; other site 350058006821 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 350058006822 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 350058006823 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 350058006824 nudix motif; other site 350058006825 pyridoxal 5'-phosphate synthase, synthase subunit Pdx1; Region: TIGR00343 350058006826 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 350058006827 active site 350058006828 multimer interface [polypeptide binding]; other site 350058006829 acyl-CoA thioesterase II; Region: tesB; TIGR00189 350058006830 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 350058006831 active site 350058006832 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 350058006833 catalytic triad [active] 350058006834 dimer interface [polypeptide binding]; other site 350058006835 Glutamine Amidotransferase (GATase_I) involved in pyridoxine biosynthesis; Region: GATase1_PB; cd01749 350058006836 predicted active site [active] 350058006837 catalytic triad [active] 350058006838 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 350058006839 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 350058006840 active site 350058006841 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 350058006842 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350058006843 hypothetical protein; Validated; Region: PRK00110 350058006844 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 350058006845 active site 350058006846 putative DNA-binding cleft [nucleotide binding]; other site 350058006847 dimer interface [polypeptide binding]; other site 350058006848 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 350058006849 RuvA N terminal domain; Region: RuvA_N; pfam01330 350058006850 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 350058006851 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 350058006852 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 350058006853 Walker A motif; other site 350058006854 ATP binding site [chemical binding]; other site 350058006855 Walker B motif; other site 350058006856 arginine finger; other site 350058006857 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 350058006858 Protein of unknown function (DUF1304); Region: DUF1304; pfam06993 350058006859 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 350058006860 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 350058006861 acyl-activating enzyme (AAE) consensus motif; other site 350058006862 AMP binding site [chemical binding]; other site 350058006863 active site 350058006864 CoA binding site [chemical binding]; other site 350058006865 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 350058006866 Putative dehydrogenase domain of multifunctional non-ribosomal peptide synthetases and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3320 350058006867 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 350058006868 NAD(P) binding site [chemical binding]; other site 350058006869 active site 350058006870 gamma-aminobutyraldehyde dehydrogenase; Provisional; Region: PRK13473 350058006871 Escherichia coli NAD+-dependent gamma-aminobutyraldehyde dehydrogenase YdcW-like; Region: ALDH_ABALDH-YdcW; cd07092 350058006872 tetrameric interface [polypeptide binding]; other site 350058006873 NAD binding site [chemical binding]; other site 350058006874 catalytic residues [active] 350058006875 substrate binding site [chemical binding]; other site 350058006876 4-aminobutyrate aminotransferase; Provisional; Region: PRK06058 350058006877 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 350058006878 inhibitor-cofactor binding pocket; inhibition site 350058006879 pyridoxal 5'-phosphate binding site [chemical binding]; other site 350058006880 catalytic residue [active] 350058006881 preprotein translocase subunit YajC; Validated; Region: yajC; PRK05886 350058006882 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 350058006883 Protein export membrane protein; Region: SecD_SecF; cl14618 350058006884 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 350058006885 Protein export membrane protein; Region: SecD_SecF; pfam02355 350058006886 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 350058006887 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 350058006888 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 350058006889 active site 350058006890 (p)ppGpp synthetase, RelA/SpoT family; Region: spoT_relA; TIGR00691 350058006891 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 350058006892 Zn2+ binding site [ion binding]; other site 350058006893 Mg2+ binding site [ion binding]; other site 350058006894 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 350058006895 synthetase active site [active] 350058006896 NTP binding site [chemical binding]; other site 350058006897 metal binding site [ion binding]; metal-binding site 350058006898 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 350058006899 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 350058006900 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 350058006901 active site 350058006902 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 350058006903 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 350058006904 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 350058006905 motif 1; other site 350058006906 dimer interface [polypeptide binding]; other site 350058006907 active site 350058006908 motif 2; other site 350058006909 motif 3; other site 350058006910 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 350058006911 anticodon binding site; other site 350058006912 urea ABC transporter, ATP-binding protein UrtE; Region: urea_trans_UrtE; TIGR03410 350058006913 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 350058006914 Walker A/P-loop; other site 350058006915 ATP binding site [chemical binding]; other site 350058006916 Q-loop/lid; other site 350058006917 ABC transporter signature motif; other site 350058006918 Walker B; other site 350058006919 D-loop; other site 350058006920 H-loop/switch region; other site 350058006921 urea ABC transporter, ATP-binding protein UrtD; Region: urea_trans_UrtD; TIGR03411 350058006922 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 350058006923 Walker A/P-loop; other site 350058006924 ATP binding site [chemical binding]; other site 350058006925 Q-loop/lid; other site 350058006926 ABC transporter signature motif; other site 350058006927 Walker B; other site 350058006928 D-loop; other site 350058006929 H-loop/switch region; other site 350058006930 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 350058006931 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 350058006932 TM-ABC transporter signature motif; other site 350058006933 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 350058006934 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 350058006935 TM-ABC transporter signature motif; other site 350058006936 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 350058006937 Periplasmic component (FmdD) of an active transport system for short-chain amides and urea (FmdDEF); Region: PBP1_FmdD_like; cd06355 350058006938 putative ligand binding site [chemical binding]; other site 350058006939 Superfamily I DNA and RNA helicases [General function prediction only]; Region: COG3973 350058006940 Part of AAA domain; Region: AAA_19; pfam13245 350058006941 Radical SAM superfamily; Region: Radical_SAM; pfam04055 350058006942 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 350058006943 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 350058006944 active site 350058006945 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 350058006946 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 350058006947 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 350058006948 active site 350058006949 Amidohydrolase; Region: Amidohydro_2; pfam04909 350058006950 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 350058006951 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350058006952 acyl-CoA thioesterase II; Region: tesB; TIGR00189 350058006953 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 350058006954 active site 350058006955 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 350058006956 catalytic triad [active] 350058006957 dimer interface [polypeptide binding]; other site 350058006958 zinc-ribbon domain; Region: zf-ribbon_3; pfam13248 350058006959 Bacterial protein of unknown function (DUF885); Region: DUF885; pfam05960 350058006960 Putative neutral zinc metallopeptidase; Region: Zn_peptidase; pfam04228 350058006961 Carboxylesterase type B [Lipid metabolism]; Region: PnbA; COG2272 350058006962 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 350058006963 substrate binding pocket [chemical binding]; other site 350058006964 catalytic triad [active] 350058006965 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 350058006966 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 350058006967 substrate binding site [chemical binding]; other site 350058006968 oxyanion hole (OAH) forming residues; other site 350058006969 trimer interface [polypeptide binding]; other site 350058006970 YCII-related domain; Region: YCII; cl00999 350058006971 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 350058006972 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 350058006973 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 350058006974 DNA binding residues [nucleotide binding] 350058006975 Pyrabactin resistance 1 (PYR1), PYR1-like (PYL), regulatory component of abscisic acid receptors (RCARs), and related proteins; Region: PYR_PYL_RCAR_like; cd07821 350058006976 putative hydrophobic ligand binding site [chemical binding]; other site 350058006977 protein interface [polypeptide binding]; other site 350058006978 gate; other site 350058006979 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 350058006980 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 350058006981 dimer interface [polypeptide binding]; other site 350058006982 anticodon binding site; other site 350058006983 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 350058006984 homodimer interface [polypeptide binding]; other site 350058006985 motif 1; other site 350058006986 active site 350058006987 motif 2; other site 350058006988 GAD domain; Region: GAD; pfam02938 350058006989 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 350058006990 active site 350058006991 motif 3; other site 350058006992 Domain of unknown function (DUF385); Region: DUF385; pfam04075 350058006993 acetyl-CoA acetyltransferase; Provisional; Region: PRK07801 350058006994 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 350058006995 dimer interface [polypeptide binding]; other site 350058006996 active site 350058006997 Predicted transcriptional regulators [Transcription]; Region: COG1733 350058006998 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 350058006999 BtpA family; Region: BtpA; cl00440 350058007000 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 350058007001 classical (c) SDRs; Region: SDR_c; cd05233 350058007002 NAD(P) binding site [chemical binding]; other site 350058007003 active site 350058007004 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 350058007005 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 350058007006 Walker A/P-loop; other site 350058007007 ATP binding site [chemical binding]; other site 350058007008 Q-loop/lid; other site 350058007009 ABC transporter signature motif; other site 350058007010 Walker B; other site 350058007011 D-loop; other site 350058007012 H-loop/switch region; other site 350058007013 TOBE domain; Region: TOBE; pfam03459 350058007014 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 350058007015 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 350058007016 dimer interface [polypeptide binding]; other site 350058007017 conserved gate region; other site 350058007018 putative PBP binding loops; other site 350058007019 ABC-ATPase subunit interface; other site 350058007020 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 350058007021 dimer interface [polypeptide binding]; other site 350058007022 conserved gate region; other site 350058007023 ABC-ATPase subunit interface; other site 350058007024 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 350058007025 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 350058007026 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 350058007027 uncharacterized xylulose kinase-like proteins; a subgroup of the FGGY family of carbohydrate kinases; Region: FGGY_XK_like_1; cd07804 350058007028 N- and C-terminal domain interface [polypeptide binding]; other site 350058007029 putative active site [active] 350058007030 MgATP binding site [chemical binding]; other site 350058007031 catalytic site [active] 350058007032 metal binding site [ion binding]; metal-binding site 350058007033 putative xylulose binding site [chemical binding]; other site 350058007034 putative homodimer interface [polypeptide binding]; other site 350058007035 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 350058007036 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 350058007037 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 350058007038 Domain of unknown function (DUF389); Region: DUF389; cl00781 350058007039 Domain of unknown function (DUF389); Region: DUF389; cl00781 350058007040 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 350058007041 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 350058007042 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 350058007043 Putative amidoligase enzyme (DUF2126); Region: DUF2126; pfam09899 350058007044 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4196 350058007045 A circularly permuted ATPgrasp; Region: CP_ATPgrasp_1; cl17448 350058007046 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2307 350058007047 A predicted alpha-helical domain with a conserved ER motif; Region: Alpha-E; pfam04168 350058007048 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 350058007049 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 350058007050 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 350058007051 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4307 350058007052 Uncharacterized protein conserved in bacteria (DUF2248); Region: DUF2248; pfam10005 350058007053 phosphoenolpyruvate synthase; Validated; Region: PRK06241 350058007054 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 350058007055 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 350058007056 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 350058007057 NAD(P) binding site [chemical binding]; other site 350058007058 active site 350058007059 Protein of unknown function (DUF3097); Region: DUF3097; pfam11296 350058007060 recombination factor protein RarA; Reviewed; Region: PRK13342 350058007061 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 350058007062 Walker A motif; other site 350058007063 ATP binding site [chemical binding]; other site 350058007064 Walker B motif; other site 350058007065 arginine finger; other site 350058007066 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 350058007067 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 350058007068 dimerization interface [polypeptide binding]; other site 350058007069 putative DNA binding site [nucleotide binding]; other site 350058007070 putative Zn2+ binding site [ion binding]; other site 350058007071 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; Region: SRPBCC_CalC_Aha1-like_9; cd07826 350058007072 putative hydrophobic ligand binding site [chemical binding]; other site 350058007073 Uncharacterized conserved protein [Function unknown]; Region: COG0432 350058007074 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 350058007075 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 350058007076 motif 1; other site 350058007077 active site 350058007078 motif 2; other site 350058007079 motif 3; other site 350058007080 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 350058007081 DHHA1 domain; Region: DHHA1; pfam02272 350058007082 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 350058007083 YceG-like family; Region: YceG; pfam02618 350058007084 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 350058007085 dimerization interface [polypeptide binding]; other site 350058007086 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 350058007087 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 350058007088 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 350058007089 shikimate binding site; other site 350058007090 NAD(P) binding site [chemical binding]; other site 350058007091 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 350058007092 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 350058007093 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 350058007094 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 350058007095 Tetramer interface [polypeptide binding]; other site 350058007096 active site 350058007097 FMN-binding site [chemical binding]; other site 350058007098 shikimate kinase; Reviewed; Region: aroK; PRK00131 350058007099 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 350058007100 ADP binding site [chemical binding]; other site 350058007101 magnesium binding site [ion binding]; other site 350058007102 putative shikimate binding site; other site 350058007103 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 350058007104 active site 350058007105 dimer interface [polypeptide binding]; other site 350058007106 metal binding site [ion binding]; metal-binding site 350058007107 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 350058007108 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 350058007109 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 350058007110 active site 350058007111 elongation factor P; Validated; Region: PRK00529 350058007112 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 350058007113 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 350058007114 RNA binding site [nucleotide binding]; other site 350058007115 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 350058007116 RNA binding site [nucleotide binding]; other site 350058007117 transcription antitermination protein NusB; Reviewed; Region: nusB; PRK00202 350058007118 putative RNA binding site [nucleotide binding]; other site 350058007119 Citrate lyase beta subunit [Carbohydrate transport and metabolism]; Region: CitE; COG2301 350058007120 Transposase, Mutator family; Region: Transposase_mut; pfam00872 350058007121 MULE transposase domain; Region: MULE; pfam10551 350058007122 Domain of unknown function (DUF222); Region: DUF222; pfam02720 350058007123 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 350058007124 Beta-lactamase; Region: Beta-lactamase; pfam00144 350058007125 Pyrimidine operon attenuation protein/uracil phosphoribosyltransferase [Nucleotide transport and metabolism]; Region: PyrR; COG2065 350058007126 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 350058007127 active site 350058007128 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 350058007129 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 350058007130 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 350058007131 dihydroorotase; Validated; Region: pyrC; PRK09357 350058007132 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 350058007133 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 350058007134 active site 350058007135 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 350058007136 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 350058007137 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 350058007138 catalytic site [active] 350058007139 subunit interface [polypeptide binding]; other site 350058007140 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 350058007141 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 350058007142 ATP-grasp domain; Region: ATP-grasp_4; cl17255 350058007143 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 350058007144 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 350058007145 ATP-grasp domain; Region: ATP-grasp_4; cl17255 350058007146 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 350058007147 IMP binding site; other site 350058007148 dimer interface [polypeptide binding]; other site 350058007149 interdomain contacts; other site 350058007150 partial ornithine binding site; other site 350058007151 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 350058007152 active site 350058007153 dimer interface [polypeptide binding]; other site 350058007154 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 350058007155 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 350058007156 catalytic site [active] 350058007157 G-X2-G-X-G-K; other site 350058007158 DNA-directed RNA polymerase, subunit K/omega [Transcription]; Region: RpoZ; COG1758 350058007159 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 350058007160 Flavoprotein; Region: Flavoprotein; pfam02441 350058007161 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 350058007162 S-adenosylmethionine synthetase; Validated; Region: PRK05250 350058007163 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 350058007164 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 350058007165 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 350058007166 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 350058007167 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 350058007168 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 350058007169 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 350058007170 substrate binding pocket [chemical binding]; other site 350058007171 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 350058007172 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 350058007173 putative catalytic site [active] 350058007174 putative phosphate binding site [ion binding]; other site 350058007175 putative metal binding site [ion binding]; other site 350058007176 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 350058007177 AMP-binding enzyme; Region: AMP-binding; pfam00501 350058007178 acyl-activating enzyme (AAE) consensus motif; other site 350058007179 AMP binding site [chemical binding]; other site 350058007180 active site 350058007181 CoA binding site [chemical binding]; other site 350058007182 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 350058007183 Thioesterase domains of type I polyketide synthases or non-ribosomal peptide synthetases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3319 350058007184 dolichyl-phosphate beta-D-mannosyltransferase; Region: PLN02726 350058007185 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 350058007186 Ligand binding site; other site 350058007187 Putative Catalytic site; other site 350058007188 DXD motif; other site 350058007189 Glycosyl transferase family 2; Region: Glycos_transf_2; pfam00535 350058007190 active site 350058007191 Laminarinase, member of the glycosyl hydrolase family 16; Region: GH16_laminarinase_like; cd08023 350058007192 active site 350058007193 catalytic residues [active] 350058007194 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 350058007195 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 350058007196 active site 350058007197 YhhN-like protein; Region: YhhN; pfam07947 350058007198 primosome assembly protein PriA; Provisional; Region: PRK14873 350058007199 Predicted membrane protein (DUF2207); Region: DUF2207; pfam09972 350058007200 Glutamine synthetase type III N terminal; Region: GSIII_N; pfam12437 350058007201 Uncharacterized conserved protein [Function unknown]; Region: LemA; COG1704 350058007202 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 350058007203 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 350058007204 putative active site [active] 350058007205 substrate binding site [chemical binding]; other site 350058007206 putative cosubstrate binding site; other site 350058007207 catalytic site [active] 350058007208 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 350058007209 substrate binding site [chemical binding]; other site 350058007210 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 350058007211 putative RNA binding site [nucleotide binding]; other site 350058007212 16S rRNA methyltransferase B; Provisional; Region: PRK14902 350058007213 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 350058007214 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 350058007215 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 350058007216 substrate binding site [chemical binding]; other site 350058007217 hexamer interface [polypeptide binding]; other site 350058007218 metal binding site [ion binding]; metal-binding site 350058007219 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 350058007220 Riboflavin-specific deaminase. Riboflavin biosynthesis protein RibD (Diaminohydroxyphosphoribosylaminopyrimidine deaminase) catalyzes the deamination of 2,5-diamino-6-ribosylamino-4(3H)-pyrimidinone 5'-phosphate, which is an intermediate step in the...; Region: Riboflavin_deaminase-reductase; cd01284 350058007221 catalytic motif [active] 350058007222 Zn binding site [ion binding]; other site 350058007223 RibD C-terminal domain; Region: RibD_C; pfam01872 350058007224 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 350058007225 putative substrate translocation pore; other site 350058007226 Protein of unknown function (DUF1396); Region: DUF1396; pfam07161 350058007227 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 350058007228 Lumazine binding domain; Region: Lum_binding; pfam00677 350058007229 Lumazine binding domain; Region: Lum_binding; pfam00677 350058007230 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09311 350058007231 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 350058007232 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 350058007233 dimerization interface [polypeptide binding]; other site 350058007234 active site 350058007235 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 350058007236 homopentamer interface [polypeptide binding]; other site 350058007237 active site 350058007238 Protein of unknown function (DUF2581); Region: DUF2581; pfam10756 350058007239 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 350058007240 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 350058007241 GIY-YIG motif/motif A; other site 350058007242 active site 350058007243 catalytic site [active] 350058007244 putative DNA binding site [nucleotide binding]; other site 350058007245 metal binding site [ion binding]; metal-binding site 350058007246 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 350058007247 Helix-hairpin-helix motif; Region: HHH; pfam00633 350058007248 helix-hairpin-helix signature motif; other site 350058007249 active site 350058007250 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 350058007251 conserved hypothetical protein, cofD-related; Region: CofD_related; TIGR01826 350058007252 family of mostly uncharacterized proteins similar to B.subtilis YvcK; Region: YvcK_like; cd07187 350058007253 phosphate binding site [ion binding]; other site 350058007254 putative substrate binding pocket [chemical binding]; other site 350058007255 dimer interface [polypeptide binding]; other site 350058007256 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1481 350058007257 Sporulation Regulator WhiA N terminal; Region: WhiA_N; pfam10298 350058007258 Lipase (class 2); Region: Lipase_2; pfam01674 350058007259 Predicted acetyltransferases and hydrolases with the alpha/beta hydrolase fold [General function prediction only]; Region: LipA; COG1075 350058007260 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 350058007261 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 350058007262 substrate binding pocket [chemical binding]; other site 350058007263 membrane-bound complex binding site; other site 350058007264 hinge residues; other site 350058007265 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 350058007266 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 350058007267 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 350058007268 Phosphoglycerate kinase; Region: PGK; pfam00162 350058007269 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 350058007270 substrate binding site [chemical binding]; other site 350058007271 hinge regions; other site 350058007272 ADP binding site [chemical binding]; other site 350058007273 catalytic site [active] 350058007274 triosephosphate isomerase; Provisional; Region: PRK14567 350058007275 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 350058007276 substrate binding site [chemical binding]; other site 350058007277 dimer interface [polypeptide binding]; other site 350058007278 catalytic triad [active] 350058007279 phosphoenolpyruvate carboxylase; Reviewed; Region: PRK00009 350058007280 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 350058007281 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 350058007282 Cysteine-rich domain; Region: CCG; pfam02754 350058007283 Cysteine-rich domain; Region: CCG; pfam02754 350058007284 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]; Region: COG1139 350058007285 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 350058007286 Domain of unknown function (DUF3390); Region: DUF3390; pfam11870 350058007287 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; cl00674 350058007288 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 350058007289 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 350058007290 Domain of unknown function (DUF222); Region: DUF222; pfam02720 350058007291 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 350058007292 active site 350058007293 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 350058007294 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 350058007295 putative active site [active] 350058007296 glucose-6-phosphate dehydrogenase assembly protein OpcA; Region: OpcA; TIGR00534 350058007297 Glucose-6-phosphate dehydrogenase subunit; Region: OpcA_G6PD_assem; pfam10128 350058007298 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 350058007299 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 350058007300 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 350058007301 Transaldolase-like proteins from plants and bacteria; Region: Transaldolase_like; cd00955 350058007302 putative active site [active] 350058007303 transaldolase; Provisional; Region: PRK03903 350058007304 catalytic residue [active] 350058007305 Transketolase [Carbohydrate transport and metabolism]; Region: TktA; COG0021 350058007306 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 350058007307 TPP-binding site [chemical binding]; other site 350058007308 dimer interface [polypeptide binding]; other site 350058007309 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 350058007310 PYR/PP interface [polypeptide binding]; other site 350058007311 dimer interface [polypeptide binding]; other site 350058007312 TPP binding site [chemical binding]; other site 350058007313 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 350058007314 protoheme IX farnesyltransferase; Provisional; Region: PRK04375 350058007315 UbiA prenyltransferase family; Region: UbiA; pfam01040 350058007316 Protein of unknown function (DUF1254); Region: DUF1254; pfam06863 350058007317 Uncharacterized conserved protein [Function unknown]; Region: COG5361 350058007318 Protein of unknown function (DUF1214); Region: DUF1214; pfam06742 350058007319 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 350058007320 quinone oxidoreductase, NADPH-dependent; Provisional; Region: PRK10754 350058007321 NADP binding site [chemical binding]; other site 350058007322 dimer interface [polypeptide binding]; other site 350058007323 ATP-grasp domain; Region: ATP-grasp_4; cl17255 350058007324 Uncharacterized protein required for cytochrome oxidase assembly [Posttranslational modification, protein turnover, chaperones]; Region: CtaA; COG1612 350058007325 Cytochrome oxidase assembly protein; Region: COX15-CtaA; pfam02628 350058007326 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 350058007327 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350058007328 ABC-2 type transporter; Region: ABC2_membrane; cl17235 350058007329 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 350058007330 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 350058007331 Walker A/P-loop; other site 350058007332 ATP binding site [chemical binding]; other site 350058007333 Q-loop/lid; other site 350058007334 ABC transporter signature motif; other site 350058007335 Walker B; other site 350058007336 D-loop; other site 350058007337 H-loop/switch region; other site 350058007338 carotene biosynthesis associated membrane protein; Region: crt_membr; TIGR03459 350058007339 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 350058007340 putative DNA binding site [nucleotide binding]; other site 350058007341 Predicted transcriptional regulator [Transcription]; Region: COG2345 350058007342 putative Zn2+ binding site [ion binding]; other site 350058007343 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814; cl03223 350058007344 FeS assembly protein SufB; Region: sufB; TIGR01980 350058007345 Cysteine desulfurase activator SufB [Posttranslational modification, protein turnover, chaperones]; Region: SufB; COG0719 350058007346 FeS assembly protein SufD; Region: sufD; TIGR01981 350058007347 Cysteine desulfurase activator ATPase [Posttranslational modification, protein turnover, chaperones]; Region: sufC; COG0396 350058007348 ABC-type transport system involved in Fe-S cluster assembly, ATPase component; Region: ABC_FeS_Assembly; cd03217 350058007349 Walker A/P-loop; other site 350058007350 ATP binding site [chemical binding]; other site 350058007351 Q-loop/lid; other site 350058007352 ABC transporter signature motif; other site 350058007353 Walker B; other site 350058007354 D-loop; other site 350058007355 H-loop/switch region; other site 350058007356 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 350058007357 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 350058007358 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 350058007359 catalytic residue [active] 350058007360 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 350058007361 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 350058007362 trimerization site [polypeptide binding]; other site 350058007363 active site 350058007364 Predicted metal-sulfur cluster biosynthetic enzyme [General function prediction only]; Region: PaaD; COG2151 350058007365 Laminarinase, member of the glycosyl hydrolase family 16; Region: GH16_laminarinase_like; cd08023 350058007366 active site 350058007367 catalytic residues [active] 350058007368 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 350058007369 catalytic residues [active] 350058007370 enoyl-CoA hydratase; Provisional; Region: PRK05864 350058007371 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 350058007372 substrate binding site [chemical binding]; other site 350058007373 oxyanion hole (OAH) forming residues; other site 350058007374 trimer interface [polypeptide binding]; other site 350058007375 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 350058007376 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 350058007377 Walker A/P-loop; other site 350058007378 ATP binding site [chemical binding]; other site 350058007379 Q-loop/lid; other site 350058007380 ABC transporter signature motif; other site 350058007381 Walker B; other site 350058007382 D-loop; other site 350058007383 H-loop/switch region; other site 350058007384 ABC transporter; Region: ABC_tran_2; pfam12848 350058007385 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 350058007386 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 350058007387 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350058007388 aconitate hydratase; Validated; Region: PRK09277 350058007389 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 350058007390 substrate binding site [chemical binding]; other site 350058007391 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 350058007392 ligand binding site [chemical binding]; other site 350058007393 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 350058007394 substrate binding site [chemical binding]; other site 350058007395 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3883 350058007396 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 350058007397 NlpC/P60 family; Region: NLPC_P60; pfam00877 350058007398 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 350058007399 NlpC/P60 family; Region: NLPC_P60; pfam00877 350058007400 MoxR-like ATPases [General function prediction only]; Region: COG0714 350058007401 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 350058007402 Walker A motif; other site 350058007403 ATP binding site [chemical binding]; other site 350058007404 Walker B motif; other site 350058007405 arginine finger; other site 350058007406 Protein of unknown function DUF58; Region: DUF58; pfam01882 350058007407 hypothetical protein; Provisional; Region: PRK13685 350058007408 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 350058007409 metal ion-dependent adhesion site (MIDAS); other site 350058007410 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 350058007411 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 350058007412 NAD(P) binding site [chemical binding]; other site 350058007413 homotetramer interface [polypeptide binding]; other site 350058007414 homodimer interface [polypeptide binding]; other site 350058007415 active site 350058007416 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK07889 350058007417 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 350058007418 NAD binding site [chemical binding]; other site 350058007419 homotetramer interface [polypeptide binding]; other site 350058007420 homodimer interface [polypeptide binding]; other site 350058007421 substrate binding site [chemical binding]; other site 350058007422 active site 350058007423 ferrochelatase; Reviewed; Region: hemH; PRK00035 350058007424 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 350058007425 C-terminal domain interface [polypeptide binding]; other site 350058007426 active site 350058007427 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 350058007428 active site 350058007429 N-terminal domain interface [polypeptide binding]; other site 350058007430 cyanate hydratase; Validated; Region: PRK02866 350058007431 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 350058007432 oligomer interface [polypeptide binding]; other site 350058007433 active site 350058007434 Formate/nitrite transporter; Region: Form_Nir_trans; pfam01226 350058007435 NfeD-like C-terminal, partner-binding; Region: NfeD; pfam01957 350058007436 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 350058007437 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 350058007438 DoxX-like family; Region: DoxX_2; pfam13564 350058007439 Uncharacterized conserved protein [Function unknown]; Region: COG0398 350058007440 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 350058007441 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 350058007442 methylmalonyl-CoA mutase, heterodimeric type, beta chain; Region: mmCoA_mut_beta; TIGR00642 350058007443 heterodimer interface [polypeptide binding]; other site 350058007444 substrate interaction site [chemical binding]; other site 350058007445 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 350058007446 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 350058007447 methylmalonyl-CoA mutase; Reviewed; Region: PRK09426 350058007448 active site 350058007449 substrate binding site [chemical binding]; other site 350058007450 coenzyme B12 binding site [chemical binding]; other site 350058007451 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 350058007452 B12 binding site [chemical binding]; other site 350058007453 cobalt ligand [ion binding]; other site 350058007454 membrane ATPase/protein kinase; Provisional; Region: PRK09435 350058007455 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 350058007456 Walker A; other site 350058007457 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 350058007458 Beta-lactamase; Region: Beta-lactamase; pfam00144 350058007459 Prophage CP4-57 regulatory protein (AlpA); Region: Phage_AlpA; cl17523 350058007460 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK06039 350058007461 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 350058007462 HIGH motif; other site 350058007463 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 350058007464 active site 350058007465 KMSKS motif; other site 350058007466 Anticodon-binding domain of archaeal, bacterial, and eukaryotic cytoplasmic isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_ABEc; cd07961 350058007467 tRNA binding surface [nucleotide binding]; other site 350058007468 anticodon binding site; other site 350058007469 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 350058007470 RNA binding surface [nucleotide binding]; other site 350058007471 DNA polymerase IV; Provisional; Region: PRK03348 350058007472 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 350058007473 active site 350058007474 DNA binding site [nucleotide binding] 350058007475 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 350058007476 active site 350058007477 homodimer interface [polypeptide binding]; other site 350058007478 homotetramer interface [polypeptide binding]; other site 350058007479 lipoprotein signal peptidase; Provisional; Region: PRK14764 350058007480 pseudouridine synthase, RluA family; Region: rluA_subfam; TIGR00005 350058007481 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cl09940 350058007482 RNA binding surface [nucleotide binding]; other site 350058007483 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 350058007484 active site 350058007485 Predicted permeases [General function prediction only]; Region: RarD; COG2962 350058007486 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 350058007487 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350058007488 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 350058007489 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE3; Region: PHP_PolIIIA_DnaE3; cd12113 350058007490 active site 350058007491 PHP Thumb interface [polypeptide binding]; other site 350058007492 metal binding site [ion binding]; metal-binding site 350058007493 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 350058007494 generic binding surface II; other site 350058007495 generic binding surface I; other site 350058007496 Vitamin K-dependent gamma-carboxylase; Region: VKG_Carbox; cl02773 350058007497 threonine dehydratase; Validated; Region: PRK08639 350058007498 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 350058007499 tetramer interface [polypeptide binding]; other site 350058007500 pyridoxal 5'-phosphate binding site [chemical binding]; other site 350058007501 catalytic residue [active] 350058007502 C-terminal regulatory domain of Threonine dehydratase; Region: Thr_dehydrat_C; pfam00585 350058007503 malto-oligosyltrehalose trehalohydrolase; Region: trehalose_TreZ; TIGR02402 350058007504 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 350058007505 Alpha amylase catalytic domain found in Glycosyltrehalose trehalohydrolase (also called Maltooligosyl trehalose Trehalohydrolase); Region: AmyAc_GTHase; cd11325 350058007506 catalytic site [active] 350058007507 active site 350058007508 Domain of unknown function (DUF3459); Region: DUF3459; pfam11941 350058007509 malto-oligosyltrehalose synthase; Region: trehalose_TreY; TIGR02401 350058007510 Alpha amylase catalytic domain found in maltooligosyl trehalose synthase (MTSase); Region: AmyAc_MTSase; cd11336 350058007511 active site 350058007512 catalytic site [active] 350058007513 glycogen debranching enzyme GlgX; Region: glgX_debranch; TIGR02100 350058007514 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 350058007515 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 350058007516 active site 350058007517 catalytic site [active] 350058007518 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 350058007519 adenosylmethionine--8-amino-7-oxononanoate transaminase; Provisional; Region: PRK05964 350058007520 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 350058007521 inhibitor-cofactor binding pocket; inhibition site 350058007522 pyridoxal 5'-phosphate binding site [chemical binding]; other site 350058007523 catalytic residue [active] 350058007524 8-amino-7-oxononanoate synthase; Reviewed; Region: PRK05958 350058007525 Aminotransferase class I and II; Region: Aminotran_1_2; pfam00155 350058007526 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 350058007527 catalytic residue [active] 350058007528 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 350058007529 2'-5' RNA ligase superfamily; Region: 2_5_RNA_ligase2; pfam13563 350058007530 tetracycline repressor protein TetR; Provisional; Region: PRK13756 350058007531 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350058007532 Tetracyclin repressor, C-terminal all-alpha domain; Region: TetR_C; pfam02909 350058007533 biotin synthase; Validated; Region: PRK06256 350058007534 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 350058007535 FeS/SAM binding site; other site 350058007536 Biotin and Thiamin Synthesis associated domain; Region: BATS; pfam06968 350058007537 Protein of unknown function (DUF2567); Region: DUF2567; pfam10821 350058007538 Secretory lipase; Region: LIP; pfam03583 350058007539 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 350058007540 nudix motif; other site 350058007541 Uncharacterized conserved protein [General function prediction only]; Region: COG4111 350058007542 quinolinate synthetase; Provisional; Region: PRK09375 350058007543 Aspartate oxidase [Coenzyme metabolism]; Region: NadB; COG0029 350058007544 L-aspartate oxidase; Provisional; Region: PRK06175 350058007545 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 350058007546 nicotinate-nucleotide pyrophosphorylase; Provisional; Region: PRK07896 350058007547 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 350058007548 dimerization interface [polypeptide binding]; other site 350058007549 active site 350058007550 LysE type translocator; Region: LysE; cl00565 350058007551 Domain of unknown function (DUF385); Region: DUF385; cl04387 350058007552 Histidinol dehydrogenase; Region: Histidinol_dh; pfam00815 350058007553 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 350058007554 NAD binding site [chemical binding]; other site 350058007555 dimerization interface [polypeptide binding]; other site 350058007556 product binding site; other site 350058007557 substrate binding site [chemical binding]; other site 350058007558 zinc binding site [ion binding]; other site 350058007559 catalytic residues [active] 350058007560 histidinol-phosphate aminotransferase; Provisional; Region: PRK03317 350058007561 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 350058007562 pyridoxal 5'-phosphate binding site [chemical binding]; other site 350058007563 homodimer interface [polypeptide binding]; other site 350058007564 catalytic residue [active] 350058007565 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 350058007566 putative active site pocket [active] 350058007567 4-fold oligomerization interface [polypeptide binding]; other site 350058007568 metal binding residues [ion binding]; metal-binding site 350058007569 3-fold/trimer interface [polypeptide binding]; other site 350058007570 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13146 350058007571 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 350058007572 putative active site [active] 350058007573 oxyanion strand; other site 350058007574 catalytic triad [active] 350058007575 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 350058007576 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 350058007577 catalytic residues [active] 350058007578 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 350058007579 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 350058007580 active site 350058007581 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 350058007582 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 350058007583 substrate binding site [chemical binding]; other site 350058007584 glutamase interaction surface [polypeptide binding]; other site 350058007585 phosphoribosyl-AMP cyclohydrolase; Reviewed; Region: hisI; PRK00051 350058007586 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 350058007587 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 350058007588 Walker A/P-loop; other site 350058007589 ATP binding site [chemical binding]; other site 350058007590 Q-loop/lid; other site 350058007591 ABC transporter signature motif; other site 350058007592 Walker B; other site 350058007593 D-loop; other site 350058007594 H-loop/switch region; other site 350058007595 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 350058007596 catalytic triad [active] 350058007597 anthranilate synthase component I; Provisional; Region: PRK13571 350058007598 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 350058007599 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 350058007600 Tryptophan-associated transmembrane protein (Trp_oprn_chp); Region: Trp_oprn_chp; pfam09534 350058007601 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 350058007602 active site 350058007603 ribulose/triose binding site [chemical binding]; other site 350058007604 phosphate binding site [ion binding]; other site 350058007605 substrate (anthranilate) binding pocket [chemical binding]; other site 350058007606 product (indole) binding pocket [chemical binding]; other site 350058007607 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 350058007608 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 350058007609 pyridoxal 5'-phosphate binding site [chemical binding]; other site 350058007610 catalytic residue [active] 350058007611 tryptophan synthase alpha subunit; Provisional; Region: trpA; CHL00200 350058007612 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 350058007613 substrate binding site [chemical binding]; other site 350058007614 active site 350058007615 catalytic residues [active] 350058007616 heterodimer interface [polypeptide binding]; other site 350058007617 Prolipoprotein diacylglyceryltransferase [Cell envelope biogenesis, outer membrane]; Region: Lgt; COG0682 350058007618 TM2 domain; Region: TM2; pfam05154 350058007619 Protein of unknown function (DUF2752); Region: DUF2752; pfam10825 350058007620 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 350058007621 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 350058007622 active site 350058007623 dimer interface [polypeptide binding]; other site 350058007624 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 350058007625 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 350058007626 active site 350058007627 FMN binding site [chemical binding]; other site 350058007628 substrate binding site [chemical binding]; other site 350058007629 3Fe-4S cluster binding site [ion binding]; other site 350058007630 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 350058007631 domain interface; other site 350058007632 glutamate synthase subunit beta; Reviewed; Region: gltD; PRK12810 350058007633 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 350058007634 pyruvate kinase; Provisional; Region: PRK06247 350058007635 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 350058007636 domain interfaces; other site 350058007637 active site 350058007638 Acyl-CoA thioesterase [Lipid metabolism]; Region: TesB; COG1946 350058007639 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 350058007640 active site 350058007641 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 350058007642 catalytic triad [active] 350058007643 dimer interface [polypeptide binding]; other site 350058007644 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 350058007645 Walker A/P-loop; other site 350058007646 ATP binding site [chemical binding]; other site 350058007647 ABC transporter signature motif; other site 350058007648 Walker B; other site 350058007649 D-loop; other site 350058007650 H-loop/switch region; other site 350058007651 ABC-type transport system involved in cytochrome bd biosynthesis, ATPase and permease components [Energy production and conversion / Posttranslational modification, protein turnover, chaperones]; Region: CydD; COG4988 350058007652 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 350058007653 Walker A/P-loop; other site 350058007654 ATP binding site [chemical binding]; other site 350058007655 Q-loop/lid; other site 350058007656 ABC transporter signature motif; other site 350058007657 Walker B; other site 350058007658 D-loop; other site 350058007659 H-loop/switch region; other site 350058007660 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 350058007661 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 350058007662 cytochrome d terminal oxidase subunit 1; Provisional; Region: PRK15097 350058007663 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 350058007664 acid-resistance membrane protein; Provisional; Region: PRK10209 350058007665 Uncharacterized conserved protein [Function unknown]; Region: HdeD; COG3247 350058007666 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 350058007667 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 350058007668 substrate binding pocket [chemical binding]; other site 350058007669 membrane-bound complex binding site; other site 350058007670 hinge residues; other site 350058007671 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 350058007672 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 350058007673 dimer interface [polypeptide binding]; other site 350058007674 conserved gate region; other site 350058007675 putative PBP binding loops; other site 350058007676 ABC-ATPase subunit interface; other site 350058007677 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 350058007678 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 350058007679 Walker A/P-loop; other site 350058007680 ATP binding site [chemical binding]; other site 350058007681 Q-loop/lid; other site 350058007682 ABC transporter signature motif; other site 350058007683 Walker B; other site 350058007684 D-loop; other site 350058007685 H-loop/switch region; other site 350058007686 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 350058007687 ATP binding site [chemical binding]; other site 350058007688 Mg2+ binding site [ion binding]; other site 350058007689 G-X-G motif; other site 350058007690 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 350058007691 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 350058007692 active site 350058007693 phosphorylation site [posttranslational modification] 350058007694 intermolecular recognition site; other site 350058007695 dimerization interface [polypeptide binding]; other site 350058007696 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 350058007697 DNA binding residues [nucleotide binding] 350058007698 dimerization interface [polypeptide binding]; other site 350058007699 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 350058007700 Ferritin-like domain; Region: Ferritin; pfam00210 350058007701 dimerization interface [polypeptide binding]; other site 350058007702 DPS ferroxidase diiron center [ion binding]; other site 350058007703 ion pore; other site 350058007704 Adenylyl- / guanylyl cyclase, catalytic domain; Region: CYCc; smart00044 350058007705 cyclase homology domain; Region: CHD; cd07302 350058007706 nucleotidyl binding site; other site 350058007707 metal binding site [ion binding]; metal-binding site 350058007708 dimer interface [polypeptide binding]; other site 350058007709 Response regulator with putative antiterminator output domain [Signal transduction mechanisms]; Region: AmiR; COG3707 350058007710 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 350058007711 active site 350058007712 phosphorylation site [posttranslational modification] 350058007713 intermolecular recognition site; other site 350058007714 dimerization interface [polypeptide binding]; other site 350058007715 ANTAR domain; Region: ANTAR; pfam03861 350058007716 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 350058007717 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 350058007718 dimerization interface [polypeptide binding]; other site 350058007719 ligand binding site [chemical binding]; other site 350058007720 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 350058007721 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 350058007722 TM-ABC transporter signature motif; other site 350058007723 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 350058007724 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 350058007725 TM-ABC transporter signature motif; other site 350058007726 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 350058007727 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 350058007728 Walker A/P-loop; other site 350058007729 ATP binding site [chemical binding]; other site 350058007730 Q-loop/lid; other site 350058007731 ABC transporter signature motif; other site 350058007732 Walker B; other site 350058007733 D-loop; other site 350058007734 H-loop/switch region; other site 350058007735 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 350058007736 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 350058007737 Walker A/P-loop; other site 350058007738 ATP binding site [chemical binding]; other site 350058007739 Q-loop/lid; other site 350058007740 ABC transporter signature motif; other site 350058007741 Walker B; other site 350058007742 D-loop; other site 350058007743 H-loop/switch region; other site 350058007744 Uncharacterized ACR, YggU family COG1872; Region: DUF167; pfam02594 350058007745 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 350058007746 classical (c) SDRs; Region: SDR_c; cd05233 350058007747 NAD(P) binding site [chemical binding]; other site 350058007748 active site 350058007749 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 350058007750 Permease; Region: Permease; pfam02405 350058007751 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 350058007752 Permease; Region: Permease; pfam02405 350058007753 mce related protein; Region: MCE; pfam02470 350058007754 Protein of unknown function (DUF3407); Region: DUF3407; pfam11887 350058007755 virulence factor Mce family protein; Region: Mtu_fam_mce; TIGR00996 350058007756 mce related protein; Region: MCE; pfam02470 350058007757 virulence factor Mce family protein; Region: Mtu_fam_mce; TIGR00996 350058007758 mce related protein; Region: MCE; pfam02470 350058007759 virulence factor Mce family protein; Region: Mtu_fam_mce; TIGR00996 350058007760 virulence factor Mce family protein; Region: Mtu_fam_mce; TIGR00996 350058007761 mce related protein; Region: MCE; pfam02470 350058007762 Protein of unknown function (DUF3407); Region: DUF3407; pfam11887 350058007763 lipid-transfer protein; Provisional; Region: PRK06059 350058007764 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 350058007765 active site 350058007766 Rubredoxin-like zinc ribbon domain (DUF35_N); Region: DUF35_N; pfam12172 350058007767 DUF35 OB-fold domain; Region: DUF35; pfam01796 350058007768 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 350058007769 CoenzymeA binding site [chemical binding]; other site 350058007770 subunit interaction site [polypeptide binding]; other site 350058007771 PHB binding site; other site 350058007772 3-ketosteroid-delta-1-dehydrogenase; Provisional; Region: PRK12837 350058007773 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 350058007774 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 350058007775 Predicted transcriptional regulators [Transcription]; Region: COG1695 350058007776 Transcriptional regulator PadR-like family; Region: PadR; cl17335 350058007777 3-ketosteroid-delta-1-dehydrogenase; Reviewed; Region: PRK12845 350058007778 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 350058007779 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 350058007780 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 350058007781 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 350058007782 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 350058007783 hydrophobic ligand binding site; other site 350058007784 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 350058007785 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 350058007786 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 350058007787 classical (c) SDRs; Region: SDR_c; cd05233 350058007788 NAD(P) binding site [chemical binding]; other site 350058007789 active site 350058007790 SnoaL-like domain; Region: SnoaL_4; cl17707 350058007791 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 350058007792 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 350058007793 active site 350058007794 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 350058007795 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 350058007796 active site 350058007797 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 350058007798 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 350058007799 substrate binding site [chemical binding]; other site 350058007800 oxyanion hole (OAH) forming residues; other site 350058007801 trimer interface [polypeptide binding]; other site 350058007802 Rhodococcus ruber 6-oxolauric acid dehydrogenase-like; Region: ALDH_CddD_SSP0762; cd07138 350058007803 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 350058007804 NAD binding site [chemical binding]; other site 350058007805 catalytic residues [active] 350058007806 Hypothetical enzyme TM0436 resembles the zinc-dependent alcohol dehydrogenases (ADH); Region: MDR_TM0436_like; cd08231 350058007807 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 350058007808 catalytic Zn binding site [ion binding]; other site 350058007809 structural Zn binding site [ion binding]; other site 350058007810 tetramer interface [polypeptide binding]; other site 350058007811 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 350058007812 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350058007813 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 350058007814 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 350058007815 active site 350058007816 FMN binding site [chemical binding]; other site 350058007817 substrate binding site [chemical binding]; other site 350058007818 putative catalytic residue [active] 350058007819 acyl-CoA synthetase; Validated; Region: PRK08316 350058007820 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 350058007821 acyl-activating enzyme (AAE) consensus motif; other site 350058007822 putative AMP binding site [chemical binding]; other site 350058007823 putative active site [active] 350058007824 putative CoA binding site [chemical binding]; other site 350058007825 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 350058007826 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 350058007827 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 350058007828 human dehydrogenase/reductase (SDR family) member 1 (DHRS1) and human hydroxysteroid dehydrogenase-like protein 2 (HSDL2), classical (c) SDRs; Region: DHRS1_HSDL2-like_SDR_c; cd05338 350058007829 NAD(P) binding site [chemical binding]; other site 350058007830 homodimer interface [polypeptide binding]; other site 350058007831 active site 350058007832 Stress responsive A/B Barrel Domain; Region: Dabb; smart00886 350058007833 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 350058007834 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 350058007835 active site 350058007836 FMN binding site [chemical binding]; other site 350058007837 substrate binding site [chemical binding]; other site 350058007838 putative catalytic residue [active] 350058007839 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 350058007840 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 350058007841 substrate binding pocket [chemical binding]; other site 350058007842 Transcriptional regulator [Transcription]; Region: IclR; COG1414 350058007843 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 350058007844 Bacterial transcriptional regulator; Region: IclR; pfam01614 350058007845 hypothetical protein; Validated; Region: PRK07121 350058007846 2,3-dihydroxybiphenyl 1,2-dioxygenase; Region: 23dbph12diox; TIGR03213 350058007847 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 350058007848 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 350058007849 active site 350058007850 Fe binding site [ion binding]; other site 350058007851 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 350058007852 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 350058007853 phenylacetate-CoA oxygenase/reductase, PaaK subunit; Region: PA_CoA_Oxy5; TIGR02160 350058007854 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 350058007855 FAD binding pocket [chemical binding]; other site 350058007856 FAD binding motif [chemical binding]; other site 350058007857 phosphate binding motif [ion binding]; other site 350058007858 beta-alpha-beta structure motif; other site 350058007859 NAD(p) ribose binding residues [chemical binding]; other site 350058007860 NAD binding pocket [chemical binding]; other site 350058007861 NAD(P)-pyrophosphate-nicotinamide binding residues [chemical binding]; other site 350058007862 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 350058007863 catalytic loop [active] 350058007864 iron binding site [ion binding]; other site 350058007865 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 350058007866 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 350058007867 oxidoreductase, SDR family; Region: SDR_subfam_1; TIGR03971 350058007868 classical (c) SDRs; Region: SDR_c; cd05233 350058007869 NAD(P) binding site [chemical binding]; other site 350058007870 active site 350058007871 oxidoreductase, SDR family; Region: SDR_subfam_1; TIGR03971 350058007872 classical (c) SDRs; Region: SDR_c; cd05233 350058007873 NAD(P) binding site [chemical binding]; other site 350058007874 active site 350058007875 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 350058007876 NAD(P) binding site [chemical binding]; other site 350058007877 active site 350058007878 2-hydroxy-6-oxo-6-phenylhexa-2,4-dienoate hydrolase; Region: biphenyl_bphD; TIGR03343 350058007879 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 350058007880 metabolite-proton symporter; Region: 2A0106; TIGR00883 350058007881 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 350058007882 putative substrate translocation pore; other site 350058007883 Transport protein; Region: actII; TIGR00833 350058007884 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 350058007885 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350058007886 acyltransferase, WS/DGAT/MGAT; Region: acyl_WS_DGAT; TIGR02946 350058007887 Wax ester synthase-like Acyl-CoA acyltransferase domain; Region: WES_acyltransf; pfam03007 350058007888 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 350058007889 ABC-type phosphate/phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: COG3638 350058007890 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 350058007891 Walker A/P-loop; other site 350058007892 ATP binding site [chemical binding]; other site 350058007893 Q-loop/lid; other site 350058007894 ABC transporter signature motif; other site 350058007895 Walker B; other site 350058007896 D-loop; other site 350058007897 H-loop/switch region; other site 350058007898 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 350058007899 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 350058007900 dimer interface [polypeptide binding]; other site 350058007901 conserved gate region; other site 350058007902 putative PBP binding loops; other site 350058007903 ABC-ATPase subunit interface; other site 350058007904 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 350058007905 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 350058007906 dimer interface [polypeptide binding]; other site 350058007907 ABC-ATPase subunit interface; other site 350058007908 putative PBP binding loops; other site 350058007909 Hypothetical enzyme TM0436 resembles the zinc-dependent alcohol dehydrogenases (ADH); Region: MDR_TM0436_like; cd08231 350058007910 catalytic Zn binding site [ion binding]; other site 350058007911 putative phosphonate catabolism associated alcohol dehydrogenase; Region: HpnZ_proposed; TIGR03366 350058007912 structural Zn binding site [ion binding]; other site 350058007913 tetramer interface [polypeptide binding]; other site 350058007914 TspO/MBR family; Region: TspO_MBR; pfam03073 350058007915 RT_like: Reverse transcriptase (RT, RNA-dependent DNA polymerase)_like family. An RT gene is usually indicative of a mobile element such as a retrotransposon or retrovirus. RTs occur in a variety of mobile elements, including retrotransposons; Region: RT_like; cl02808 350058007916 active site 350058007917 NTP binding site [chemical binding]; other site 350058007918 nucleic acid binding site [nucleotide binding]; other site 350058007919 Ribonuclease T2 (RNase T2) is a widespread family of secreted RNases found in every organism examined thus far. This family includes RNase Rh, RNase MC1, RNase LE, and self-incompatibility RNases (S-RNases). Plant T2 RNases are expressed during leaf...; Region: RNase_T2; cl00208 350058007920 CAS motifs; other site 350058007921 active site 350058007922 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 350058007923 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 350058007924 Arginine/lysine/ornithine decarboxylases [Amino acid transport and metabolism]; Region: LdcC; COG1982 350058007925 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 350058007926 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 350058007927 catalytic residue [active] 350058007928 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 350058007929 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 350058007930 4-aminobutyrate aminotransferase and related aminotransferases [Amino acid transport and metabolism]; Region: GabT; COG0160 350058007931 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 350058007932 inhibitor-cofactor binding pocket; inhibition site 350058007933 pyridoxal 5'-phosphate binding site [chemical binding]; other site 350058007934 catalytic residue [active] 350058007935 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 350058007936 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 350058007937 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 350058007938 Predicted glutamine amidotransferase [General function prediction only]; Region: COG0121 350058007939 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 350058007940 putative active site [active] 350058007941 putative dimer interface [polypeptide binding]; other site 350058007942 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 350058007943 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 350058007944 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 350058007945 putative active site [active] 350058007946 tryptophan synthase subunit beta; Reviewed; Region: PRK12391 350058007947 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 350058007948 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 350058007949 catalytic residue [active] 350058007950 YaeQ protein; Region: YaeQ; pfam07152 350058007951 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 350058007952 AAA domain; Region: AAA_22; pfam13401 350058007953 ATP-binding site [chemical binding]; other site 350058007954 Helix-turn-helix domain; Region: HTH_28; pfam13518 350058007955 Winged helix-turn helix; Region: HTH_29; pfam13551 350058007956 Homeodomain-like domain; Region: HTH_32; pfam13565 350058007957 Integrase core domain; Region: rve; pfam00665 350058007958 Mu transposase, C-terminal; Region: Mu-transpos_C; pfam09299 350058007959 PemK-like protein; Region: PemK; pfam02452 350058007960 Protein of unknown function (DUF3018); Region: DUF3018; pfam11455 350058007961 TIGR03086 family protein; Region: TIGR03086 350058007962 uncharacterized Actinobacterial protein TIGR03083; Region: TIGR03083 350058007963 Predicted transcriptional regulator [Transcription]; Region: COG2378 350058007964 HTH domain; Region: HTH_11; pfam08279 350058007965 WYL domain; Region: WYL; pfam13280 350058007966 Predicted transcriptional regulator [Transcription]; Region: COG2378 350058007967 HTH domain; Region: HTH_11; pfam08279 350058007968 WYL domain; Region: WYL; pfam13280 350058007969 SnoaL-like domain; Region: SnoaL_2; pfam12680 350058007970 probable F420-dependent oxidoreductase, MSMEG_2906 family; Region: F420_MSMEG_2906; TIGR03856 350058007971 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 350058007972 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 350058007973 S-adenosylmethionine binding site [chemical binding]; other site 350058007974 choline dehydrogenase; Validated; Region: PRK02106 350058007975 lycopene cyclase; Region: lycopene_cycl; TIGR01789 350058007976 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 350058007977 Antitoxin of toxin-antitoxin stability system [Cell division and chromosome partitioning]; Region: Phd; COG4118 350058007978 PIN domain of the VapC-like Sll0205 protein and homologs; Region: PIN_Sll0205; cd09872 350058007979 putative active site [active] 350058007980 Transcriptional regulators [Transcription]; Region: FadR; COG2186 350058007981 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 350058007982 DNA-binding site [nucleotide binding]; DNA binding site 350058007983 FCD domain; Region: FCD; pfam07729 350058007984 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; cl01132 350058007985 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 350058007986 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 350058007987 Cation efflux family; Region: Cation_efflux; pfam01545 350058007988 Phospholipid methyltransferase; Region: PEMT; cl17370 350058007989 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 350058007990 S-adenosylmethionine binding site [chemical binding]; other site 350058007991 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 350058007992 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 350058007993 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 350058007994 RNA binding surface [nucleotide binding]; other site 350058007995 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 350058007996 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 350058007997 Putative esterase; Region: Esterase; pfam00756 350058007998 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 350058007999 S-adenosylmethionine binding site [chemical binding]; other site 350058008000 Domain of unknown function (DUF4267); Region: DUF4267; pfam14087 350058008001 Protein of unknown function (DUF3478); Region: DUF3478; pfam11964 350058008002 Protein of unknown function (DUF664); Region: DUF664; pfam04978 350058008003 DinB superfamily; Region: DinB_2; pfam12867 350058008004 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 350058008005 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 350058008006 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 350058008007 acyl-activating enzyme (AAE) consensus motif; other site 350058008008 acyl-activating enzyme (AAE) consensus motif; other site 350058008009 AMP binding site [chemical binding]; other site 350058008010 active site 350058008011 CoA binding site [chemical binding]; other site 350058008012 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 350058008013 Uncharacterized conserved protein [Function unknown]; Region: COG1434 350058008014 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 350058008015 putative active site [active] 350058008016 putative fatty-acid--CoA ligase; Provisional; Region: PRK12476 350058008017 Fatty acyl-AMP ligase (FAAL); Region: FAAL; cd05931 350058008018 acyl-activating enzyme (AAE) consensus motif; other site 350058008019 active site 350058008020 PE-PPE domain; Region: PE-PPE; pfam08237 350058008021 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 350058008022 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350058008023 Uncharacterized protein conserved in bacteria (DUF2236); Region: DUF2236; pfam09995 350058008024 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 350058008025 NlpC/P60 family; Region: NLPC_P60; pfam00877 350058008026 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 350058008027 dimer interface [polypeptide binding]; other site 350058008028 catalytic triad [active] 350058008029 peroxidatic and resolving cysteines [active] 350058008030 Bacterial protein of unknown function (DUF899); Region: DUF899; pfam05988 350058008031 Putative transcription activator [Transcription]; Region: TenA; COG0819 350058008032 hypothetical protein; Validated; Region: PRK07198 350058008033 GTP cyclohydrolase N terminal; Region: GTP_CH_N; pfam12471 350058008034 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 350058008035 dimerization interface [polypeptide binding]; other site 350058008036 active site 350058008037 Protein of unknown function (DUF1688); Region: DUF1688; pfam07958 350058008038 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 350058008039 active site 350058008040 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 350058008041 tetramer interface [polypeptide binding]; other site 350058008042 active site 350058008043 Mg2+/Mn2+ binding site [ion binding]; other site 350058008044 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 350058008045 O-succinylbenzoate synthase; Provisional; Region: PRK02901 350058008046 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 350058008047 catalytic triad [active] 350058008048 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 350058008049 apolar tunnel; other site 350058008050 heme binding site [chemical binding]; other site 350058008051 dimerization interface [polypeptide binding]; other site 350058008052 Stress responsive A/B Barrel Domain; Region: Dabb; smart00886 350058008053 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 350058008054 metal binding site 2 [ion binding]; metal-binding site 350058008055 putative DNA binding helix; other site 350058008056 metal binding site 1 [ion binding]; metal-binding site 350058008057 dimer interface [polypeptide binding]; other site 350058008058 structural Zn2+ binding site [ion binding]; other site 350058008059 catalase/hydroperoxidase HPI(I); Provisional; Region: PRK15061 350058008060 Heme-dependent peroxidases similar to plant peroxidases; Region: plant_peroxidase_like; cl00196 350058008061 heme binding site [chemical binding]; other site 350058008062 C-terminal non-catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_2; cd08200 350058008063 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 350058008064 active site 350058008065 catalytic triad [active] 350058008066 oxyanion hole [active] 350058008067 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 350058008068 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 350058008069 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 350058008070 active site 350058008071 phosphorylation site [posttranslational modification] 350058008072 intermolecular recognition site; other site 350058008073 dimerization interface [polypeptide binding]; other site 350058008074 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 350058008075 CHASE3 domain; Region: CHASE3; pfam05227 350058008076 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 350058008077 dimer interface [polypeptide binding]; other site 350058008078 phosphorylation site [posttranslational modification] 350058008079 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 350058008080 ATP binding site [chemical binding]; other site 350058008081 Mg2+ binding site [ion binding]; other site 350058008082 G-X-G motif; other site 350058008083 Response regulator receiver domain; Region: Response_reg; pfam00072 350058008084 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 350058008085 active site 350058008086 phosphorylation site [posttranslational modification] 350058008087 intermolecular recognition site; other site 350058008088 dimerization interface [polypeptide binding]; other site 350058008089 Type I phosphodiesterase / nucleotide pyrophosphatase; Region: Phosphodiest; pfam01663 350058008090 NlpC/P60 family; Region: NLPC_P60; cl17555 350058008091 hypothetical protein; Validated; Region: PRK02101 350058008092 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 350058008093 competence damage-inducible protein A; Provisional; Region: PRK00549 350058008094 Competence-damaged protein. CinA is the first gene in the competence- inducible (cin) operon and is thought to be specifically required at some stage in the process of transformation. This domain is closely related to a domain, found in a variety of...; Region: cinA; cd00885 350058008095 putative MPT binding site; other site 350058008096 Competence-damaged protein; Region: CinA; pfam02464 350058008097 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 350058008098 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 350058008099 NAD(P) binding site [chemical binding]; other site 350058008100 active site 350058008101 Uncharacterized conserved protein related to dihydrodipicolinate reductase [Function unknown]; Region: COG3804 350058008102 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 350058008103 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 350058008104 anti sigma factor interaction site; other site 350058008105 regulatory phosphorylation site [posttranslational modification]; other site 350058008106 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 350058008107 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 350058008108 Nitronate monooxygenase; Region: NMO; pfam03060 350058008109 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 350058008110 FMN binding site [chemical binding]; other site 350058008111 substrate binding site [chemical binding]; other site 350058008112 putative catalytic residue [active] 350058008113 Excinuclease ATPase subunit [DNA replication, recombination, and repair]; Region: UvrA; COG0178 350058008114 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 350058008115 Walker A/P-loop; other site 350058008116 ATP binding site [chemical binding]; other site 350058008117 Q-loop/lid; other site 350058008118 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 350058008119 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 350058008120 Walker A/P-loop; other site 350058008121 ATP binding site [chemical binding]; other site 350058008122 Q-loop/lid; other site 350058008123 ABC transporter signature motif; other site 350058008124 Walker B; other site 350058008125 D-loop; other site 350058008126 H-loop/switch region; other site 350058008127 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 350058008128 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 350058008129 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 350058008130 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 350058008131 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 350058008132 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 350058008133 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350058008134 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 350058008135 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 350058008136 molybdopterin cofactor binding site; other site 350058008137 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 350058008138 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 350058008139 molybdopterin cofactor binding site; other site 350058008140 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 350058008141 Cytochrome P450; Region: p450; cl12078 350058008142 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 350058008143 sequence-specific DNA binding site [nucleotide binding]; other site 350058008144 salt bridge; other site 350058008145 uncharacterized peroxidase-related enzyme; Region: peroxid_rel; TIGR01926 350058008146 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 350058008147 Mycobacterium 19 kDa lipoprotein antigen; Region: Myco_19_kDa; pfam05481 350058008148 IgD-like repeat domain of mycobacterial L,D-transpeptidases; Region: LDT_IgD_like_1; cd13431 350058008149 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 350058008150 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 350058008151 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 350058008152 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 350058008153 tetramer interface [polypeptide binding]; other site 350058008154 pyridoxal 5'-phosphate binding site [chemical binding]; other site 350058008155 catalytic residue [active] 350058008156 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 350058008157 active site 350058008158 agmatinase; Region: agmatinase; TIGR01230 350058008159 Agmatinase-like family; Region: Agmatinase-like; cd09990 350058008160 active site 350058008161 oligomer interface [polypeptide binding]; other site 350058008162 Mn binding site [ion binding]; other site 350058008163 Mycolic acid cyclopropane synthetase; Region: CMAS; pfam02353 350058008164 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 350058008165 S-adenosylmethionine binding site [chemical binding]; other site 350058008166 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 350058008167 Beta-lactamase; Region: Beta-lactamase; pfam00144 350058008168 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 350058008169 Cytochrome P450; Region: p450; cl12078 350058008170 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 350058008171 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 350058008172 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 350058008173 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 350058008174 N-acyl-D-aspartate/D-glutamate deacylase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3653 350058008175 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 350058008176 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 350058008177 SnoaL-like domain; Region: SnoaL_2; pfam12680 350058008178 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 350058008179 N-acyl-D-aspartate/D-glutamate deacylase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3653 350058008180 active site 350058008181 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 350058008182 Putative hydrophobic ligand-binding SRPBCC domain of Micromonospora echinospora CalC, human Aha1, and related proteins; Region: SRPBCC_CalC_Aha1-like; cd07814 350058008183 putative hydrophobic ligand binding site [chemical binding]; other site 350058008184 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 350058008185 dimerization interface [polypeptide binding]; other site 350058008186 putative DNA binding site [nucleotide binding]; other site 350058008187 putative Zn2+ binding site [ion binding]; other site 350058008188 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 350058008189 Major Facilitator Superfamily; Region: MFS_1; pfam07690 350058008190 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 350058008191 putative substrate translocation pore; other site 350058008192 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 350058008193 putative substrate translocation pore; other site 350058008194 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 350058008195 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 350058008196 heme binding site [chemical binding]; other site 350058008197 ferroxidase pore; other site 350058008198 ferroxidase diiron center [ion binding]; other site 350058008199 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 350058008200 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 350058008201 Enoyl-CoA hydratase/isomerase family; Region: ECH; pfam00378 350058008202 substrate binding site [chemical binding]; other site 350058008203 oxyanion hole (OAH) forming residues; other site 350058008204 trimer interface [polypeptide binding]; other site 350058008205 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 350058008206 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 350058008207 CoenzymeA binding site [chemical binding]; other site 350058008208 subunit interaction site [polypeptide binding]; other site 350058008209 PHB binding site; other site 350058008210 Domain of unknown function (DUF222); Region: DUF222; pfam02720 350058008211 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 350058008212 active site 350058008213 Transcriptional regulators [Transcription]; Region: GntR; COG1802 350058008214 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 350058008215 DNA-binding site [nucleotide binding]; DNA binding site 350058008216 FCD domain; Region: FCD; pfam07729 350058008217 Amidase; Region: Amidase; cl11426 350058008218 Isochorismatase family; Region: Isochorismatase; pfam00857 350058008219 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 350058008220 catalytic triad [active] 350058008221 conserved cis-peptide bond; other site 350058008222 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 350058008223 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350058008224 TPR repeat; Region: TPR_11; pfam13414 350058008225 Tetratricopeptide repeat; Region: TPR_1; pfam00515 350058008226 binding surface 350058008227 TPR motif; other site 350058008228 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 350058008229 TPR motif; other site 350058008230 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 350058008231 nucleoside/Zn binding site; other site 350058008232 dimer interface [polypeptide binding]; other site 350058008233 catalytic motif [active] 350058008234 Alpha amylase catalytic domain found in bacterial cyclomaltodextrinases and related proteins; Region: AmyAc_bac_CMD_like; cd11354 350058008235 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 350058008236 active site 350058008237 catalytic site [active] 350058008238 Protein of unknown function (DUF1810); Region: DUF1810; pfam08837 350058008239 Putative esterase; Region: Esterase; pfam00756 350058008240 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 350058008241 Coenzyme A binding pocket [chemical binding]; other site 350058008242 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 350058008243 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 350058008244 Walker A motif; other site 350058008245 ATP binding site [chemical binding]; other site 350058008246 Walker B motif; other site 350058008247 arginine finger; other site 350058008248 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 350058008249 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 350058008250 NAD(P) binding site [chemical binding]; other site 350058008251 active site 350058008252 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 350058008253 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 350058008254 Walker A motif; other site 350058008255 ATP binding site [chemical binding]; other site 350058008256 Walker B motif; other site 350058008257 arginine finger; other site 350058008258 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 350058008259 malate dehydrogenase; Provisional; Region: PRK05442 350058008260 Chloroplast-like malate dehydrogenases; Region: MDH_choloroplast_like; cd01338 350058008261 NAD(P) binding site [chemical binding]; other site 350058008262 dimer interface [polypeptide binding]; other site 350058008263 malate binding site [chemical binding]; other site 350058008264 acetyl-CoA acetyltransferase; Validated; Region: PRK08257 350058008265 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 350058008266 active site 350058008267 putative phosphoketolase; Provisional; Region: PRK05261 350058008268 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 350058008269 TPP-binding site; other site 350058008270 Src Homology 3 domain superfamily; Region: SH3; cl17036 350058008271 peptide ligand binding site [polypeptide binding]; other site 350058008272 XFP C-terminal domain; Region: XFP_C; pfam09363 350058008273 CAAX protease self-immunity; Region: Abi; pfam02517 350058008274 Protein of unknown function (DUF1470); Region: DUF1470; pfam07336 350058008275 CGNR zinc finger; Region: zf-CGNR; pfam11706 350058008276 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD2; cd08298 350058008277 zinc-binding alcohol dehydrogenase family protein; Region: adh_fam_2; TIGR02822 350058008278 putative NAD(P) binding site [chemical binding]; other site 350058008279 putative substrate binding site [chemical binding]; other site 350058008280 catalytic Zn binding site [ion binding]; other site 350058008281 structural Zn binding site [ion binding]; other site 350058008282 Predicted membrane protein [Function unknown]; Region: COG2261 350058008283 Fibronectin-attachment protein (FAP); Region: FAP; pfam07174 350058008284 classical (c) SDRs; Region: SDR_c; cd05233 350058008285 gluconate 5-dehydrogenase; Provisional; Region: PRK08213 350058008286 NAD(P) binding site [chemical binding]; other site 350058008287 active site 350058008288 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 350058008289 probable F420-dependent oxidoreductase, Rv1855c family; Region: F420_Rv1855c; TIGR03560 350058008290 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 350058008291 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 350058008292 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 350058008293 UreD urease accessory protein; Region: UreD; cl00530 350058008294 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 350058008295 Urease accessory protein UreF [Posttranslational modification, protein turnover, chaperones]; Region: UreF; COG0830 350058008296 urease subunit alpha; Reviewed; Region: ureC; PRK13206 350058008297 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 350058008298 subunit interactions [polypeptide binding]; other site 350058008299 active site 350058008300 flap region; other site 350058008301 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 350058008302 gamma-beta subunit interface [polypeptide binding]; other site 350058008303 alpha-beta subunit interface [polypeptide binding]; other site 350058008304 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 350058008305 alpha-gamma subunit interface [polypeptide binding]; other site 350058008306 beta-gamma subunit interface [polypeptide binding]; other site 350058008307 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 350058008308 CoenzymeA binding site [chemical binding]; other site 350058008309 subunit interaction site [polypeptide binding]; other site 350058008310 PHB binding site; other site 350058008311 RNase H is an endonuclease that cleaves the RNA strand of an RNA/DNA hybrid in a sequence non-specific manner; Region: RNase_H; cl14782 350058008312 active site 350058008313 Predicted transcriptional regulator [Transcription]; Region: COG3682 350058008314 Zn-dependent protease with chaperone function [Posttranslational modification, protein turnover, chaperones]; Region: HtpX; COG0501 350058008315 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 350058008316 6-phosphogluconate dehydrogenase; Validated; Region: PRK09287 350058008317 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 350058008318 inosine 5-monophosphate dehydrogenase; Validated; Region: PRK07807 350058008319 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 350058008320 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 350058008321 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 350058008322 active site 350058008323 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 350058008324 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 350058008325 Walker A/P-loop; other site 350058008326 ATP binding site [chemical binding]; other site 350058008327 Q-loop/lid; other site 350058008328 ABC transporter signature motif; other site 350058008329 Walker B; other site 350058008330 D-loop; other site 350058008331 H-loop/switch region; other site 350058008332 TOBE domain; Region: TOBE_2; pfam08402 350058008333 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 350058008334 dimer interface [polypeptide binding]; other site 350058008335 conserved gate region; other site 350058008336 ABC-ATPase subunit interface; other site 350058008337 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 350058008338 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 350058008339 dimer interface [polypeptide binding]; other site 350058008340 conserved gate region; other site 350058008341 putative PBP binding loops; other site 350058008342 ABC-ATPase subunit interface; other site 350058008343 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 350058008344 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 350058008345 Domain of unknown function DUF21; Region: DUF21; pfam01595 350058008346 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 350058008347 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 350058008348 Transporter associated domain; Region: CorC_HlyC; pfam03471 350058008349 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 350058008350 Domain of unknown function DUF21; Region: DUF21; pfam01595 350058008351 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 350058008352 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 350058008353 active site 350058008354 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 350058008355 metal ion-dependent adhesion site (MIDAS); other site 350058008356 Animal prostaglandin endoperoxide synthase and related bacterial proteins; Region: prostaglandin_endoperoxide_synthase; cd09816 350058008357 substrate binding site [chemical binding]; other site 350058008358 homodimer interface [polypeptide binding]; other site 350058008359 heme binding site [chemical binding]; other site 350058008360 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 350058008361 Fatty acid desaturase; Region: FA_desaturase; pfam00487 350058008362 Di-iron ligands [ion binding]; other site 350058008363 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 350058008364 classical (c) SDRs; Region: SDR_c; cd05233 350058008365 NAD(P) binding site [chemical binding]; other site 350058008366 active site 350058008367 PE-PPE domain; Region: PE-PPE; pfam08237 350058008368 PE-PPE domain; Region: PE-PPE; pfam08237 350058008369 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 350058008370 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 350058008371 Cutinase; Region: Cutinase; pfam01083 350058008372 PE-PPE domain; Region: PE-PPE; pfam08237 350058008373 O-Methyltransferase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3315 350058008374 Leucine carboxyl methyltransferase; Region: LCM; pfam04072 350058008375 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 350058008376 Cytochrome P450; Region: p450; cl12078 350058008377 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 350058008378 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 350058008379 PE-PPE domain; Region: PE-PPE; pfam08237 350058008380 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 350058008381 methyl indole-3-acetate methyltransferase; Region: PLN02211; cl17657 350058008382 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 350058008383 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 350058008384 NAD(P) binding site [chemical binding]; other site 350058008385 active site 350058008386 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 350058008387 FMN binding site [chemical binding]; other site 350058008388 dimer interface [polypeptide binding]; other site 350058008389 Protein of unknown function (DUF2505); Region: DUF2505; pfam10698 350058008390 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 350058008391 O-Methyltransferase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3315 350058008392 Leucine carboxyl methyltransferase; Region: LCM; pfam04072 350058008393 acyltransferase PapA5; Provisional; Region: PRK09294 350058008394 ABC-2 type transporter; Region: ABC2_membrane; cl17235 350058008395 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 350058008396 ABC-2 type transporter; Region: ABC2_membrane; cl17235 350058008397 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 350058008398 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 350058008399 daunorubicin resistance ABC transporter ATP-binding subunit; Region: drrA; TIGR01188 350058008400 Walker A/P-loop; other site 350058008401 ATP binding site [chemical binding]; other site 350058008402 Q-loop/lid; other site 350058008403 ABC transporter signature motif; other site 350058008404 Walker B; other site 350058008405 D-loop; other site 350058008406 H-loop/switch region; other site 350058008407 Beta-ketoacyl synthase; Region: PKS_KS; smart00825 350058008408 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 350058008409 active site 350058008410 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 350058008411 Acyl transferase domain in polyketide synthase (PKS) enzymes; Region: PKS_AT; smart00827 350058008412 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 350058008413 Condensation domain; Region: Condensation; pfam00668 350058008414 non-ribosomal peptide synthase domain TIGR01720; Region: NRPS-para261 350058008415 Polyketide synthase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3321 350058008416 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 350058008417 active site 350058008418 Acyl transferase domain in polyketide synthase (PKS) enzymes; Region: PKS_AT; smart00827 350058008419 Dehydratase domain in polyketide synthase (PKS) enzymes; Region: PKS_DH; smart00826 350058008420 beta-ketoacyl reductase (KR) domain of fatty acid synthase (FAS), subgroup 2, complex (x); Region: KR_2_FAS_SDR_x; cd08955 350058008421 KR domain; Region: KR; pfam08659 350058008422 putative NADP binding site [chemical binding]; other site 350058008423 active site 350058008424 Phosphopantetheine attachment site; Region: PKS_PP; smart00823 350058008425 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 350058008426 Beta-ketoacyl synthase; Region: PKS_KS; smart00825 350058008427 active site 350058008428 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 350058008429 Acyl transferase domain in polyketide synthase (PKS) enzymes; Region: PKS_AT; smart00827 350058008430 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 350058008431 KR domain; Region: KR; pfam08659 350058008432 NAD(P) binding site [chemical binding]; other site 350058008433 active site 350058008434 Dehydratase domain in polyketide synthase (PKS) enzymes; Region: PKS_DH; smart00826 350058008435 Phosphopantetheine attachment site; Region: PKS_PP; smart00823 350058008436 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 350058008437 Polyketide synthase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3321 350058008438 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 350058008439 active site 350058008440 Acyl transferase domain in polyketide synthase (PKS) enzymes; Region: PKS_AT; smart00827 350058008441 ketoreductase (KR) and fatty acid synthase (FAS), complex (x) SDRs; Region: KR_FAS_SDR_x; cd05274 350058008442 KR domain; Region: KR; pfam08659 350058008443 NADP binding site [chemical binding]; other site 350058008444 active site 350058008445 Phosphopantetheine attachment site; Region: PKS_PP; smart00823 350058008446 acyl-CoA synthetase; Validated; Region: PRK05850 350058008447 Fatty acyl-AMP ligase (FAAL); Region: FAAL; cd05931 350058008448 acyl-activating enzyme (AAE) consensus motif; other site 350058008449 active site 350058008450 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 350058008451 Polyketide synthase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3321 350058008452 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 350058008453 active site 350058008454 Acyl transferase domain in polyketide synthase (PKS) enzymes; Region: PKS_AT; smart00827 350058008455 Dehydratase domain in polyketide synthase (PKS) enzymes; Region: PKS_DH; smart00826 350058008456 ketoreductase (KR) and fatty acid synthase (FAS), complex (x) SDRs; Region: KR_FAS_SDR_x; cd05274 350058008457 KR domain; Region: KR; pfam08659 350058008458 NADP binding site [chemical binding]; other site 350058008459 active site 350058008460 Phosphopantetheine attachment site; Region: PKS_PP; smart00823 350058008461 acyl-CoA synthetase; Validated; Region: PRK05850 350058008462 Fatty acyl-AMP ligase (FAAL); Region: FAAL; cd05931 350058008463 acyl-activating enzyme (AAE) consensus motif; other site 350058008464 active site 350058008465 Predicted thioesterase involved in non-ribosomal peptide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: GrsT; COG3208 350058008466 glycine dehydrogenase; Provisional; Region: PRK05367 350058008467 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 350058008468 pyridoxal 5'-phosphate binding site [chemical binding]; other site 350058008469 tetramer interface [polypeptide binding]; other site 350058008470 catalytic residue [active] 350058008471 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 350058008472 tetramer interface [polypeptide binding]; other site 350058008473 pyridoxal 5'-phosphate binding site [chemical binding]; other site 350058008474 catalytic residue [active] 350058008475 Helix-Turn-Helix DNA binding domain of GlnR-like transcription regulators; Region: HTH_GlnR-like; cd01105 350058008476 DNA binding residues [nucleotide binding] 350058008477 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 350058008478 putative dimer interface [polypeptide binding]; other site 350058008479 Bifunctional nuclease; Region: DNase-RNase; pfam02577 350058008480 Helix-Turn-Helix DNA binding domain of MerR-like transcription regulators; Region: HTH_MerR-like; cd00592 350058008481 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 350058008482 DNA binding residues [nucleotide binding] 350058008483 FOG: FHA domain [Signal transduction mechanisms]; Region: COG1716 350058008484 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 350058008485 phosphopeptide binding site; other site 350058008486 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 350058008487 lipoyl attachment site [posttranslational modification]; other site 350058008488 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3879 350058008489 Bacterial protein of unknown function (DUF881); Region: DUF881; pfam05949 350058008490 Protein of unknown function (DUF1290); Region: DUF1290; pfam06947 350058008491 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3879 350058008492 Bacterial protein of unknown function (DUF881); Region: DUF881; pfam05949 350058008493 Phosphatidylglycerophosphate synthase [Lipid metabolism]; Region: PgsA; COG0558 350058008494 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 350058008495 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 350058008496 Walker A/P-loop; other site 350058008497 ATP binding site [chemical binding]; other site 350058008498 Q-loop/lid; other site 350058008499 ABC transporter signature motif; other site 350058008500 Walker B; other site 350058008501 D-loop; other site 350058008502 H-loop/switch region; other site 350058008503 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 350058008504 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 350058008505 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 350058008506 Queuine tRNA-ribosyltransferases, contain PUA domain [Translation, ribosomal structure and biogenesis]; Region: COG1549 350058008507 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 350058008508 NAD(P) binding site [chemical binding]; other site 350058008509 catalytic residues [active] 350058008510 acetylornithine aminotransferase; Provisional; Region: PRK02627 350058008511 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 350058008512 inhibitor-cofactor binding pocket; inhibition site 350058008513 pyridoxal 5'-phosphate binding site [chemical binding]; other site 350058008514 catalytic residue [active] 350058008515 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 350058008516 N-ethylammeline chlorohydrolase; Provisional; Region: PRK09045 350058008517 active site 350058008518 Phytoene dehydrogenase and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG1233 350058008519 O-methyltransferase; Region: Methyltransf_2; pfam00891 350058008520 Cytosine deaminase and related metal-dependent hydrolases [Nucleotide transport and metabolism / General function prediction only]; Region: SsnA; COG0402 350058008521 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 350058008522 active site 350058008523 putative urate catabolism protein; Region: uraD_N-term-dom; TIGR03212 350058008524 Catalytic domain of bacterial PuuE allantoinases, Schizosaccharomyces pombe chitin deacetylase 1 (SpCDA1), and similar proteins; Region: CE4_PuuE_SpCDA1; cd10977 350058008525 active site 350058008526 catalytic site [active] 350058008527 tetramer interface [polypeptide binding]; other site 350058008528 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 350058008529 FAD-NAD(P)-binding; Region: NAD_binding_9; pfam13454 350058008530 Amidase; Region: Amidase; cl11426 350058008531 Amidase; Region: Amidase; cl11426 350058008532 Putative catalytic domain of uncharacterized prokaryotic polysaccharide deacetylases similar to bacterial PuuE allantoinases; Region: CE4_PuuE_like; cd10979 350058008533 putative active site [active] 350058008534 putative catalytic site [active] 350058008535 Amidase; Region: Amidase; cl11426 350058008536 Aromatic ring hydroxylase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2368 350058008537 4-hydroxyphenylacetate 3-hydroxylase C terminal; Region: HpaB; pfam03241 350058008538 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 350058008539 DNA-binding site [nucleotide binding]; DNA binding site 350058008540 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 350058008541 N-ethylammeline chlorohydrolase; Provisional; Region: PRK06038 350058008542 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 350058008543 active site 350058008544 Predicted amidohydrolase [General function prediction only]; Region: COG0388 350058008545 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cd07197 350058008546 active site 350058008547 catalytic triad [active] 350058008548 dimer interface [polypeptide binding]; other site 350058008549 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 350058008550 preprotein translocase subunit SecA; Reviewed; Region: PRK12326 350058008551 SecA preprotein cross-linking domain; Region: SecA_PP_bind; pfam01043 350058008552 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 350058008553 nucleotide binding region [chemical binding]; other site 350058008554 ATP-binding site [chemical binding]; other site 350058008555 ABC-type uncharacterized transport system, permease and ATPase components [General function prediction only]; Region: COG4178 350058008556 ABC transporter transmembrane region 2; Region: ABC_membrane_2; cl00549 350058008557 ATP-binding cassette domain of peroxisomal transporter, subfamily D; Region: ABCD_peroxisomal_ALDP; cd03223 350058008558 ABC-type uncharacterized transport system, permease and ATPase components [General function prediction only]; Region: COG4178 350058008559 ABC transporter transmembrane region 2; Region: ABC_membrane_2; cl00549 350058008560 ATP-binding cassette domain of peroxisomal transporter, subfamily D; Region: ABCD_peroxisomal_ALDP; cd03223 350058008561 hypothetical protein; Validated; Region: PRK07121 350058008562 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 350058008563 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 350058008564 active site 350058008565 metal binding site [ion binding]; metal-binding site 350058008566 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 350058008567 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350058008568 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 350058008569 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 350058008570 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 350058008571 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 350058008572 Carboxylesterase type B [Lipid metabolism]; Region: PnbA; COG2272 350058008573 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 350058008574 substrate binding pocket [chemical binding]; other site 350058008575 catalytic triad [active] 350058008576 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 350058008577 active site 350058008578 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 350058008579 Major Facilitator Superfamily; Region: MFS_1; pfam07690 350058008580 4-alpha-glucanotransferase; Provisional; Region: malQ; PRK11052 350058008581 4-alpha-glucanotransferase [Carbohydrate transport and metabolism]; Region: MalQ; COG1640 350058008582 Domain of unknown function (DUF222); Region: DUF222; pfam02720 350058008583 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 350058008584 active site 350058008585 Transposase zinc-ribbon domain; Region: Zn_Tnp_IS1595; pfam12760 350058008586 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; pfam12762 350058008587 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG3687 350058008588 Predicted metal-dependent hydrolase; Region: Metal_hydrol; pfam10118 350058008589 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 350058008590 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 350058008591 FMN-binding pocket [chemical binding]; other site 350058008592 flavin binding motif; other site 350058008593 phosphate binding motif [ion binding]; other site 350058008594 beta-alpha-beta structure motif; other site 350058008595 NAD binding pocket [chemical binding]; other site 350058008596 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 350058008597 catalytic loop [active] 350058008598 iron binding site [ion binding]; other site 350058008599 SnoaL-like domain; Region: SnoaL_4; pfam13577 350058008600 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 350058008601 nudix motif; other site 350058008602 Members of the SGNH-hydrolase superfamily, a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase_like_1; cd01832 350058008603 active site 350058008604 catalytic triad [active] 350058008605 oxyanion hole [active] 350058008606 Nuclear transport factor 2 (NTF2) domain; Region: NTF2; pfam02136 350058008607 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 350058008608 Cytochrome P450; Region: p450; cl12078 350058008609 Mycobacterium membrane protein; Region: Mycobact_memb; pfam05423 350058008610 Predicted drug exporters of the RND superfamily [General function prediction only]; Region: COG2409 350058008611 Protein of unknown function (DUF732); Region: DUF732; pfam05305 350058008612 Protein of unknown function (DUF2782); Region: DUF2782; pfam11191 350058008613 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 350058008614 D-galactonate transporter; Region: 2A0114; TIGR00893 350058008615 putative substrate translocation pore; other site 350058008616 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 350058008617 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 350058008618 active site 350058008619 ethanolamine permease; Region: 2A0305; TIGR00908 350058008620 ethanolamine ammonia lyase large subunit; Provisional; Region: PRK15067 350058008621 Ethanolamine ammonia lyase large subunit (EutB); Region: EutB; pfam06751 350058008622 ethanolamine ammonia-lyase small subunit; Provisional; Region: PRK05465 350058008623 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 350058008624 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 350058008625 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 350058008626 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 350058008627 RNA binding site [nucleotide binding]; other site 350058008628 hydroperoxidase II; Provisional; Region: katE; PRK11249 350058008629 Catalase-like heme-binding proteins and protein domains; Region: catalase_like; cl09506 350058008630 heme binding pocket [chemical binding]; other site 350058008631 Type 1 glutamine amidotransferase (GATase1)-like domain found in at the C-terminal of several large catalases; Region: GATase1_catalase; cd03132 350058008632 domain interactions; other site 350058008633 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 350058008634 Fe-S cluster binding site [ion binding]; other site 350058008635 active site 350058008636 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 350058008637 PhoU domain; Region: PhoU; pfam01895 350058008638 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 350058008639 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 350058008640 CheB methylesterase; Region: CheB_methylest; pfam01339 350058008641 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 350058008642 anti sigma factor interaction site; other site 350058008643 regulatory phosphorylation site [posttranslational modification]; other site 350058008644 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 350058008645 catalase/hydroperoxidase HPI(I); Provisional; Region: PRK15061 350058008646 Heme-dependent peroxidases similar to plant peroxidases; Region: plant_peroxidase_like; cl00196 350058008647 heme binding site [chemical binding]; other site 350058008648 C-terminal non-catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_2; cd08200 350058008649 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 350058008650 metal binding site 2 [ion binding]; metal-binding site 350058008651 putative DNA binding helix; other site 350058008652 metal binding site 1 [ion binding]; metal-binding site 350058008653 dimer interface [polypeptide binding]; other site 350058008654 structural Zn2+ binding site [ion binding]; other site 350058008655 Monomeric isocitrate dehydrogenase [Energy production and conversion]; Region: Icd; COG2838 350058008656 Monomeric isocitrate dehydrogenase; Region: IDH; cl15383 350058008657 Cupin domain; Region: Cupin_2; pfam07883 350058008658 Type I phosphodiesterase / nucleotide pyrophosphatase; Region: Phosphodiest; pfam01663 350058008659 Sulfatase; Region: Sulfatase; cl17466 350058008660 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 350058008661 dimerization interface [polypeptide binding]; other site 350058008662 putative DNA binding site [nucleotide binding]; other site 350058008663 putative Zn2+ binding site [ion binding]; other site 350058008664 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 350058008665 Major Facilitator Superfamily; Region: MFS_1; pfam07690 350058008666 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 350058008667 putative substrate translocation pore; other site 350058008668 Low molecular weight phosphatase family; Region: LMWPc; cl00105 350058008669 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 350058008670 active site 350058008671 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 350058008672 Low molecular weight phosphatase family; Region: LMWPc; cd00115 350058008673 active site 350058008674 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 350058008675 arsenical-resistance protein; Region: acr3; TIGR00832 350058008676 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 350058008677 dimerization interface [polypeptide binding]; other site 350058008678 putative DNA binding site [nucleotide binding]; other site 350058008679 putative Zn2+ binding site [ion binding]; other site 350058008680 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 350058008681 dimerization interface [polypeptide binding]; other site 350058008682 putative DNA binding site [nucleotide binding]; other site 350058008683 putative Zn2+ binding site [ion binding]; other site 350058008684 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 350058008685 cation diffusion facilitator family transporter; Region: CDF; TIGR01297 350058008686 Cobalt transport protein; Region: CbiQ; cl00463 350058008687 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 350058008688 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 350058008689 Walker A/P-loop; other site 350058008690 ATP binding site [chemical binding]; other site 350058008691 Q-loop/lid; other site 350058008692 ABC transporter signature motif; other site 350058008693 Walker B; other site 350058008694 D-loop; other site 350058008695 H-loop/switch region; other site 350058008696 BioY family; Region: BioY; pfam02632 350058008697 Transposase zinc-ribbon domain; Region: Zn_Tnp_IS1595; pfam12760 350058008698 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; pfam12762 350058008699 Domain of unknown function (DUF222); Region: DUF222; pfam02720 350058008700 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 350058008701 active site 350058008702 Short C-terminal domain; Region: SHOCT; pfam09851 350058008703 Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: DsbG; COG1651 350058008704 Thioredoxin; Region: Thioredoxin_4; pfam13462 350058008705 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 350058008706 dimerization interface [polypeptide binding]; other site 350058008707 putative DNA binding site [nucleotide binding]; other site 350058008708 putative Zn2+ binding site [ion binding]; other site 350058008709 Protein of unknown function (DUF3703); Region: DUF3703; pfam12487 350058008710 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 350058008711 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 350058008712 catalytic residues [active] 350058008713 Predicted permease, cadmium resistance protein [Inorganic ion transport and metabolism]; Region: CadD; COG4300 350058008714 Cadmium resistance transporter; Region: Cad; pfam03596 350058008715 heavy metal-(Cd/Co/Hg/Pb/Zn)-translocating P-type ATPase; Region: ATPase-IB2_Cd; TIGR01512 350058008716 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 350058008717 Soluble P-type ATPase [General function prediction only]; Region: COG4087 350058008718 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 350058008719 dimerization interface [polypeptide binding]; other site 350058008720 putative DNA binding site [nucleotide binding]; other site 350058008721 putative Zn2+ binding site [ion binding]; other site 350058008722 Methyltransferase domain; Region: Methyltransf_23; pfam13489 350058008723 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 350058008724 S-adenosylmethionine binding site [chemical binding]; other site 350058008725 Putative protein-S-isoprenylcysteine methyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: STE14; COG2020 350058008726 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 350058008727 conjugative relaxase domain, TrwC/TraI family; Region: relax_trwC; TIGR02686 350058008728 AAA domain; Region: AAA_30; pfam13604 350058008729 Family description; Region: UvrD_C_2; pfam13538 350058008730 Phage derived protein Gp49-like (DUF891); Region: Gp49; pfam05973 350058008731 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 350058008732 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 350058008733 non-specific DNA binding site [nucleotide binding]; other site 350058008734 salt bridge; other site 350058008735 sequence-specific DNA binding site [nucleotide binding]; other site 350058008736 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 350058008737 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 350058008738 catalytic residues [active] 350058008739 catalytic nucleophile [active] 350058008740 Presynaptic Site I dimer interface [polypeptide binding]; other site 350058008741 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 350058008742 Synaptic Flat tetramer interface [polypeptide binding]; other site 350058008743 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 350058008744 DNA-binding interface [nucleotide binding]; DNA binding site 350058008745 YfbU domain; Region: YfbU; cl01137 350058008746 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 350058008747 Integrase core domain; Region: rve; pfam00665 350058008748 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 350058008749 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 350058008750 Walker A motif; other site 350058008751 ATP binding site [chemical binding]; other site 350058008752 Walker B motif; other site 350058008753 arginine finger; other site 350058008754 Transposase, Mutator family; Region: Transposase_mut; pfam00872 350058008755 MULE transposase domain; Region: MULE; pfam10551 350058008756 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 350058008757 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 350058008758 non-specific DNA binding site [nucleotide binding]; other site 350058008759 salt bridge; other site 350058008760 sequence-specific DNA binding site [nucleotide binding]; other site 350058008761 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 350058008762 active site 350058008763 DNA binding site [nucleotide binding] 350058008764 Int/Topo IB signature motif; other site 350058008765 Uncharacterized protein related to deoxyribodipyrimidine photolyase [General function prediction only]; Region: COG3046 350058008766 Deoxyribodipyrimidine photo-lyase-related protein; Region: DPRP; pfam04244 350058008767 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 350058008768 hypothetical protein; Provisional; Region: PRK10621 350058008769 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 350058008770 Sporulation protein YtfJ (Spore_YtfJ); Region: Spore_YtfJ; pfam09579 350058008771 GTP-binding protein Der; Reviewed; Region: PRK03003 350058008772 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 350058008773 GTP/Mg2+ binding site [chemical binding]; other site 350058008774 Switch I region; other site 350058008775 G2 box; other site 350058008776 Switch II region; other site 350058008777 G3 box; other site 350058008778 G4 box; other site 350058008779 G5 box; other site 350058008780 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 350058008781 G1 box; other site 350058008782 GTP/Mg2+ binding site [chemical binding]; other site 350058008783 Switch I region; other site 350058008784 G2 box; other site 350058008785 G3 box; other site 350058008786 Switch II region; other site 350058008787 G4 box; other site 350058008788 G5 box; other site 350058008789 cytidylate kinase; Provisional; Region: cmk; PRK00023 350058008790 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 350058008791 active site 350058008792 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 350058008793 CMP-binding site; other site 350058008794 The sites determining sugar specificity; other site 350058008795 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 350058008796 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 350058008797 RNA binding surface [nucleotide binding]; other site 350058008798 Pseudouridine synthases, RsuA subfamily; Region: PseudoU_synth_RsuA_like; cd02870 350058008799 active site 350058008800 Putative transcriptional regulators (Ypuh-like); Region: DUF387; pfam04079 350058008801 Rec8/ScpA/Scc1-like protein (kleisin family) [Replication, recombination, and repair]; Region: scpA; COG1354 350058008802 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 350058008803 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 350058008804 P-loop; other site 350058008805 Magnesium ion binding site [ion binding]; other site 350058008806 Predicted O-methyltransferase [General function prediction only]; Region: COG4122 350058008807 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 350058008808 S-adenosylmethionine binding site [chemical binding]; other site 350058008809 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 350058008810 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 350058008811 active site 350058008812 DNA binding site [nucleotide binding] 350058008813 Int/Topo IB signature motif; other site 350058008814 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 350058008815 dimer interface [polypeptide binding]; other site 350058008816 ADP-ribose binding site [chemical binding]; other site 350058008817 active site 350058008818 nudix motif; other site 350058008819 metal binding site [ion binding]; metal-binding site 350058008820 CTP synthetase; Validated; Region: pyrG; PRK05380 350058008821 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 350058008822 Catalytic site [active] 350058008823 active site 350058008824 UTP binding site [chemical binding]; other site 350058008825 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 350058008826 active site 350058008827 putative oxyanion hole; other site 350058008828 catalytic triad [active] 350058008829 Protein of unknown function (DUF3186); Region: DUF3186; pfam11382 350058008830 Uncharacterized membrane-anchored protein conserved in bacteria [Function unknown]; Region: COG4825 350058008831 Thiamine pyrophosphokinase; Region: TPK; cl08415 350058008832 Thiamine pyrophosphokinase C terminal; Region: TPPK_C; pfam12555 350058008833 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 350058008834 active site 350058008835 metal binding site [ion binding]; metal-binding site 350058008836 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350058008837 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 350058008838 DNA repair protein RecN; Region: recN; TIGR00634 350058008839 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 350058008840 Walker A/P-loop; other site 350058008841 ATP binding site [chemical binding]; other site 350058008842 Q-loop/lid; other site 350058008843 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 350058008844 ABC transporter signature motif; other site 350058008845 Walker B; other site 350058008846 D-loop; other site 350058008847 H-loop/switch region; other site 350058008848 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK03372 350058008849 ATP-NAD kinase; Region: NAD_kinase; pfam01513 350058008850 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 350058008851 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 350058008852 RNA binding surface [nucleotide binding]; other site 350058008853 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 350058008854 S-adenosylmethionine binding site [chemical binding]; other site 350058008855 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 350058008856 HAD-superfamily subfamily IIA hydrolase, TIGR01457; Region: HAD-SF-IIA-hyp2 350058008857 active site 350058008858 motif I; other site 350058008859 motif II; other site 350058008860 HAD-hyrolase-like; Region: Hydrolase_like; pfam13242 350058008861 Tetratrico peptide repeat; Region: TPR_5; pfam12688 350058008862 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 350058008863 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 350058008864 active site 350058008865 HIGH motif; other site 350058008866 dimer interface [polypeptide binding]; other site 350058008867 KMSKS motif; other site 350058008868 S4 RNA-binding domain; Region: S4; smart00363 350058008869 Alkyladenine DNA glycosylase catalyzes the first step in base excision repair; Region: AAG; cd00540 350058008870 active site 350058008871 DNA binding site [nucleotide binding] 350058008872 ABC transporter, ATP-binding subunit, PQQ-dependent alcohol dehydrogenase system; Region: PQQ_ABC_ATP; TIGR03864 350058008873 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 350058008874 Walker A/P-loop; other site 350058008875 ATP binding site [chemical binding]; other site 350058008876 Q-loop/lid; other site 350058008877 ABC transporter signature motif; other site 350058008878 Walker B; other site 350058008879 D-loop; other site 350058008880 H-loop/switch region; other site 350058008881 ABC-2 type transporter; Region: ABC2_membrane; cl17235 350058008882 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 350058008883 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 350058008884 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350058008885 Uncharacterized conserved protein [Function unknown]; Region: COG2835 350058008886 acyl-CoA synthetase; Validated; Region: PRK07868 350058008887 PHB de-polymerase C-terminus; Region: PHB_depo_C; pfam06850 350058008888 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 350058008889 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 350058008890 active site 350058008891 CoA binding site [chemical binding]; other site 350058008892 AMP binding site [chemical binding]; other site 350058008893 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 350058008894 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 350058008895 ABC transporter; Region: ABC_tran_2; pfam12848 350058008896 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 350058008897 argininosuccinate lyase; Provisional; Region: PRK00855 350058008898 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 350058008899 active sites [active] 350058008900 tetramer interface [polypeptide binding]; other site 350058008901 argininosuccinate synthase; Provisional; Region: PRK13820 350058008902 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 350058008903 ANP binding site [chemical binding]; other site 350058008904 Substrate Binding Site II [chemical binding]; other site 350058008905 Substrate Binding Site I [chemical binding]; other site 350058008906 arginine repressor; Provisional; Region: PRK03341 350058008907 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 350058008908 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 350058008909 ornithine carbamoyltransferase; Provisional; Region: PRK00779 350058008910 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 350058008911 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 350058008912 acetylornithine aminotransferase; Provisional; Region: argD; PRK03244 350058008913 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 350058008914 inhibitor-cofactor binding pocket; inhibition site 350058008915 pyridoxal 5'-phosphate binding site [chemical binding]; other site 350058008916 catalytic residue [active] 350058008917 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 350058008918 feedback inhibition sensing region; other site 350058008919 homohexameric interface [polypeptide binding]; other site 350058008920 nucleotide binding site [chemical binding]; other site 350058008921 N-acetyl-L-glutamate binding site [chemical binding]; other site 350058008922 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 350058008923 heterotetramer interface [polypeptide binding]; other site 350058008924 active site pocket [active] 350058008925 cleavage site 350058008926 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 350058008927 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 350058008928 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 350058008929 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 350058008930 Coenzyme A binding pocket [chemical binding]; other site 350058008931 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 350058008932 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 350058008933 putative tRNA-binding site [nucleotide binding]; other site 350058008934 B3/4 domain; Region: B3_4; pfam03483 350058008935 tRNA synthetase B5 domain; Region: B5; smart00874 350058008936 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 350058008937 dimer interface [polypeptide binding]; other site 350058008938 motif 1; other site 350058008939 motif 3; other site 350058008940 motif 2; other site 350058008941 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 350058008942 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 350058008943 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 350058008944 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 350058008945 dimer interface [polypeptide binding]; other site 350058008946 motif 1; other site 350058008947 active site 350058008948 motif 2; other site 350058008949 motif 3; other site 350058008950 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 350058008951 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 350058008952 Probable transposase; Region: OrfB_IS605; pfam01385 350058008953 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 350058008954 cyclase homology domain; Region: CHD; cd07302 350058008955 nucleotidyl binding site; other site 350058008956 metal binding site [ion binding]; metal-binding site 350058008957 dimer interface [polypeptide binding]; other site 350058008958 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3662 350058008959 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 350058008960 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 350058008961 active site 350058008962 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 350058008963 classical (c) SDRs; Region: SDR_c; cd05233 350058008964 NAD(P) binding site [chemical binding]; other site 350058008965 active site 350058008966 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 350058008967 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 350058008968 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 350058008969 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 350058008970 23S rRNA binding site [nucleotide binding]; other site 350058008971 L21 binding site [polypeptide binding]; other site 350058008972 L13 binding site [polypeptide binding]; other site 350058008973 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 350058008974 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 350058008975 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 350058008976 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 350058008977 lysyl-tRNA synthetase; Provisional; Region: lysS; PRK02983 350058008978 Uncharacterized conserved protein (DUF2156); Region: DUF2156; pfam09924 350058008979 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 350058008980 putative anticodon binding site; other site 350058008981 dimer interface [polypeptide binding]; other site 350058008982 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 350058008983 motif 1; other site 350058008984 dimer interface [polypeptide binding]; other site 350058008985 active site 350058008986 motif 2; other site 350058008987 motif 3; other site 350058008988 Predicted esterase [General function prediction only]; Region: COG0627 350058008989 Phage shock protein A (IM30), suppresses sigma54-dependent transcription [Transcription / Signal transduction mechanisms]; Region: PspA; COG1842 350058008990 CHAT domain; Region: CHAT; cl17868 350058008991 Mycobacterium 19 kDa lipoprotein antigen; Region: Myco_19_kDa; pfam05481 350058008992 Protein of unknown function (DUF1006); Region: DUF1006; pfam06224 350058008993 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 350058008994 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 350058008995 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 350058008996 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 350058008997 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 350058008998 fructose-1,6-bisphosphate aldolase; Reviewed; Region: PRK05377 350058008999 catalytic residue [active] 350058009000 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 350058009001 Ligand Binding Site [chemical binding]; other site 350058009002 Cutinase; Region: Cutinase; pfam01083 350058009003 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 350058009004 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 350058009005 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 350058009006 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350058009007 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 350058009008 Major Facilitator Superfamily; Region: MFS_1; pfam07690 350058009009 putative substrate translocation pore; other site 350058009010 excinuclease ABC subunit B; Provisional; Region: PRK05298 350058009011 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 350058009012 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 350058009013 nucleotide binding region [chemical binding]; other site 350058009014 ATP-binding site [chemical binding]; other site 350058009015 Ultra-violet resistance protein B; Region: UvrB; pfam12344 350058009016 UvrB/uvrC motif; Region: UVR; pfam02151 350058009017 Protein of unknown function (DUF402); Region: DUF402; cl00979 350058009018 dephospho-CoA kinase/protein folding accessory domain-containing protein; Provisional; Region: coaE; PRK03333 350058009019 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 350058009020 CoA-binding site [chemical binding]; other site 350058009021 ATP-binding [chemical binding]; other site 350058009022 Uncharacterized protein family (UPF0157); Region: UPF0157; pfam04229 350058009023 YCII-related domain; Region: YCII; cl00999 350058009024 YCII-related domain; Region: YCII; cl00999 350058009025 Predicted RNA polymerase sigma factor containing a TPR repeat domain [Transcription]; Region: COG4941 350058009026 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 350058009027 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 350058009028 DNA binding residues [nucleotide binding] 350058009029 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK07899 350058009030 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 350058009031 RNA binding site [nucleotide binding]; other site 350058009032 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 350058009033 RNA binding site [nucleotide binding]; other site 350058009034 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 350058009035 RNA binding site [nucleotide binding]; other site 350058009036 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 350058009037 RNA binding site [nucleotide binding]; other site 350058009038 Protease prsW family; Region: PrsW-protease; pfam13367 350058009039 HGG motif-containing thioesterase, possibly involved in aromatic compounds catabolism [Secondary metabolites biosynthesis, transport, and catabolism]; Region: PaaI; COG2050 350058009040 Thioesterase-like superfamily; Region: 4HBT_3; pfam13622 350058009041 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 350058009042 active site 350058009043 dimer interface [polypeptide binding]; other site 350058009044 Retinal pigment epithelial membrane protein; Region: RPE65; pfam03055 350058009045 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 350058009046 DNA polymerase I; Provisional; Region: PRK05755 350058009047 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 350058009048 active site 350058009049 metal binding site 1 [ion binding]; metal-binding site 350058009050 putative 5' ssDNA interaction site; other site 350058009051 metal binding site 3; metal-binding site 350058009052 metal binding site 2 [ion binding]; metal-binding site 350058009053 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 350058009054 putative DNA binding site [nucleotide binding]; other site 350058009055 putative metal binding site [ion binding]; other site 350058009056 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 350058009057 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 350058009058 active site 350058009059 DNA binding site [nucleotide binding] 350058009060 catalytic site [active] 350058009061 Transcriptional regulator [Transcription]; Region: LysR; COG0583 350058009062 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 350058009063 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 350058009064 putative dimerization interface [polypeptide binding]; other site 350058009065 methyl indole-3-acetate methyltransferase; Region: PLN02211; cl17657 350058009066 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 350058009067 Rubredoxin-like zinc ribbon domain (DUF35_N); Region: DUF35_N; pfam12172 350058009068 DUF35 OB-fold domain; Region: DUF35; pfam01796 350058009069 lipid-transfer protein; Provisional; Region: PRK06059 350058009070 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 350058009071 active site 350058009072 SnoaL-like domain; Region: SnoaL_4; pfam13577 350058009073 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 350058009074 probable F420-dependent oxidoreductase, Rv2161c family; Region: F420_Rv2161c; TIGR03619 350058009075 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 350058009076 D-loop; other site 350058009077 H-loop/switch region; other site 350058009078 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 350058009079 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 350058009080 ABC-ATPase subunit interface; other site 350058009081 dimer interface [polypeptide binding]; other site 350058009082 putative PBP binding regions; other site 350058009083 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 350058009084 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 350058009085 ABC-type metal ion transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: LraI; COG0803 350058009086 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 350058009087 metal binding site [ion binding]; metal-binding site 350058009088 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 350058009089 dimerization interface [polypeptide binding]; other site 350058009090 putative DNA binding site [nucleotide binding]; other site 350058009091 putative Zn2+ binding site [ion binding]; other site 350058009092 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 350058009093 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 350058009094 Ecdysteroid kinase; Region: EcKinase; cl17738 350058009095 Phosphotransferase enzyme family; Region: APH; pfam01636 350058009096 Hydroxyneurosporene synthase (CrtC); Region: CrtC; cl12101 350058009097 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 350058009098 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 350058009099 NAD(P) binding site [chemical binding]; other site 350058009100 active site 350058009101 N-acetylmuramoyl-L-alanine amidase; Region: Amidase_2; pfam01510 350058009102 amidase catalytic site [active] 350058009103 Zn binding residues [ion binding]; other site 350058009104 substrate binding site [chemical binding]; other site 350058009105 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 350058009106 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cd07812 350058009107 hydrophobic ligand binding site; other site 350058009108 Domain of unknown function (DUF222); Region: DUF222; pfam02720 350058009109 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 350058009110 active site 350058009111 Siderophore-interacting protein [Inorganic ion transport and metabolism]; Region: ViuB; COG2375 350058009112 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 350058009113 FAD binding pocket [chemical binding]; other site 350058009114 FAD binding motif [chemical binding]; other site 350058009115 phosphate binding motif [ion binding]; other site 350058009116 NAD binding pocket [chemical binding]; other site 350058009117 Thioesterase-like superfamily; Region: 4HBT_3; pfam13622 350058009118 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 350058009119 active site 2 [active] 350058009120 TspO/MBR family; Region: TspO_MBR; pfam03073 350058009121 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 350058009122 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 350058009123 homodimer interface [polypeptide binding]; other site 350058009124 homotetramer interface [polypeptide binding]; other site 350058009125 active site pocket [active] 350058009126 cleavage site 350058009127 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 350058009128 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cd07812 350058009129 hydrophobic ligand binding site; other site 350058009130 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 350058009131 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 350058009132 Walker A/P-loop; other site 350058009133 ATP binding site [chemical binding]; other site 350058009134 Q-loop/lid; other site 350058009135 ABC transporter signature motif; other site 350058009136 Walker B; other site 350058009137 D-loop; other site 350058009138 H-loop/switch region; other site 350058009139 TOBE domain; Region: TOBE_2; pfam08402 350058009140 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 350058009141 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 350058009142 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 350058009143 dimer interface [polypeptide binding]; other site 350058009144 conserved gate region; other site 350058009145 putative PBP binding loops; other site 350058009146 ABC-ATPase subunit interface; other site 350058009147 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 350058009148 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 350058009149 dimer interface [polypeptide binding]; other site 350058009150 conserved gate region; other site 350058009151 putative PBP binding loops; other site 350058009152 ABC-ATPase subunit interface; other site 350058009153 Threonine/homoserine efflux transporter [Amino acid transport and metabolism]; Region: rhtA; COG5006 350058009154 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 350058009155 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350058009156 short chain dehydrogenase; Provisional; Region: PRK12827 350058009157 classical (c) SDRs; Region: SDR_c; cd05233 350058009158 NAD(P) binding site [chemical binding]; other site 350058009159 active site 350058009160 oxidoreductase, SDR family; Region: SDR_subfam_1; TIGR03971 350058009161 classical (c) SDRs; Region: SDR_c; cd05233 350058009162 NAD(P) binding site [chemical binding]; other site 350058009163 active site 350058009164 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 350058009165 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 350058009166 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 350058009167 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350058009168 enoyl-CoA hydratase; Provisional; Region: PRK08260 350058009169 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 350058009170 substrate binding site [chemical binding]; other site 350058009171 oxyanion hole (OAH) forming residues; other site 350058009172 trimer interface [polypeptide binding]; other site 350058009173 Transcriptional regulator [Transcription]; Region: LysR; COG0583 350058009174 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 350058009175 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 350058009176 dimerization interface [polypeptide binding]; other site 350058009177 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 350058009178 Predicted membrane protein [Function unknown]; Region: COG2259 350058009179 Domain of unknown function (DUF4333); Region: DUF4333; pfam14230 350058009180 Domain of unknown function (DUF4333); Region: DUF4333; pfam14230 350058009181 Domain of unknown function (DUF4333); Region: DUF4333; pfam14230 350058009182 hypothetical protein; Provisional; Region: PRK02237 350058009183 tyramine oxidase; Provisional; Region: tynA; PRK11504 350058009184 Copper amine oxidase, N2 domain; Region: Cu_amine_oxidN2; pfam02727 350058009185 Copper amine oxidase, N3 domain; Region: Cu_amine_oxidN3; pfam02728 350058009186 Copper amine oxidase, enzyme domain; Region: Cu_amine_oxid; pfam01179 350058009187 Carboxylesterase type B [Lipid metabolism]; Region: PnbA; COG2272 350058009188 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 350058009189 substrate binding pocket [chemical binding]; other site 350058009190 catalytic triad [active] 350058009191 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 350058009192 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 350058009193 substrate binding pocket [chemical binding]; other site 350058009194 membrane-bound complex binding site; other site 350058009195 hinge residues; other site 350058009196 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 350058009197 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 350058009198 Walker A/P-loop; other site 350058009199 ATP binding site [chemical binding]; other site 350058009200 Q-loop/lid; other site 350058009201 ABC transporter signature motif; other site 350058009202 Walker B; other site 350058009203 D-loop; other site 350058009204 H-loop/switch region; other site 350058009205 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 350058009206 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 350058009207 dimer interface [polypeptide binding]; other site 350058009208 conserved gate region; other site 350058009209 putative PBP binding loops; other site 350058009210 ABC-ATPase subunit interface; other site 350058009211 Maltose-binding periplasmic proteins/domains [Carbohydrate transport and metabolism]; Region: MalE; COG2182 350058009212 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 350058009213 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 350058009214 DNA binding site [nucleotide binding] 350058009215 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 350058009216 Domain of unknown function (DUF4109); Region: DUF4109; pfam13397 350058009217 DPM1_like represents putative enzymes similar to eukaryotic DPM1; Region: DPM1_like; cd06442 350058009218 Ligand binding site; other site 350058009219 Putative Catalytic site; other site 350058009220 DXD motif; other site 350058009221 Apolipoprotein N-acyltransferase [Cell envelope biogenesis, outer membrane]; Region: Lnt; COG0815 350058009222 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 350058009223 putative active site [active] 350058009224 catalytic triad [active] 350058009225 putative dimer interface [polypeptide binding]; other site 350058009226 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 350058009227 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 350058009228 active site 350058009229 PPOX class probable F420-dependent enzyme, Rv2061 family; Region: Rv2061_F420; TIGR03666 350058009230 PPOX class probable F420-dependent enzyme, Rv2061 family; Region: Rv2061_F420; TIGR03666 350058009231 Transposase, Mutator family; Region: Transposase_mut; pfam00872 350058009232 MULE transposase domain; Region: MULE; pfam10551 350058009233 cobaltochelatase subunit CobN; Reviewed; Region: cobN; PRK05989 350058009234 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 350058009235 CobN subunit of cobaltochelatase, bchH and chlH subunits of magnesium chelatases, and similar proteins; Region: CobN_like; cd10150 350058009236 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 350058009237 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 350058009238 precorrin-3B synthase; Region: CobG; TIGR02435 350058009239 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 350058009240 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 350058009241 precorrin-8X methylmutase; Reviewed; Region: cobH; PRK08285 350058009242 Precorrin-8X methylmutase; Region: CbiC; pfam02570 350058009243 Precorrin-2 C20-methyltransferase, also named CobI or CbiL; Region: Precorrin_2_C20_MT; cd11645 350058009244 active site 350058009245 SAM binding site [chemical binding]; other site 350058009246 homodimer interface [polypeptide binding]; other site 350058009247 Precorrin-3B C(17)-methyltransferase (CobJ/CbiH); Region: Precorrin_3B_C17_MT; cd11646 350058009248 active site 350058009249 SAM binding site [chemical binding]; other site 350058009250 homodimer interface [polypeptide binding]; other site 350058009251 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 350058009252 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350058009253 Phosphotransferase enzyme family; Region: APH; pfam01636 350058009254 Ecdysteroid kinase; Region: EcKinase; cl17738 350058009255 Precorrin-6Y methyltransferase, the cobalamin biosynthesis enzyme CbiE; Region: Precorrin-6Y-methylase; cd11644 350058009256 active site 350058009257 putative homodimer interface [polypeptide binding]; other site 350058009258 SAM binding site [chemical binding]; other site 350058009259 Precorrin-6B methylase 2 [Coenzyme metabolism]; Region: CobL; COG2242 350058009260 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 350058009261 S-adenosylmethionine binding site [chemical binding]; other site 350058009262 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 350058009263 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 350058009264 NAD(P) binding site [chemical binding]; other site 350058009265 active site 350058009266 PPOX class probable F420-dependent enzyme; Region: Rv1155_F420; TIGR03618 350058009267 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 350058009268 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 350058009269 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 350058009270 active site 350058009271 5'-3' exonuclease; Region: 53EXOc; smart00475 350058009272 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 350058009273 active site 350058009274 metal binding site 1 [ion binding]; metal-binding site 350058009275 putative 5' ssDNA interaction site; other site 350058009276 metal binding site 3; metal-binding site 350058009277 metal binding site 2 [ion binding]; metal-binding site 350058009278 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 350058009279 putative DNA binding site [nucleotide binding]; other site 350058009280 putative metal binding site [ion binding]; other site 350058009281 Domain of unknown function (DUF4333); Region: DUF4333; pfam14230 350058009282 Superfamily II RNA helicase [DNA replication, recombination, and repair]; Region: COG4581 350058009283 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 350058009284 ATP binding site [chemical binding]; other site 350058009285 putative Mg++ binding site [ion binding]; other site 350058009286 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 350058009287 nucleotide binding region [chemical binding]; other site 350058009288 ATP-binding site [chemical binding]; other site 350058009289 DSHCT (NUC185) domain; Region: DSHCT; pfam08148 350058009290 Twin arginine targeting (Tat) protein translocase TatC; Region: tatC; TIGR00945 350058009291 twin arginine translocase protein A; Provisional; Region: tatA; PRK00575 350058009292 mttA/Hcf106 family; Region: MttA_Hcf106; pfam02416 350058009293 Predicted transcriptional regulator [Transcription]; Region: COG2378 350058009294 WYL domain; Region: WYL; pfam13280 350058009295 Predicted transcriptional regulator [Transcription]; Region: COG2378 350058009296 WYL domain; Region: WYL; pfam13280 350058009297 proteasome accessory factor PafA; Region: pupylate_PafA; TIGR03686 350058009298 Alpha/beta hydrolase; Region: Abhydrolase_8; pfam06259 350058009299 proteasome, alpha subunit, bacterial type; Region: 20S_bact_alpha; TIGR03691 350058009300 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 350058009301 active site 350058009302 proteasome, beta subunit, bacterial type; Region: 20S_bact_beta; TIGR03690 350058009303 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 350058009304 active site 350058009305 Pup-like protein; Region: Pup; pfam05639 350058009306 proteasome accessory factor PafA2; Region: pupylate_PafA2; TIGR03688 350058009307 Predicted transcriptional regulator [Transcription]; Region: COG1959 350058009308 Transcriptional regulator; Region: Rrf2; cl17282 350058009309 Adenosine specific kinase; Region: Adenosine_kin; pfam04008 350058009310 proteasome ATPase; Region: pup_AAA; TIGR03689 350058009311 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 350058009312 Walker A motif; other site 350058009313 ATP binding site [chemical binding]; other site 350058009314 Walker B motif; other site 350058009315 arginine finger; other site 350058009316 Protein of unknown function (DUF503); Region: DUF503; pfam04456 350058009317 tRNA(1-methyladenosine) methyltransferase and related methyltransferases [Translation, ribosomal structure and biogenesis]; Region: GCD14; COG2519 350058009318 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 350058009319 S-adenosylmethionine binding site [chemical binding]; other site 350058009320 RecB family exonuclease [DNA replication, recombination, and repair]; Region: COG2887 350058009321 Thioesterase-like superfamily; Region: 4HBT_3; pfam13622 350058009322 DinB superfamily; Region: DinB_2; pfam12867 350058009323 Ribonucleotide Reductase R2-like protein, Mn/Fe-binding domain; Region: RNRR2_Rv0233_like; cd07911 350058009324 active site 350058009325 diiron metal binding site [ion binding]; other site 350058009326 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 350058009327 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350058009328 mercuric reductase; Validated; Region: PRK06370 350058009329 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 350058009330 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 350058009331 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 350058009332 Predicted membrane protein [Function unknown]; Region: COG3918 350058009333 ATP phosphoribosyltransferase; Reviewed; Region: hisG; PRK00489 350058009334 ATP phosphoribosyltransferase; Region: hisG; TIGR00070 350058009335 ATP phosphoribosyltransferase, C-terminal domain; Region: HisG_C-term; TIGR03455 350058009336 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 350058009337 homodimer interface [polypeptide binding]; other site 350058009338 putative metal binding site [ion binding]; other site 350058009339 D-xylose transporter XylE; Provisional; Region: xylE; PRK10077 350058009340 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 350058009341 putative substrate translocation pore; other site 350058009342 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 350058009343 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 350058009344 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 350058009345 motif II; other site 350058009346 B12-dependent methionine synthase; Provisional; Region: metH; PRK09490 350058009347 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; COG0646 350058009348 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 350058009349 substrate binding pocket [chemical binding]; other site 350058009350 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 350058009351 B12 binding site [chemical binding]; other site 350058009352 cobalt ligand [ion binding]; other site 350058009353 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 350058009354 PAC2 family; Region: PAC2; pfam09754 350058009355 Uncharacterized conserved protein [Function unknown]; Region: COG5361 350058009356 Protein of unknown function (DUF1254); Region: DUF1254; pfam06863 350058009357 Protein of unknown function (DUF1214); Region: DUF1214; cl08447 350058009358 short chain dehydrogenase; Provisional; Region: PRK05872 350058009359 classical (c) SDRs; Region: SDR_c; cd05233 350058009360 NAD(P) binding site [chemical binding]; other site 350058009361 active site 350058009362 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 350058009363 cysteinyl-tRNA synthetase; Provisional; Region: PRK12418 350058009364 active site 350058009365 HIGH motif; other site 350058009366 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 350058009367 active site 350058009368 KMSKS motif; other site 350058009369 Anticodon-binding domain of cysteinyl tRNA synthetases and domain found in MshC; Region: Anticodon_Ia_Cys_like; cd07955 350058009370 putative tRNA binding surface [nucleotide binding]; other site 350058009371 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 350058009372 active site 350058009373 conserved hypothetical protein; Region: TIGR03843 350058009374 Protein of unknown function (DUF3090); Region: DUF3090; pfam11290 350058009375 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 350058009376 catalytic core [active] 350058009377 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK12554 350058009378 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 350058009379 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 350058009380 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 350058009381 quinone interaction residues [chemical binding]; other site 350058009382 active site 350058009383 catalytic residues [active] 350058009384 FMN binding site [chemical binding]; other site 350058009385 substrate binding site [chemical binding]; other site 350058009386 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 350058009387 substrate binding site [chemical binding]; other site 350058009388 M20 Peptidase, carboxypeptidase yscS-like; Region: M20_yscS_like; cd05675 350058009389 hypothetical protein; Provisional; Region: PRK07906 350058009390 putative metal binding site [ion binding]; other site 350058009391 Acyltransferase family; Region: Acyl_transf_3; pfam01757 350058009392 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 350058009393 formate dehydrogenase, alpha subunit, archaeal-type; Region: Fdh-alpha; TIGR01591 350058009394 [4Fe-4S] binding site [ion binding]; other site 350058009395 molybdopterin cofactor binding site; other site 350058009396 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 350058009397 molybdopterin cofactor binding site; other site 350058009398 Sulfite reductase, alpha subunit (flavoprotein) [Inorganic ion transport and metabolism]; Region: CysJ; COG0369 350058009399 Flavodoxin; Region: Flavodoxin_1; pfam00258 350058009400 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 350058009401 FAD binding pocket [chemical binding]; other site 350058009402 FAD binding motif [chemical binding]; other site 350058009403 catalytic residues [active] 350058009404 NAD binding pocket [chemical binding]; other site 350058009405 phosphate binding motif [ion binding]; other site 350058009406 beta-alpha-beta structure motif; other site 350058009407 Nitrate/nitrite transporter [Inorganic ion transport and metabolism]; Region: NarK; COG2223 350058009408 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 350058009409 NAD(P)H-nitrite reductase [Energy production and conversion]; Region: NirB; COG1251 350058009410 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 350058009411 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 350058009412 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 350058009413 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 350058009414 iron-sulfur cluster [ion binding]; other site 350058009415 [2Fe-2S] cluster binding site [ion binding]; other site 350058009416 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 350058009417 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350058009418 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG3687 350058009419 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 350058009420 Ligand Binding Site [chemical binding]; other site 350058009421 Tripartite tricarboxylate transporter TctA family; Region: TctA; cl00772 350058009422 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 350058009423 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 350058009424 PAS domain; Region: PAS; smart00091 350058009425 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 350058009426 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 350058009427 ATP binding site [chemical binding]; other site 350058009428 Mg2+ binding site [ion binding]; other site 350058009429 G-X-G motif; other site 350058009430 Response regulator of citrate/malate metabolism [Transcription / Signal transduction mechanisms]; Region: CitB; COG4565 350058009431 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 350058009432 active site 350058009433 phosphorylation site [posttranslational modification] 350058009434 intermolecular recognition site; other site 350058009435 dimerization interface [polypeptide binding]; other site 350058009436 Calx-beta domain; Region: Calx-beta; cl02522 350058009437 Calx-beta domain; Region: Calx-beta; pfam03160 350058009438 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 350058009439 active site 350058009440 Calx-beta domain; Region: Calx-beta; cl02522 350058009441 CBD_II domain; Region: CBD_II; smart00637 350058009442 Calx-beta domain; Region: Calx-beta; pfam03160 350058009443 CBD_II domain; Region: CBD_II; smart00637 350058009444 Calx-beta domain; Region: Calx-beta; cl02522 350058009445 Endoglucanase [Carbohydrate transport and metabolism]; Region: BglC; COG2730 350058009446 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; pfam00150 350058009447 Calx-beta domain; Region: Calx-beta; pfam03160 350058009448 Helix-Turn-Helix DNA binding domain of the BmrR transcription regulator; Region: HTH_BmrR; cd01107 350058009449 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 350058009450 DNA binding residues [nucleotide binding] 350058009451 drug binding residues [chemical binding]; other site 350058009452 dimer interface [polypeptide binding]; other site 350058009453 Bacterial transcription activator, effector binding domain; Region: AraC_E_bind; smart00871 350058009454 short chain dehydrogenase; Provisional; Region: PRK06180 350058009455 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 350058009456 NADP binding site [chemical binding]; other site 350058009457 active site 350058009458 steroid binding site; other site 350058009459 Beta-lactamase; Region: Beta-lactamase; pfam00144 350058009460 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 350058009461 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 350058009462 catalytic triad [active] 350058009463 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_3; cd07820 350058009464 putative hydrophobic ligand binding site [chemical binding]; other site 350058009465 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 350058009466 TIGR01777 family protein; Region: yfcH 350058009467 NAD(P) binding site [chemical binding]; other site 350058009468 active site 350058009469 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 350058009470 active site 350058009471 DivIVA domain; Region: DivI1A_domain; TIGR03544 350058009472 Cell division initiation protein [Cell division and chromosome partitioning]; Region: DivIVA; COG3599 350058009473 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl17192 350058009474 Predicted integral membrane protein [Function unknown]; Region: COG0762 350058009475 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1799 350058009476 Predicted enzyme with a TIM-barrel fold [General function prediction only]; Region: COG0325 350058009477 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 350058009478 catalytic residue [active] 350058009479 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 350058009480 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; pfam02578 350058009481 Cell division GTPase [Cell division and chromosome partitioning]; Region: FtsZ; COG0206 350058009482 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 350058009483 nucleotide binding site [chemical binding]; other site 350058009484 SulA interaction site; other site 350058009485 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 350058009486 Cell division protein FtsQ; Region: FtsQ; pfam03799 350058009487 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 350058009488 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 350058009489 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 350058009490 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 350058009491 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 350058009492 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 350058009493 active site 350058009494 homodimer interface [polypeptide binding]; other site 350058009495 cell division protein FtsW; Region: ftsW; TIGR02614 350058009496 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK03369 350058009497 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 350058009498 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 350058009499 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 350058009500 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 350058009501 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 350058009502 Mg++ binding site [ion binding]; other site 350058009503 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 350058009504 putative catalytic motif [active] 350058009505 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 350058009506 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 350058009507 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 350058009508 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 350058009509 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 350058009510 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 350058009511 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 350058009512 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 350058009513 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 350058009514 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 350058009515 MraW methylase family; Region: Methyltransf_5; pfam01795 350058009516 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 350058009517 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2001 350058009518 MraZ protein; Region: MraZ; pfam02381 350058009519 MraZ protein; Region: MraZ; pfam02381 350058009520 Protein of unknown function (DUF3040); Region: DUF3040; pfam11239 350058009521 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 350058009522 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 350058009523 Coenzyme A binding pocket [chemical binding]; other site 350058009524 Eukaryotic porin family that forms channels in the mitochondrial outer membrane; Region: Porin3; cl03224 350058009525 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 350058009526 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 350058009527 substrate binding pocket [chemical binding]; other site 350058009528 chain length determination region; other site 350058009529 substrate-Mg2+ binding site; other site 350058009530 catalytic residues [active] 350058009531 aspartate-rich region 1; other site 350058009532 active site lid residues [active] 350058009533 aspartate-rich region 2; other site 350058009534 carotene biosynthesis associated membrane protein; Region: crt_membr; TIGR03459 350058009535 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 350058009536 Catalytic domain of Protein Kinases; Region: PKc; cd00180 350058009537 active site 350058009538 ATP binding site [chemical binding]; other site 350058009539 substrate binding site [chemical binding]; other site 350058009540 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 350058009541 substrate binding site [chemical binding]; other site 350058009542 activation loop (A-loop); other site 350058009543 activation loop (A-loop); other site 350058009544 Class-II DAHP synthetase family; Region: DAHP_synth_2; pfam01474 350058009545 Protein of unknown function (DUF2029); Region: DUF2029; pfam09594 350058009546 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 350058009547 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 350058009548 putative acyl-acceptor binding pocket; other site 350058009549 Predicted ATPase involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: ArsA; COG0003 350058009550 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 350058009551 P loop; other site 350058009552 Nucleotide binding site [chemical binding]; other site 350058009553 DTAP/Switch II; other site 350058009554 Switch I; other site 350058009555 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_2; cd07819 350058009556 putative hydrophobic ligand binding site [chemical binding]; other site 350058009557 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 350058009558 Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907 350058009559 acyl-activating enzyme (AAE) consensus motif; other site 350058009560 putative AMP binding site [chemical binding]; other site 350058009561 putative active site [active] 350058009562 putative CoA binding site [chemical binding]; other site 350058009563 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 350058009564 Glycosyltransferase Family 4; Region: Glyco_transf_4; pfam13439 350058009565 Peptidase MA superfamily; Region: Peptidase_MA_2; pfam13485 350058009566 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 350058009567 NlpC/P60 family; Region: NLPC_P60; pfam00877 350058009568 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 350058009569 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 350058009570 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 350058009571 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 350058009572 Subunit I/III interface [polypeptide binding]; other site 350058009573 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 350058009574 Cytochrome c; Region: Cytochrom_C; pfam00034 350058009575 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 350058009576 Rieske Fe-S protein [Energy production and conversion]; Region: QcrA; COG0723 350058009577 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 350058009578 iron-sulfur cluster [ion binding]; other site 350058009579 [2Fe-2S] cluster binding site [ion binding]; other site 350058009580 Cytochrome b subunit of the bc complex [Energy production and conversion]; Region: QcrB; COG1290 350058009581 heme bH binding site [chemical binding]; other site 350058009582 intrachain domain interface; other site 350058009583 heme bL binding site [chemical binding]; other site 350058009584 interchain domain interface [polypeptide binding]; other site 350058009585 Cytochrome b(N-terminal)/b6/petB; Region: Cytochrom_B_N_2; pfam13631 350058009586 Qo binding site; other site 350058009587 Protein of unknown function (DUF2561); Region: DUF2561; pfam10812 350058009588 Mycobacterium membrane protein; Region: Mycobact_memb; pfam05423 350058009589 Cytochrome c oxidase subunit IV; Region: Cyt_c_ox_IV; pfam12270 350058009590 Heme/copper-type cytochrome/quinol oxidases, subunit 2 [Energy production and conversion]; Region: CyoA; COG1622 350058009591 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 350058009592 Asparagine synthase (glutamine-hydrolyzing) [Amino acid transport and metabolism]; Region: AsnB; COG0367 350058009593 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 350058009594 active site 350058009595 dimer interface [polypeptide binding]; other site 350058009596 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 350058009597 Ligand Binding Site [chemical binding]; other site 350058009598 Molecular Tunnel; other site 350058009599 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 350058009600 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 350058009601 substrate binding site [chemical binding]; other site 350058009602 ATP binding site [chemical binding]; other site 350058009603 Iron-sulfur cluster assembly accessory protein; Region: TIGR00049 350058009604 Glycerate kinase family; Region: Gly_kinase; cl00841 350058009605 Protein of unknown function (DUF3043); Region: DUF3043; pfam11241 350058009606 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 350058009607 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 350058009608 putative dimer interface [polypeptide binding]; other site 350058009609 active site pocket [active] 350058009610 putative cataytic base [active] 350058009611 cobalamin synthase; Reviewed; Region: cobS; PRK00235 350058009612 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 350058009613 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 350058009614 homodimer interface [polypeptide binding]; other site 350058009615 substrate-cofactor binding pocket; other site 350058009616 catalytic residue [active] 350058009617 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 350058009618 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 350058009619 multifunctional aminopeptidase A; Provisional; Region: PRK00913 350058009620 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 350058009621 interface (dimer of trimers) [polypeptide binding]; other site 350058009622 Substrate-binding/catalytic site; other site 350058009623 Zn-binding sites [ion binding]; other site 350058009624 short chain dehydrogenase; Validated; Region: PRK05855 350058009625 classical (c) SDRs; Region: SDR_c; cd05233 350058009626 NAD(P) binding site [chemical binding]; other site 350058009627 active site 350058009628 Alkaline phosphatase homologues; alkaline phosphatases are non-specific phosphomonoesterases that catalyze the hydrolysis reaction via a phosphoseryl intermediate to produce inorganic phosphate and the corresponding alcohol, optimally at high pH; Region: alkPPc; cl15837 350058009629 dimer interface [polypeptide binding]; other site 350058009630 Alkaline phosphatase homologues; Region: alkPPc; smart00098 350058009631 active site 350058009632 2-oxoglutarate dehydrogenase, E2 component, dihydrolipoamide succinyltransferase; Region: SucB_Actino; TIGR02927 350058009633 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 350058009634 E3 interaction surface; other site 350058009635 lipoyl attachment site [posttranslational modification]; other site 350058009636 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 350058009637 E3 interaction surface; other site 350058009638 lipoyl attachment site [posttranslational modification]; other site 350058009639 e3 binding domain; Region: E3_binding; pfam02817 350058009640 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 350058009641 Predicted nucleoside-diphosphate sugar epimerase [General function prediction only]; Region: COG1090 350058009642 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 350058009643 NAD(P) binding site [chemical binding]; other site 350058009644 active site 350058009645 lipoate-protein ligase B; Provisional; Region: PRK14345 350058009646 lipoyl synthase; Provisional; Region: PRK05481 350058009647 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 350058009648 FeS/SAM binding site; other site 350058009649 Domain of unknown function (DUF4191); Region: DUF4191; pfam13829 350058009650 5-bromo-4-chloroindolyl phosphate hydrolysis protein; Region: Halogen_Hydrol; cl02059 350058009651 RDD family; Region: RDD; pfam06271 350058009652 glutamine synthetase, type I; Region: GlnA; TIGR00653 350058009653 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 350058009654 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 350058009655 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 350058009656 DNA binding site [nucleotide binding] 350058009657 Int/Topo IB signature motif; other site 350058009658 active site 350058009659 catalytic residues [active] 350058009660 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 350058009661 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 350058009662 active site 350058009663 DNA binding site [nucleotide binding] 350058009664 Int/Topo IB signature motif; other site 350058009665 Transposase, Mutator family; Region: Transposase_mut; pfam00872 350058009666 MULE transposase domain; Region: MULE; pfam10551 350058009667 Predicted membrane protein [Function unknown]; Region: COG2259 350058009668 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 350058009669 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 350058009670 structural tetrad; other site 350058009671 probable F420-dependent oxidoreductase, Rv2161c family; Region: F420_Rv2161c; TIGR03619 350058009672 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 350058009673 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 350058009674 CoenzymeA binding site [chemical binding]; other site 350058009675 subunit interaction site [polypeptide binding]; other site 350058009676 PHB binding site; other site 350058009677 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Provisional; Region: PRK14109 350058009678 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 350058009679 metal binding triad; other site 350058009680 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 350058009681 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 350058009682 metal binding triad; other site 350058009683 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 350058009684 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 350058009685 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 350058009686 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 350058009687 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 350058009688 TAP-like protein; Region: Abhydrolase_4; pfam08386 350058009689 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 350058009690 TAP-like protein; Region: Abhydrolase_4; pfam08386 350058009691 acyltransferase, WS/DGAT/MGAT; Region: acyl_WS_DGAT; TIGR02946 350058009692 Wax ester synthase-like Acyl-CoA acyltransferase domain; Region: WES_acyltransf; pfam03007 350058009693 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 350058009694 oligomerization interface [polypeptide binding]; other site 350058009695 active site 350058009696 metal binding site [ion binding]; metal-binding site 350058009697 enoyl-CoA hydratase; Provisional; Region: PRK08140 350058009698 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 350058009699 substrate binding site [chemical binding]; other site 350058009700 oxyanion hole (OAH) forming residues; other site 350058009701 trimer interface [polypeptide binding]; other site 350058009702 putative fatty-acid--CoA ligase; Provisional; Region: PRK12476 350058009703 Fatty acyl-AMP ligase (FAAL); Region: FAAL; cd05931 350058009704 acyl-activating enzyme (AAE) consensus motif; other site 350058009705 active site 350058009706 CYTH-like (also known as triphosphate tunnel metalloenzyme (TTM)-like) Phosphatases; Region: CYTH-like_Pase; cd07374 350058009707 putative active site; other site 350058009708 putative metal binding residues [ion binding]; other site 350058009709 signature motif; other site 350058009710 putative triphosphate binding site [ion binding]; other site 350058009711 The CHAD domain is an alpha-helical domain functionally associated with some members of the adenylate cyclase family; Region: CHAD; smart00880 350058009712 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 350058009713 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 350058009714 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 350058009715 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 350058009716 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 350058009717 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 350058009718 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 350058009719 Domain of unknown function (DUF222); Region: DUF222; pfam02720 350058009720 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 350058009721 S-adenosylmethionine binding site [chemical binding]; other site 350058009722 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 350058009723 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 350058009724 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 350058009725 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 350058009726 sequence-specific DNA binding site [nucleotide binding]; other site 350058009727 salt bridge; other site 350058009728 Cupin domain; Region: Cupin_2; pfam07883 350058009729 bifunctional RNase H/acid phosphatase; Provisional; Region: PRK07238 350058009730 RNAse HI family that includes Archaeal RNase HI; Region: RNase_HI_archaeal_like; cd09279 350058009731 RNA/DNA hybrid binding site [nucleotide binding]; other site 350058009732 active site 350058009733 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 350058009734 catalytic core [active] 350058009735 Zn-ribbon protein, possibly nucleic acid-binding [General function prediction only]; Region: COG1579 350058009736 Putative zinc ribbon domain; Region: DUF164; pfam02591 350058009737 Uncharacterized conserved protein [Function unknown]; Region: COG0327 350058009738 NIF3 (NGG1p interacting factor 3); Region: NIF3; pfam01784 350058009739 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3323 350058009740 Uncharacterized conserved protein [Function unknown]; Region: COG0327 350058009741 NIF3 (NGG1p interacting factor 3); Region: NIF3; pfam01784 350058009742 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 350058009743 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 350058009744 motif II; other site 350058009745 Low molecular weight phosphatase family; Region: LMWPc; cd00115 350058009746 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 350058009747 active site 350058009748 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 350058009749 cobalamin biosynthesis protein; Provisional; Region: cobD; PRK01209 350058009750 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 350058009751 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 350058009752 active site 350058009753 Cupredoxin-like domain; Region: Cupredoxin_1; cl17234 350058009754 nitrite reductase, copper-containing; Region: Cu_nitrite_red; TIGR02376 350058009755 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 350058009756 Predicted integral membrane protein [Function unknown]; Region: COG5615 350058009757 SOUL heme-binding protein; Region: SOUL; pfam04832 350058009758 MASE1; Region: MASE1; cl17823 350058009759 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 350058009760 PAS domain; Region: PAS_9; pfam13426 350058009761 putative active site [active] 350058009762 heme pocket [chemical binding]; other site 350058009763 PAS domain S-box; Region: sensory_box; TIGR00229 350058009764 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 350058009765 putative active site [active] 350058009766 heme pocket [chemical binding]; other site 350058009767 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 350058009768 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 350058009769 metal binding site [ion binding]; metal-binding site 350058009770 active site 350058009771 I-site; other site 350058009772 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 350058009773 non-specific DNA binding site [nucleotide binding]; other site 350058009774 salt bridge; other site 350058009775 sequence-specific DNA binding site [nucleotide binding]; other site 350058009776 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 350058009777 putative DNA binding site [nucleotide binding]; other site 350058009778 putative Zn2+ binding site [ion binding]; other site 350058009779 Cation efflux family; Region: Cation_efflux; cl00316 350058009780 Predicted membrane protein [Function unknown]; Region: COG3462 350058009781 Short C-terminal domain; Region: SHOCT; pfam09851 350058009782 Uncharacterized copper-binding protein [Inorganic ion transport and metabolism]; Region: COG4454 350058009783 Domain of unknown function DUF302; Region: DUF302; pfam03625 350058009784 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 350058009785 dimerization interface [polypeptide binding]; other site 350058009786 putative DNA binding site [nucleotide binding]; other site 350058009787 putative Zn2+ binding site [ion binding]; other site 350058009788 heavy metal-(Cd/Co/Hg/Pb/Zn)-translocating P-type ATPase; Region: ATPase-IB2_Cd; TIGR01512 350058009789 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 350058009790 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 350058009791 motif II; other site 350058009792 Predicted permease, cadmium resistance protein [Inorganic ion transport and metabolism]; Region: CadD; COG4300 350058009793 Cadmium resistance transporter; Region: Cad; pfam03596 350058009794 VbhA antitoxin and related proteins; Region: VbhA_like; cd11586 350058009795 FIC domain binding interface [polypeptide binding]; other site 350058009796 Protein involved in cell division [Cell division and chromosome partitioning]; Region: Fic; COG2184 350058009797 Fic/DOC family; Region: Fic; cl00960 350058009798 Protein of unknown function (DUF2384); Region: DUF2384; cl17718 350058009799 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 350058009800 IgD-like repeat domain of mycobacterial L,D-transpeptidases; Region: LDT_IgD_like_1; cd13431 350058009801 IgD-like repeat domain of mycobacterial L,D-transpeptidases; Region: LDT_IgD_like_2; cd13432 350058009802 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 350058009803 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 350058009804 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 350058009805 NlpC/P60 family; Region: NLPC_P60; pfam00877 350058009806 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 350058009807 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 350058009808 DNA binding site [nucleotide binding] 350058009809 Peptidase family M48; Region: Peptidase_M48; cl12018 350058009810 Penicillinase repressor; Region: Pencillinase_R; cl17580 350058009811 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 350058009812 NlpC/P60 family; Region: NLPC_P60; pfam00877 350058009813 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 350058009814 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 350058009815 active site 350058009816 phosphorylation site [posttranslational modification] 350058009817 intermolecular recognition site; other site 350058009818 putative transposase OrfB; Reviewed; Region: PHA02517 350058009819 HTH-like domain; Region: HTH_21; pfam13276 350058009820 Integrase core domain; Region: rve; pfam00665 350058009821 Integrase core domain; Region: rve_3; pfam13683 350058009822 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 350058009823 Transposase; Region: HTH_Tnp_1; pfam01527 350058009824 Putative protein-S-isoprenylcysteine methyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: STE14; COG2020 350058009825 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 350058009826 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 350058009827 Walker A/P-loop; other site 350058009828 ATP binding site [chemical binding]; other site 350058009829 Q-loop/lid; other site 350058009830 ABC transporter signature motif; other site 350058009831 Walker B; other site 350058009832 D-loop; other site 350058009833 H-loop/switch region; other site 350058009834 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 350058009835 putative homodimer interface [polypeptide binding]; other site 350058009836 putative homotetramer interface [polypeptide binding]; other site 350058009837 putative allosteric switch controlling residues; other site 350058009838 putative metal binding site [ion binding]; other site 350058009839 putative homodimer-homodimer interface [polypeptide binding]; other site 350058009840 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 350058009841 metal-binding site [ion binding] 350058009842 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 350058009843 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 350058009844 metal-binding site [ion binding] 350058009845 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 350058009846 Soluble P-type ATPase [General function prediction only]; Region: COG4087 350058009847 Predicted membrane protein [Function unknown]; Region: COG3462 350058009848 Short C-terminal domain; Region: SHOCT; pfam09851 350058009849 Putative multicopper oxidases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: SufI; COG2132 350058009850 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 350058009851 Multicopper oxidase; Region: Cu-oxidase; pfam00394 350058009852 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 350058009853 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 350058009854 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 350058009855 active site 350058009856 phosphorylation site [posttranslational modification] 350058009857 intermolecular recognition site; other site 350058009858 dimerization interface [polypeptide binding]; other site 350058009859 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 350058009860 DNA binding site [nucleotide binding] 350058009861 HAMP domain; Region: HAMP; pfam00672 350058009862 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 350058009863 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 350058009864 dimer interface [polypeptide binding]; other site 350058009865 phosphorylation site [posttranslational modification] 350058009866 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 350058009867 ATP binding site [chemical binding]; other site 350058009868 Mg2+ binding site [ion binding]; other site 350058009869 G-X-G motif; other site 350058009870 Domain of unknown function (DUF305); Region: DUF305; pfam03713 350058009871 Domain of unknown function (DUF305); Region: DUF305; pfam03713 350058009872 Domain of unknown function DUF302; Region: DUF302; pfam03625 350058009873 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 350058009874 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 350058009875 metal-binding site [ion binding] 350058009876 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 350058009877 Soluble P-type ATPase [General function prediction only]; Region: COG4087 350058009878 Protein of unknown function (DUF3703); Region: DUF3703; pfam12487 350058009879 heavy metal-(Cd/Co/Hg/Pb/Zn)-translocating P-type ATPase; Region: ATPase-IB2_Cd; TIGR01512 350058009880 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 350058009881 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 350058009882 dimerization interface [polypeptide binding]; other site 350058009883 putative DNA binding site [nucleotide binding]; other site 350058009884 putative Zn2+ binding site [ion binding]; other site 350058009885 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 350058009886 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 350058009887 Helix-turn-helix domain; Region: HTH_18; pfam12833 350058009888 Putative protein-S-isoprenylcysteine methyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: STE14; COG2020 350058009889 cyclase homology domain; Region: CHD; cd07302 350058009890 nucleotidyl binding site; other site 350058009891 metal binding site [ion binding]; metal-binding site 350058009892 dimer interface [polypeptide binding]; other site 350058009893 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 350058009894 NlpC/P60 family; Region: NLPC_P60; pfam00877 350058009895 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 350058009896 Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: DsbG; COG1651 350058009897 Thioredoxin; Region: Thioredoxin_4; pfam13462 350058009898 Domain of unknown function (DUF305); Region: DUF305; pfam03713 350058009899 Copper resistance protein D; Region: CopD; pfam05425 350058009900 Cytochrome c oxidase caa3 assembly factor (Caa3_CtaG); Region: Caa3_CtaG; pfam09678 350058009901 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 350058009902 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 350058009903 IgD-like repeat domain of mycobacterial L,D-transpeptidases; Region: LDT_IgD_like_1; cd13431 350058009904 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 350058009905 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 350058009906 Short C-terminal domain; Region: SHOCT; pfam09851 350058009907 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 350058009908 cyclase homology domain; Region: CHD; cd07302 350058009909 nucleotidyl binding site; other site 350058009910 metal binding site [ion binding]; metal-binding site 350058009911 dimer interface [polypeptide binding]; other site 350058009912 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 350058009913 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 350058009914 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 350058009915 Soluble P-type ATPase [General function prediction only]; Region: COG4087 350058009916 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 350058009917 cytochrome c-type biogenesis protein CcsB; Region: cytochr_II_ccsB; TIGR03144 350058009918 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 350058009919 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 350058009920 D-pathway; other site 350058009921 Putative ubiquinol binding site [chemical binding]; other site 350058009922 Low-spin heme (heme b) binding site [chemical binding]; other site 350058009923 Putative water exit pathway; other site 350058009924 Binuclear center (heme o3/CuB) [ion binding]; other site 350058009925 K-pathway; other site 350058009926 Putative proton exit pathway; other site 350058009927 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 350058009928 Peptidase family M23; Region: Peptidase_M23; pfam01551 350058009929 Penicillinase repressor; Region: Pencillinase_R; pfam03965 350058009930 Zn-dependent protease with chaperone function [Posttranslational modification, protein turnover, chaperones]; Region: HtpX; COG0501 350058009931 Domain of unknown function (DUF305); Region: DUF305; pfam03713 350058009932 Cytochrome c oxidase caa3 assembly factor (Caa3_CtaG); Region: Caa3_CtaG; pfam09678 350058009933 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 350058009934 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 350058009935 catalytic residues [active] 350058009936 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 350058009937 Subunit I/III interface [polypeptide binding]; other site 350058009938 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 350058009939 NlpC/P60 family; Region: NLPC_P60; pfam00877 350058009940 CopC domain; Region: CopC; pfam04234 350058009941 CAAX protease self-immunity; Region: Abi; pfam02517 350058009942 Membrane-bound lytic murein transglycosylase B [Cell envelope biogenesis, outer membrane]; Region: MltB; COG2951 350058009943 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 350058009944 N-acetyl-D-glucosamine binding site [chemical binding]; other site 350058009945 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 350058009946 Transposase; Region: HTH_Tnp_1; pfam01527 350058009947 putative transposase OrfB; Reviewed; Region: PHA02517 350058009948 HTH-like domain; Region: HTH_21; pfam13276 350058009949 Integrase core domain; Region: rve; pfam00665 350058009950 Integrase core domain; Region: rve_3; pfam13683 350058009951 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 350058009952 IgD-like repeat domain of mycobacterial L,D-transpeptidases; Region: LDT_IgD_like_2; cd13432 350058009953 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 350058009954 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 350058009955 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 350058009956 cation diffusion facilitator family transporter; Region: CDF; TIGR01297 350058009957 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 350058009958 dimerization interface [polypeptide binding]; other site 350058009959 putative DNA binding site [nucleotide binding]; other site 350058009960 putative Zn2+ binding site [ion binding]; other site 350058009961 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 350058009962 dimerization interface [polypeptide binding]; other site 350058009963 putative DNA binding site [nucleotide binding]; other site 350058009964 putative Zn2+ binding site [ion binding]; other site 350058009965 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 350058009966 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 350058009967 Soluble P-type ATPase [General function prediction only]; Region: COG4087 350058009968 TrwC relaxase; Region: TrwC; pfam08751 350058009969 conjugative relaxase domain, TrwC/TraI family; Region: relax_trwC; TIGR02686 350058009970 AAA domain; Region: AAA_30; pfam13604 350058009971 Family description; Region: UvrD_C_2; pfam13538 350058009972 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 350058009973 Transposase; Region: HTH_Tnp_1; pfam01527 350058009974 putative transposase OrfB; Reviewed; Region: PHA02517 350058009975 HTH-like domain; Region: HTH_21; pfam13276 350058009976 Integrase core domain; Region: rve; pfam00665 350058009977 Integrase core domain; Region: rve_3; pfam13683 350058009978 HTH-like domain; Region: HTH_21; pfam13276 350058009979 Integrase core domain; Region: rve; pfam00665 350058009980 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 350058009981 Transposase; Region: HTH_Tnp_1; pfam01527 350058009982 Helix-turn-helix domain; Region: HTH_36; pfam13730 350058009983 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 350058009984 Int/Topo IB signature motif; other site 350058009985 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 350058009986 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 350058009987 dimer interface [polypeptide binding]; other site 350058009988 catalytic triad [active] 350058009989 Protein of unknown function (DUF3052); Region: DUF3052; pfam11253 350058009990 pyruvate dehydrogenase subunit E1; Reviewed; Region: aceE; PRK09405 350058009991 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 350058009992 dimer interface [polypeptide binding]; other site 350058009993 TPP-binding site [chemical binding]; other site 350058009994 Regulator of polyketide synthase expression [Signal transduction mechanisms / Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2508 350058009995 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 350058009996 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 350058009997 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 350058009998 acyl carrier protein; Provisional; Region: acpP; PRK00982 350058009999 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK07910 350058010000 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 350058010001 dimer interface [polypeptide binding]; other site 350058010002 active site 350058010003 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK07910 350058010004 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 350058010005 dimer interface [polypeptide binding]; other site 350058010006 active site 350058010007 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 350058010008 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 350058010009 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 350058010010 glycerol-3-phosphate dehydrogenase; Provisional; Region: PRK13369 350058010011 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 350058010012 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350058010013 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 350058010014 FAD binding domain; Region: FAD_binding_4; pfam01565 350058010015 diacylglycerol kinase; Reviewed; Region: PRK11914 350058010016 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 350058010017 Protein of unknown function (DUF3145); Region: DUF3145; pfam11343 350058010018 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 350058010019 Beta-lactamase; Region: Beta-lactamase; pfam00144 350058010020 Methyltransferase domain; Region: Methyltransf_31; pfam13847 350058010021 Methyltransferase domain; Region: Methyltransf_12; pfam08242 350058010022 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 350058010023 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 350058010024 DNA binding residues [nucleotide binding] 350058010025 dimerization interface [polypeptide binding]; other site 350058010026 S-(hydroxymethyl)mycothiol dehydrogenase; Region: mycoS_dep_FDH; TIGR03451 350058010027 Class III alcohol dehydrogenase; Region: Zn_ADH_class_III; cd08279 350058010028 NAD binding site [chemical binding]; other site 350058010029 catalytic Zn binding site [ion binding]; other site 350058010030 substrate binding site [chemical binding]; other site 350058010031 structural Zn binding site [ion binding]; other site 350058010032 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 350058010033 Short C-terminal domain; Region: SHOCT; pfam09851 350058010034 SAM dependent carboxyl methyltransferase; Region: Methyltransf_7; cl04109 350058010035 Uncharacterized conserved protein related to dihydrodipicolinate reductase [Function unknown]; Region: COG3804 350058010036 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 350058010037 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 350058010038 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 350058010039 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 350058010040 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 350058010041 dimer interface [polypeptide binding]; other site 350058010042 conserved gate region; other site 350058010043 putative PBP binding loops; other site 350058010044 ABC-ATPase subunit interface; other site 350058010045 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 350058010046 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 350058010047 putative PBP binding loops; other site 350058010048 dimer interface [polypeptide binding]; other site 350058010049 ABC-ATPase subunit interface; other site 350058010050 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 350058010051 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 350058010052 Walker A/P-loop; other site 350058010053 ATP binding site [chemical binding]; other site 350058010054 Q-loop/lid; other site 350058010055 ABC transporter signature motif; other site 350058010056 Walker B; other site 350058010057 D-loop; other site 350058010058 H-loop/switch region; other site 350058010059 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 350058010060 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 350058010061 Walker A/P-loop; other site 350058010062 ATP binding site [chemical binding]; other site 350058010063 Q-loop/lid; other site 350058010064 ABC transporter signature motif; other site 350058010065 Walker B; other site 350058010066 D-loop; other site 350058010067 H-loop/switch region; other site 350058010068 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 350058010069 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 350058010070 classical (c) SDRs; Region: SDR_c; cd05233 350058010071 NAD(P) binding site [chemical binding]; other site 350058010072 active site 350058010073 Domain of unknown function (DUF222); Region: DUF222; pfam02720 350058010074 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 350058010075 active site 350058010076 Transposase zinc-ribbon domain; Region: Zn_Tnp_IS1595; pfam12760 350058010077 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; pfam12762 350058010078 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 350058010079 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350058010080 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 350058010081 Cytochrome P450; Region: p450; cl12078 350058010082 Uncharacterized conserved protein related to dihydrodipicolinate reductase [Function unknown]; Region: COG3804 350058010083 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 350058010084 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 350058010085 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 350058010086 [2Fe-2S] cluster binding site [ion binding]; other site 350058010087 transcriptional repressor BetI; Region: betaine_BetI; TIGR03384 350058010088 Branched-chain amino acid transport protein (AzlD); Region: AzlD; cl00735 350058010089 AzlC protein; Region: AzlC; cl00570 350058010090 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 350058010091 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 350058010092 Fungalysin/Thermolysin Propeptide Motif; Region: FTP; pfam07504 350058010093 Peptidase M4 family includes thermolysin, protealysin, aureolysin and neutral protease; Region: M4_neutral_protease; cd09597 350058010094 active site 350058010095 Zn binding site [ion binding]; other site 350058010096 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 350058010097 putative active site [active] 350058010098 putative metal binding site [ion binding]; other site 350058010099 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 350058010100 amino acid/peptide transporter (Peptide:H+ symporter), bacterial; Region: yjdL_sub1_fam; TIGR00924 350058010101 POT family; Region: PTR2; cl17359 350058010102 Domain of unknown function (DUF427); Region: DUF427; pfam04248 350058010103 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 350058010104 Mechanosensitive ion channel; Region: MS_channel; pfam00924 350058010105 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 350058010106 anti sigma factor interaction site; other site 350058010107 regulatory phosphorylation site [posttranslational modification]; other site 350058010108 GAF domain; Region: GAF_2; pfam13185 350058010109 GAF domain; Region: GAF_3; pfam13492 350058010110 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 350058010111 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 350058010112 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 350058010113 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 350058010114 ATP binding site [chemical binding]; other site 350058010115 Mg2+ binding site [ion binding]; other site 350058010116 G-X-G motif; other site 350058010117 Domain of unknown function (DUF4095); Region: DUF4095; pfam13338 350058010118 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; pfam08843 350058010119 Uncharacterized conserved protein [Function unknown]; Region: COG2128 350058010120 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; COG0312 350058010121 Predicted Zn-dependent proteases and their inactivated homologs [General function prediction only]; Region: TldD; COG0312 350058010122 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 350058010123 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 350058010124 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 350058010125 Walker A/P-loop; other site 350058010126 ATP binding site [chemical binding]; other site 350058010127 Q-loop/lid; other site 350058010128 ABC transporter signature motif; other site 350058010129 Walker B; other site 350058010130 D-loop; other site 350058010131 H-loop/switch region; other site 350058010132 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 350058010133 Walker A/P-loop; other site 350058010134 ATP binding site [chemical binding]; other site 350058010135 Q-loop/lid; other site 350058010136 ABC transporter signature motif; other site 350058010137 Walker B; other site 350058010138 D-loop; other site 350058010139 H-loop/switch region; other site 350058010140 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 350058010141 MarR family; Region: MarR; pfam01047 350058010142 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 350058010143 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 350058010144 active site 350058010145 LppP/LprE lipoprotein; Region: Lipoprotein_21; pfam14041 350058010146 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; pfam00690 350058010147 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 350058010148 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 350058010149 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 350058010150 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 350058010151 motif II; other site 350058010152 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 350058010153 DNA primase; Validated; Region: dnaG; PRK05667 350058010154 CHC2 zinc finger; Region: zf-CHC2; cl17510 350058010155 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 350058010156 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 350058010157 active site 350058010158 metal binding site [ion binding]; metal-binding site 350058010159 interdomain interaction site; other site 350058010160 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 350058010161 DNA primase DnaG DnaB-binding; Region: DnaG_DnaB_bind; smart00766 350058010162 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK03007 350058010163 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 350058010164 Zn2+ binding site [ion binding]; other site 350058010165 Mg2+ binding site [ion binding]; other site 350058010166 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 350058010167 Repair protein; Region: Repair_PSII; pfam04536 350058010168 Domain of unknown function (DUF4095); Region: DUF4095; pfam13338 350058010169 RNA methyltransferase; Region: Methyltrans_RNA; cl00611 350058010170 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 350058010171 putative active site [active] 350058010172 glycyl-tRNA synthetase; Provisional; Region: PRK04173 350058010173 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 350058010174 motif 1; other site 350058010175 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 350058010176 active site 350058010177 motif 2; other site 350058010178 motif 3; other site 350058010179 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 350058010180 anticodon binding site; other site 350058010181 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 350058010182 dimerization interface [polypeptide binding]; other site 350058010183 putative DNA binding site [nucleotide binding]; other site 350058010184 putative Zn2+ binding site [ion binding]; other site 350058010185 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 350058010186 metal binding site 2 [ion binding]; metal-binding site 350058010187 putative DNA binding helix; other site 350058010188 metal binding site 1 [ion binding]; metal-binding site 350058010189 dimer interface [polypeptide binding]; other site 350058010190 structural Zn2+ binding site [ion binding]; other site 350058010191 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 350058010192 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 350058010193 catalytic residue [active] 350058010194 putative FPP diphosphate binding site; other site 350058010195 putative FPP binding hydrophobic cleft; other site 350058010196 dimer interface [polypeptide binding]; other site 350058010197 putative IPP diphosphate binding site; other site 350058010198 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 350058010199 Recombination protein O N terminal; Region: RecO_N; pfam11967 350058010200 Recombination protein O C terminal; Region: RecO_C; pfam02565 350058010201 amidase; Provisional; Region: PRK06061 350058010202 Amidase; Region: Amidase; pfam01425 350058010203 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 350058010204 GTPase Era; Reviewed; Region: era; PRK00089 350058010205 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 350058010206 G1 box; other site 350058010207 GTP/Mg2+ binding site [chemical binding]; other site 350058010208 Switch I region; other site 350058010209 G2 box; other site 350058010210 Switch II region; other site 350058010211 G3 box; other site 350058010212 G4 box; other site 350058010213 G5 box; other site 350058010214 KH domain; Region: KH_2; pfam07650 350058010215 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 350058010216 Domain of unknown function DUF21; Region: DUF21; pfam01595 350058010217 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 350058010218 Transporter associated domain; Region: CorC_HlyC; smart01091 350058010219 metal-binding heat shock protein; Provisional; Region: PRK00016 350058010220 K homology RNA-binding domain; Region: KH; smart00322 350058010221 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 350058010222 PhoH-like protein; Region: PhoH; pfam02562 350058010223 Transport protein; Region: actII; TIGR00833 350058010224 Mycobacterium membrane protein; Region: Mycobact_memb; pfam05423 350058010225 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 350058010226 chaperone protein DnaJ; Provisional; Region: PRK14278 350058010227 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 350058010228 HSP70 interaction site [polypeptide binding]; other site 350058010229 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 350058010230 Zn binding sites [ion binding]; other site 350058010231 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 350058010232 dimer interface [polypeptide binding]; other site 350058010233 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 350058010234 HTH domain; Region: HTH_11; cl17392 350058010235 Transcription regulator of the Arc/MetJ class [Transcription]; Region: COG5450 350058010236 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 350058010237 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 350058010238 active site 350058010239 phosphorylation site [posttranslational modification] 350058010240 intermolecular recognition site; other site 350058010241 dimerization interface [polypeptide binding]; other site 350058010242 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 350058010243 DNA binding site [nucleotide binding] 350058010244 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 350058010245 dimerization interface [polypeptide binding]; other site 350058010246 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 350058010247 dimer interface [polypeptide binding]; other site 350058010248 phosphorylation site [posttranslational modification] 350058010249 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 350058010250 ATP binding site [chemical binding]; other site 350058010251 Mg2+ binding site [ion binding]; other site 350058010252 G-X-G motif; other site 350058010253 MbtH-like protein; Region: MbtH; pfam03621 350058010254 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 350058010255 Condensation domain; Region: Condensation; pfam00668 350058010256 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 350058010257 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 350058010258 acyl-activating enzyme (AAE) consensus motif; other site 350058010259 AMP binding site [chemical binding]; other site 350058010260 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 350058010261 Condensation domain; Region: Condensation; pfam00668 350058010262 non-ribosomal peptide synthase domain TIGR01720; Region: NRPS-para261 350058010263 Condensation domain; Region: Condensation; pfam00668 350058010264 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 350058010265 The adenylation domain of nonribosomal peptide synthetases (NRPS); Region: A_NRPS; cd05930 350058010266 acyl-activating enzyme (AAE) consensus motif; other site 350058010267 AMP binding site [chemical binding]; other site 350058010268 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 350058010269 Condensation domain; Region: Condensation; pfam00668 350058010270 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 350058010271 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 350058010272 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 350058010273 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 350058010274 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 350058010275 Acyl transferase domain in polyketide synthase (PKS) enzymes; Region: PKS_AT; smart00827 350058010276 ketoreductase (KR) and fatty acid synthase (FAS), complex (x) SDRs; Region: KR_FAS_SDR_x; cd05274 350058010277 This enzymatic domain is part of bacterial polyketide synthases; Region: PKS_KR; smart00822 350058010278 NADP binding site [chemical binding]; other site 350058010279 active site 350058010280 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 350058010281 Beta-ketoacyl synthase; Region: PKS_KS; smart00825 350058010282 active site 350058010283 Predicted thioesterase involved in non-ribosomal peptide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: GrsT; COG3208 350058010284 Aryl carrier domain [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3433 350058010285 Condensation domain; Region: Condensation; pfam00668 350058010286 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 350058010287 Nonribosomal peptide synthase; Region: NRPS; pfam08415 350058010288 The adenylation domain of nonribosomal peptide synthetases (NRPS), including Streptoalloteichus tallysomycin biosynthesis genes; Region: A_NRPS_TlmIV_like; cd12114 350058010289 acyl-activating enzyme (AAE) consensus motif; other site 350058010290 AMP binding site [chemical binding]; other site 350058010291 Peptide arylation enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntE; COG1021 350058010292 2,3-dihydroxybenzoate-AMP ligase; Region: 23DHB-AMP_lg; cd05920 350058010293 acyl-activating enzyme (AAE) consensus motif; other site 350058010294 active site 350058010295 AMP binding site [chemical binding]; other site 350058010296 substrate binding site [chemical binding]; other site 350058010297 Domain of unknown function (DUF222); Region: DUF222; pfam02720 350058010298 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 350058010299 active site 350058010300 Polyketide synthase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3321 350058010301 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 350058010302 active site 350058010303 Acyl transferase domain in polyketide synthase (PKS) enzymes; Region: PKS_AT; smart00827 350058010304 Dehydratase domain in polyketide synthase (PKS) enzymes; Region: PKS_DH; smart00826 350058010305 ketoreductase (KR) and fatty acid synthase (FAS), complex (x) SDRs; Region: KR_FAS_SDR_x; cd05274 350058010306 This enzymatic domain is part of bacterial polyketide synthases; Region: PKS_KR; smart00822 350058010307 NADP binding site [chemical binding]; other site 350058010308 active site 350058010309 Phosphopantetheine attachment site; Region: PKS_PP; smart00823 350058010310 SnoaL-like domain; Region: SnoaL_2; pfam12680 350058010311 probable F420-dependent oxidoreductase, MSMEG_4141 family; Region: F420_MSMEG_4141; TIGR03620 350058010312 F420-dependent oxidoreductase, MSMEG_4879 family; Region: F420_MSMEG_4879; TIGR03564 350058010313 coproporphyrinogen III oxidase; Validated; Region: PRK05628 350058010314 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 350058010315 FeS/SAM binding site; other site 350058010316 Sulfite reductase, beta subunit (hemoprotein) [Inorganic ion transport and metabolism]; Region: CysI; COG0155 350058010317 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 350058010318 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 350058010319 3'-phosphoadenosine 5'-phosphosulfate sulfotransferase (PAPS reductase)/FAD synthetase and related enzymes [Amino acid transport and metabolism / Coenzyme metabolism]; Region: CysH; COG0175 350058010320 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 350058010321 Active Sites [active] 350058010322 Sirohydrochlorin ferrochelatase [Inorganic ion transport and metabolism]; Region: COG2138 350058010323 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 350058010324 putative active site [active] 350058010325 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 350058010326 putative active site [active] 350058010327 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 350058010328 Domain of unknown function DUF21; Region: DUF21; pfam01595 350058010329 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 350058010330 Transporter associated domain; Region: CorC_HlyC; smart01091 350058010331 Domain of unknown function DUF21; Region: DUF21; pfam01595 350058010332 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 350058010333 Ras GTPase Activating Domain; Region: RasGAP; cl02569 350058010334 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 350058010335 iron-sulfur cluster [ion binding]; other site 350058010336 [2Fe-2S] cluster binding site [ion binding]; other site 350058010337 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 350058010338 Predicted glycosyl transferase [General function prediction only]; Region: COG4671 350058010339 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 350058010340 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 350058010341 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 350058010342 catalytic site [active] 350058010343 Methyltransferase domain; Region: Methyltransf_31; pfam13847 350058010344 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 350058010345 S-adenosylmethionine binding site [chemical binding]; other site 350058010346 AAA ATPase domain; Region: AAA_16; pfam13191 350058010347 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 350058010348 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 350058010349 DNA binding residues [nucleotide binding] 350058010350 dimerization interface [polypeptide binding]; other site 350058010351 ATP-binding cassette domain of the sulfate transporter; Region: ABC_CysA_sulfate_importer; cd03296 350058010352 sulfate ABC transporter, ATP-binding protein; Region: 3a0106s01; TIGR00968 350058010353 Walker A/P-loop; other site 350058010354 ATP binding site [chemical binding]; other site 350058010355 Q-loop/lid; other site 350058010356 ABC transporter signature motif; other site 350058010357 Walker B; other site 350058010358 D-loop; other site 350058010359 H-loop/switch region; other site 350058010360 TOBE-like domain; Region: TOBE_3; pfam12857 350058010361 sulfate transport protein; Provisional; Region: cysT; CHL00187 350058010362 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 350058010363 dimer interface [polypeptide binding]; other site 350058010364 conserved gate region; other site 350058010365 putative PBP binding loops; other site 350058010366 ABC-ATPase subunit interface; other site 350058010367 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 350058010368 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 350058010369 dimer interface [polypeptide binding]; other site 350058010370 conserved gate region; other site 350058010371 putative PBP binding loops; other site 350058010372 ABC-ATPase subunit interface; other site 350058010373 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 350058010374 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 350058010375 Glucoamylase and related glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: SGA1; COG3387 350058010376 Glycosyl hydrolases family 15; Region: Glyco_hydro_15; pfam00723 350058010377 PknH-like extracellular domain; Region: PknH_C; pfam14032 350058010378 PknH-like extracellular domain; Region: PknH_C; pfam14032 350058010379 PknH-like extracellular domain; Region: PknH_C; pfam14032 350058010380 GTP-binding protein LepA; Provisional; Region: PRK05433 350058010381 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 350058010382 G1 box; other site 350058010383 putative GEF interaction site [polypeptide binding]; other site 350058010384 GTP/Mg2+ binding site [chemical binding]; other site 350058010385 Switch I region; other site 350058010386 G2 box; other site 350058010387 G3 box; other site 350058010388 Switch II region; other site 350058010389 G4 box; other site 350058010390 G5 box; other site 350058010391 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 350058010392 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 350058010393 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 350058010394 PemK-like protein; Region: PemK; pfam02452 350058010395 ABC-type metal ion transport system, ATPase component [Inorganic ion transport and metabolism]; Region: AbcC; COG1135 350058010396 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 350058010397 Walker A/P-loop; other site 350058010398 ATP binding site [chemical binding]; other site 350058010399 Q-loop/lid; other site 350058010400 ABC transporter signature motif; other site 350058010401 Walker B; other site 350058010402 D-loop; other site 350058010403 H-loop/switch region; other site 350058010404 ABC-type metal ion transport system, permease component [Inorganic ion transport and metabolism]; Region: AbcD; COG2011 350058010405 NLPA lipoprotein; Region: Lipoprotein_9; cl17547 350058010406 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 350058010407 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 350058010408 Excalibur calcium-binding domain; Region: Excalibur; smart00894 350058010409 Protein of unknown function (DUF732); Region: DUF732; pfam05305 350058010410 Protein of unknown function (DUF2510); Region: DUF2510; pfam10708 350058010411 Helix-turn-helix domain; Region: HTH_28; pfam13518 350058010412 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 350058010413 Phage integrase, N-terminal SAM-like domain; Region: Phage_integr_N; cl12235 350058010414 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 350058010415 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 350058010416 active site 350058010417 DNA binding site [nucleotide binding] 350058010418 Int/Topo IB signature motif; other site 350058010419 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 350058010420 active site 350058010421 DNA binding site [nucleotide binding] 350058010422 Int/Topo IB signature motif; other site 350058010423 Peptidase family M48; Region: Peptidase_M48; cl12018 350058010424 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 350058010425 Helix-turn-helix domain; Region: HTH_38; pfam13936 350058010426 Integrase core domain; Region: rve; pfam00665 350058010427 Integrase core domain; Region: rve_3; cl15866 350058010428 transposase; Provisional; Region: PRK06526 350058010429 Peptidase family M48; Region: Peptidase_M48; cl12018 350058010430 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 350058010431 active site 350058010432 DNA binding site [nucleotide binding] 350058010433 Int/Topo IB signature motif; other site 350058010434 Phage integrase, N-terminal SAM-like domain; Region: Phage_integr_N; cl12235 350058010435 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 350058010436 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 350058010437 active site 350058010438 DNA binding site [nucleotide binding] 350058010439 Int/Topo IB signature motif; other site 350058010440 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 350058010441 Coenzyme A binding pocket [chemical binding]; other site 350058010442 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 350058010443 FOG: CBS domain [General function prediction only]; Region: COG0517 350058010444 ribonuclease Z; Reviewed; Region: PRK00055 350058010445 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 350058010446 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 350058010447 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 350058010448 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2307 350058010449 A predicted alpha-helical domain with a conserved ER motif; Region: Alpha-E; pfam04168 350058010450 Uncharacterized conserved protein [Function unknown]; Region: COG2308 350058010451 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 350058010452 hypothetical protein; Validated; Region: PRK05629 350058010453 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 350058010454 Predicted membrane metal-binding protein [General function prediction only]; Region: ComEC; COG0658 350058010455 Competence protein; Region: Competence; pfam03772 350058010456 Helix-hairpin-helix motif; Region: HHH; pfam00633 350058010457 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 350058010458 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 350058010459 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 350058010460 active site 350058010461 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 350058010462 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 350058010463 short chain dehydrogenase; Provisional; Region: PRK08303 350058010464 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 350058010465 NAD(P) binding site [chemical binding]; other site 350058010466 active site 350058010467 Uncharacterized conserved protein related to dihydrodipicolinate reductase [Function unknown]; Region: COG3804 350058010468 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 350058010469 Transposase; Region: DEDD_Tnp_IS110; pfam01548 350058010470 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 350058010471 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 350058010472 EDD domain protein, DegV family; Region: DegV; TIGR00762 350058010473 Uncharacterized protein, DegV family COG1307; Region: DegV; pfam02645 350058010474 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 350058010475 active site 350058010476 catalytic triad [active] 350058010477 oxyanion hole [active] 350058010478 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 350058010479 catalytic core [active] 350058010480 Uncharacterized homolog of plant Iojap protein [Function unknown]; Region: COG0799 350058010481 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 350058010482 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 350058010483 active site 350058010484 (T/H)XGH motif; other site 350058010485 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 350058010486 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 350058010487 DNA-binding site [nucleotide binding]; DNA binding site 350058010488 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 350058010489 permease, urea carboxylase system; Region: ureacarb_perm; TIGR03428 350058010490 Glycerol kinase [Energy production and conversion]; Region: GlpK; COG0554 350058010491 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 350058010492 nucleotide binding site [chemical binding]; other site 350058010493 Predicted dehydrogenase [General function prediction only]; Region: COG0579 350058010494 hydroxyglutarate oxidase; Provisional; Region: PRK11728 350058010495 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 350058010496 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 350058010497 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 350058010498 Protein containing von Willebrand factor type A (vWA) domain [General function prediction only]; Region: CoxE; COG3552 350058010499 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 350058010500 metal ion-dependent adhesion site (MIDAS); other site 350058010501 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 350058010502 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 350058010503 Walker A motif; other site 350058010504 ATP binding site [chemical binding]; other site 350058010505 Walker B motif; other site 350058010506 arginine finger; other site 350058010507 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 350058010508 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 350058010509 putative catalytic cysteine [active] 350058010510 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 350058010511 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 350058010512 substrate binding site [chemical binding]; other site 350058010513 ATP binding site [chemical binding]; other site 350058010514 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 350058010515 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 350058010516 substrate binding site [chemical binding]; other site 350058010517 oxyanion hole (OAH) forming residues; other site 350058010518 trimer interface [polypeptide binding]; other site 350058010519 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 350058010520 putative DNA binding site [nucleotide binding]; other site 350058010521 dimerization interface [polypeptide binding]; other site 350058010522 putative Zn2+ binding site [ion binding]; other site 350058010523 Cation efflux family; Region: Cation_efflux; cl00316 350058010524 Putative protein-S-isoprenylcysteine methyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: STE14; COG2020 350058010525 NAD synthetase; Reviewed; Region: nadE; PRK02628 350058010526 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 350058010527 multimer interface [polypeptide binding]; other site 350058010528 active site 350058010529 catalytic triad [active] 350058010530 protein interface 1 [polypeptide binding]; other site 350058010531 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 350058010532 homodimer interface [polypeptide binding]; other site 350058010533 NAD binding pocket [chemical binding]; other site 350058010534 ATP binding pocket [chemical binding]; other site 350058010535 Mg binding site [ion binding]; other site 350058010536 active-site loop [active] 350058010537 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 350058010538 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 350058010539 putative dimer interface [polypeptide binding]; other site 350058010540 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 350058010541 NAD-dependent deacetylase; Provisional; Region: PRK05333 350058010542 NAD+ binding site [chemical binding]; other site 350058010543 substrate binding site [chemical binding]; other site 350058010544 Zn binding site [ion binding]; other site 350058010545 gamma-glutamyl kinase; Provisional; Region: PRK05429 350058010546 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 350058010547 nucleotide binding site [chemical binding]; other site 350058010548 homotetrameric interface [polypeptide binding]; other site 350058010549 putative phosphate binding site [ion binding]; other site 350058010550 putative allosteric binding site; other site 350058010551 PUA domain; Region: PUA; pfam01472 350058010552 GTPase CgtA; Reviewed; Region: obgE; PRK12296 350058010553 GTP1/OBG; Region: GTP1_OBG; pfam01018 350058010554 Obg GTPase; Region: Obg; cd01898 350058010555 G1 box; other site 350058010556 GTP/Mg2+ binding site [chemical binding]; other site 350058010557 Switch I region; other site 350058010558 G2 box; other site 350058010559 G3 box; other site 350058010560 Switch II region; other site 350058010561 G4 box; other site 350058010562 G5 box; other site 350058010563 Domain of unknown function (DUF1967); Region: DUF1967; pfam09269 350058010564 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 350058010565 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 350058010566 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 350058010567 ribonuclease, Rne/Rng family; Region: RNaseEG; TIGR00757 350058010568 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 350058010569 homodimer interface [polypeptide binding]; other site 350058010570 oligonucleotide binding site [chemical binding]; other site 350058010571 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 350058010572 active site 350058010573 multimer interface [polypeptide binding]; other site 350058010574 Protein of unknown function (DUF4233); Region: DUF4233; pfam14017 350058010575 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 350058010576 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 350058010577 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 350058010578 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 350058010579 active site 350058010580 HIGH motif; other site 350058010581 nucleotide binding site [chemical binding]; other site 350058010582 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 350058010583 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 350058010584 active site 350058010585 KMSKS motif; other site 350058010586 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 350058010587 tRNA binding surface [nucleotide binding]; other site 350058010588 anticodon binding site; other site 350058010589 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 350058010590 Bacterial protein of unknown function (DUF937); Region: DUF937; pfam06078 350058010591 Uncharacterized conserved protein [Function unknown]; Region: COG3268 350058010592 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 350058010593 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 350058010594 Ammonium Transporter Family; Region: Ammonium_transp; cl03012 350058010595 Protein of unknown function (DUF3445); Region: DUF3445; pfam11927 350058010596 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 350058010597 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 350058010598 FMN-binding pocket [chemical binding]; other site 350058010599 flavin binding motif; other site 350058010600 phosphate binding motif [ion binding]; other site 350058010601 beta-alpha-beta structure motif; other site 350058010602 NAD binding pocket [chemical binding]; other site 350058010603 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 350058010604 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 350058010605 catalytic loop [active] 350058010606 iron binding site [ion binding]; other site 350058010607 hypothetical protein; Provisional; Region: PRK06753 350058010608 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 350058010609 Transglycosylase-like domain; Region: Transglycosylas; pfam06737 350058010610 Transglycosylase-like domain; Region: Transglycosylas; pfam06737 350058010611 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 350058010612 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 350058010613 GTP binding site; other site 350058010614 2-oxoglutarate ferredoxin oxidoreductase subunit beta; Reviewed; Region: PRK11867 350058010615 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 350058010616 TPP-binding site [chemical binding]; other site 350058010617 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 350058010618 2-oxoacid:acceptor oxidoreductase, alpha subunit; Region: OAFO_sf; TIGR03710 350058010619 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 350058010620 dimer interface [polypeptide binding]; other site 350058010621 PYR/PP interface [polypeptide binding]; other site 350058010622 TPP binding site [chemical binding]; other site 350058010623 substrate binding site [chemical binding]; other site 350058010624 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 350058010625 DNA binding site [nucleotide binding] 350058010626 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 350058010627 Periplasmic sugar-binding domain of uncharacterized transport systems; Region: PBP1_uncharacterized_sugar_binding; cd06307 350058010628 putative ligand binding site [chemical binding]; other site 350058010629 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; cl17312 350058010630 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 350058010631 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 350058010632 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 350058010633 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 350058010634 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 350058010635 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 350058010636 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 350058010637 GAF domain; Region: GAF; cl17456 350058010638 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 350058010639 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 350058010640 DNA binding residues [nucleotide binding] 350058010641 dimerization interface [polypeptide binding]; other site 350058010642 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 350058010643 Cytochrome P450; Region: p450; cl12078 350058010644 SnoaL-like domain; Region: SnoaL_2; pfam12680 350058010645 Protein of unknown function (DUF1271); Region: DUF1271; cl01443 350058010646 Ferredoxin [Energy production and conversion]; Region: Fer; COG1141 350058010647 virulence factor Mce family protein; Region: Mtu_fam_mce; TIGR00996 350058010648 mce related protein; Region: MCE; pfam02470 350058010649 virulence factor Mce family protein; Region: Mtu_fam_mce; TIGR00996 350058010650 mce related protein; Region: MCE; pfam02470 350058010651 mce related protein; Region: MCE; pfam02470 350058010652 Protein of unknown function (DUF3407); Region: DUF3407; pfam11887 350058010653 virulence factor Mce family protein; Region: Mtu_fam_mce; TIGR00996 350058010654 mce related protein; Region: MCE; pfam02470 350058010655 virulence factor Mce family protein; Region: Mtu_fam_mce; TIGR00996 350058010656 mce related protein; Region: MCE; pfam02470 350058010657 virulence factor Mce family protein; Region: Mtu_fam_mce; TIGR00996 350058010658 mce related protein; Region: MCE; pfam02470 350058010659 Protein of unknown function (DUF3407); Region: DUF3407; pfam11887 350058010660 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 350058010661 Permease; Region: Permease; pfam02405 350058010662 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 350058010663 Permease; Region: Permease; pfam02405 350058010664 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 350058010665 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350058010666 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 350058010667 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350058010668 lipid-transfer protein; Provisional; Region: PRK08256 350058010669 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 350058010670 active site 350058010671 (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 350058010672 active site 350058010673 catalytic site [active] 350058010674 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 350058010675 active site 350058010676 catalytic site [active] 350058010677 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 350058010678 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 350058010679 NAD(P) binding site [chemical binding]; other site 350058010680 active site 350058010681 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 350058010682 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 350058010683 substrate binding site [chemical binding]; other site 350058010684 oxyanion hole (OAH) forming residues; other site 350058010685 trimer interface [polypeptide binding]; other site 350058010686 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 350058010687 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 350058010688 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 350058010689 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 350058010690 DNA binding residues [nucleotide binding] 350058010691 dimerization interface [polypeptide binding]; other site 350058010692 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 350058010693 Cytochrome P450; Region: p450; cl12078 350058010694 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 350058010695 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 350058010696 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 350058010697 acyl-activating enzyme (AAE) consensus motif; other site 350058010698 acyl-activating enzyme (AAE) consensus motif; other site 350058010699 putative AMP binding site [chemical binding]; other site 350058010700 putative active site [active] 350058010701 putative CoA binding site [chemical binding]; other site 350058010702 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 350058010703 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350058010704 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 350058010705 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350058010706 2-polyprenyl-6-methoxyphenol hydroxylase and related FAD-dependent oxidoreductases [Coenzyme metabolism / Energy production and conversion]; Region: UbiH; COG0654 350058010707 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 350058010708 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 350058010709 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 350058010710 classical (c) SDRs; Region: SDR_c; cd05233 350058010711 NAD(P) binding site [chemical binding]; other site 350058010712 active site 350058010713 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 350058010714 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 350058010715 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 350058010716 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 350058010717 NAD(P) binding site [chemical binding]; other site 350058010718 active site 350058010719 3,4-dihydroxy-2-butanone 4-phosphate synthase [Coenzyme metabolism]; Region: RibB; COG0108 350058010720 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 350058010721 GTP cyclohydrolase II; Region: GTP_cyclohydro2; pfam00925 350058010722 dimerization interface [polypeptide binding]; other site 350058010723 active site 350058010724 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 350058010725 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 350058010726 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 350058010727 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 350058010728 anthranilate dioxygenase reductase; Provisional; Region: antC; PRK11872 350058010729 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 350058010730 catalytic loop [active] 350058010731 iron binding site [ion binding]; other site 350058010732 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 350058010733 FAD binding pocket [chemical binding]; other site 350058010734 FAD binding motif [chemical binding]; other site 350058010735 phosphate binding motif [ion binding]; other site 350058010736 beta-alpha-beta structure motif; other site 350058010737 NAD binding pocket [chemical binding]; other site 350058010738 2-polyprenyl-6-methoxyphenol hydroxylase and related FAD-dependent oxidoreductases [Coenzyme metabolism / Energy production and conversion]; Region: UbiH; COG0654 350058010739 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 350058010740 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 350058010741 enoyl-CoA hydratase; Provisional; Region: PRK08290 350058010742 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 350058010743 substrate binding site [chemical binding]; other site 350058010744 oxyanion hole (OAH) forming residues; other site 350058010745 trimer interface [polypeptide binding]; other site 350058010746 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 350058010747 Putative acyl-CoA dehydrogenases similar to fadE6, fadE17, and fadE26; Region: ACAD_fadE6_17_26; cd01152 350058010748 FAD binding site [chemical binding]; other site 350058010749 substrate binding site [chemical binding]; other site 350058010750 catalytic base [active] 350058010751 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 350058010752 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 350058010753 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 350058010754 active site 350058010755 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07786 350058010756 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 350058010757 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 350058010758 acyl-activating enzyme (AAE) consensus motif; other site 350058010759 acyl-activating enzyme (AAE) consensus motif; other site 350058010760 putative AMP binding site [chemical binding]; other site 350058010761 putative active site [active] 350058010762 putative CoA binding site [chemical binding]; other site 350058010763 AMP-binding domain protein; Validated; Region: PRK08315 350058010764 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 350058010765 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_2; cd05917 350058010766 acyl-activating enzyme (AAE) consensus motif; other site 350058010767 putative AMP binding site [chemical binding]; other site 350058010768 putative active site [active] 350058010769 putative CoA binding site [chemical binding]; other site 350058010770 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 350058010771 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 350058010772 Walker A/P-loop; other site 350058010773 ATP binding site [chemical binding]; other site 350058010774 Q-loop/lid; other site 350058010775 ABC transporter signature motif; other site 350058010776 Walker B; other site 350058010777 D-loop; other site 350058010778 H-loop/switch region; other site 350058010779 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 350058010780 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 350058010781 TM-ABC transporter signature motif; other site 350058010782 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_4; cd06312 350058010783 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 350058010784 putative ligand binding site [chemical binding]; other site 350058010785 Hydroxypyruvate isomerase [Carbohydrate transport and metabolism]; Region: Hfi; COG3622 350058010786 hypothetical protein; Provisional; Region: PRK14059 350058010787 Pyrimidine reductase, riboflavin biosynthesis [Coenzyme metabolism]; Region: RibD; COG1985 350058010788 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 350058010789 Major Facilitator Superfamily; Region: MFS_1; pfam07690 350058010790 putative substrate translocation pore; other site 350058010791 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 350058010792 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 350058010793 DNA-binding site [nucleotide binding]; DNA binding site 350058010794 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 350058010795 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 350058010796 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 350058010797 substrate binding site [chemical binding]; other site 350058010798 ATP binding site [chemical binding]; other site 350058010799 KduI/IolB family; Region: KduI; pfam04962 350058010800 Acetolactate synthase [Amino acid transport and metabolism]; Region: COG3962 350058010801 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 350058010802 PYR/PP interface [polypeptide binding]; other site 350058010803 dimer interface [polypeptide binding]; other site 350058010804 TPP binding site [chemical binding]; other site 350058010805 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 350058010806 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 350058010807 TPP-binding site; other site 350058010808 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 350058010809 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 350058010810 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 350058010811 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 350058010812 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 350058010813 catalytic residues [active] 350058010814 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 350058010815 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 350058010816 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 350058010817 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 350058010818 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 350058010819 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 350058010820 active site residue [active] 350058010821 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 350058010822 active site residue [active] 350058010823 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 350058010824 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 350058010825 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 350058010826 putative homodimer interface [polypeptide binding]; other site 350058010827 putative homotetramer interface [polypeptide binding]; other site 350058010828 putative allosteric switch controlling residues; other site 350058010829 putative metal binding site [ion binding]; other site 350058010830 putative homodimer-homodimer interface [polypeptide binding]; other site 350058010831 Methyltransferase domain; Region: Methyltransf_23; pfam13489 350058010832 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 350058010833 S-adenosylmethionine binding site [chemical binding]; other site 350058010834 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 350058010835 active site residue [active] 350058010836 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 350058010837 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 350058010838 Uncharacterized protein related to glutamine synthetase [General function prediction only]; Region: COG3968 350058010839 Glutamine synthetase type III N terminal; Region: GSIII_N; pfam12437 350058010840 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 350058010841 Transcriptional regulator [Transcription]; Region: LysR; COG0583 350058010842 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 350058010843 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 350058010844 dimerization interface [polypeptide binding]; other site 350058010845 oxidoreductase alpha (molybdopterin) subunit; Region: Fdhalpha-like; TIGR01701 350058010846 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 350058010847 putative molybdopterin cofactor binding site [chemical binding]; other site 350058010848 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 350058010849 putative molybdopterin cofactor binding site; other site 350058010850 formate dehydrogenase accessory protein; Reviewed; Region: PRK00724 350058010851 Glycosyl transferases, related to UDP-glucuronosyltransferase [Carbohydrate transport and metabolism / Signal transduction mechanisms]; Region: COG1819 350058010852 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 350058010853 active site 350058010854 TDP-binding site; other site 350058010855 acceptor substrate-binding pocket; other site 350058010856 homodimer interface [polypeptide binding]; other site 350058010857 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 350058010858 active site 350058010859 TDP-binding site; other site 350058010860 acceptor substrate-binding pocket; other site 350058010861 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 350058010862 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 350058010863 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 350058010864 Walker A motif; other site 350058010865 ATP binding site [chemical binding]; other site 350058010866 Walker B motif; other site 350058010867 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 350058010868 PPOX class probable F420-dependent enzyme; Region: Rv1155_F420; TIGR03618 350058010869 ATP-dependent Clp protease proteolytic subunit; Reviewed; Region: PRK12553 350058010870 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 350058010871 oligomer interface [polypeptide binding]; other site 350058010872 active site residues [active] 350058010873 Clp protease; Region: CLP_protease; pfam00574 350058010874 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 350058010875 oligomer interface [polypeptide binding]; other site 350058010876 active site residues [active] 350058010877 trigger factor; Provisional; Region: tig; PRK01490 350058010878 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 350058010879 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 350058010880 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350058010881 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 350058010882 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: MGAT-like; Region: LPLAT_MGAT-like; cd07987 350058010883 putative acyl-acceptor binding pocket; other site 350058010884 FAD binding domain; Region: FAD_binding_4; pfam01565 350058010885 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 350058010886 Berberine and berberine like; Region: BBE; pfam08031 350058010887 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 350058010888 Formamidopyrimidine-DNA glycosylase [DNA replication, recombination, and repair]; Region: Nei; COG0266 350058010889 N-terminal domain of the actinomycetal Nei1 and related DNA glycosylases; Region: AcNei1_N; cd08970 350058010890 putative DNA binding site [nucleotide binding]; other site 350058010891 catalytic residue [active] 350058010892 putative H2TH interface [polypeptide binding]; other site 350058010893 putative catalytic residues [active] 350058010894 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 350058010895 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 350058010896 allophanate hydrolase; Provisional; Region: PRK08186 350058010897 Amidase; Region: Amidase; cl11426 350058010898 ribose-5-phosphate isomerase B; Provisional; Region: PRK05571 350058010899 non-haem dioxygenase in morphine synthesis N-terminal; Region: DIOX_N; pfam14226 350058010900 Isopenicillin N synthase and related dioxygenases [General function prediction only]; Region: PcbC; COG3491 350058010901 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; pfam03171 350058010902 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 350058010903 nucleoside/Zn binding site; other site 350058010904 dimer interface [polypeptide binding]; other site 350058010905 catalytic motif [active] 350058010906 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 350058010907 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 350058010908 aminopeptidase N, Streptomyces lividans type; Region: pepN_strep_liv; TIGR02412 350058010909 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_3; cd09602 350058010910 Zn binding site [ion binding]; other site 350058010911 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 350058010912 active site 350058010913 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 350058010914 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 350058010915 active site 350058010916 Catalase-like heme-binding proteins similar to the uncharacterized y4iL; Region: y4iL_like; cd08152 350058010917 putative heme binding pocket [chemical binding]; other site 350058010918 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 350058010919 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 350058010920 Walker A motif; other site 350058010921 ATP binding site [chemical binding]; other site 350058010922 Walker B motif; other site 350058010923 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 350058010924 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 350058010925 DNA binding residues [nucleotide binding] 350058010926 dimerization interface [polypeptide binding]; other site 350058010927 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 350058010928 apolar tunnel; other site 350058010929 heme binding site [chemical binding]; other site 350058010930 dimerization interface [polypeptide binding]; other site 350058010931 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 350058010932 active site 350058010933 Bacterial NAD-glutamate dehydrogenase; Region: Bac_GDH; pfam05088 350058010934 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 350058010935 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 350058010936 Walker A/P-loop; other site 350058010937 ATP binding site [chemical binding]; other site 350058010938 Q-loop/lid; other site 350058010939 ABC transporter signature motif; other site 350058010940 Walker B; other site 350058010941 D-loop; other site 350058010942 H-loop/switch region; other site 350058010943 ABC transporter; Region: ABC_tran_2; pfam12848 350058010944 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 350058010945 Transposase domain (DUF772); Region: DUF772; pfam05598 350058010946 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 350058010947 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 350058010948 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 350058010949 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 350058010950 dimer interface [polypeptide binding]; other site 350058010951 ssDNA binding site [nucleotide binding]; other site 350058010952 tetramer (dimer of dimers) interface [polypeptide binding]; other site 350058010953 Copper resistance protein D; Region: CopD; pfam05425 350058010954 Cytochrome c oxidase caa3 assembly factor (Caa3_CtaG); Region: Caa3_CtaG; pfam09678 350058010955 glycerol-3-phosphate acyltransferase; Validated; Region: PRK03355 350058010956 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: GPAT-like; Region: LPLAT_DHAPAT-like; cd07993 350058010957 putative acyl-acceptor binding pocket; other site 350058010958 HAD-superfamily subfamily IB hydrolase, TIGR01490; Region: HAD-SF-IB-hyp1 350058010959 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 350058010960 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 350058010961 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 350058010962 putative acyl-acceptor binding pocket; other site 350058010963 Wax ester synthase-like Acyl-CoA acyltransferase domain; Region: WES_acyltransf; pfam03007 350058010964 acyltransferase, WS/DGAT/MGAT; Region: acyl_WS_DGAT; TIGR02946 350058010965 putative hydrolase, CocE/NonD family; Region: /NonD; TIGR00976 350058010966 X-Pro dipeptidyl-peptidase C-terminal non-catalytic domain; Region: PepX_C; smart00939 350058010967 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350058010968 Tetracyclin repressor, C-terminal all-alpha domain; Region: TetR_C; pfam02909 350058010969 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 350058010970 PE-PPE domain; Region: PE-PPE; pfam08237 350058010971 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 350058010972 Methyltransferase domain; Region: Methyltransf_31; pfam13847 350058010973 S-adenosylmethionine binding site [chemical binding]; other site 350058010974 enoyl-CoA hydratase; Provisional; Region: PRK05870 350058010975 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 350058010976 substrate binding site [chemical binding]; other site 350058010977 oxyanion hole (OAH) forming residues; other site 350058010978 trimer interface [polypeptide binding]; other site 350058010979 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 350058010980 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 350058010981 E3 interaction surface; other site 350058010982 lipoyl attachment site [posttranslational modification]; other site 350058010983 e3 binding domain; Region: E3_binding; pfam02817 350058010984 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 350058010985 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 350058010986 Pyrimidine (PYR) binding domain of the beta subunits of the E1 components of human pyruvate dehydrogenase complex (E1- PDHc) and related proteins; Region: TPP_PYR_E1-PDHc-beta_like; cd07036 350058010987 alpha subunit interface [polypeptide binding]; other site 350058010988 TPP binding site [chemical binding]; other site 350058010989 heterodimer interface [polypeptide binding]; other site 350058010990 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 350058010991 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_x; TIGR03181 350058010992 Thiamine pyrophosphate (TPP) family, E1 of PDC_ADC_BCADC subfamily, TPP-binding module; composed of proteins similar to the E1 components of the human pyruvate dehydrogenase complex (PDC), the acetoin dehydrogenase complex (ADC) and the branched chain...; Region: TPP_E1_PDC_ADC_BCADC; cd02000 350058010993 tetramer interface [polypeptide binding]; other site 350058010994 TPP-binding site [chemical binding]; other site 350058010995 heterodimer interface [polypeptide binding]; other site 350058010996 phosphorylation loop region [posttranslational modification] 350058010997 Citrate lyase beta subunit [Carbohydrate transport and metabolism]; Region: CitE; COG2301 350058010998 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 350058010999 putative active site [active] 350058011000 putative catalytic site [active] 350058011001 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 350058011002 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 350058011003 active site 350058011004 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 350058011005 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 350058011006 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 350058011007 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; pfam02785 350058011008 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 350058011009 carboxyltransferase (CT) interaction site; other site 350058011010 biotinylation site [posttranslational modification]; other site 350058011011 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 350058011012 3-methylcrotonyl-CoA carboxylase, beta chain; Region: PLN02820 350058011013 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 350058011014 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 350058011015 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350058011016 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 350058011017 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 350058011018 Mycobacterium membrane protein; Region: Mycobact_memb; pfam05423 350058011019 Permeases of the major facilitator superfamily [General function prediction only]; Region: COG2270 350058011020 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 350058011021 classical (c) SDRs; Region: SDR_c; cd05233 350058011022 NAD(P) binding site [chemical binding]; other site 350058011023 active site 350058011024 Bacterial protein of unknown function (DUF853); Region: DUF853; pfam05872 350058011025 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 350058011026 DEDDh 3'-5' exonuclease domain of oligoribonuclease and similar proteins; Region: Orn; cd06135 350058011027 catalytic site [active] 350058011028 putative active site [active] 350058011029 putative substrate binding site [chemical binding]; other site 350058011030 dimer interface [polypeptide binding]; other site 350058011031 SnoaL-like domain; Region: SnoaL_2; pfam12680 350058011032 IgD-like repeat domain of mycobacterial L,D-transpeptidases; Region: LDT_IgD_like_1; cd13431 350058011033 IgD-like repeat domain of mycobacterial L,D-transpeptidases; Region: LDT_IgD_like_2; cd13432 350058011034 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 350058011035 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 350058011036 Wax ester synthase-like Acyl-CoA acyltransferase domain; Region: WES_acyltransf; pfam03007 350058011037 acyltransferase, WS/DGAT/MGAT; Region: acyl_WS_DGAT; TIGR02946 350058011038 acyltransferase, WS/DGAT/MGAT; Region: acyl_WS_DGAT; TIGR02946 350058011039 Wax ester synthase-like Acyl-CoA acyltransferase domain; Region: WES_acyltransf; pfam03007 350058011040 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 350058011041 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 350058011042 putative substrate binding site [chemical binding]; other site 350058011043 putative ATP binding site [chemical binding]; other site 350058011044 phosphoenolpyruvate synthase; Validated; Region: PRK06464 350058011045 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 350058011046 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 350058011047 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 350058011048 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 350058011049 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 350058011050 active site 350058011051 motif I; other site 350058011052 motif II; other site 350058011053 HAD-hyrolase-like; Region: Hydrolase_like; pfam13242 350058011054 Trehalose-6-phosphatase [Carbohydrate transport and metabolism]; Region: OtsB; COG1877 350058011055 trehalose-6-phosphate phosphatase; Provisional; Region: PRK10187; cl17105 350058011056 Trehalose and maltose hydrolases (possible phosphorylases) [Carbohydrate transport and metabolism]; Region: ATH1; COG1554 350058011057 Glycosyl hydrolase family 65, N-terminal domain; Region: Glyco_hydro_65N; pfam03636 350058011058 Glycosyl hydrolase family 65 central catalytic domain; Region: Glyco_hydro_65m; pfam03632 350058011059 Glycosyl hydrolase family 65, C-terminal domain; Region: Glyco_hydro_65C; pfam03633 350058011060 putative glutamate synthase (NADPH) small subunit; Provisional; Region: PRK12771 350058011061 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 350058011062 4Fe-4S binding domain; Region: Fer4; pfam00037 350058011063 pyruvate:ferredoxin (flavodoxin) oxidoreductase, homodimeric; Region: pyruv_ox_red; TIGR02176 350058011064 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 350058011065 dimer interface [polypeptide binding]; other site 350058011066 PYR/PP interface [polypeptide binding]; other site 350058011067 TPP binding site [chemical binding]; other site 350058011068 substrate binding site [chemical binding]; other site 350058011069 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 350058011070 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 350058011071 Domain of unknown function; Region: EKR; smart00890 350058011072 4Fe-4S binding domain; Region: Fer4_6; pfam12837 350058011073 4Fe-4S binding domain; Region: Fer4; pfam00037 350058011074 Thiamine pyrophosphate (TPP family), PFOR_PNO subfamily, TPP-binding module; composed of proteins similar to the single subunit pyruvate ferredoxin oxidoreductase (PFOR) of Desulfovibrio Africanus, present in bacteria and amitochondriate eukaryotes. This...; Region: TPP_PFOR_PNO; cd03377 350058011075 TPP-binding site [chemical binding]; other site 350058011076 dimer interface [polypeptide binding]; other site 350058011077 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK07565 350058011078 Dihydroorotate dehydrogenase (DHOD) like proteins. 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...; Region: DHOD_like; cd04739 350058011079 putative active site [active] 350058011080 putative FMN binding site [chemical binding]; other site 350058011081 putative substrate binding site [chemical binding]; other site 350058011082 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 350058011083 Permease; Region: Permease; pfam02405 350058011084 Endopeptidases that belong to the bidirectional NAD-linked hydrogenase group. This group of endopeptidases are highly specific carboxyl-terminal protease (HoxW protease) which releases a 24-amino-acid peptide from HoxH prior to progression of subunit...; Region: H2MP_NAD-link-bidir; cd06066 350058011085 nickel binding site [ion binding]; other site 350058011086 Coenzyme F420-reducing hydrogenase, alpha subunit [Energy production and conversion]; Region: FrhA; COG3259 350058011087 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; pfam01058 350058011088 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 350058011089 catalytic loop [active] 350058011090 iron binding site [ion binding]; other site 350058011091 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 350058011092 4Fe-4S single cluster domain; Region: Fer4_15; pfam13459 350058011093 Respiratory-chain NADH dehydrogenase 24 Kd subunit; Region: Complex1_24kDa; pfam01257 350058011094 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 350058011095 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 350058011096 SLBB domain; Region: SLBB; pfam10531 350058011097 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 350058011098 MspA; Region: MspA; pfam09203 350058011099 Protein of unknown function (DUF3618); Region: DUF3618; pfam12277 350058011100 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 350058011101 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 350058011102 catalytic triad [active] 350058011103 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 350058011104 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 350058011105 Beta-Casp domain; Region: Beta-Casp; pfam10996 350058011106 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 350058011107 hypothetical protein; Provisional; Region: PRK07907 350058011108 M20 Dipeptidases; Region: M20_Dipept_like; cd03893 350058011109 active site 350058011110 metal binding site [ion binding]; metal-binding site 350058011111 dimer interface [polypeptide binding]; other site 350058011112 Formate/nitrite transporter; Region: Form_Nir_trans; pfam01226 350058011113 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 350058011114 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 350058011115 Enoyl reductase domain of yeast-type FAS1 [Lipid metabolism]; Region: COG4981 350058011116 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 350058011117 phosphate binding site [ion binding]; other site 350058011118 Domain of unknown function (DUF1729); Region: DUF1729; pfam08354 350058011119 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 350058011120 putative active site [active] 350058011121 putative catalytic site [active] 350058011122 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 350058011123 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 350058011124 3-oxoacyl-[acyl-carrier protein]; Region: COG4982 350058011125 ketoacyl reductase (KR) domain of fungal-type fatty acid synthase (fFAS), classical (c)-like SDRs; Region: KR_fFAS_SDR_c_like; cd08950 350058011126 putative NAD(P) binding site [chemical binding]; other site 350058011127 active site 350058011128 "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 350058011129 3-oxoacyl-(acyl-carrier-protein) synthase [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: FabB; COG0304 350058011130 active site 350058011131 Helix-Turn-Helix DNA binding domain of putative transcription regulators from the MerR superfamily; Region: HTH_MerR-like_sg2; cd04778 350058011132 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 350058011133 DNA binding residues [nucleotide binding] 350058011134 putative dimer interface [polypeptide binding]; other site 350058011135 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 350058011136 Major Facilitator Superfamily; Region: MFS_1; pfam07690 350058011137 putative substrate translocation pore; other site 350058011138 Bacterial low temperature requirement A protein (LtrA); Region: LtrA; cl01754 350058011139 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 350058011140 substrate binding site; other site 350058011141 dimer interface; other site 350058011142 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 350058011143 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07656 350058011144 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 350058011145 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_2; cd05917 350058011146 acyl-activating enzyme (AAE) consensus motif; other site 350058011147 acyl-activating enzyme (AAE) consensus motif; other site 350058011148 putative AMP binding site [chemical binding]; other site 350058011149 putative active site [active] 350058011150 putative CoA binding site [chemical binding]; other site 350058011151 Amidohydrolase; Region: Amidohydro_2; pfam04909 350058011152 cyclohexanecarboxylate-CoA ligase; Reviewed; Region: PRK13295 350058011153 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 350058011154 acyl-activating enzyme (AAE) consensus motif; other site 350058011155 AMP binding site [chemical binding]; other site 350058011156 active site 350058011157 CoA binding site [chemical binding]; other site 350058011158 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 350058011159 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 350058011160 substrate binding site [chemical binding]; other site 350058011161 oxyanion hole (OAH) forming residues; other site 350058011162 trimer interface [polypeptide binding]; other site 350058011163 Methylmalonyl-CoA epimerase (MMCE); Region: MMCE; cd07249 350058011164 dimer interface [polypeptide binding]; other site 350058011165 substrate binding site [chemical binding]; other site 350058011166 metal binding site [ion binding]; metal-binding site 350058011167 Rubredoxin-like zinc ribbon domain (DUF35_N); Region: DUF35_N; pfam12172 350058011168 DUF35 OB-fold domain; Region: DUF35; pfam01796 350058011169 lipid-transfer protein; Provisional; Region: PRK06059 350058011170 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 350058011171 active site 350058011172 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 350058011173 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350058011174 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 350058011175 Cytochrome P450; Region: p450; cl12078 350058011176 virulence factor Mce family protein; Region: Mtu_fam_mce; TIGR00996 350058011177 mce related protein; Region: MCE; pfam02470 350058011178 virulence factor Mce family protein; Region: Mtu_fam_mce; TIGR00996 350058011179 mce related protein; Region: MCE; pfam02470 350058011180 Protein of unknown function (DUF3407); Region: DUF3407; pfam11887 350058011181 virulence factor Mce family protein; Region: Mtu_fam_mce; TIGR00996 350058011182 mce related protein; Region: MCE; pfam02470 350058011183 Protein of unknown function (DUF3407); Region: DUF3407; pfam11887 350058011184 mce related protein; Region: MCE; pfam02470 350058011185 virulence factor Mce family protein; Region: Mtu_fam_mce; TIGR00996 350058011186 virulence factor Mce family protein; Region: Mtu_fam_mce; TIGR00996 350058011187 mce related protein; Region: MCE; pfam02470 350058011188 mce related protein; Region: MCE; pfam02470 350058011189 Protein of unknown function (DUF3407); Region: DUF3407; pfam11887 350058011190 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 350058011191 Permease; Region: Permease; pfam02405 350058011192 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 350058011193 Permease; Region: Permease; pfam02405 350058011194 acetyl-CoA acetyltransferase; Provisional; Region: PRK06064 350058011195 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 350058011196 active site 350058011197 DUF35 OB-fold domain; Region: DUF35; pfam01796 350058011198 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 350058011199 CoA-transferase family III; Region: CoA_transf_3; pfam02515 350058011200 aldehyde dehydrogenase, Rv0768 family; Region: aldehy_Rv0768; TIGR04284 350058011201 Rhodococcus ruber 6-oxolauric acid dehydrogenase-like and related proteins; Region: ALDH_CddD-AldA-like; cd07089 350058011202 NAD binding site [chemical binding]; other site 350058011203 catalytic residues [active] 350058011204 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 350058011205 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 350058011206 NAD(P) binding site [chemical binding]; other site 350058011207 active site 350058011208 oxidoreductase, SDR family; Region: SDR_subfam_1; TIGR03971 350058011209 classical (c) SDRs; Region: SDR_c; cd05233 350058011210 NAD(P) binding site [chemical binding]; other site 350058011211 active site 350058011212 4Fe-4S single cluster domain; Region: Fer4_13; pfam13370 350058011213 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 350058011214 Cytochrome P450; Region: p450; cl12078 350058011215 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 350058011216 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 350058011217 active site 350058011218 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 350058011219 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 350058011220 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 350058011221 active site 350058011222 Amidohydrolase; Region: Amidohydro_2; pfam04909 350058011223 Amidohydrolase; Region: Amidohydro_2; pfam04909 350058011224 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 350058011225 iron-sulfur cluster [ion binding]; other site 350058011226 [2Fe-2S] cluster binding site [ion binding]; other site 350058011227 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 350058011228 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 350058011229 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; cl11211 350058011230 4Fe-4S single cluster domain; Region: Fer4_15; pfam13459 350058011231 Rubredoxin-like zinc ribbon domain (DUF35_N); Region: DUF35_N; pfam12172 350058011232 DUF35 OB-fold domain; Region: DUF35; pfam01796 350058011233 lipid-transfer protein; Provisional; Region: PRK07855 350058011234 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 350058011235 active site 350058011236 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 350058011237 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 350058011238 NAD binding domain of 6-phosphogluconate dehydrogenase; Region: NAD_binding_2; pfam03446 350058011239 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 350058011240 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 350058011241 Cytochrome P450; Region: p450; cl12078 350058011242 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 350058011243 Protein of unknown function (DUF1271); Region: DUF1271; cl01443 350058011244 4Fe-4S single cluster domain; Region: Fer4_15; pfam13459 350058011245 methyl indole-3-acetate methyltransferase; Region: PLN02211; cl17657 350058011246 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 350058011247 Protein of unknown function (DUF1330); Region: DUF1330; pfam07045 350058011248 Protein of unknown function (DUF1271); Region: DUF1271; cl01443 350058011249 4Fe-4S single cluster domain; Region: Fer4_15; pfam13459 350058011250 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 350058011251 Cytochrome P450; Region: p450; cl12078 350058011252 Uncharacterized conserved protein [Function unknown]; Region: COG2128 350058011253 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 350058011254 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 350058011255 Taurine catabolism dioxygenase TauD, TfdA family; Region: TauD; pfam02668 350058011256 substrate binding pocket [chemical binding]; other site 350058011257 active site 350058011258 iron coordination sites [ion binding]; other site 350058011259 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 350058011260 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 350058011261 [2Fe-2S] cluster binding site [ion binding]; other site 350058011262 C-terminal catalytic domain of the oxygenase alpha subunit of Rieske-type non-heme iron aromatic ring-hydroxylating oxygenases; Region: RHO_alpha_C; cd00680 350058011263 alpha subunit interface [polypeptide binding]; other site 350058011264 active site 350058011265 substrate binding site [chemical binding]; other site 350058011266 Fe binding site [ion binding]; other site 350058011267 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 350058011268 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 350058011269 NAD(P) binding site [chemical binding]; other site 350058011270 active site 350058011271 phenylacetate-CoA oxygenase/reductase, PaaK subunit; Region: PA_CoA_Oxy5; TIGR02160 350058011272 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 350058011273 FAD binding pocket [chemical binding]; other site 350058011274 FAD binding motif [chemical binding]; other site 350058011275 phosphate binding motif [ion binding]; other site 350058011276 beta-alpha-beta structure motif; other site 350058011277 NAD(p) ribose binding residues [chemical binding]; other site 350058011278 NAD binding pocket [chemical binding]; other site 350058011279 NAD(P)-pyrophosphate-nicotinamide binding residues [chemical binding]; other site 350058011280 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 350058011281 catalytic loop [active] 350058011282 iron binding site [ion binding]; other site 350058011283 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 350058011284 MarR family; Region: MarR_2; pfam12802 350058011285 MarR family; Region: MarR_2; cl17246 350058011286 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 350058011287 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 350058011288 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 350058011289 active site 350058011290 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 350058011291 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 350058011292 [2Fe-2S] cluster binding site [ion binding]; other site 350058011293 C-terminal catalytic domain of the oxygenase alpha subunit of Rieske-type non-heme iron aromatic ring-hydroxylating oxygenases; Region: RHO_alpha_C; cd00680 350058011294 alpha subunit interface [polypeptide binding]; other site 350058011295 active site 350058011296 substrate binding site [chemical binding]; other site 350058011297 Fe binding site [ion binding]; other site 350058011298 oxidoreductase, SDR family; Region: SDR_subfam_1; TIGR03971 350058011299 classical (c) SDRs; Region: SDR_c; cd05233 350058011300 NAD(P) binding site [chemical binding]; other site 350058011301 active site 350058011302 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350058011303 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 350058011304 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350058011305 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 350058011306 AAA domain (dynein-related subfamily); Region: AAA_5; pfam07728 350058011307 Walker A motif; other site 350058011308 ATP binding site [chemical binding]; other site 350058011309 Walker B motif; other site 350058011310 CbbQ/NirQ/NorQ C-terminal; Region: CbbQ_C; pfam08406 350058011311 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 350058011312 metal ion-dependent adhesion site (MIDAS); other site 350058011313 F420-dependent oxidoreductase, MSMEG_4879 family; Region: F420_MSMEG_4879; TIGR03564 350058011314 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 350058011315 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 350058011316 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350058011317 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 350058011318 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 350058011319 active site 350058011320 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 350058011321 putative active site [active] 350058011322 putative substrate binding site [chemical binding]; other site 350058011323 ATP binding site [chemical binding]; other site 350058011324 Quinone oxidoreductase (QOR); Region: QOR1; cd08241 350058011325 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 350058011326 NAD(P) binding site [chemical binding]; other site 350058011327 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 350058011328 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350058011329 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 350058011330 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 350058011331 active site 350058011332 acetyl-CoA acetyltransferase; Provisional; Region: PRK07801 350058011333 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 350058011334 dimer interface [polypeptide binding]; other site 350058011335 active site 350058011336 enoyl-CoA hydratase; Provisional; Region: PRK06688 350058011337 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 350058011338 substrate binding site [chemical binding]; other site 350058011339 oxyanion hole (OAH) forming residues; other site 350058011340 trimer interface [polypeptide binding]; other site 350058011341 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 350058011342 CoA-transferase family III; Region: CoA_transf_3; pfam02515 350058011343 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 350058011344 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 350058011345 NAD(P) binding site [chemical binding]; other site 350058011346 active site 350058011347 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 350058011348 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 350058011349 active site 350058011350 Amidohydrolase; Region: Amidohydro_2; pfam04909 350058011351 Uncharacterized conserved protein [Function unknown]; Region: COG2128 350058011352 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 350058011353 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 350058011354 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 350058011355 [2Fe-2S] cluster binding site [ion binding]; other site 350058011356 C-terminal catalytic domain of the oxygenase alpha subunit of Rieske-type non-heme iron aromatic ring-hydroxylating oxygenases; Region: RHO_alpha_C; cd00680 350058011357 alpha subunit interface [polypeptide binding]; other site 350058011358 active site 350058011359 substrate binding site [chemical binding]; other site 350058011360 Fe binding site [ion binding]; other site 350058011361 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 350058011362 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 350058011363 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 350058011364 active site 350058011365 SnoaL-like domain; Region: SnoaL_4; pfam13577 350058011366 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 350058011367 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 350058011368 active site 350058011369 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 350058011370 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 350058011371 enoyl-CoA hydratase; Provisional; Region: PRK08290 350058011372 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 350058011373 substrate binding site [chemical binding]; other site 350058011374 oxyanion hole (OAH) forming residues; other site 350058011375 trimer interface [polypeptide binding]; other site 350058011376 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 350058011377 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350058011378 Cytochrome P450; Region: p450; cl12078 350058011379 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 350058011380 oxidoreductase, SDR family; Region: SDR_subfam_1; TIGR03971 350058011381 classical (c) SDRs; Region: SDR_c; cd05233 350058011382 NAD(P) binding site [chemical binding]; other site 350058011383 active site 350058011384 Ecdysteroid kinase; Region: EcKinase; cl17738 350058011385 acyltransferase, WS/DGAT/MGAT; Region: acyl_WS_DGAT; TIGR02946 350058011386 Wax ester synthase-like Acyl-CoA acyltransferase domain; Region: WES_acyltransf; pfam03007 350058011387 Protein of unknown function (DUF1298); Region: DUF1298; pfam06974 350058011388 acyl-CoA synthetase; Provisional; Region: PRK13382 350058011389 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 350058011390 acyl-activating enzyme (AAE) consensus motif; other site 350058011391 putative AMP binding site [chemical binding]; other site 350058011392 putative active site [active] 350058011393 putative CoA binding site [chemical binding]; other site 350058011394 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 350058011395 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: MGAT-like; Region: LPLAT_MGAT-like; cd07987 350058011396 putative acyl-acceptor binding pocket; other site 350058011397 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 350058011398 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 350058011399 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 350058011400 active site 350058011401 short chain dehydrogenase; Provisional; Region: PRK07041 350058011402 classical (c) SDRs; Region: SDR_c; cd05233 350058011403 NAD(P) binding site [chemical binding]; other site 350058011404 active site 350058011405 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 350058011406 CoA-transferase family III; Region: CoA_transf_3; pfam02515 350058011407 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 350058011408 CoA-transferase family III; Region: CoA_transf_3; pfam02515 350058011409 enoyl-CoA hydratase; Provisional; Region: PRK12478 350058011410 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 350058011411 substrate binding site [chemical binding]; other site 350058011412 oxyanion hole (OAH) forming residues; other site 350058011413 trimer interface [polypeptide binding]; other site 350058011414 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 350058011415 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 350058011416 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 350058011417 active site 350058011418 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 350058011419 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 350058011420 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 350058011421 active site 350058011422 Amidohydrolase; Region: Amidohydro_2; pfam04909 350058011423 Cytochrome P450; Region: p450; cl12078 350058011424 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 350058011425 Ferredoxin [Energy production and conversion]; Region: Fer; COG1141 350058011426 Protein of unknown function (DUF1271); Region: DUF1271; cl01443 350058011427 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350058011428 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 350058011429 classical (c) SDRs; Region: SDR_c; cd05233 350058011430 NAD(P) binding site [chemical binding]; other site 350058011431 active site 350058011432 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 350058011433 TAP-like protein; Region: Abhydrolase_4; pfam08386 350058011434 Predicted flavoprotein [General function prediction only]; Region: COG0431 350058011435 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 350058011436 Putative cyclase; Region: Cyclase; pfam04199 350058011437 3-alpha-hydroxysteroid dehydrogenase; Provisional; Region: PRK12428 350058011438 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 350058011439 NAD(P) binding site [chemical binding]; other site 350058011440 active site 350058011441 probable oxidoreductase, LLM family; Region: LLM_2I7G; TIGR03858 350058011442 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 350058011443 3-ketosteroid-delta-1-dehydrogenase; Reviewed; Region: PRK12835 350058011444 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 350058011445 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 350058011446 3-(2,3-dihydroxyphenyl)propionate dioxygenase; Provisional; Region: mhpB; PRK13370 350058011447 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 350058011448 active site 350058011449 metal binding site [ion binding]; metal-binding site 350058011450 3-(3-hydroxyphenyl)propionate hydroxylase; Validated; Region: mhpA; PRK06183 350058011451 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 350058011452 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 350058011453 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 350058011454 Transcriptional regulator [Transcription]; Region: IclR; COG1414 350058011455 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 350058011456 3-ketosteroid-delta-1-dehydrogenase; Reviewed; Region: PRK12844 350058011457 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 350058011458 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350058011459 Putative periplasmic protein kinase ArgK and related GTPases of G3E family [Amino acid transport and metabolism]; Region: ArgK; COG1703 350058011460 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 350058011461 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 350058011462 Walker A; other site 350058011463 G1 box; other site 350058011464 GTP/Mg2+ binding site [chemical binding]; other site 350058011465 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 350058011466 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 350058011467 NAD(P) binding site [chemical binding]; other site 350058011468 active site 350058011469 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 350058011470 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 350058011471 NAD(P) binding site [chemical binding]; other site 350058011472 active site 350058011473 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 350058011474 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 350058011475 substrate binding site [chemical binding]; other site 350058011476 oxyanion hole (OAH) forming residues; other site 350058011477 trimer interface [polypeptide binding]; other site 350058011478 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 350058011479 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 350058011480 active site 350058011481 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 350058011482 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 350058011483 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 350058011484 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 350058011485 acyl-activating enzyme (AAE) consensus motif; other site 350058011486 AMP binding site [chemical binding]; other site 350058011487 active site 350058011488 CoA binding site [chemical binding]; other site 350058011489 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 350058011490 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 350058011491 catalytic loop [active] 350058011492 iron binding site [ion binding]; other site 350058011493 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 350058011494 CoA-transferase family III; Region: CoA_transf_3; pfam02515 350058011495 F420-dependent oxidoreductase, MSMEG_4879 family; Region: F420_MSMEG_4879; TIGR03564 350058011496 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 350058011497 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 350058011498 B12 binding site [chemical binding]; other site 350058011499 cobalt ligand [ion binding]; other site 350058011500 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 350058011501 short chain dehydrogenase; Provisional; Region: PRK08278 350058011502 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 350058011503 NAD(P) binding site [chemical binding]; other site 350058011504 active site 350058011505 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 350058011506 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 350058011507 acyl-activating enzyme (AAE) consensus motif; other site 350058011508 putative AMP binding site [chemical binding]; other site 350058011509 putative active site [active] 350058011510 putative CoA binding site [chemical binding]; other site 350058011511 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 350058011512 dimerization interface [polypeptide binding]; other site 350058011513 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 350058011514 cyclase homology domain; Region: CHD; cd07302 350058011515 nucleotidyl binding site; other site 350058011516 metal binding site [ion binding]; metal-binding site 350058011517 dimer interface [polypeptide binding]; other site 350058011518 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 350058011519 metabolite-proton symporter; Region: 2A0106; TIGR00883 350058011520 putative substrate translocation pore; other site 350058011521 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 350058011522 SnoaL-like domain; Region: SnoaL_3; pfam13474 350058011523 Rubredoxin-like zinc ribbon domain (DUF35_N); Region: DUF35_N; pfam12172 350058011524 DUF35 OB-fold domain; Region: DUF35; pfam01796 350058011525 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 350058011526 active site 350058011527 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 350058011528 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 350058011529 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 350058011530 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 350058011531 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 350058011532 active site 350058011533 hopanoid-associated sugar epimerase; Region: HpnA; TIGR03466 350058011534 uncharacterized subgroup of aldehyde reductase and flavonoid reductase related proteins, extended (e) SDRs; Region: AR_FR_like_1_SDR_e; cd05228 350058011535 putative NADP binding site [chemical binding]; other site 350058011536 putative substrate binding site [chemical binding]; other site 350058011537 active site 350058011538 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 350058011539 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350058011540 Polyketide cyclase / dehydrase and lipid transport; Region: Polyketide_cyc2; pfam10604 350058011541 hydrophobic ligand binding site; other site 350058011542 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 350058011543 Sulfatase; Region: Sulfatase; cl17466 350058011544 Amidohydrolase; Region: Amidohydro_2; pfam04909 350058011545 Cupin domain; Region: Cupin_2; cl17218 350058011546 Helix-turn-helix domain; Region: HTH_18; pfam12833 350058011547 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 350058011548 Transcription factor WhiB; Region: Whib; pfam02467 350058011549 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 350058011550 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 350058011551 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 350058011552 Glucitol operon activator protein (GutM); Region: GutM; cl01890 350058011553 Domain of unknown function (DUF3817); Region: DUF3817; pfam12823 350058011554 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 350058011555 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 350058011556 dimerization interface [polypeptide binding]; other site 350058011557 active site 350058011558 ribonuclease PH; Reviewed; Region: rph; PRK00173 350058011559 Ribonuclease PH; Region: RNase_PH_bact; cd11362 350058011560 hexamer interface [polypeptide binding]; other site 350058011561 active site 350058011562 Metal-dependent hydrolases of the beta-lactamase superfamily III [General function prediction only]; Region: ElaC; COG1234 350058011563 glutamate racemase; Provisional; Region: PRK00865 350058011564 Rhomboid family; Region: Rhomboid; pfam01694 350058011565 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 350058011566 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 350058011567 dimer interface [polypeptide binding]; other site 350058011568 pyridoxal 5'-phosphate binding site [chemical binding]; other site 350058011569 catalytic residue [active] 350058011570 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 350058011571 MoaE interaction surface [polypeptide binding]; other site 350058011572 MoeB interaction surface [polypeptide binding]; other site 350058011573 thiocarboxylated glycine; other site 350058011574 Mpr1p, Pad1p N-terminal (MPN) domains with catalytic isopeptidase activity (metal-binding); Region: MPN_like; cd08070 350058011575 MPN+ (JAMM) motif; other site 350058011576 Zinc-binding site [ion binding]; other site 350058011577 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 350058011578 putative active site pocket [active] 350058011579 cleavage site 350058011580 Domain of unknown function (DUF2017); Region: DUF2017; pfam09438 350058011581 ATP-dependent Clp protease adaptor protein ClpS; Reviewed; Region: clpS; PRK00033 350058011582 nicotinate phosphoribosyltransferase; Validated; Region: PRK09243 350058011583 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 350058011584 active site 350058011585 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 350058011586 DEAD/DEAH box helicase; Region: DEAD; pfam00270 350058011587 ATP binding site [chemical binding]; other site 350058011588 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 350058011589 putative Mg++ binding site [ion binding]; other site 350058011590 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 350058011591 Predicted metalloprotease [General function prediction only]; Region: COG2321 350058011592 Putative neutral zinc metallopeptidase; Region: Zn_peptidase; pfam04228 350058011593 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 350058011594 putative homodimer interface [polypeptide binding]; other site 350058011595 putative active site pocket [active] 350058011596 alpha-glucan phosphorylases; Region: more_P_ylases; TIGR02094 350058011597 Domain of unknown function (DUF3416); Region: DUF3416; pfam11896 350058011598 Alpha amylase catalytic domain found in GlgE-like proteins; Region: AmyAc_GlgE_like; cd11344 350058011599 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 350058011600 active site 350058011601 homodimer interface [polypeptide binding]; other site 350058011602 catalytic site [active] 350058011603 acceptor binding site [chemical binding]; other site 350058011604 glycogen branching enzyme; Provisional; Region: PRK05402 350058011605 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 350058011606 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 350058011607 active site 350058011608 catalytic site [active] 350058011609 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 350058011610 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]; Region: COG3118 350058011611 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 350058011612 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 350058011613 binding surface 350058011614 TPR motif; other site 350058011615 Domain of unknown function (DUF3817); Region: DUF3817; pfam12823 350058011616 putative acyltransferase; Provisional; Region: PRK05790 350058011617 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 350058011618 dimer interface [polypeptide binding]; other site 350058011619 active site 350058011620 Methylmalonyl-CoA epimerase (MMCE); Region: MMCE; cd07249 350058011621 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 350058011622 dimer interface [polypeptide binding]; other site 350058011623 substrate binding site [chemical binding]; other site 350058011624 metal binding site [ion binding]; metal-binding site 350058011625 Predicted nuclease of the RecB family [DNA replication, recombination, and repair]; Region: COG1637 350058011626 hypothetical protein; Provisional; Region: PRK03298 350058011627 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 350058011628 dimerization interface [polypeptide binding]; other site 350058011629 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 350058011630 cyclase homology domain; Region: CHD; cd07302 350058011631 nucleotidyl binding site; other site 350058011632 metal binding site [ion binding]; metal-binding site 350058011633 dimer interface [polypeptide binding]; other site 350058011634 DUF35 OB-fold domain; Region: DUF35; pfam01796 350058011635 thiolase; Provisional; Region: PRK06158 350058011636 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 350058011637 active site 350058011638 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 350058011639 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 350058011640 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 350058011641 active site 350058011642 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 350058011643 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 350058011644 active site 350058011645 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 350058011646 CoA-transferase family III; Region: CoA_transf_3; pfam02515 350058011647 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 350058011648 CoA-transferase family III; Region: CoA_transf_3; pfam02515 350058011649 Transcriptional regulator [Transcription]; Region: LysR; COG0583 350058011650 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 350058011651 LysR substrate binding domain; Region: LysR_substrate; pfam03466 350058011652 dimerization interface [polypeptide binding]; other site 350058011653 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 350058011654 Cytochrome P450; Region: p450; cl12078 350058011655 SnoaL-like domain; Region: SnoaL_2; pfam12680 350058011656 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 350058011657 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 350058011658 [2Fe-2S] cluster binding site [ion binding]; other site 350058011659 C-terminal catalytic domain of Pseudomonas fluorescens MupW and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_MupW-like; cd08882 350058011660 putative alpha subunit interface [polypeptide binding]; other site 350058011661 putative active site [active] 350058011662 putative substrate binding site [chemical binding]; other site 350058011663 Fe binding site [ion binding]; other site 350058011664 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 350058011665 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350058011666 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Ada; COG2169 350058011667 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 350058011668 AlkA N-terminal domain; Region: AlkA_N; pfam06029 350058011669 3-methyladenine DNA glycosylase/8-oxoguanine DNA glycosylase [DNA replication, recombination, and repair]; Region: AlkA; COG0122 350058011670 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 350058011671 minor groove reading motif; other site 350058011672 helix-hairpin-helix signature motif; other site 350058011673 substrate binding pocket [chemical binding]; other site 350058011674 active site 350058011675 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 350058011676 methylated-DNA--protein-cysteine methyltransferase; Provisional; Region: PRK00901 350058011677 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 350058011678 DNA binding site [nucleotide binding] 350058011679 active site 350058011680 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 350058011681 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 350058011682 hinge; other site 350058011683 active site 350058011684 cob(I)alamin adenosyltransferase [Coenzyme transport and metabolism]; Region: COG2096 350058011685 Protein of unknown function (DUF2550); Region: DUF2550; pfam10739 350058011686 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 350058011687 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 350058011688 gamma subunit interface [polypeptide binding]; other site 350058011689 epsilon subunit interface [polypeptide binding]; other site 350058011690 LBP interface [polypeptide binding]; other site 350058011691 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 350058011692 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 350058011693 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 350058011694 alpha subunit interaction interface [polypeptide binding]; other site 350058011695 Walker A motif; other site 350058011696 ATP binding site [chemical binding]; other site 350058011697 Walker B motif; other site 350058011698 inhibitor binding site; inhibition site 350058011699 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 350058011700 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 350058011701 core domain interface [polypeptide binding]; other site 350058011702 delta subunit interface [polypeptide binding]; other site 350058011703 epsilon subunit interface [polypeptide binding]; other site 350058011704 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 350058011705 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 350058011706 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 350058011707 beta subunit interaction interface [polypeptide binding]; other site 350058011708 Walker A motif; other site 350058011709 ATP binding site [chemical binding]; other site 350058011710 Walker B motif; other site 350058011711 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 350058011712 F0F1 ATP synthase subunit delta; Provisional; Region: PRK13428 350058011713 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl17192 350058011714 F0F1 ATP synthase subunit delta; Provisional; Region: PRK13430 350058011715 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 350058011716 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 350058011717 F0F1 ATP synthase subunit C; Validated; Region: PRK05880 350058011718 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 350058011719 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 350058011720 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 350058011721 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 350058011722 Mg++ binding site [ion binding]; other site 350058011723 putative catalytic motif [active] 350058011724 substrate binding site [chemical binding]; other site 350058011725 tRNA threonylcarbamoyl adenosine modification protein, Sua5/YciO/YrdC/YwlC family; Region: TIGR00057 350058011726 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 350058011727 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 350058011728 peptide chain release factor 1; Validated; Region: prfA; PRK00591 350058011729 This domain is found in peptide chain release factors; Region: PCRF; smart00937 350058011730 RF-1 domain; Region: RF-1; pfam00472 350058011731 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00019 350058011732 acyl-CoA synthetase; Provisional; Region: PRK13388 350058011733 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 350058011734 acyl-activating enzyme (AAE) consensus motif; other site 350058011735 AMP binding site [chemical binding]; other site 350058011736 active site 350058011737 CoA binding site [chemical binding]; other site 350058011738 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 350058011739 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350058011740 Mycothiol maleylpyruvate isomerase N-terminal domain; Region: MDMPI_N; pfam11716 350058011741 uncharacterized Actinobacterial protein TIGR03083; Region: TIGR03083 350058011742 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 350058011743 MarR family; Region: MarR; pfam01047 350058011744 Rho termination factor, N-terminal domain; Region: Rho_N; smart00959 350058011745 transcription termination factor Rho; Provisional; Region: PRK12608 350058011746 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 350058011747 RNA binding site [nucleotide binding]; other site 350058011748 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 350058011749 multimer interface [polypeptide binding]; other site 350058011750 Walker A motif; other site 350058011751 ATP binding site [chemical binding]; other site 350058011752 Walker B motif; other site 350058011753 Homoserine kinase [Amino acid transport and metabolism]; Region: ThrB; COG0083 350058011754 threonine synthase; Reviewed; Region: PRK06721 350058011755 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 350058011756 homodimer interface [polypeptide binding]; other site 350058011757 pyridoxal 5'-phosphate binding site [chemical binding]; other site 350058011758 catalytic residue [active] 350058011759 homoserine dehydrogenase; Provisional; Region: PRK06349 350058011760 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 350058011761 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 350058011762 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 350058011763 diaminopimelate decarboxylase; Region: lysA; TIGR01048 350058011764 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 350058011765 active site 350058011766 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 350058011767 substrate binding site [chemical binding]; other site 350058011768 catalytic residues [active] 350058011769 dimer interface [polypeptide binding]; other site 350058011770 arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611 350058011771 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 350058011772 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 350058011773 active site 350058011774 HIGH motif; other site 350058011775 KMSK motif region; other site 350058011776 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 350058011777 tRNA binding surface [nucleotide binding]; other site 350058011778 anticodon binding site; other site 350058011779 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 350058011780 DNA binding residues [nucleotide binding] 350058011781 Protein of unknown function (DUF433); Region: DUF433; pfam04255 350058011782 Cobalamin biosynthesis protein CobN and related Mg-chelatases [Coenzyme metabolism]; Region: CobN; COG1429 350058011783 Phage-related minor tail protein; Region: PhageMin_Tail; pfam10145 350058011784 phage major capsid protein, HK97 family; Region: major_cap_HK97; TIGR01554 350058011785 Phage capsid family; Region: Phage_capsid; pfam05065 350058011786 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 350058011787 active site 350058011788 catalytic residues [active] 350058011789 DNA binding site [nucleotide binding] 350058011790 Int/Topo IB signature motif; other site 350058011791 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_ox_2; pfam12900 350058011792 Streptococcal 67 kDa myosin-cross-reactive antigen like family; Region: Strep_67kDa_ant; cl17487 350058011793 tol-pal system beta propeller repeat protein TolB; Region: propeller_TolB; TIGR02800 350058011794 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 350058011795 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 350058011796 N-acetyl-D-glucosamine binding site [chemical binding]; other site 350058011797 catalytic residue [active] 350058011798 Protein of unknown function (DUF1460); Region: DUF1460; pfam07313 350058011799 short chain dehydrogenase; Provisional; Region: PRK06197 350058011800 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 350058011801 NAD(P) binding site [chemical binding]; other site 350058011802 active site 350058011803 pimeloyl-CoA dehydrogenase, large subunit; Region: pimC_large; TIGR03204 350058011804 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 350058011805 active site 350058011806 pimeloyl-CoA dehydrogenase, small subunit; Region: pimD_small; TIGR03203 350058011807 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 350058011808 active site 350058011809 Bacterial protein of unknown function (DUF899); Region: DUF899; pfam05988 350058011810 Luciferase-like monooxygenase; Region: Bac_luciferase; pfam00296 350058011811 Tellurite resistance protein and related permeases [Inorganic ion transport and metabolism]; Region: TehA; COG1275 350058011812 The Tellurite-resistance/Dicarboxylate Transporter (TDT) family; Region: TDT_like_2; cd09320 350058011813 gating phenylalanine in ion channel; other site 350058011814 Putative sensor; Region: Sensor; pfam13796 350058011815 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 350058011816 Histidine kinase; Region: HisKA_3; pfam07730 350058011817 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 350058011818 ATP binding site [chemical binding]; other site 350058011819 Mg2+ binding site [ion binding]; other site 350058011820 G-X-G motif; other site 350058011821 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 350058011822 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 350058011823 active site 350058011824 phosphorylation site [posttranslational modification] 350058011825 intermolecular recognition site; other site 350058011826 dimerization interface [polypeptide binding]; other site 350058011827 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 350058011828 DNA binding residues [nucleotide binding] 350058011829 dimerization interface [polypeptide binding]; other site 350058011830 Domain of unknown function (DUF4098); Region: DUF4098; pfam13345 350058011831 probable polyamine oxidase; Region: PLN02268 350058011832 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 350058011833 hydroxyglutarate oxidase; Provisional; Region: PRK11728 350058011834 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 350058011835 Nitronate monooxygenase; Region: NMO; pfam03060 350058011836 FMN binding site [chemical binding]; other site 350058011837 substrate binding site [chemical binding]; other site 350058011838 putative catalytic residue [active] 350058011839 ChaP, an enzyme involved in the biosynthesis of the antitumor agent chartreusin (cha); and similar proteins; Region: ChaP_like; cd08351 350058011840 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 350058011841 metal binding site [ion binding]; metal-binding site 350058011842 4-hyroxy-2-oxovalerate/4-hydroxy-2-oxopentanoic acid aldolase,; Validated; Region: PRK08195 350058011843 4-hydroxy-2-oxovalerate aldolase, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_HOA; cd07943 350058011844 active site 350058011845 catalytic residues [active] 350058011846 metal binding site [ion binding]; metal-binding site 350058011847 DmpG-like communication domain; Region: DmpG_comm; pfam07836 350058011848 acetaldehyde dehydrogenase; Validated; Region: PRK08300 350058011849 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 350058011850 Prokaryotic acetaldehyde dehydrogenase, dimerisation; Region: AcetDehyd-dimer; pfam09290 350058011851 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 350058011852 virulence factor Mce family protein; Region: Mtu_fam_mce; TIGR00996 350058011853 mce related protein; Region: MCE; pfam02470 350058011854 virulence factor Mce family protein; Region: Mtu_fam_mce; TIGR00996 350058011855 mce related protein; Region: MCE; pfam02470 350058011856 virulence factor Mce family protein; Region: Mtu_fam_mce; TIGR00996 350058011857 mce related protein; Region: MCE; pfam02470 350058011858 virulence factor Mce family protein; Region: Mtu_fam_mce; TIGR00996 350058011859 mce related protein; Region: MCE; pfam02470 350058011860 virulence factor Mce family protein; Region: Mtu_fam_mce; TIGR00996 350058011861 mce related protein; Region: MCE; pfam02470 350058011862 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 350058011863 mce related protein; Region: MCE; pfam02470 350058011864 Protein of unknown function (DUF3407); Region: DUF3407; pfam11887 350058011865 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 350058011866 Permease; Region: Permease; pfam02405 350058011867 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 350058011868 Permease; Region: Permease; pfam02405 350058011869 Coenzyme A transferase; Region: CoA_trans; cl17247 350058011870 Coenzyme A transferase; Region: CoA_trans; cl17247 350058011871 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 350058011872 Protocatechuate 3,4-dioxygenase beta subunit [Secondary metabolites biosynthesis, transport, and catabolism]; Region: PcaH; COG3485 350058011873 active site 350058011874 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 350058011875 Maleylacetate reductase is involved in many aromatic compounds degradation pathways of aerobic microbes; Region: MAR; cd08177 350058011876 active site 350058011877 dimer interface [polypeptide binding]; other site 350058011878 metal binding site [ion binding]; metal-binding site 350058011879 FAD binding domain; Region: FAD_binding_3; pfam01494 350058011880 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 350058011881 GAF domain; Region: GAF; pfam01590 350058011882 GAF domain; Region: GAF_2; pfam13185 350058011883 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 350058011884 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 350058011885 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 350058011886 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 350058011887 acyl-activating enzyme (AAE) consensus motif; other site 350058011888 acyl-activating enzyme (AAE) consensus motif; other site 350058011889 AMP binding site [chemical binding]; other site 350058011890 active site 350058011891 CoA binding site [chemical binding]; other site 350058011892 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 350058011893 FAD binding domain; Region: FAD_binding_3; pfam01494 350058011894 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 350058011895 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 350058011896 putative active site [active] 350058011897 putative catalytic site [active] 350058011898 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 350058011899 Transcriptional regulator [Transcription]; Region: IclR; COG1414 350058011900 Bacterial transcriptional regulator; Region: IclR; pfam01614 350058011901 2,3-dihydroxy-2,3-dihydrophenylpropionate dehydrogenase; Provisional; Region: PRK06200 350058011902 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 350058011903 NAD(P) binding site [chemical binding]; other site 350058011904 active site 350058011905 2,3-dihydroxybiphenyl 1,2-dioxygenase; Region: 23dbph12diox; TIGR03213 350058011906 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 350058011907 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 350058011908 active site 350058011909 Fe binding site [ion binding]; other site 350058011910 2-hydroxy-6-oxo-6-phenylhexa-2,4-dienoate hydrolase; Region: biphenyl_bphD; TIGR03343 350058011911 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 350058011912 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 350058011913 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 350058011914 iron-sulfur cluster [ion binding]; other site 350058011915 [2Fe-2S] cluster binding site [ion binding]; other site 350058011916 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 350058011917 beta subunit interface [polypeptide binding]; other site 350058011918 alpha subunit interface [polypeptide binding]; other site 350058011919 active site 350058011920 substrate binding site [chemical binding]; other site 350058011921 Fe binding site [ion binding]; other site 350058011922 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 350058011923 inter-subunit interface; other site 350058011924 Rieske non-heme iron oxygenase (RO) family, Rieske ferredoxin component; composed of the Rieske ferredoxin component of some three-component RO systems including biphenyl dioxygenase (BPDO) and carbazole 1,9a-dioxygenase (CARDO). The RO family comprise a...; Region: Rieske_RO_ferredoxin; cd03528 350058011925 [2Fe-2S] cluster binding site [ion binding]; other site 350058011926 Rrf2 family protein; Region: rrf2_super; TIGR00738 350058011927 Transcriptional regulator; Region: Rrf2; pfam02082 350058011928 Isochorismatase family; Region: Isochorismatase; pfam00857 350058011929 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 350058011930 catalytic triad [active] 350058011931 conserved cis-peptide bond; other site 350058011932 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 350058011933 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 350058011934 active site 350058011935 bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Provisional; Region: PRK05506 350058011936 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 350058011937 CysD dimerization site [polypeptide binding]; other site 350058011938 G1 box; other site 350058011939 putative GEF interaction site [polypeptide binding]; other site 350058011940 GTP/Mg2+ binding site [chemical binding]; other site 350058011941 Switch I region; other site 350058011942 G2 box; other site 350058011943 G3 box; other site 350058011944 Switch II region; other site 350058011945 G4 box; other site 350058011946 G5 box; other site 350058011947 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 350058011948 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 350058011949 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 350058011950 ligand-binding site [chemical binding]; other site 350058011951 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 350058011952 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 350058011953 Active Sites [active] 350058011954 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 350058011955 active site clefts [active] 350058011956 zinc binding site [ion binding]; other site 350058011957 dimer interface [polypeptide binding]; other site 350058011958 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 350058011959 DPG_synthase is involved in protein N-linked glycosylation; Region: DPG_synthase; cd04188 350058011960 Ligand binding site; other site 350058011961 Ligand binding site; other site 350058011962 Ligand binding site; other site 350058011963 Putative Catalytic site; other site 350058011964 DXD motif; other site 350058011965 GtrA-like protein; Region: GtrA; pfam04138 350058011966 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 350058011967 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 350058011968 HAMP domain; Region: HAMP; pfam00672 350058011969 dimerization interface [polypeptide binding]; other site 350058011970 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 350058011971 dimer interface [polypeptide binding]; other site 350058011972 phosphorylation site [posttranslational modification] 350058011973 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 350058011974 ATP binding site [chemical binding]; other site 350058011975 Mg2+ binding site [ion binding]; other site 350058011976 G-X-G motif; other site 350058011977 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 350058011978 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 350058011979 active site 350058011980 phosphorylation site [posttranslational modification] 350058011981 intermolecular recognition site; other site 350058011982 dimerization interface [polypeptide binding]; other site 350058011983 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 350058011984 DNA binding site [nucleotide binding] 350058011985 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 350058011986 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 350058011987 dimer interface [polypeptide binding]; other site 350058011988 conserved gate region; other site 350058011989 putative PBP binding loops; other site 350058011990 ABC-ATPase subunit interface; other site 350058011991 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 350058011992 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 350058011993 dimer interface [polypeptide binding]; other site 350058011994 conserved gate region; other site 350058011995 putative PBP binding loops; other site 350058011996 ABC-ATPase subunit interface; other site 350058011997 glutathione transporter ATP-binding protein; Provisional; Region: PRK10261 350058011998 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 350058011999 Walker A/P-loop; other site 350058012000 ATP binding site [chemical binding]; other site 350058012001 Q-loop/lid; other site 350058012002 ABC transporter signature motif; other site 350058012003 Walker B; other site 350058012004 D-loop; other site 350058012005 H-loop/switch region; other site 350058012006 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 350058012007 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 350058012008 Walker A/P-loop; other site 350058012009 ATP binding site [chemical binding]; other site 350058012010 Q-loop/lid; other site 350058012011 ABC transporter signature motif; other site 350058012012 Walker B; other site 350058012013 D-loop; other site 350058012014 H-loop/switch region; other site 350058012015 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 350058012016 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 350058012017 The substrate-binding domain of mycobacterial lipoprotein Lpqw contains type 2 periplasmic binding fold; Region: PBP2_Lpqw; cd08501 350058012018 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 350058012019 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 350058012020 AAA domain; Region: AAA_23; pfam13476 350058012021 Walker A/P-loop; other site 350058012022 ATP binding site [chemical binding]; other site 350058012023 DNA repair exonuclease [DNA replication, recombination, and repair]; Region: SbcD; COG0420 350058012024 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 350058012025 active site 350058012026 metal binding site [ion binding]; metal-binding site 350058012027 DNA binding site [nucleotide binding] 350058012028 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 350058012029 catalytic core [active] 350058012030 Protein of unknown function (DUF3558); Region: DUF3558; pfam12079 350058012031 Protein of unknown function (DUF3558); Region: DUF3558; pfam12079 350058012032 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 350058012033 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 350058012034 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 350058012035 Walker A/P-loop; other site 350058012036 ATP binding site [chemical binding]; other site 350058012037 Q-loop/lid; other site 350058012038 ABC transporter signature motif; other site 350058012039 Walker B; other site 350058012040 D-loop; other site 350058012041 H-loop/switch region; other site 350058012042 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 350058012043 ABC-type transport system involved in Fe-S cluster assembly, permease and ATPase components [Posttranslational modification, protein turnover, chaperones]; Region: ATM1; COG5265 350058012044 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 350058012045 Walker A/P-loop; other site 350058012046 ATP binding site [chemical binding]; other site 350058012047 Q-loop/lid; other site 350058012048 ABC transporter signature motif; other site 350058012049 Walker B; other site 350058012050 D-loop; other site 350058012051 H-loop/switch region; other site 350058012052 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 350058012053 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 350058012054 molybdopterin cofactor binding site; other site 350058012055 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 350058012056 molybdopterin cofactor binding site; other site 350058012057 Protein of unknown function (DUF2510); Region: DUF2510; pfam10708 350058012058 Mitochondrial biogenesis AIM24; Region: AIM24; pfam01987 350058012059 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 350058012060 putative active site [active] 350058012061 dimerization interface [polypeptide binding]; other site 350058012062 putative tRNAtyr binding site [nucleotide binding]; other site 350058012063 Domain of unknown function (DUF305); Region: DUF305; pfam03713 350058012064 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 350058012065 metal-binding site [ion binding] 350058012066 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 350058012067 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 350058012068 metal-binding site [ion binding] 350058012069 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 350058012070 Domain of unknown function (DUF222); Region: DUF222; pfam02720 350058012071 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 350058012072 active site 350058012073 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 350058012074 cyclase homology domain; Region: CHD; cd07302 350058012075 nucleotidyl binding site; other site 350058012076 metal binding site [ion binding]; metal-binding site 350058012077 dimer interface [polypeptide binding]; other site 350058012078 MUG-like Uracil-DNA glycosylase enzyme family; Region: UDG_MUG_like; cd10032 350058012079 putative active site [active] 350058012080 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 350058012081 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 350058012082 putative dimer interface [polypeptide binding]; other site 350058012083 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 350058012084 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 350058012085 HIT family signature motif; other site 350058012086 catalytic residue [active] 350058012087 Domain of unknown function (DUF385); Region: DUF385; pfam04075 350058012088 luciferase family oxidoreductase, group 1; Region: oxido_grp_1; TIGR03558 350058012089 probable oxidoreductase, LLM family; Region: LLM_2I7G; TIGR03858 350058012090 Family-5 Uracil-DNA glycosylases (UDG), found in thermophilic organisms; Region: UDG_F5_TTUDGB_like; cd10031 350058012091 Fe-S cluster binding site [ion binding]; other site 350058012092 DNA binding site [nucleotide binding] 350058012093 active site 350058012094 PknH-like extracellular domain; Region: PknH_C; pfam14032 350058012095 H+ Antiporter protein; Region: 2A0121; TIGR00900 350058012096 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 350058012097 FAD binding domain; Region: FAD_binding_4; pfam01565 350058012098 glycolate oxidase, subunit GlcD; Region: glcD; TIGR00387 350058012099 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 350058012100 Cytochrome P450; Region: p450; cl12078 350058012101 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 350058012102 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350058012103 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 350058012104 Sulfatase; Region: Sulfatase; pfam00884 350058012105 Siderophore-interacting protein [Inorganic ion transport and metabolism]; Region: ViuB; COG2375 350058012106 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 350058012107 FAD binding pocket [chemical binding]; other site 350058012108 FAD binding motif [chemical binding]; other site 350058012109 phosphate binding motif [ion binding]; other site 350058012110 NAD binding pocket [chemical binding]; other site 350058012111 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 350058012112 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 350058012113 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 350058012114 ATP binding site [chemical binding]; other site 350058012115 Mg++ binding site [ion binding]; other site 350058012116 motif III; other site 350058012117 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 350058012118 nucleotide binding region [chemical binding]; other site 350058012119 ATP-binding site [chemical binding]; other site 350058012120 RNA recognition motif in Escherichia coli cold-shock DEAD box protein A (CsdA) and similar proteins; Region: RRM_EcCsdA_like; cd12499 350058012121 putative RNA binding site [nucleotide binding]; other site 350058012122 LppP/LprE lipoprotein; Region: Lipoprotein_21; pfam14041 350058012123 Predicted nuclease (RecB family) [General function prediction only]; Region: COG2251 350058012124 RNase_H superfamily; Region: RNase_H_2; pfam13482 350058012125 Superfamily I DNA and RNA helicases and helicase subunits [DNA replication, recombination, and repair]; Region: COG1112 350058012126 Part of AAA domain; Region: AAA_19; pfam13245 350058012127 AAA domain; Region: AAA_12; pfam13087 350058012128 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 350058012129 FAD binding domain; Region: FAD_binding_4; pfam01565 350058012130 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 350058012131 Major Facilitator Superfamily; Region: MFS_1; pfam07690 350058012132 putative substrate translocation pore; other site 350058012133 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 350058012134 putative substrate translocation pore; other site 350058012135 alpha-ketoglutarate decarboxylase; Reviewed; Region: kgd; PRK12270 350058012136 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 350058012137 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 350058012138 TPP-binding site [chemical binding]; other site 350058012139 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 350058012140 Protein of unknown function (DUF732); Region: DUF732; pfam05305 350058012141 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 350058012142 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 350058012143 NAD(P) binding site [chemical binding]; other site 350058012144 active site 350058012145 Periplasmic glycine betaine/choline-binding (lipo)protein of an ABC-type transport system (osmoprotectant binding protein) [Cell envelope biogenesis, outer membrane]; Region: OpuBC; COG1732 350058012146 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 350058012147 Malic enzyme [Energy production and conversion]; Region: SfcA; COG0281 350058012148 Malic enzyme, N-terminal domain; Region: malic; pfam00390 350058012149 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 350058012150 putative NAD(P) binding site [chemical binding]; other site 350058012151 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 350058012152 Mycobacterium tuberculosis CorA-like subfamily; Region: MtCorA-like; cd12830 350058012153 oligomer interface [polypeptide binding]; other site 350058012154 metal binding site [ion binding]; metal-binding site 350058012155 metal binding site [ion binding]; metal-binding site 350058012156 putative Cl binding site [ion binding]; other site 350058012157 basic sphincter; other site 350058012158 hydrophobic gate; other site 350058012159 periplasmic entrance; other site 350058012160 Suppressor of fused protein (SUFU); Region: SUFU; pfam05076 350058012161 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 350058012162 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 350058012163 Walker A/P-loop; other site 350058012164 ATP binding site [chemical binding]; other site 350058012165 Q-loop/lid; other site 350058012166 ABC transporter signature motif; other site 350058012167 Walker B; other site 350058012168 D-loop; other site 350058012169 H-loop/switch region; other site 350058012170 Domain of unknown function (DUF4190); Region: DUF4190; pfam13828 350058012171 Citrate lyase beta subunit [Carbohydrate transport and metabolism]; Region: CitE; COG2301 350058012172 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 350058012173 MgtE intracellular N domain; Region: MgtE_N; smart00924 350058012174 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 350058012175 Protein of unknown function (DUF1003); Region: DUF1003; pfam06210 350058012176 Membrane-bound lytic murein transglycosylase B [Cell envelope biogenesis, outer membrane]; Region: MltB; COG2951 350058012177 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 350058012178 N-acetyl-D-glucosamine binding site [chemical binding]; other site 350058012179 Transposase; Region: DEDD_Tnp_IS110; pfam01548 350058012180 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 350058012181 Predicted metal-sulfur cluster biosynthetic enzyme [General function prediction only]; Region: PaaD; COG2151 350058012182 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Mrp; COG0489 350058012183 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 350058012184 sec-independent translocase; Provisional; Region: PRK03100 350058012185 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 350058012186 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 350058012187 protein binding site [polypeptide binding]; other site 350058012188 mycothiol system anti-sigma-R factor; Region: antisig_RsrA; cl15806 350058012189 RNA polymerase sigma factor SigE; Reviewed; Region: PRK09647 350058012190 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 350058012191 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 350058012192 DNA binding residues [nucleotide binding] 350058012193 Predicted O-methyltransferase [General function prediction only]; Region: COG4122 350058012194 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 350058012195 S-adenosylmethionine binding site [chemical binding]; other site 350058012196 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 350058012197 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350058012198 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 350058012199 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 350058012200 Walker A/P-loop; other site 350058012201 ATP binding site [chemical binding]; other site 350058012202 Q-loop/lid; other site 350058012203 ABC transporter signature motif; other site 350058012204 Walker B; other site 350058012205 D-loop; other site 350058012206 H-loop/switch region; other site 350058012207 Putative exporter of polyketide antibiotics [Cell envelope biogenesis, outer membrane]; Region: TnrB3; COG3559 350058012208 Putative exporter of polyketide antibiotics [Cell envelope biogenesis, outer membrane]; Region: TnrB3; COG3559 350058012209 Putative protein-S-isoprenylcysteine methyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: STE14; COG2020 350058012210 Domain of unknown function (DUF4126); Region: DUF4126; pfam13548 350058012211 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK00844 350058012212 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 350058012213 ligand binding site; other site 350058012214 oligomer interface; other site 350058012215 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 350058012216 dimer interface [polypeptide binding]; other site 350058012217 N-terminal domain interface [polypeptide binding]; other site 350058012218 sulfate 1 binding site; other site 350058012219 glycogen synthase, Corynebacterium family; Region: glgA_Coryne; TIGR02149 350058012220 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 350058012221 Protein of unknown function (DUF3117); Region: DUF3117; pfam11314 350058012222 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 350058012223 DivIVA domain; Region: DivI1A_domain; TIGR03544 350058012224 putative glucosyl-3-phosphoglycerate synthase; Provisional; Region: PRK13915 350058012225 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 350058012226 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 350058012227 dihydropteroate synthase; Region: DHPS; TIGR01496 350058012228 substrate binding pocket [chemical binding]; other site 350058012229 dimer interface [polypeptide binding]; other site 350058012230 inhibitor binding site; inhibition site 350058012231 long-chain-acyl-CoA synthetase; Validated; Region: PRK08279 350058012232 Fatty acid transport proteins (FATP) play dual roles as fatty acid transporters and its activation enzymes; Region: FATP_FACS; cd05940 350058012233 acyl-activating enzyme (AAE) consensus motif; other site 350058012234 putative AMP binding site [chemical binding]; other site 350058012235 putative active site [active] 350058012236 putative CoA binding site [chemical binding]; other site 350058012237 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 350058012238 AAA domain; Region: AAA_22; pfam13401 350058012239 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 350058012240 active site 350058012241 Protein of unknown function (DUF2580); Region: DUF2580; pfam10824 350058012242 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 350058012243 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 350058012244 Walker A/P-loop; other site 350058012245 ATP binding site [chemical binding]; other site 350058012246 Q-loop/lid; other site 350058012247 ABC transporter signature motif; other site 350058012248 Walker B; other site 350058012249 D-loop; other site 350058012250 H-loop/switch region; other site 350058012251 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 350058012252 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13007 350058012253 M20 Peptidase actinobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_actinobac; cd05647 350058012254 metal binding site [ion binding]; metal-binding site 350058012255 putative dimer interface [polypeptide binding]; other site 350058012256 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 350058012257 PyridoxaL 5'-Phosphate Dependent Enzymes class IV (PLPDE_IV). This D-amino acid superfamily, one of five classes of PLPDE, consists of branched-chain amino acid aminotransferases (BCAT), D-amino acid transferases (DAAT), and...; Region: PLPDE_IV; cl00224 350058012258 homodimer interface [polypeptide binding]; other site 350058012259 substrate-cofactor binding pocket; other site 350058012260 pyridoxal 5'-phosphate binding site [chemical binding]; other site 350058012261 catalytic residue [active] 350058012262 permease, urea carboxylase system; Region: ureacarb_perm; TIGR03428 350058012263 Transcriptional regulator [Transcription]; Region: LysR; COG0583 350058012264 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 350058012265 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 350058012266 dimerization interface [polypeptide binding]; other site 350058012267 substrate binding pocket [chemical binding]; other site 350058012268 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate N-succinyltransferase; Region: DapD_actino; TIGR03535 350058012269 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 350058012270 putative trimer interface [polypeptide binding]; other site 350058012271 putative CoA binding site [chemical binding]; other site 350058012272 D-alanyl-D-alanine carboxypeptidase; Region: VanY; pfam02557 350058012273 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 350058012274 active site 350058012275 acyl-CoA synthetase; Validated; Region: PRK07787 350058012276 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 350058012277 acyl-activating enzyme (AAE) consensus motif; other site 350058012278 AMP binding site [chemical binding]; other site 350058012279 active site 350058012280 CoA binding site [chemical binding]; other site 350058012281 nudix-type nucleoside diphosphatase, YffH/AdpP family; Region: TIGR00052 350058012282 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 350058012283 dimer interface [polypeptide binding]; other site 350058012284 active site 350058012285 ADP-ribose binding site [chemical binding]; other site 350058012286 nudix motif; other site 350058012287 metal binding site [ion binding]; metal-binding site 350058012288 Proline dehydrogenase; Region: Pro_dh; cl03282 350058012289 Delta(1)-pyrroline-5-carboxylate dehydrogenase, ALDH families 4 and 17; Region: ALDH_F4-17_P5CDH; cd07123 350058012290 delta-1-pyrroline-5-carboxylate dehydrogenase, group 1; Region: D1pyr5carbox1; TIGR01236 350058012291 Glutamate binding site [chemical binding]; other site 350058012292 NAD binding site [chemical binding]; other site 350058012293 catalytic residues [active] 350058012294 Regulator of polyketide synthase expression [Signal transduction mechanisms / Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2508 350058012295 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 350058012296 N-succinyldiaminopimelate aminotransferase; Reviewed; Region: PRK07865 350058012297 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 350058012298 pyridoxal 5'-phosphate binding site [chemical binding]; other site 350058012299 homodimer interface [polypeptide binding]; other site 350058012300 catalytic residue [active] 350058012301 Ferredoxin [Energy production and conversion]; Region: COG1146 350058012302 4Fe-4S binding domain; Region: Fer4; pfam00037 350058012303 glycosyl hydrolase family 16; Region: Glyco_hydrolase_16; cd00413 350058012304 active site 350058012305 catalytic residues [active] 350058012306 Uncharacterized conserved protein [Function unknown]; Region: COG2353 350058012307 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 350058012308 FO synthase; Reviewed; Region: fbiC; PRK09234 350058012309 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 350058012310 FeS/SAM binding site; other site 350058012311 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 350058012312 FeS/SAM binding site; other site 350058012313 N-acetyl-1-D-myo-inositol-2-amino-2-deoxy-alpha-D- glucopyranoside deacetylase; Region: mycothiol_MshB; TIGR03445 350058012314 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 350058012315 FMN binding site [chemical binding]; other site 350058012316 substrate binding site [chemical binding]; other site 350058012317 putative catalytic residue [active] 350058012318 CLC voltage-gated chloride channel. The ClC chloride channels catalyse the selective flow of Cl- ions across cell membranes, thereby regulating electrical excitation in skeletal muscle and the flow of salt and water across epithelial barriers. This...; Region: Voltage_gated_ClC; cl02915 350058012319 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 350058012320 Cl- selectivity filter; other site 350058012321 Cl- binding residues [ion binding]; other site 350058012322 pore gating glutamate residue; other site 350058012323 dimer interface [polypeptide binding]; other site 350058012324 The substrate-binding domain of mycobacterial lipoprotein Lpqw contains type 2 periplasmic binding fold; Region: PBP2_Lpqw; cd08501 350058012325 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 350058012326 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 350058012327 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 350058012328 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 350058012329 G1 box; other site 350058012330 putative GEF interaction site [polypeptide binding]; other site 350058012331 GTP/Mg2+ binding site [chemical binding]; other site 350058012332 Switch I region; other site 350058012333 G2 box; other site 350058012334 G3 box; other site 350058012335 Switch II region; other site 350058012336 G4 box; other site 350058012337 G5 box; other site 350058012338 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 350058012339 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 350058012340 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 350058012341 Nitrate reductase gamma subunit; Region: Nitrate_red_gam; pfam02665 350058012342 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 350058012343 Nitrate reductase beta subunit [Energy production and conversion]; Region: NarY; COG1140 350058012344 Nitrate reductase alpha subunit [Energy production and conversion]; Region: NarG; COG5013 350058012345 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 350058012346 [4Fe-4S] binding site [ion binding]; other site 350058012347 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 350058012348 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 350058012349 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 350058012350 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 350058012351 molybdopterin cofactor binding site; other site 350058012352 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 350058012353 nitrite extrusion protein (nitrite facilitator); Region: 2A0108; TIGR00886 350058012354 putative substrate translocation pore; other site 350058012355 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 350058012356 active site 350058012357 8-oxo-dGMP binding site [chemical binding]; other site 350058012358 nudix motif; other site 350058012359 metal binding site [ion binding]; metal-binding site 350058012360 PCD_DCoH: The bifunctional protein pterin-4alpha-carbinolamine dehydratase (PCD), also known as DCoH (dimerization cofactor of hepatocyte nuclear factor-1), is both a transcription activator and a metabolic enzyme. DCoH stimulates gene expression by...; Region: PCD_DCoH; cd00488 350058012361 aromatic arch; other site 350058012362 DCoH dimer interaction site [polypeptide binding]; other site 350058012363 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 350058012364 DCoH tetramer interaction site [polypeptide binding]; other site 350058012365 substrate binding site [chemical binding]; other site 350058012366 mannosyltransferase; Provisional; Region: pimE; PRK13375 350058012367 bifunctional heptose 7-phosphate kinase/heptose 1-phosphate adenyltransferase; Provisional; Region: PRK11316 350058012368 FMN binding site [chemical binding]; other site 350058012369 Nitroreductase family; Region: Nitroreductase; pfam00881 350058012370 dimer interface [polypeptide binding]; other site 350058012371 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 350058012372 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 350058012373 Presynaptic Site I dimer interface [polypeptide binding]; other site 350058012374 catalytic residues [active] 350058012375 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 350058012376 Synaptic Flat tetramer interface [polypeptide binding]; other site 350058012377 Synaptic Site I dimer interface [polypeptide binding]; other site 350058012378 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 350058012379 minor groove reading motif; other site 350058012380 helix-hairpin-helix signature motif; other site 350058012381 Domain of unknown function (DUF222); Region: DUF222; pfam02720 350058012382 Domain of unknown function (DUF222); Region: DUF222; pfam02720 350058012383 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 350058012384 active site 350058012385 Histidine kinase; Region: His_kinase; pfam06580 350058012386 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 350058012387 ATP binding site [chemical binding]; other site 350058012388 Mg2+ binding site [ion binding]; other site 350058012389 G-X-G motif; other site 350058012390 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 350058012391 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 350058012392 active site 350058012393 phosphorylation site [posttranslational modification] 350058012394 intermolecular recognition site; other site 350058012395 dimerization interface [polypeptide binding]; other site 350058012396 LytTr DNA-binding domain; Region: LytTR; smart00850 350058012397 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 350058012398 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 350058012399 Na binding site [ion binding]; other site 350058012400 Protein of unknown function, DUF485; Region: DUF485; pfam04341 350058012401 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 350058012402 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 350058012403 Na binding site [ion binding]; other site 350058012404 PPOX class probable F420-dependent enzyme; Region: Rv1155_F420; TIGR03618 350058012405 O-Methyltransferase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3315 350058012406 Leucine carboxyl methyltransferase; Region: LCM; pfam04072 350058012407 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 350058012408 DNA-binding site [nucleotide binding]; DNA binding site 350058012409 NAD-dependent deacetylase; Provisional; Region: PRK00481 350058012410 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 350058012411 NAD+ binding site [chemical binding]; other site 350058012412 substrate binding site [chemical binding]; other site 350058012413 Zn binding site [ion binding]; other site 350058012414 Methyltransferase domain; Region: Methyltransf_11; pfam08241 350058012415 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 350058012416 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350058012417 WHG domain; Region: WHG; pfam13305 350058012418 MMPL family; Region: MMPL; pfam03176 350058012419 MMPL family; Region: MMPL; pfam03176 350058012420 Predicted membrane protein [Function unknown]; Region: COG2259 350058012421 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 350058012422 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 350058012423 FMN binding site [chemical binding]; other site 350058012424 substrate binding site [chemical binding]; other site 350058012425 putative catalytic residue [active] 350058012426 17hydroxysteroid dehydrogenase type 10 (HSD10)-like, classical (c) SDRs; Region: HSD10-like_SDR_c; cd05371 350058012427 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 350058012428 NAD binding site [chemical binding]; other site 350058012429 homodimer interface [polypeptide binding]; other site 350058012430 homotetramer interface [polypeptide binding]; other site 350058012431 active site 350058012432 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 350058012433 CoA-transferase family III; Region: CoA_transf_3; pfam02515 350058012434 enoyl-CoA hydratase; Provisional; Region: PRK06688 350058012435 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 350058012436 substrate binding site [chemical binding]; other site 350058012437 oxyanion hole (OAH) forming residues; other site 350058012438 trimer interface [polypeptide binding]; other site 350058012439 H+ Antiporter protein; Region: 2A0121; TIGR00900 350058012440 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 350058012441 Transposase; Region: DEDD_Tnp_IS110; pfam01548 350058012442 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 350058012443 CAAX protease self-immunity; Region: Abi; pfam02517 350058012444 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 350058012445 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 350058012446 NAD(P) binding site [chemical binding]; other site 350058012447 active site 350058012448 3-ketoacyl-(acyl-carrier-protein) reductase; Reviewed; Region: PRK12826 350058012449 retinol dehydrogenase (retinol-DH), Light dependent Protochlorophyllide (Pchlide) OxidoReductase (LPOR) and related proteins, classical (c) SDRs; Region: retinol-DH_like_SDR_c_like; cd05327 350058012450 putative NAD(P) binding site [chemical binding]; other site 350058012451 active site 350058012452 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 350058012453 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350058012454 Fasciclin domain; Region: Fasciclin; pfam02469 350058012455 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 350058012456 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 350058012457 active site 350058012458 enoyl-CoA hydratase; Provisional; Region: PRK08252 350058012459 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 350058012460 substrate binding site [chemical binding]; other site 350058012461 oxyanion hole (OAH) forming residues; other site 350058012462 trimer interface [polypeptide binding]; other site 350058012463 acetyl-CoA acetyltransferase; Provisional; Region: PRK06504 350058012464 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 350058012465 dimer interface [polypeptide binding]; other site 350058012466 active site 350058012467 Transcriptional regulators [Transcription]; Region: FadR; COG2186 350058012468 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 350058012469 FCD domain; Region: FCD; pfam07729 350058012470 Transmembrane protein of unknown function (DUF3556); Region: DUF3556; pfam12077 350058012471 Predicted membrane protein [Function unknown]; Region: COG2259 350058012472 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 350058012473 classical (c) SDRs; Region: SDR_c; cd05233 350058012474 NAD(P) binding site [chemical binding]; other site 350058012475 active site 350058012476 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 350058012477 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350058012478 Lignostilbene-alpha,beta-dioxygenase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3670 350058012479 Retinal pigment epithelial membrane protein; Region: RPE65; pfam03055 350058012480 virulence factor Mce family protein; Region: Mtu_fam_mce; TIGR00996 350058012481 mce related protein; Region: MCE; pfam02470 350058012482 virulence factor Mce family protein; Region: Mtu_fam_mce; TIGR00996 350058012483 mce related protein; Region: MCE; pfam02470 350058012484 Protein of unknown function (DUF3407); Region: DUF3407; pfam11887 350058012485 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 350058012486 mce related protein; Region: MCE; pfam02470 350058012487 virulence factor Mce family protein; Region: Mtu_fam_mce; TIGR00996 350058012488 mce related protein; Region: MCE; pfam02470 350058012489 virulence factor Mce family protein; Region: Mtu_fam_mce; TIGR00996 350058012490 mce related protein; Region: MCE; pfam02470 350058012491 Protein of unknown function (DUF3407); Region: DUF3407; pfam11887 350058012492 virulence factor Mce family protein; Region: Mtu_fam_mce; TIGR00996 350058012493 mce related protein; Region: MCE; pfam02470 350058012494 Protein of unknown function (DUF3407); Region: DUF3407; pfam11887 350058012495 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 350058012496 Permease; Region: Permease; pfam02405 350058012497 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 350058012498 Permease; Region: Permease; pfam02405 350058012499 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 350058012500 dimer interface [polypeptide binding]; other site 350058012501 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 350058012502 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350058012503 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 350058012504 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 350058012505 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 350058012506 hypothetical protein; Provisional; Region: PRK06149 350058012507 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 350058012508 active site 350058012509 ATP binding site [chemical binding]; other site 350058012510 substrate binding site [chemical binding]; other site 350058012511 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 350058012512 inhibitor-cofactor binding pocket; inhibition site 350058012513 pyridoxal 5'-phosphate binding site [chemical binding]; other site 350058012514 catalytic residue [active] 350058012515 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 350058012516 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 350058012517 cyclase homology domain; Region: CHD; cd07302 350058012518 nucleotidyl binding site; other site 350058012519 metal binding site [ion binding]; metal-binding site 350058012520 dimer interface [polypeptide binding]; other site 350058012521 Orthopoxvirus protein of unknown function (DUF830); Region: DUF830; cl13998 350058012522 Domain of unknown function (DUF385); Region: DUF385; cl04387 350058012523 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 350058012524 S-adenosylmethionine binding site [chemical binding]; other site 350058012525 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 350058012526 S-adenosylmethionine binding site [chemical binding]; other site 350058012527 Domain of unknown function (DUF222); Region: DUF222; pfam02720 350058012528 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 350058012529 active site 350058012530 Domain of unknown function (DU1801); Region: DUF1801; cl17490 350058012531 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 350058012532 classical (c) SDRs; Region: SDR_c; cd05233 350058012533 NAD(P) binding site [chemical binding]; other site 350058012534 active site 350058012535 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 350058012536 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 350058012537 GTP-binding protein YchF; Reviewed; Region: PRK09601 350058012538 YchF GTPase; Region: YchF; cd01900 350058012539 G1 box; other site 350058012540 GTP/Mg2+ binding site [chemical binding]; other site 350058012541 Switch I region; other site 350058012542 G2 box; other site 350058012543 Switch II region; other site 350058012544 G3 box; other site 350058012545 G4 box; other site 350058012546 G5 box; other site 350058012547 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 350058012548 Domain of unknown function (DUF202); Region: DUF202; pfam02656 350058012549 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 350058012550 Sulfatase; Region: Sulfatase; pfam00884 350058012551 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 350058012552 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 350058012553 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 350058012554 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 350058012555 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 350058012556 generic binding surface II; other site 350058012557 generic binding surface I; other site 350058012558 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 350058012559 3beta-hydroxysteroid dehydrogenases (3b-HSD)-like, extended (e) SDRs; Region: 3b-HSD-like_SDR_e; cd05241 350058012560 3-beta hydroxysteroid dehydrogenase/isomerase family; Region: 3Beta_HSD; pfam01073 350058012561 putative NAD(P) binding site [chemical binding]; other site 350058012562 active site 350058012563 putative substrate binding site [chemical binding]; other site 350058012564 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 350058012565 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 350058012566 haloacid dehalogenase-like hydrolase; Region: HAD; pfam12710 350058012567 Uncharacterized conserved protein [Function unknown]; Region: COG1262 350058012568 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 350058012569 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 350058012570 metal binding site [ion binding]; metal-binding site 350058012571 active site 350058012572 I-site; other site 350058012573 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 350058012574 RibD C-terminal domain; Region: RibD_C; cl17279 350058012575 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 350058012576 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cd07812 350058012577 hydrophobic ligand binding site; other site 350058012578 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 350058012579 classical (c) SDRs; Region: SDR_c; cd05233 350058012580 NAD(P) binding site [chemical binding]; other site 350058012581 active site 350058012582 classical (c) SDRs; Region: SDR_c; cd05233 350058012583 short chain dehydrogenase; Provisional; Region: PRK05650 350058012584 NAD(P) binding site [chemical binding]; other site 350058012585 active site 350058012586 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 350058012587 Domain of unknown function DUF20; Region: UPF0118; pfam01594 350058012588 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 350058012589 Protein of unknown function (DUF4245); Region: DUF4245; pfam14030 350058012590 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 350058012591 Bacterial fructose-1,6-bisphosphatase, glpX-encoded; Region: FBPase_glpX; pfam03320 350058012592 putative active site [active] 350058012593 fumarate hydratase; Reviewed; Region: fumC; PRK00485 350058012594 Class II fumarases; Region: Fumarase_classII; cd01362 350058012595 active site 350058012596 tetramer interface [polypeptide binding]; other site 350058012597 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 350058012598 Catalytic NodB homology domain of rhizobial NodB-like proteins; Region: CE4_NodB_like_6s_7s; cd10917 350058012599 NodB motif; other site 350058012600 active site 350058012601 catalytic site [active] 350058012602 metal binding site [ion binding]; metal-binding site 350058012603 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]; Region: COG1875 350058012604 PIN domain of bacterial Smg6-like homologs with PhoH-like ATPase domains; Region: PIN_PhoHL-ATPase; cd09883 350058012605 putative active site [active] 350058012606 PhoH-like protein; Region: PhoH; pfam02562 350058012607 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 350058012608 dinuclear metal binding motif [ion binding]; other site 350058012609 Helix-turn-helix domain; Region: HTH_38; pfam13936 350058012610 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 350058012611 Integrase core domain; Region: rve; pfam00665 350058012612 Transposase; Region: DEDD_Tnp_IS110; pfam01548 350058012613 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 350058012614 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 350058012615 serine hydroxymethyltransferase; Provisional; Region: PRK13580 350058012616 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 350058012617 dimer interface [polypeptide binding]; other site 350058012618 active site 350058012619 glycine-pyridoxal phosphate binding site [chemical binding]; other site 350058012620 folate binding site [chemical binding]; other site 350058012621 pantothenate kinase; Provisional; Region: PRK05439 350058012622 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 350058012623 ATP-binding site [chemical binding]; other site 350058012624 CoA-binding site [chemical binding]; other site 350058012625 Mg2+-binding site [ion binding]; other site 350058012626 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 350058012627 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 350058012628 catalytic residue [active] 350058012629 putative FPP diphosphate binding site; other site 350058012630 putative FPP binding hydrophobic cleft; other site 350058012631 dimer interface [polypeptide binding]; other site 350058012632 putative IPP diphosphate binding site; other site 350058012633 Predicted membrane protein, hemolysin III homolog [General function prediction only]; Region: COG1272 350058012634 channel protein, hemolysin III family; Region: hlyIII; TIGR01065 350058012635 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 350058012636 Highly conserved protein containing a thioredoxin domain [Posttranslational modification, protein turnover, chaperones]; Region: COG1331 350058012637 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 350058012638 catalytic residues [active] 350058012639 mycothiol conjugate amidase Mca; Region: mycothiol_Mca; TIGR03446 350058012640 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 350058012641 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 350058012642 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 350058012643 Golgi phosphoprotein 3 (GPP34); Region: GPP34; pfam05719 350058012644 cystathionine gamma-synthase; Provisional; Region: PRK07811 350058012645 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 350058012646 homodimer interface [polypeptide binding]; other site 350058012647 substrate-cofactor binding pocket; other site 350058012648 pyridoxal 5'-phosphate binding site [chemical binding]; other site 350058012649 catalytic residue [active] 350058012650 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 350058012651 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 350058012652 active site 350058012653 RDD family; Region: RDD; pfam06271 350058012654 Predicted integral membrane protein (DUF2189); Region: DUF2189; pfam09955 350058012655 cystathionine beta-synthase; Region: cysta_beta; TIGR01137 350058012656 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 350058012657 dimer interface [polypeptide binding]; other site 350058012658 pyridoxal 5'-phosphate binding site [chemical binding]; other site 350058012659 catalytic residue [active] 350058012660 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 350058012661 Esterase/lipase [Lipid metabolism]; Region: Aes; COG0657 350058012662 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 350058012663 substrate binding pocket [chemical binding]; other site 350058012664 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 350058012665 active site 350058012666 catalytic triad [active] 350058012667 oxyanion hole [active] 350058012668 acetyl-CoA acetyltransferase; Provisional; Region: PRK07851 350058012669 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 350058012670 dimer interface [polypeptide binding]; other site 350058012671 active site 350058012672 phosphoribosylglycinamide formyltransferase 2; Validated; Region: purT; PRK09288 350058012673 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 350058012674 ATP-grasp domain; Region: ATP-grasp; pfam02222 350058012675 Bax inhibitor 1 like; Region: BaxI_1; cl17691 350058012676 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 350058012677 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 350058012678 substrate binding site [chemical binding]; other site 350058012679 oxyanion hole (OAH) forming residues; other site 350058012680 trimer interface [polypeptide binding]; other site 350058012681 2-enoyl-CoA Hydratase C-terminal region; Region: ECH_C; pfam13766 350058012682 enoyl-CoA hydratase; Provisional; Region: PRK05862 350058012683 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 350058012684 substrate binding site [chemical binding]; other site 350058012685 oxyanion hole (OAH) forming residues; other site 350058012686 trimer interface [polypeptide binding]; other site 350058012687 Predicted membrane protein [Function unknown]; Region: COG4425 350058012688 Predicted membrane protein (DUF2319); Region: DUF2319; pfam10081 350058012689 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 350058012690 active site residue [active] 350058012691 Cysteine dioxygenase type I; Region: CDO_I; pfam05995 350058012692 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 350058012693 dimerization interface [polypeptide binding]; other site 350058012694 putative DNA binding site [nucleotide binding]; other site 350058012695 putative Zn2+ binding site [ion binding]; other site 350058012696 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 350058012697 putative hydrophobic ligand binding site [chemical binding]; other site 350058012698 hypothetical protein; Provisional; Region: PRK10279 350058012699 Bacterial patatin-like phospholipase domain containing protein 6; Region: Pat_NTE_like_bacteria; cd07228 350058012700 active site 350058012701 nucleophile elbow; other site 350058012702 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 350058012703 nucleophile elbow; other site 350058012704 Polyketide cyclase / dehydrase and lipid transport; Region: Polyketide_cyc2; pfam10604 350058012705 hydrophobic ligand binding site; other site 350058012706 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 350058012707 S-adenosylmethionine binding site [chemical binding]; other site 350058012708 Helix-Turn-Helix DNA binding domain of putative transcription regulators from the MerR superfamily; Region: HTH_MerR-like_sg6; cd04781 350058012709 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 350058012710 DNA binding residues [nucleotide binding] 350058012711 putative dimer interface [polypeptide binding]; other site 350058012712 putative metal binding residues [ion binding]; other site 350058012713 Uncharacterized conserved protein related to dihydrodipicolinate reductase [Function unknown]; Region: COG3804 350058012714 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 350058012715 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 350058012716 Catalytic domain of Protein Kinases; Region: PKc; cd00180 350058012717 active site 350058012718 ATP binding site [chemical binding]; other site 350058012719 substrate binding site [chemical binding]; other site 350058012720 activation loop (A-loop); other site 350058012721 lipid-transfer protein; Provisional; Region: PRK08256 350058012722 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 350058012723 active site 350058012724 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 350058012725 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 350058012726 Signal transduction histidine kinase regulating citrate/malate metabolism [Signal transduction mechanisms]; Region: CitA; COG3290 350058012727 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 350058012728 ATP binding site [chemical binding]; other site 350058012729 Mg2+ binding site [ion binding]; other site 350058012730 G-X-G motif; other site 350058012731 Response regulator of citrate/malate metabolism [Transcription / Signal transduction mechanisms]; Region: CitB; COG4565 350058012732 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 350058012733 active site 350058012734 phosphorylation site [posttranslational modification] 350058012735 intermolecular recognition site; other site 350058012736 dimerization interface [polypeptide binding]; other site 350058012737 Sugar-specific transcriptional regulator TrmB; Region: TrmB; cl17775 350058012738 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 350058012739 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 350058012740 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 350058012741 anti sigma factor interaction site; other site 350058012742 regulatory phosphorylation site [posttranslational modification]; other site 350058012743 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 350058012744 anti sigma factor interaction site; other site 350058012745 regulatory phosphorylation site [posttranslational modification]; other site 350058012746 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 350058012747 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 350058012748 substrate binding pocket [chemical binding]; other site 350058012749 membrane-bound complex binding site; other site 350058012750 hinge residues; other site 350058012751 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 350058012752 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 350058012753 dimer interface [polypeptide binding]; other site 350058012754 conserved gate region; other site 350058012755 putative PBP binding loops; other site 350058012756 ABC-ATPase subunit interface; other site 350058012757 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 350058012758 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 350058012759 Walker A/P-loop; other site 350058012760 ATP binding site [chemical binding]; other site 350058012761 Q-loop/lid; other site 350058012762 ABC transporter signature motif; other site 350058012763 Walker B; other site 350058012764 D-loop; other site 350058012765 H-loop/switch region; other site 350058012766 Predicted membrane protein [Function unknown]; Region: COG2119 350058012767 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 350058012768 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 350058012769 yybP-ykoY element as predicted by Rfam (RF00080), score 48.62; Mvan_R0044 350058012770 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 350058012771 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 350058012772 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 350058012773 DNA binding residues [nucleotide binding] 350058012774 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 350058012775 catalytic residues [active] 350058012776 Peroxiredoxin (PRX)-like 2 family; hypothetical proteins that show sequence similarity to PRXs. Members of this group contain a CXXC motif, similar to TRX. The second cysteine in the motif corresponds to the peroxidatic cysteine of PRX, however, these...; Region: PRX_like2; cd02970 350058012777 putative catalytic residues [active] 350058012778 Protein of unknown function (DUF732); Region: DUF732; pfam05305 350058012779 Protein of unknown function (DUF2752); Region: DUF2752; pfam10825 350058012780 Interferon-induced transmembrane protein; Region: CD225; pfam04505 350058012781 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 350058012782 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 350058012783 Cl- selectivity filter; other site 350058012784 Cl- binding residues [ion binding]; other site 350058012785 pore gating glutamate residue; other site 350058012786 dimer interface [polypeptide binding]; other site 350058012787 H+/Cl- coupling transport residue; other site 350058012788 Domain of unknown function (DUF427); Region: DUF427; cl00998 350058012789 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2343 350058012790 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 350058012791 Coenzyme A binding pocket [chemical binding]; other site 350058012792 acyltransferase, WS/DGAT/MGAT; Region: acyl_WS_DGAT; TIGR02946 350058012793 Wax ester synthase-like Acyl-CoA acyltransferase domain; Region: WES_acyltransf; pfam03007 350058012794 PE-PPE domain; Region: PE-PPE; pfam08237 350058012795 D-ala-D-ala dipeptidase; Region: Peptidase_M15; cl00813 350058012796 Domain of unknown function (DUF222); Region: DUF222; pfam02720 350058012797 PE-PPE domain; Region: PE-PPE; pfam08237 350058012798 Pseudomonas fluorescens MupV-like, extended (e) SDRs; Region: MupV_like_SDR_e; cd05263 350058012799 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 350058012800 putative NAD(P) binding site [chemical binding]; other site 350058012801 active site 350058012802 putative substrate binding site [chemical binding]; other site 350058012803 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 350058012804 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350058012805 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 350058012806 Protein of unknown function (DUF1348); Region: DUF1348; pfam07080 350058012807 SnoaL-like domain; Region: SnoaL_2; pfam12680 350058012808 Epoxide hydrolase N terminus; Region: EHN; pfam06441 350058012809 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 350058012810 Transcriptional regulator [Transcription]; Region: LysR; COG0583 350058012811 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 350058012812 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 350058012813 dimerization interface [polypeptide binding]; other site 350058012814 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain superfamily; Region: NTP-PPase; cl16941 350058012815 metal binding site [ion binding]; metal-binding site 350058012816 Domain of unknown function (DUF4344); Region: DUF4344; pfam14247 350058012817 PknH-like extracellular domain; Region: PknH_C; pfam14032 350058012818 glycosyl hydrolase 64 family; Region: GH64-like; cd09214 350058012819 substrate binding pocket [chemical binding]; other site 350058012820 catalytic residues [active] 350058012821 Transposase, Mutator family; Region: Transposase_mut; pfam00872 350058012822 MULE transposase domain; Region: MULE; pfam10551 350058012823 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 350058012824 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like6; cd05664 350058012825 metal binding site [ion binding]; metal-binding site 350058012826 putative dimer interface [polypeptide binding]; other site 350058012827 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 350058012828 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 350058012829 transcription termination factor Rho; Provisional; Region: PRK12678 350058012830 Topoisomerase IB [DNA replication, recombination, and repair]; Region: COG3569 350058012831 Eukaryotic DNA topoisomerase I, catalytic core; Region: Topoisom_I; pfam01028 350058012832 active site 350058012833 DNA binding site [nucleotide binding] 350058012834 Int/Topo IB signature motif; other site 350058012835 Glutathione-dependent formaldehyde dehydrogenase related proteins, child 1; Region: FDH_like_1; cd08283 350058012836 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 350058012837 NAD binding site [chemical binding]; other site 350058012838 catalytic Zn binding site [ion binding]; other site 350058012839 structural Zn binding site [ion binding]; other site 350058012840 Hemerythrin-like domain; Region: Hr-like; cd12108 350058012841 Flavin reductase like domain; Region: Flavin_Reduct; pfam01613 350058012842 hypothetical protein; Provisional; Region: PRK14059 350058012843 Pyrimidine reductase, riboflavin biosynthesis [Coenzyme metabolism]; Region: RibD; COG1985 350058012844 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 350058012845 short chain dehydrogenase; Provisional; Region: PRK06701 350058012846 NAD(P) binding site [chemical binding]; other site 350058012847 active site 350058012848 Protein of unknown function (DUF4235); Region: DUF4235; pfam14019 350058012849 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 350058012850 potassium-transporting ATPase subunit A; Provisional; Region: PRK05482 350058012851 potassium-transporting ATPase subunit B; Provisional; Region: PRK01122 350058012852 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 350058012853 Soluble P-type ATPase [General function prediction only]; Region: COG4087 350058012854 K+-transporting ATPase, c chain; Region: KdpC; cl00944 350058012855 K+-transporting ATPase, c chain; Region: KdpC; cl00944 350058012856 Osmosensitive K+ channel histidine kinase [Signal transduction mechanisms]; Region: KdpD; COG2205 350058012857 Osmosensitive K+ channel His kinase sensor domain; Region: KdpD; pfam02702 350058012858 USP domain is located between the N-terminal sensor domain and C-terminal catalytic domain of this Osmosensitive K+ channel histidine kinase family. The family of KdpD sensor kinase proteins regulates the kdpFABC operon responsible for potassium...; Region: USP_OKCHK; cd01987 350058012859 Ligand Binding Site [chemical binding]; other site 350058012860 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 350058012861 dimer interface [polypeptide binding]; other site 350058012862 phosphorylation site [posttranslational modification] 350058012863 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 350058012864 ATP binding site [chemical binding]; other site 350058012865 Mg2+ binding site [ion binding]; other site 350058012866 G-X-G motif; other site 350058012867 DNA-binding transcriptional activator KdpE; Provisional; Region: PRK10529 350058012868 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 350058012869 active site 350058012870 phosphorylation site [posttranslational modification] 350058012871 intermolecular recognition site; other site 350058012872 dimerization interface [polypeptide binding]; other site 350058012873 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 350058012874 DNA binding site [nucleotide binding] 350058012875 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 350058012876 propionyl-CoA synthetase; Provisional; Region: prpE; PRK10524 350058012877 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 350058012878 acyl-activating enzyme (AAE) consensus motif; other site 350058012879 AMP binding site [chemical binding]; other site 350058012880 active site 350058012881 CoA binding site [chemical binding]; other site 350058012882 Domain of unknown function (DUF4383); Region: DUF4383; pfam14325 350058012883 exopolyphosphatase; Region: exo_poly_only; TIGR03706 350058012884 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 350058012885 Uncharacterized conserved protein [Function unknown]; Region: COG1507 350058012886 Septum formation initiator; Region: DivIC; pfam04977 350058012887 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 350058012888 enolase; Provisional; Region: eno; PRK00077 350058012889 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 350058012890 dimer interface [polypeptide binding]; other site 350058012891 metal binding site [ion binding]; metal-binding site 350058012892 substrate binding pocket [chemical binding]; other site 350058012893 Membrane-bound lytic murein transglycosylase B [Cell envelope biogenesis, outer membrane]; Region: MltB; COG2951 350058012894 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 350058012895 N-acetyl-D-glucosamine binding site [chemical binding]; other site 350058012896 Iron permease FTR1 family; Region: FTR1; cl00475 350058012897 Predicted periplasmic lipoprotein involved in iron transport [Inorganic ion transport and metabolism]; Region: COG2822 350058012898 Cupredoxin-like domain; Region: Cupredoxin_1; cl17234 350058012899 Imelysin; Region: Peptidase_M75; pfam09375 350058012900 Dyp-type peroxidase family; Region: Dyp_perox; cl01067 350058012901 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: PRK12334 350058012902 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 350058012903 homodimer interface [polypeptide binding]; other site 350058012904 metal binding site [ion binding]; metal-binding site 350058012905 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 350058012906 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 350058012907 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 350058012908 ATP binding site [chemical binding]; other site 350058012909 putative Mg++ binding site [ion binding]; other site 350058012910 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 350058012911 nucleotide binding region [chemical binding]; other site 350058012912 ATP-binding site [chemical binding]; other site 350058012913 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 350058012914 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 350058012915 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350058012916 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 350058012917 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 350058012918 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 350058012919 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 350058012920 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 350058012921 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK14352 350058012922 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 350058012923 Substrate binding site; other site 350058012924 Mg++ binding site; other site 350058012925 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 350058012926 active site 350058012927 substrate binding site [chemical binding]; other site 350058012928 CoA binding site [chemical binding]; other site 350058012929 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 350058012930 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK03092 350058012931 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 350058012932 active site 350058012933 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 350058012934 ArsC family; Region: ArsC; pfam03960 350058012935 catalytic residues [active] 350058012936 Probable lipoprotein LpqN; Region: Lpp-LpqN; pfam10738 350058012937 short chain dehydrogenase; Provisional; Region: PRK06197 350058012938 retinol dehydrogenase (retinol-DH), Light dependent Protochlorophyllide (Pchlide) OxidoReductase (LPOR) and related proteins, classical (c) SDRs; Region: retinol-DH_like_SDR_c_like; cd05327 350058012939 putative NAD(P) binding site [chemical binding]; other site 350058012940 active site 350058012941 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 350058012942 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 350058012943 5S rRNA interface [nucleotide binding]; other site 350058012944 CTC domain interface [polypeptide binding]; other site 350058012945 L16 interface [polypeptide binding]; other site 350058012946 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 350058012947 putative active site [active] 350058012948 catalytic residue [active] 350058012949 Uncharacterized Fe-S protein [Energy production and conversion]; Region: COG1600 350058012950 4Fe-4S binding domain; Region: Fer4; pfam00037 350058012951 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 350058012952 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 350058012953 FMN binding site [chemical binding]; other site 350058012954 active site 350058012955 substrate binding site [chemical binding]; other site 350058012956 catalytic residue [active] 350058012957 OsmC-like protein; Region: OsmC; pfam02566 350058012958 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 350058012959 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350058012960 Domain of unknown function (DUF4189); Region: DUF4189; pfam13827 350058012961 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 350058012962 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 350058012963 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 350058012964 daunorubicin resistance ABC transporter ATP-binding subunit; Region: drrA; TIGR01188 350058012965 Walker A/P-loop; other site 350058012966 ATP binding site [chemical binding]; other site 350058012967 Q-loop/lid; other site 350058012968 ABC transporter signature motif; other site 350058012969 Walker B; other site 350058012970 D-loop; other site 350058012971 H-loop/switch region; other site 350058012972 Lipase maturation factor; Region: LMF1; pfam06762 350058012973 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07768 350058012974 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 350058012975 acyl-activating enzyme (AAE) consensus motif; other site 350058012976 AMP binding site [chemical binding]; other site 350058012977 active site 350058012978 CoA binding site [chemical binding]; other site 350058012979 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: PRK03188 350058012980 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 350058012981 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 350058012982 S-adenosylmethionine binding site [chemical binding]; other site 350058012983 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3583 350058012984 Domain of unknown function (DUF348); Region: DUF348; pfam03990 350058012985 Domain of unknown function (DUF348); Region: DUF348; pfam03990 350058012986 Domain of unknown function (DUF348); Region: DUF348; pfam03990 350058012987 G5 domain; Region: G5; pfam07501 350058012988 Transglycosylase-like domain; Region: Transglycosylas; pfam06737 350058012989 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 350058012990 active site 350058012991 methionyl-tRNA synthetase; Reviewed; Region: PRK11893 350058012992 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 350058012993 active site 350058012994 HIGH motif; other site 350058012995 KMSKS motif; other site 350058012996 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 350058012997 tRNA binding surface [nucleotide binding]; other site 350058012998 anticodon binding site; other site 350058012999 glutamate dehydrogenase; Provisional; Region: PRK09414 350058013000 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 350058013001 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 350058013002 NAD(P) binding site [chemical binding]; other site 350058013003 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 350058013004 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 350058013005 RNA polymerase sigma-70 factor, TIGR02957 family; Region: SigX4 350058013006 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 350058013007 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 350058013008 DNA binding residues [nucleotide binding] 350058013009 SnoaL-like domain; Region: SnoaL_2; pfam12680 350058013010 aminodeoxychorismate synthase component I; Provisional; Region: PRK05877 350058013011 chorismate binding enzyme; Region: Chorismate_bind; cl10555 350058013012 Predicted methyltransferases [General function prediction only]; Region: COG0313 350058013013 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 350058013014 putative SAM binding site [chemical binding]; other site 350058013015 putative homodimer interface [polypeptide binding]; other site 350058013016 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl17364 350058013017 arginine deiminase; Provisional; Region: PRK01388 350058013018 Helix-Turn-Helix DNA binding domain of the SoxR transcription regulator; Region: HTH_SoxR; cd01110 350058013019 redox-sensitive transcriptional activator SoxR; Region: SoxR; TIGR01950 350058013020 DNA binding residues [nucleotide binding] 350058013021 dimer interface [polypeptide binding]; other site 350058013022 [2Fe-2S] cluster binding site [ion binding]; other site 350058013023 Alkylated DNA repair protein [DNA replication, recombination, and repair]; Region: AlkB; COG3145 350058013024 PE-PPE domain; Region: PE-PPE; pfam08237 350058013025 Probable lipoprotein LpqN; Region: Lpp-LpqN; pfam10738 350058013026 shikimate 5-dehydrogenase; Reviewed; Region: PRK12550 350058013027 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 350058013028 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 350058013029 shikimate binding site; other site 350058013030 NAD(P) binding site [chemical binding]; other site 350058013031 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 350058013032 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 350058013033 ligand binding site [chemical binding]; other site 350058013034 flexible hinge region; other site 350058013035 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 350058013036 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 350058013037 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 350058013038 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 350058013039 metal binding site [ion binding]; metal-binding site 350058013040 active site 350058013041 I-site; other site 350058013042 Cupin domain; Region: Cupin_2; pfam07883 350058013043 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 350058013044 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 350058013045 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 350058013046 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 350058013047 MarR family; Region: MarR; pfam01047 350058013048 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 350058013049 dimerization interface [polypeptide binding]; other site 350058013050 putative DNA binding site [nucleotide binding]; other site 350058013051 putative Zn2+ binding site [ion binding]; other site 350058013052 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 350058013053 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 350058013054 putative metal binding site [ion binding]; other site 350058013055 Domain of unknown function (DUF222); Region: DUF222; pfam02720 350058013056 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 350058013057 active site 350058013058 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 350058013059 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 350058013060 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 350058013061 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 350058013062 dimer interface [polypeptide binding]; other site 350058013063 putative functional site; other site 350058013064 putative MPT binding site; other site 350058013065 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 350058013066 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 350058013067 active site 350058013068 tetramer interface; other site 350058013069 5-formyltetrahydrofolate cyclo-ligase [Coenzyme metabolism]; Region: COG0212 350058013070 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 350058013071 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; cl00993 350058013072 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 350058013073 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 350058013074 Large-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscL; COG1970 350058013075 MspA; Region: MspA; pfam09203 350058013076 MspA; Region: MspA; pfam09203 350058013077 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 350058013078 MPT binding site; other site 350058013079 trimer interface [polypeptide binding]; other site 350058013080 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 350058013081 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 350058013082 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 350058013083 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 350058013084 dimerization interface [polypeptide binding]; other site 350058013085 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 350058013086 dimer interface [polypeptide binding]; other site 350058013087 phosphorylation site [posttranslational modification] 350058013088 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 350058013089 ATP binding site [chemical binding]; other site 350058013090 Mg2+ binding site [ion binding]; other site 350058013091 G-X-G motif; other site 350058013092 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 350058013093 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 350058013094 active site 350058013095 phosphorylation site [posttranslational modification] 350058013096 intermolecular recognition site; other site 350058013097 dimerization interface [polypeptide binding]; other site 350058013098 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 350058013099 DNA binding site [nucleotide binding] 350058013100 Ribosomal L32p protein family; Region: Ribosomal_L32p; cl09115 350058013101 Protein of unknown function (DUF1446); Region: DUF1446; pfam07287 350058013102 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 350058013103 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 350058013104 active site 350058013105 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 350058013106 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 350058013107 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 350058013108 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 350058013109 ATP-grasp domain; Region: ATP-grasp_4; cl17255 350058013110 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 350058013111 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 350058013112 carboxyltransferase (CT) interaction site; other site 350058013113 biotinylation site [posttranslational modification]; other site 350058013114 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 350058013115 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 350058013116 active site 350058013117 enoyl-CoA hydratase; Provisional; Region: PRK07827 350058013118 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 350058013119 substrate binding site [chemical binding]; other site 350058013120 oxyanion hole (OAH) forming residues; other site 350058013121 trimer interface [polypeptide binding]; other site 350058013122 Domain of unknown function (DUF1707); Region: DUF1707; pfam08044 350058013123 Cell wall-active antibiotics response protein (DUF2154); Region: DUF2154; pfam09922 350058013124 Uncharacterized protein with a von Willebrand factor type A (vWA) domain [General function prediction only]; Region: COG4867 350058013125 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 350058013126 metal ion-dependent adhesion site (MIDAS); other site 350058013127 Mg-chelatase subunit ChlI [Coenzyme metabolism]; Region: ChlI; COG1239 350058013128 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 350058013129 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 350058013130 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 350058013131 purine monophosphate binding site [chemical binding]; other site 350058013132 dimer interface [polypeptide binding]; other site 350058013133 putative catalytic residues [active] 350058013134 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 350058013135 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 350058013136 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 350058013137 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 350058013138 active site 350058013139 cosubstrate binding site; other site 350058013140 substrate binding site [chemical binding]; other site 350058013141 catalytic site [active] 350058013142 dimethyl sulfone monooxygenase SfnG; Region: LLM_DMSO2_sfnG; TIGR04021 350058013143 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 350058013144 active site 350058013145 dimer interface [polypeptide binding]; other site 350058013146 non-prolyl cis peptide bond; other site 350058013147 insertion regions; other site 350058013148 Glycosyl hydrolases family 8; Region: Glyco_hydro_8; cl01351 350058013149 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 350058013150 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 350058013151 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 350058013152 active site 350058013153 probable F420-dependent oxidoreductase, Rv2161c family; Region: F420_Rv2161c; TIGR03619 350058013154 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 350058013155 acetyl-CoA acetyltransferase; Validated; Region: PRK08257 350058013156 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 350058013157 active site 350058013158 AAA ATPase domain; Region: AAA_16; pfam13191 350058013159 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 350058013160 putative DNA binding site [nucleotide binding]; other site 350058013161 putative Zn2+ binding site [ion binding]; other site 350058013162 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 350058013163 CoA binding domain; Region: CoA_binding; smart00881 350058013164 CoA-ligase; Region: Ligase_CoA; pfam00549 350058013165 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 350058013166 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 350058013167 CoA-ligase; Region: Ligase_CoA; pfam00549 350058013168 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 350058013169 Peptidase family M23; Region: Peptidase_M23; pfam01551 350058013170 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 350058013171 Part of AAA domain; Region: AAA_19; pfam13245 350058013172 Family description; Region: UvrD_C_2; pfam13538 350058013173 hypothetical protein; Provisional; Region: PRK07857 350058013174 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 350058013175 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 350058013176 active site 350058013177 catalytic triad [active] 350058013178 oxyanion hole [active] 350058013179 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 350058013180 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 350058013181 tetramerization interface [polypeptide binding]; other site 350058013182 NAD(P) binding site [chemical binding]; other site 350058013183 catalytic residues [active] 350058013184 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 350058013185 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 350058013186 active site 350058013187 dimer interface [polypeptide binding]; other site 350058013188 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 350058013189 dimer interface [polypeptide binding]; other site 350058013190 active site 350058013191 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 350058013192 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 350058013193 non-specific DNA binding site [nucleotide binding]; other site 350058013194 salt bridge; other site 350058013195 sequence-specific DNA binding site [nucleotide binding]; other site 350058013196 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 350058013197 Cytochrome P450; Region: p450; cl12078 350058013198 short chain dehydrogenase; Provisional; Region: PRK08251 350058013199 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 350058013200 NAD(P) binding site [chemical binding]; other site 350058013201 active site 350058013202 Transposase; Region: DEDD_Tnp_IS110; pfam01548 350058013203 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 350058013204 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 350058013205 Formamidopyrimidine-DNA glycosylase [DNA replication, recombination, and repair]; Region: Nei; COG0266 350058013206 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 350058013207 putative DNA binding site [nucleotide binding]; other site 350058013208 catalytic residue [active] 350058013209 putative H2TH interface [polypeptide binding]; other site 350058013210 putative catalytic residues [active] 350058013211 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 350058013212 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 350058013213 Predicted membrane protein [Function unknown]; Region: COG1950 350058013214 probable F420-dependent oxidoreductase, Rv2161c family; Region: F420_Rv2161c; TIGR03619 350058013215 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 350058013216 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 350058013217 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 350058013218 active site 350058013219 Glycosyl transferases, related to UDP-glucuronosyltransferase [Carbohydrate transport and metabolism / Signal transduction mechanisms]; Region: COG1819 350058013220 homodimer interface [polypeptide binding]; other site 350058013221 TDP-binding site; other site 350058013222 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 350058013223 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 350058013224 S-adenosylmethionine binding site [chemical binding]; other site 350058013225 MarR family; Region: MarR_2; cl17246 350058013226 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 350058013227 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 350058013228 nucleotide binding site [chemical binding]; other site 350058013229 KDPG and KHG aldolase; Region: Aldolase; cl17259 350058013230 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 350058013231 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 350058013232 putative substrate translocation pore; other site 350058013233 putative acyltransferase; Provisional; Region: PRK05790 350058013234 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 350058013235 dimer interface [polypeptide binding]; other site 350058013236 active site 350058013237 Coenzyme A transferase; Region: CoA_trans; cl17247 350058013238 Acyl CoA:acetate/3-ketoacid CoA transferase, alpha subunit [Lipid metabolism]; Region: AtoD; COG1788 350058013239 Transcriptional regulator [Transcription]; Region: IclR; COG1414 350058013240 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 350058013241 Bacterial transcriptional regulator; Region: IclR; pfam01614 350058013242 DNA-binding transcriptional regulator DhaR; Provisional; Region: PRK11388 350058013243 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 350058013244 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 350058013245 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; pfam01968 350058013246 Acetone carboxylase gamma subunit; Region: Acetone_carb_G; pfam08882 350058013247 Acetone carboxylase, gamma subunit [Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcxC; COG4647 350058013248 N-methylhydantoinase A/acetone carboxylase, beta subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuA; COG0145 350058013249 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 350058013250 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; pfam01968 350058013251 N-methylhydantoinase B/acetone carboxylase, alpha subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuB; COG0146 350058013252 formaldehyde dehydrogenase (FDH)-like; Region: FDH_like_ADH2; cd08286 350058013253 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 350058013254 catalytic Zn binding site [ion binding]; other site 350058013255 structural Zn binding site [ion binding]; other site 350058013256 NAD(P) binding site [chemical binding]; other site 350058013257 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 350058013258 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 350058013259 RNA/DNA hybrid binding site [nucleotide binding]; other site 350058013260 active site 350058013261 3-(3-hydroxyphenyl)propionate hydroxylase; Validated; Region: mhpA; PRK06183 350058013262 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 350058013263 4-hydroxyphenylacetate degradation bifunctional isomerase/decarboxylase, C-terminal subunit; Region: HpaG-C-term; TIGR02303 350058013264 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 350058013265 2,3-dihydroxybiphenyl 1,2-dioxygenase; Region: 23dbph12diox; TIGR03213 350058013266 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 350058013267 active site 350058013268 metal binding site [ion binding]; metal-binding site 350058013269 The C-terminal domain of 2,4,5-Trihydroxytoluene (THT) oxygenase, which is an extradiol dioxygenease in the 2,4-dinitrotoluene (DNT) degradation pathway; Region: THT_oxygenase_C; cd07257 350058013270 putative active site [active] 350058013271 putative metal binding site [ion binding]; other site 350058013272 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 350058013273 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350058013274 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 350058013275 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 350058013276 [2Fe-2S] cluster binding site [ion binding]; other site 350058013277 C-terminal catalytic domain of the oxygenase alpha subunit of an uncharacterized subgroup of Rieske-type non-heme iron aromatic ring-hydroxylating oxygenases; Region: RHO_alpha_C_3; cd08887 350058013278 putative alpha subunit interface [polypeptide binding]; other site 350058013279 putative active site [active] 350058013280 putative substrate binding site [chemical binding]; other site 350058013281 Fe binding site [ion binding]; other site 350058013282 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 350058013283 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 350058013284 DNA-binding interface [nucleotide binding]; DNA binding site 350058013285 Domain of unknown function (DUF222); Region: DUF222; pfam02720 350058013286 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 350058013287 active site 350058013288 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 350058013289 MarR family; Region: MarR_2; pfam12802 350058013290 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 350058013291 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 350058013292 NAD(P) binding site [chemical binding]; other site 350058013293 active site 350058013294 ATP-dependent DNA ligase; Reviewed; Region: PRK09632 350058013295 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 350058013296 nucleotide binding site [chemical binding]; other site 350058013297 DNA polymerase Ligase (LigD); Region: LigD_N; cl11819 350058013298 Adenylation domain of Mycobacterium tuberculosis LigD and LigC-like ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_LigD_LigC; cd07906 350058013299 active site 350058013300 DNA binding site [nucleotide binding] 350058013301 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 350058013302 DNA binding site [nucleotide binding] 350058013303 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 350058013304 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 350058013305 putative substrate binding site [chemical binding]; other site 350058013306 putative ATP binding site [chemical binding]; other site 350058013307 Ku protein, prokaryotic; Region: Ku_bact; TIGR02772 350058013308 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 350058013309 putative DNA binding site [nucleotide binding]; other site 350058013310 putative homodimer interface [polypeptide binding]; other site 350058013311 Protein of unknown function (DUF2497); Region: DUF2497; cl11534 350058013312 short chain dehydrogenase; Provisional; Region: PRK07814 350058013313 classical (c) SDRs; Region: SDR_c; cd05233 350058013314 NAD(P) binding site [chemical binding]; other site 350058013315 active site 350058013316 Uncharacterized conserved protein related to dihydrodipicolinate reductase [Function unknown]; Region: COG3804 350058013317 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 350058013318 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 350058013319 putative active site pocket [active] 350058013320 dimerization interface [polypeptide binding]; other site 350058013321 putative catalytic residue [active] 350058013322 Protein of unknown function (DUF867); Region: DUF867; pfam05908 350058013323 Protein of unknown function (DUF1365); Region: DUF1365; pfam07103 350058013324 RNA polymerase sigma factor SigK; Reviewed; Region: PRK09646 350058013325 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 350058013326 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 350058013327 DNA binding residues [nucleotide binding] 350058013328 putative anti-sigmaE protein; Provisional; Region: PRK13920 350058013329 Anti-sigma-K factor rskA; Region: RskA; pfam10099 350058013330 carboxylate-amine ligase; Provisional; Region: PRK13517 350058013331 carboxylate-amine ligase, YbdK family; Region: gshA_cyan_rel; TIGR02050 350058013332 probable F420-dependent oxidoreductase, MSMEG_2516 family; Region: F420_MSMEG_2516; TIGR03621 350058013333 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 350058013334 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 350058013335 Subunit I/III interface [polypeptide binding]; other site 350058013336 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 350058013337 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 350058013338 Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB; Region: HTH_YyaN; cd01109 350058013339 DNA binding residues [nucleotide binding] 350058013340 putative dimer interface [polypeptide binding]; other site 350058013341 ANTAR domain; Region: ANTAR; pfam03861 350058013342 acetyl-CoA acetyltransferase; Provisional; Region: PRK06289 350058013343 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 350058013344 active site 350058013345 Lignostilbene-alpha,beta-dioxygenase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3670 350058013346 Retinal pigment epithelial membrane protein; Region: RPE65; pfam03055 350058013347 Predicted transcriptional regulators [Transcription]; Region: COG1733 350058013348 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 350058013349 Predicted transcriptional regulators [Transcription]; Region: COG1733 350058013350 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 350058013351 Isochorismatase family; Region: Isochorismatase; pfam00857 350058013352 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; cl00220 350058013353 catalytic triad [active] 350058013354 conserved cis-peptide bond; other site 350058013355 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 350058013356 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 350058013357 putative dimer interface [polypeptide binding]; other site 350058013358 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 350058013359 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 350058013360 Cupin superfamily (DUF985); Region: Cupin_5; cl01418 350058013361 Prokaryotic protein of unknown function (DUF849); Region: DUF849; cl15827 350058013362 Mycolic acid cyclopropane synthetase; Region: CMAS; pfam02353 350058013363 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 350058013364 S-adenosylmethionine binding site [chemical binding]; other site 350058013365 Mycolic acid cyclopropane synthetase; Region: CMAS; pfam02353 350058013366 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 350058013367 S-adenosylmethionine binding site [chemical binding]; other site 350058013368 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK07910 350058013369 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 350058013370 dimer interface [polypeptide binding]; other site 350058013371 active site 350058013372 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 350058013373 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 350058013374 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 350058013375 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 350058013376 active site 350058013377 Rhodococcus ruber 6-oxolauric acid dehydrogenase-like; Region: ALDH_CddD_SSP0762; cd07138 350058013378 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 350058013379 NAD binding site [chemical binding]; other site 350058013380 catalytic residues [active] 350058013381 Thiamine pyrophosphate-requiring enzymes [acetolactate synthase, pyruvate dehydrogenase (cytochrome), glyoxylate carboligase, phosphonopyruvate decarboxylase] [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvB; COG0028 350058013382 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 350058013383 PYR/PP interface [polypeptide binding]; other site 350058013384 dimer interface [polypeptide binding]; other site 350058013385 TPP binding site [chemical binding]; other site 350058013386 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 350058013387 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 350058013388 TPP-binding site; other site 350058013389 dimer interface [polypeptide binding]; other site 350058013390 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 350058013391 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 350058013392 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 350058013393 active site 350058013394 pimeloyl-CoA dehydrogenase, large subunit; Region: pimC_large; TIGR03204 350058013395 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 350058013396 active site 350058013397 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 350058013398 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 350058013399 pimeloyl-CoA dehydrogenase, large subunit; Region: pimC_large; TIGR03204 350058013400 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 350058013401 active site 350058013402 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 350058013403 CoA-transferase family III; Region: CoA_transf_3; pfam02515 350058013404 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 350058013405 NAD(P) binding site [chemical binding]; other site 350058013406 oxidoreductase; Provisional; Region: PRK12742 350058013407 active site 350058013408 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 350058013409 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 350058013410 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 350058013411 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 350058013412 [2Fe-2S] cluster binding site [ion binding]; other site 350058013413 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 350058013414 hydrophobic ligand binding site; other site 350058013415 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 350058013416 classical (c) SDRs; Region: SDR_c; cd05233 350058013417 NAD(P) binding site [chemical binding]; other site 350058013418 active site 350058013419 PQQ-like domain; Region: PQQ_2; pfam13360 350058013420 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 350058013421 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 350058013422 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 350058013423 DNA-binding site [nucleotide binding]; DNA binding site 350058013424 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 350058013425 Cyclohexanecarboxylate-CoA ligase (also called cyclohex-1-ene-1-carboxylate:CoA ligase); Region: CHC_CoA_lg; cd05903 350058013426 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 350058013427 acyl-activating enzyme (AAE) consensus motif; other site 350058013428 putative AMP binding site [chemical binding]; other site 350058013429 putative active site [active] 350058013430 putative CoA binding site [chemical binding]; other site 350058013431 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 350058013432 classical (c) SDRs; Region: SDR_c; cd05233 350058013433 NAD(P) binding site [chemical binding]; other site 350058013434 active site 350058013435 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 350058013436 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 350058013437 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 350058013438 acyl-activating enzyme (AAE) consensus motif; other site 350058013439 acyl-activating enzyme (AAE) consensus motif; other site 350058013440 putative AMP binding site [chemical binding]; other site 350058013441 putative active site [active] 350058013442 putative CoA binding site [chemical binding]; other site 350058013443 Protein of unknown function (DUF2628); Region: DUF2628; pfam10947 350058013444 Uncharacterized conserved protein related to dihydrodipicolinate reductase [Function unknown]; Region: COG3804 350058013445 short chain dehydrogenase; Provisional; Region: PRK07814 350058013446 classical (c) SDRs; Region: SDR_c; cd05233 350058013447 NAD(P) binding site [chemical binding]; other site 350058013448 active site 350058013449 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 350058013450 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350058013451 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 350058013452 metal ion-dependent adhesion site (MIDAS); other site 350058013453 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 350058013454 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 350058013455 Walker A motif; other site 350058013456 ATP binding site [chemical binding]; other site 350058013457 CbbQ/NirQ/NorQ C-terminal; Region: CbbQ_C; pfam08406 350058013458 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 350058013459 Cytochrome P450; Region: p450; cl12078 350058013460 Uncharacterized conserved protein related to dihydrodipicolinate reductase [Function unknown]; Region: COG3804 350058013461 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 350058013462 Uncharacterized conserved protein related to dihydrodipicolinate reductase [Function unknown]; Region: COG3804 350058013463 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 350058013464 active site 350058013465 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 350058013466 Cytochrome P450; Region: p450; cl12078 350058013467 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 350058013468 Cytochrome P450; Region: p450; cl12078 350058013469 ERG2 and Sigma1 receptor like protein; Region: ERG2_Sigma1R; pfam04622 350058013470 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 350058013471 NADH(P)-binding; Region: NAD_binding_10; pfam13460 350058013472 NAD(P) binding site [chemical binding]; other site 350058013473 active site 350058013474 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cd07812 350058013475 hydrophobic ligand binding site; other site 350058013476 MT0933-like antitoxin protein; Region: MT0933_antitox; pfam14013 350058013477 ATPase, P-type (transporting), HAD superfamily, subfamily IC; Region: ATPase_P-type; TIGR01494 350058013478 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 350058013479 Soluble P-type ATPase [General function prediction only]; Region: COG4087 350058013480 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 350058013481 Beta-lactamase; Region: Beta-lactamase; pfam00144 350058013482 Domain of unknown function (DUF3471); Region: DUF3471; pfam11954 350058013483 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 350058013484 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 350058013485 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 350058013486 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 350058013487 substrate binding site [chemical binding]; other site 350058013488 oxyanion hole (OAH) forming residues; other site 350058013489 trimer interface [polypeptide binding]; other site 350058013490 Carboxyl transferase domain; Region: Carboxyl_trans; pfam01039 350058013491 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 350058013492 Predicted membrane protein [Function unknown]; Region: COG1511 350058013493 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 350058013494 X-X-X-Leu-X-X-Gly heptad repeats; Region: xxxLxxG_by_4; TIGR03057 350058013495 X-X-X-Leu-X-X-Gly heptad repeats; Region: xxxLxxG_by_4; TIGR03057 350058013496 YhgE/Pip C-terminal domain; Region: pip_yhgE_Cterm; TIGR03062 350058013497 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 350058013498 Walker A/P-loop; other site 350058013499 ATP binding site [chemical binding]; other site 350058013500 Q-loop/lid; other site 350058013501 Epoxide hydrolase N terminus; Region: EHN; pfam06441 350058013502 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 350058013503 RNA polymerase sigma-70 factor, TIGR02957 family; Region: SigX4 350058013504 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 350058013505 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 350058013506 RNA polymerase sigma factor SigJ; Provisional; Region: PRK09636 350058013507 RNA polymerase sigma-70 factor, TIGR02957 family; Region: SigX4 350058013508 NADH(P)-binding; Region: NAD_binding_10; pfam13460 350058013509 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 350058013510 active site 350058013511 AAA ATPase domain; Region: AAA_16; pfam13191 350058013512 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 350058013513 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 350058013514 DNA binding residues [nucleotide binding] 350058013515 dimerization interface [polypeptide binding]; other site 350058013516 RNA polymerase sigma-70 factor, TIGR02947 family; Region: SigH_actino 350058013517 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 350058013518 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 350058013519 DNA binding residues [nucleotide binding] 350058013520 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 350058013521 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 350058013522 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 350058013523 Walker A/P-loop; other site 350058013524 ATP binding site [chemical binding]; other site 350058013525 Q-loop/lid; other site 350058013526 ABC transporter signature motif; other site 350058013527 Walker B; other site 350058013528 D-loop; other site 350058013529 H-loop/switch region; other site 350058013530 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 350058013531 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 350058013532 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 350058013533 Walker A/P-loop; other site 350058013534 ATP binding site [chemical binding]; other site 350058013535 Q-loop/lid; other site 350058013536 ABC transporter signature motif; other site 350058013537 Walker B; other site 350058013538 D-loop; other site 350058013539 H-loop/switch region; other site 350058013540 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 350058013541 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 350058013542 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 350058013543 Walker A/P-loop; other site 350058013544 ATP binding site [chemical binding]; other site 350058013545 Q-loop/lid; other site 350058013546 ABC transporter signature motif; other site 350058013547 Walker B; other site 350058013548 D-loop; other site 350058013549 H-loop/switch region; other site 350058013550 Ion channel; Region: Ion_trans_2; pfam07885 350058013551 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 350058013552 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 350058013553 active site 350058013554 phosphorylation site [posttranslational modification] 350058013555 intermolecular recognition site; other site 350058013556 dimerization interface [polypeptide binding]; other site 350058013557 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 350058013558 DNA binding site [nucleotide binding] 350058013559 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 350058013560 HAMP domain; Region: HAMP; pfam00672 350058013561 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 350058013562 dimer interface [polypeptide binding]; other site 350058013563 phosphorylation site [posttranslational modification] 350058013564 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 350058013565 ATP binding site [chemical binding]; other site 350058013566 Mg2+ binding site [ion binding]; other site 350058013567 G-X-G motif; other site 350058013568 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 350058013569 Protein of unknown function (DUF2630); Region: DUF2630; pfam10944 350058013570 MspA; Region: MspA; pfam09203 350058013571 MspA; Region: MspA; pfam09203 350058013572 Phytoene dehydrogenase and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG1233 350058013573 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 350058013574 MarR family; Region: MarR_2; cl17246 350058013575 Major Facilitator Superfamily; Region: MFS_1; pfam07690 350058013576 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 350058013577 putative substrate translocation pore; other site 350058013578 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 350058013579 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 350058013580 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 350058013581 dimer interface [polypeptide binding]; other site 350058013582 active site 350058013583 citrylCoA binding site [chemical binding]; other site 350058013584 NADH binding [chemical binding]; other site 350058013585 cationic pore residues; other site 350058013586 oxalacetate/citrate binding site [chemical binding]; other site 350058013587 coenzyme A binding site [chemical binding]; other site 350058013588 catalytic triad [active] 350058013589 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 350058013590 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350058013591 pyridoxamine 5'-phosphate oxidase; Provisional; Region: PRK05679 350058013592 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 350058013593 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 350058013594 citrate synthase 2; Provisional; Region: PRK12350 350058013595 Citrate synthase; Region: Citrate_synt; pfam00285 350058013596 oxalacetate binding site [chemical binding]; other site 350058013597 citrylCoA binding site [chemical binding]; other site 350058013598 coenzyme A binding site [chemical binding]; other site 350058013599 catalytic triad [active] 350058013600 uncharacterized Actinobacterial protein TIGR03083; Region: TIGR03083 350058013601 TIGR03086 family protein; Region: TIGR03086 350058013602 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 350058013603 putative dimer interface [polypeptide binding]; other site 350058013604 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 350058013605 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 350058013606 putative active site [active] 350058013607 putative metal binding site [ion binding]; other site 350058013608 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 350058013609 Beta-glucosidase/6-phospho-beta-glucosidase/beta- galactosidase [Carbohydrate transport and metabolism]; Region: BglB; COG2723 350058013610 beta-galactosidase; Region: BGL; TIGR03356 350058013611 Ferredoxin [Energy production and conversion]; Region: COG1146 350058013612 4Fe-4S binding domain; Region: Fer4; pfam00037 350058013613 ferredoxin-NADP+ reductase; Region: PLN02852 350058013614 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 350058013615 P-aminobenzoate N-oxygenase AurF; Region: AurF; pfam11583 350058013616 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 350058013617 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 350058013618 catalytic residue [active] 350058013619 Protein of unknown function (DUF3071); Region: DUF3071; pfam11268 350058013620 Protein of unknown function (DUF2537); Region: DUF2537; pfam10801 350058013621 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 350058013622 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 350058013623 Protein of unknown function (DUF2530); Region: DUF2530; pfam10745 350058013624 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cd07812 350058013625 hydrophobic ligand binding site; other site 350058013626 Protein of unknown function (DUF3027); Region: DUF3027; pfam11228 350058013627 H+ Antiporter protein; Region: 2A0121; TIGR00900 350058013628 Protein of unknown function (DUF2771); Region: DUF2771; pfam10969 350058013629 glycoside hydrolase family 64 (beta-1,3-glucanases which produce specific pentasaccharide oligomers) and thaumatin-like proteins; Region: GH64-TLP-SF; cl02511 350058013630 Predicted glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: ECM4; COG0435 350058013631 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 350058013632 C-terminal, alpha helical domain of Class Omega-like Glutathione S-transferases; Region: GST_C_Omega_like; cd03190 350058013633 putative dimer interface [polypeptide binding]; other site 350058013634 N-terminal domain interface [polypeptide binding]; other site 350058013635 putative substrate binding pocket (H-site) [chemical binding]; other site 350058013636 Domain of unknown function (DUF4095); Region: DUF4095; pfam13338 350058013637 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 350058013638 putative active site [active] 350058013639 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 350058013640 DNA-binding site [nucleotide binding]; DNA binding site 350058013641 RNA-binding motif; other site 350058013642 hypothetical protein; Provisional; Region: PRK11770 350058013643 Domain of unknown function (DUF307); Region: DUF307; pfam03733 350058013644 Domain of unknown function (DUF307); Region: DUF307; pfam03733 350058013645 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 350058013646 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 350058013647 FeS/SAM binding site; other site 350058013648 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 350058013649 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 350058013650 MoaE interaction surface [polypeptide binding]; other site 350058013651 MoeB interaction surface [polypeptide binding]; other site 350058013652 thiocarboxylated glycine; other site 350058013653 ydaO/yuaA element as predicted by Rfam (RF00379), score 49.14; Mvan_R0049 350058013654 Transglycosylase-like domain; Region: Transglycosylas; pfam06737 350058013655 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 350058013656 MoaE homodimer interface [polypeptide binding]; other site 350058013657 MoaD interaction [polypeptide binding]; other site 350058013658 active site residues [active] 350058013659 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 350058013660 MPT binding site; other site 350058013661 trimer interface [polypeptide binding]; other site 350058013662 MoaC family, prokaryotic and eukaryotic. Members of this family are involved in molybdenum cofactor (Moco) biosynthesis, an essential cofactor of a diverse group of redox enzymes. MoaC, a small hexameric protein, converts, together with MoaA, a guanosine...; Region: MoaC_PE; cd01420 350058013663 trimer interface [polypeptide binding]; other site 350058013664 dimer interface [polypeptide binding]; other site 350058013665 putative active site [active] 350058013666 Helicase conserved C-terminal domain; Region: Helicase_C_3; pfam13625 350058013667 WYL domain; Region: WYL; pfam13280 350058013668 Helicase conserved C-terminal domain; Region: Helicase_C_3; pfam13625 350058013669 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 350058013670 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 350058013671 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 350058013672 ATP binding site [chemical binding]; other site 350058013673 putative Mg++ binding site [ion binding]; other site 350058013674 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 350058013675 nucleotide binding region [chemical binding]; other site 350058013676 ATP-binding site [chemical binding]; other site 350058013677 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 350058013678 Transposase; Region: HTH_Tnp_1; pfam01527 350058013679 putative transposase OrfB; Reviewed; Region: PHA02517 350058013680 HTH-like domain; Region: HTH_21; pfam13276 350058013681 Integrase core domain; Region: rve; pfam00665 350058013682 Integrase core domain; Region: rve_3; pfam13683 350058013683 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 350058013684 probable F420-dependent oxidoreductase, Rv1855c family; Region: F420_Rv1855c; TIGR03560 350058013685 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 350058013686 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 350058013687 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 350058013688 AMP binding site [chemical binding]; other site 350058013689 active site 350058013690 acyl-activating enzyme (AAE) consensus motif; other site 350058013691 CoA binding site [chemical binding]; other site 350058013692 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 350058013693 Beta-lactamase; Region: Beta-lactamase; pfam00144 350058013694 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 350058013695 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 350058013696 substrate binding site [chemical binding]; other site 350058013697 oxyanion hole (OAH) forming residues; other site 350058013698 trimer interface [polypeptide binding]; other site 350058013699 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 350058013700 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 350058013701 acetyl-CoA acetyltransferase; Validated; Region: PRK08242 350058013702 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 350058013703 dimer interface [polypeptide binding]; other site 350058013704 active site 350058013705 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 350058013706 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 350058013707 FMN binding site [chemical binding]; other site 350058013708 active site 350058013709 substrate binding site [chemical binding]; other site 350058013710 catalytic residue [active] 350058013711 aminotransferase; Validated; Region: PRK07777 350058013712 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 350058013713 pyridoxal 5'-phosphate binding site [chemical binding]; other site 350058013714 homodimer interface [polypeptide binding]; other site 350058013715 catalytic residue [active] 350058013716 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_2; cd07819 350058013717 putative hydrophobic ligand binding site [chemical binding]; other site 350058013718 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_2; cd07819 350058013719 putative hydrophobic ligand binding site [chemical binding]; other site 350058013720 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_2; cd07819 350058013721 putative hydrophobic ligand binding site [chemical binding]; other site 350058013722 Zn-finger in ubiquitin-hydrolases and other protein; Region: zf-UBP; pfam02148 350058013723 Phytoene dehydrogenase and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG1233 350058013724 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 350058013725 mycofactocin system transcriptional regulator; Region: mycofact_TetR; TIGR03968 350058013726 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350058013727 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 350058013728 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 350058013729 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350058013730 chorismate mutase; Provisional; Region: PRK09269 350058013731 Chorismate mutase type II; Region: CM_2; cl00693 350058013732 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 350058013733 Catalytic domain of Protein Kinases; Region: PKc; cd00180 350058013734 active site 350058013735 ATP binding site [chemical binding]; other site 350058013736 substrate binding site [chemical binding]; other site 350058013737 activation loop (A-loop); other site 350058013738 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3662 350058013739 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 350058013740 Fatty acid desaturase; Region: FA_desaturase_2; pfam03405 350058013741 Acyl ACP desaturase, ferritin-like diiron-binding domain; Region: Acyl_ACP_Desat; cd01050 350058013742 homodimer interface [polypeptide binding]; other site 350058013743 putative substrate binding pocket [chemical binding]; other site 350058013744 diiron center [ion binding]; other site 350058013745 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 350058013746 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 350058013747 FMN binding site [chemical binding]; other site 350058013748 active site 350058013749 catalytic residues [active] 350058013750 substrate binding site [chemical binding]; other site 350058013751 Cell envelope-related transcriptional attenuator domain; Region: LytR_cpsA_psr; cl00581 350058013752 LytR cell envelope-related transcriptional attenuator; Region: LytR_C; pfam13399 350058013753 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 350058013754 PhoU domain; Region: PhoU; pfam01895 350058013755 PhoU domain; Region: PhoU; pfam01895 350058013756 phosphate transporter ATP-binding protein; Provisional; Region: PRK14241 350058013757 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 350058013758 Walker A/P-loop; other site 350058013759 ATP binding site [chemical binding]; other site 350058013760 Q-loop/lid; other site 350058013761 ABC transporter signature motif; other site 350058013762 Walker B; other site 350058013763 D-loop; other site 350058013764 H-loop/switch region; other site 350058013765 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 350058013766 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 350058013767 dimer interface [polypeptide binding]; other site 350058013768 conserved gate region; other site 350058013769 putative PBP binding loops; other site 350058013770 ABC-ATPase subunit interface; other site 350058013771 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstC; COG0573 350058013772 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 350058013773 dimer interface [polypeptide binding]; other site 350058013774 conserved gate region; other site 350058013775 ABC-ATPase subunit interface; other site 350058013776 PBP superfamily domain; Region: PBP_like_2; cl17296 350058013777 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 350058013778 dimerization interface [polypeptide binding]; other site 350058013779 putative DNA binding site [nucleotide binding]; other site 350058013780 putative Zn2+ binding site [ion binding]; other site 350058013781 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 350058013782 Low molecular weight phosphatase family; Region: LMWPc; cl00105 350058013783 active site 350058013784 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 350058013785 Low molecular weight phosphatase family; Region: LMWPc; cd00115 350058013786 active site 350058013787 Arsenical resistance operon trans-acting repressor ArsD; Region: ArsD; pfam06953 350058013788 arsenical pump-driving ATPase; Region: arsen_driv_ArsA; TIGR04291 350058013789 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 350058013790 P loop; other site 350058013791 Nucleotide binding site [chemical binding]; other site 350058013792 DTAP/Switch II; other site 350058013793 Switch I; other site 350058013794 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 350058013795 P loop; other site 350058013796 Nucleotide binding site [chemical binding]; other site 350058013797 DTAP/Switch II; other site 350058013798 Switch I; other site 350058013799 mycothiol synthase; Region: mycothiol_MshD; TIGR03448 350058013800 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 350058013801 Coenzyme A binding pocket [chemical binding]; other site 350058013802 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 350058013803 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 350058013804 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 350058013805 DNA binding site [nucleotide binding] 350058013806 Protein of unknown function (DUF2993); Region: DUF2993; pfam11209 350058013807 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 350058013808 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 350058013809 catalytic residues [active] 350058013810 Domain of unknown function (DUF4395); Region: DUF4395; pfam14340 350058013811 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 350058013812 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 350058013813 active site residue [active] 350058013814 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 350058013815 active site residue [active] 350058013816 Protein of unknown function (DUF1416); Region: DUF1416; pfam07210 350058013817 Protein of unknown function (DUF732); Region: DUF732; pfam05305 350058013818 nitrobindin heme-binding domain; Region: nitrobindin; cd07828 350058013819 heme-binding site [chemical binding]; other site 350058013820 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 350058013821 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 350058013822 substrate binding pocket [chemical binding]; other site 350058013823 membrane-bound complex binding site; other site 350058013824 hinge residues; other site 350058013825 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 350058013826 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 350058013827 pyridoxal 5'-phosphate binding site [chemical binding]; other site 350058013828 catalytic residue [active] 350058013829 Predicted aminomethyltransferase related to GcvT [General function prediction only]; Region: COG0354 350058013830 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 350058013831 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 350058013832 Protein of unknown function (DUF3073); Region: DUF3073; pfam11273 350058013833 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 350058013834 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 350058013835 dimerization interface [polypeptide binding]; other site 350058013836 putative ATP binding site [chemical binding]; other site 350058013837 Cupin domain; Region: Cupin_2; pfam07883 350058013838 atypical (a) SDRs, subgroup 2; Region: SDR_a2; cd05245 350058013839 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 350058013840 putative NAD(P) binding site [chemical binding]; other site 350058013841 putative active site [active] 350058013842 amidophosphoribosyltransferase; Provisional; Region: PRK07847 350058013843 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 350058013844 active site 350058013845 tetramer interface [polypeptide binding]; other site 350058013846 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 350058013847 active site 350058013848 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 350058013849 CAAX protease self-immunity; Region: Abi; pfam02517 350058013850 Predicted membrane protein [Function unknown]; Region: COG4425 350058013851 Predicted membrane protein (DUF2319); Region: DUF2319; pfam10081 350058013852 phosphoribosylformylglycinamidine synthase II; Provisional; Region: PRK01213 350058013853 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 350058013854 dimerization interface [polypeptide binding]; other site 350058013855 ATP binding site [chemical binding]; other site 350058013856 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 350058013857 dimerization interface [polypeptide binding]; other site 350058013858 ATP binding site [chemical binding]; other site 350058013859 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 350058013860 active site 350058013861 M18 Peptidase Aspartyl aminopeptidase; Region: M18_DAP; cd05658 350058013862 Aminopeptidase I zinc metalloprotease (M18); Region: Peptidase_M18; pfam02127 350058013863 active site 350058013864 metal binding site [ion binding]; metal-binding site 350058013865 Dyp-type peroxidase family; Region: Dyp_perox; pfam04261 350058013866 Encapsulating protein for peroxidase; Region: Linocin_M18; cl17804 350058013867 phosphoribosylformylglycinamidine synthase I; Provisional; Region: PRK03619 350058013868 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 350058013869 putative active site [active] 350058013870 catalytic triad [active] 350058013871 phosphoribosylformylglycinamidine synthase subunit PurS; Reviewed; Region: PRK05974 350058013872 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 350058013873 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 350058013874 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 350058013875 FAD binding domain; Region: FAD_binding_2; pfam00890 350058013876 Putative catalytic domain of uncharacterized bacterial proteins from the carbohydrate esterase 4 superfamily; Region: CE4_u10; cd11374 350058013877 Predicted deacetylase [General function prediction only]; Region: COG3233 350058013878 putative active site [active] 350058013879 putative Zn binding site [ion binding]; other site 350058013880 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 350058013881 catalytic residues [active] 350058013882 dimer interface [polypeptide binding]; other site 350058013883 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 350058013884 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350058013885 WHG domain; Region: WHG; pfam13305 350058013886 Protease II [Amino acid transport and metabolism]; Region: PtrB; COG1770 350058013887 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 350058013888 non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_Sc; cd01414 350058013889 ATP binding site [chemical binding]; other site 350058013890 active site 350058013891 substrate binding site [chemical binding]; other site 350058013892 Domain of unknown function (DUF1707); Region: DUF1707; pfam08044 350058013893 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 350058013894 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 350058013895 DXD motif; other site 350058013896 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 350058013897 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 350058013898 NAD(P) binding site [chemical binding]; other site 350058013899 active site 350058013900 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 350058013901 Cytochrome P450; Region: p450; cl12078 350058013902 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 350058013903 Lyase; Region: Lyase_1; pfam00206 350058013904 tetramer interface [polypeptide binding]; other site 350058013905 Predicted nuclease (RNAse H fold) [General function prediction only]; Region: COG4328 350058013906 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 350058013907 synthetase active site [active] 350058013908 NTP binding site [chemical binding]; other site 350058013909 metal binding site [ion binding]; metal-binding site 350058013910 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 350058013911 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3226 350058013912 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 350058013913 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 350058013914 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 350058013915 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 350058013916 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 350058013917 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 350058013918 Cytochrome P450; Region: p450; cl12078 350058013919 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 350058013920 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 350058013921 DNA-binding interface [nucleotide binding]; DNA binding site 350058013922 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 350058013923 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 350058013924 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 350058013925 short chain dehydrogenase; Provisional; Region: PRK07774 350058013926 classical (c) SDRs; Region: SDR_c; cd05233 350058013927 NAD(P) binding site [chemical binding]; other site 350058013928 active site 350058013929 aldehyde dehydrogenase, Rv0768 family; Region: aldehy_Rv0768; TIGR04284 350058013930 Rhodococcus ruber 6-oxolauric acid dehydrogenase-like and related proteins; Region: ALDH_CddD-AldA-like; cd07089 350058013931 NAD binding site [chemical binding]; other site 350058013932 catalytic residues [active] 350058013933 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 350058013934 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 350058013935 Cytochrome P450; Region: p450; cl12078 350058013936 short chain dehydrogenase; Provisional; Region: PRK07775 350058013937 classical (c) SDRs; Region: SDR_c; cd05233 350058013938 NAD(P) binding site [chemical binding]; other site 350058013939 active site 350058013940 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 350058013941 Cytochrome P450; Region: p450; cl12078 350058013942 Ferredoxin [Energy production and conversion]; Region: Fer; COG1141 350058013943 Protein of unknown function (DUF1271); Region: DUF1271; cl01443 350058013944 oxidoreductase, Rxyl_3153 family; Region: Rxyl_3153; TIGR03989 350058013945 Class III alcohol dehydrogenase; Region: Zn_ADH_class_III; cd08279 350058013946 NAD binding site [chemical binding]; other site 350058013947 catalytic Zn binding site [ion binding]; other site 350058013948 substrate binding site [chemical binding]; other site 350058013949 structural Zn binding site [ion binding]; other site 350058013950 SnoaL-like domain; Region: SnoaL_2; pfam12680 350058013951 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 350058013952 classical (c) SDRs; Region: SDR_c; cd05233 350058013953 NAD(P) binding site [chemical binding]; other site 350058013954 active site 350058013955 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 350058013956 probable F420-dependent oxidoreductase, Rv2161c family; Region: F420_Rv2161c; TIGR03619 350058013957 oxidoreductase, SDR family; Region: SDR_subfam_1; TIGR03971 350058013958 classical (c) SDRs; Region: SDR_c; cd05233 350058013959 NAD(P) binding site [chemical binding]; other site 350058013960 active site 350058013961 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 350058013962 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350058013963 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 350058013964 Cytochrome P450; Region: p450; cl12078 350058013965 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 350058013966 classical (c) SDRs; Region: SDR_c; cd05233 350058013967 NAD(P) binding site [chemical binding]; other site 350058013968 active site 350058013969 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07008 350058013970 Fatty acyl-CoA synthetases similar to LC-FACS from Thermus thermophiles; Region: ttLC_FACS_AlkK_like; cd12119 350058013971 dimer interface [polypeptide binding]; other site 350058013972 acyl-activating enzyme (AAE) consensus motif; other site 350058013973 putative active site [active] 350058013974 AMP binding site [chemical binding]; other site 350058013975 putative CoA binding site [chemical binding]; other site 350058013976 Diadenosine tetraphosphate (Ap4A) hydrolase and other HIT family hydrolases [Nucleotide transport and metabolism / Carbohydrate transport and metabolism / General function prediction only]; Region: Hit; COG0537 350058013977 nucleotide binding site/active site [active] 350058013978 HIT family signature motif; other site 350058013979 catalytic residue [active] 350058013980 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 350058013981 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 350058013982 dimerization interface [polypeptide binding]; other site 350058013983 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 350058013984 dimer interface [polypeptide binding]; other site 350058013985 phosphorylation site [posttranslational modification] 350058013986 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 350058013987 ATP binding site [chemical binding]; other site 350058013988 Mg2+ binding site [ion binding]; other site 350058013989 G-X-G motif; other site 350058013990 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 350058013991 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 350058013992 active site 350058013993 phosphorylation site [posttranslational modification] 350058013994 intermolecular recognition site; other site 350058013995 dimerization interface [polypeptide binding]; other site 350058013996 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 350058013997 DNA binding site [nucleotide binding] 350058013998 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 350058013999 active site 350058014000 Alpha amylase catalytic domain family; Region: AmyAc_family; cd00551 350058014001 active site 350058014002 Domain of unknown function (DUF4185); Region: DUF4185; pfam13810 350058014003 D-ala-D-ala dipeptidase; Region: Peptidase_M15; cl00813 350058014004 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 350058014005 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 350058014006 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 350058014007 XdhC Rossmann domain; Region: XdhC_C; pfam13478 350058014008 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 350058014009 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 350058014010 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 350058014011 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_5; cd07823 350058014012 putative hydrophobic ligand binding site [chemical binding]; other site 350058014013 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 350058014014 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; pfam03450 350058014015 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 350058014016 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 350058014017 catalytic loop [active] 350058014018 iron binding site [ion binding]; other site 350058014019 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 350058014020 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 350058014021 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 350058014022 Domain of unknown function (DUF222); Region: DUF222; pfam02720 350058014023 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 350058014024 active site 350058014025 short chain dehydrogenase; Provisional; Region: PRK05875 350058014026 classical (c) SDRs; Region: SDR_c; cd05233 350058014027 NAD(P) binding site [chemical binding]; other site 350058014028 active site 350058014029 enoyl-CoA hydratase; Provisional; Region: PRK08290 350058014030 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 350058014031 substrate binding site [chemical binding]; other site 350058014032 oxyanion hole (OAH) forming residues; other site 350058014033 trimer interface [polypeptide binding]; other site 350058014034 Trehalose-6-phosphate synthase [Carbohydrate transport and metabolism]; Region: OtsA; COG0380 350058014035 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 350058014036 active site 350058014037 homotetramer interface [polypeptide binding]; other site 350058014038 acetoin reductases; Region: 23BDH; TIGR02415 350058014039 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 350058014040 NAD(P) binding site [chemical binding]; other site 350058014041 active site 350058014042 hopanoid-associated sugar epimerase; Region: HpnA; TIGR03466 350058014043 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 350058014044 NAD(P) binding site [chemical binding]; other site 350058014045 active site 350058014046 virulence factor Mce family protein; Region: Mtu_fam_mce; TIGR00996 350058014047 mce related protein; Region: MCE; pfam02470 350058014048 virulence factor Mce family protein; Region: Mtu_fam_mce; TIGR00996 350058014049 mce related protein; Region: MCE; pfam02470 350058014050 virulence factor Mce family protein; Region: Mtu_fam_mce; TIGR00996 350058014051 mce related protein; Region: MCE; pfam02470 350058014052 virulence factor Mce family protein; Region: Mtu_fam_mce; TIGR00996 350058014053 mce related protein; Region: MCE; pfam02470 350058014054 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 350058014055 mce related protein; Region: MCE; pfam02470 350058014056 virulence factor Mce family protein; Region: Mtu_fam_mce; TIGR00996 350058014057 mce related protein; Region: MCE; pfam02470 350058014058 Protein of unknown function (DUF3407); Region: DUF3407; pfam11887 350058014059 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 350058014060 Permease; Region: Permease; pfam02405 350058014061 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 350058014062 Permease; Region: Permease; pfam02405 350058014063 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07792 350058014064 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 350058014065 NAD(P) binding site [chemical binding]; other site 350058014066 active site 350058014067 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 350058014068 Putative acyl-CoA dehydrogenases similar to fadE6, fadE17, and fadE26; Region: ACAD_fadE6_17_26; cd01152 350058014069 FAD binding site [chemical binding]; other site 350058014070 substrate binding site [chemical binding]; other site 350058014071 catalytic base [active] 350058014072 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 350058014073 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 350058014074 active site 350058014075 acyl-CoA synthetase; Validated; Region: PRK07867 350058014076 Fatty acid transport proteins (FATP) play dual roles as fatty acid transporters and its activation enzymes; Region: FATP_FACS; cd05940 350058014077 acyl-activating enzyme (AAE) consensus motif; other site 350058014078 putative AMP binding site [chemical binding]; other site 350058014079 putative active site [active] 350058014080 putative CoA binding site [chemical binding]; other site 350058014081 acyl-CoA synthetase; Provisional; Region: PRK13388 350058014082 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 350058014083 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 350058014084 active site 350058014085 CoA binding site [chemical binding]; other site 350058014086 AMP binding site [chemical binding]; other site 350058014087 3-ketosteroid-delta-1-dehydrogenase; Provisional; Region: PRK12837 350058014088 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 350058014089 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 350058014090 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 350058014091 Probable lipoprotein LpqN; Region: Lpp-LpqN; pfam10738 350058014092 hypothetical protein; Validated; Region: PRK07586 350058014093 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 350058014094 PYR/PP interface [polypeptide binding]; other site 350058014095 dimer interface [polypeptide binding]; other site 350058014096 TPP binding site [chemical binding]; other site 350058014097 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 350058014098 TPP-binding site [chemical binding]; other site 350058014099 dimer interface [polypeptide binding]; other site 350058014100 Nitronate monooxygenase; Region: NMO; pfam03060 350058014101 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 350058014102 FMN binding site [chemical binding]; other site 350058014103 substrate binding site [chemical binding]; other site 350058014104 putative catalytic residue [active] 350058014105 acyl-CoA synthetase; Validated; Region: PRK07798 350058014106 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 350058014107 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_5; cd05924 350058014108 acyl-activating enzyme (AAE) consensus motif; other site 350058014109 acyl-activating enzyme (AAE) consensus motif; other site 350058014110 putative AMP binding site [chemical binding]; other site 350058014111 putative active site [active] 350058014112 putative CoA binding site [chemical binding]; other site 350058014113 enoyl-CoA hydratase; Provisional; Region: PRK07799 350058014114 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 350058014115 substrate binding site [chemical binding]; other site 350058014116 oxyanion hole (OAH) forming residues; other site 350058014117 trimer interface [polypeptide binding]; other site 350058014118 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 350058014119 Cytochrome P450; Region: p450; cl12078 350058014120 Acetoacetate decarboxylase (ADC); Region: ADC; pfam06314 350058014121 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 350058014122 probable F420-dependent oxidoreductase, Rv3520c family; Region: F420_Rv3520c; TIGR03559 350058014123 Predicted nucleic-acid-binding protein containing a Zn-ribbon [General function prediction only]; Region: COG1545 350058014124 DUF35 OB-fold domain; Region: DUF35; pfam01796 350058014125 Predicted nucleic-acid-binding protein containing a Zn-ribbon [General function prediction only]; Region: COG1545 350058014126 DUF35 OB-fold domain; Region: DUF35; pfam01796 350058014127 lipid-transfer protein; Provisional; Region: PRK07937 350058014128 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 350058014129 active site 350058014130 acetyl-CoA acetyltransferase; Provisional; Region: PRK08313 350058014131 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 350058014132 active site 350058014133 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 350058014134 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350058014135 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 350058014136 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 350058014137 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 350058014138 Sulfotransferase family; Region: Sulfotransfer_3; pfam13469 350058014139 short chain dehydrogenase; Provisional; Region: PRK07890 350058014140 classical (c) SDRs; Region: SDR_c; cd05233 350058014141 NAD(P) binding site [chemical binding]; other site 350058014142 active site 350058014143 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 350058014144 putative DNA binding site [nucleotide binding]; other site 350058014145 Transcriptional regulator [Transcription]; Region: IclR; COG1414 350058014146 putative Zn2+ binding site [ion binding]; other site 350058014147 Superfamily II DNA helicase [DNA replication, recombination, and repair]; Region: RecQ; COG0514 350058014148 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 350058014149 ATP binding site [chemical binding]; other site 350058014150 putative Mg++ binding site [ion binding]; other site 350058014151 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 350058014152 nucleotide binding region [chemical binding]; other site 350058014153 ATP-binding site [chemical binding]; other site 350058014154 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 350058014155 active site 350058014156 4-hyroxy-2-oxovalerate/4-hydroxy-2-oxopentanoic acid aldolase,; Validated; Region: PRK08195 350058014157 4-hydroxy-2-oxovalerate aldolase, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_HOA; cd07943 350058014158 active site 350058014159 catalytic residues [active] 350058014160 metal binding site [ion binding]; metal-binding site 350058014161 DmpG-like communication domain; Region: DmpG_comm; pfam07836 350058014162 acetaldehyde dehydrogenase; Validated; Region: PRK08300 350058014163 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 350058014164 Prokaryotic acetaldehyde dehydrogenase, dimerisation; Region: AcetDehyd-dimer; pfam09290 350058014165 2-keto-4-pentenoate hydratase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3971 350058014166 3-ketosteroid-delta-1-dehydrogenase; Reviewed; Region: PRK07843 350058014167 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 350058014168 enoyl-CoA hydratase; Region: PLN02864 350058014169 Metal-binding domain of MaoC dehydratase; Region: zf-MaoC; pfam13452 350058014170 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 350058014171 dimer interaction site [polypeptide binding]; other site 350058014172 substrate-binding tunnel; other site 350058014173 active site 350058014174 catalytic site [active] 350058014175 substrate binding site [chemical binding]; other site 350058014176 Domain of unknown function (DUF1942); Region: DUF1942; pfam09167 350058014177 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 350058014178 colanic acid biosynthesis glycosyltransferase WcaL; Provisional; Region: PRK15427 350058014179 putative ADP-binding pocket [chemical binding]; other site 350058014180 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 350058014181 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 350058014182 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 350058014183 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 350058014184 O-Antigen ligase; Region: Wzy_C; pfam04932 350058014185 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 350058014186 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_tuaB_like; cd13127 350058014187 colanic acid exporter; Provisional; Region: PRK10459 350058014188 Glycosyl transferases group 1; Region: Glyco_trans_1_4; pfam13692 350058014189 lipid-transfer protein; Provisional; Region: PRK07855 350058014190 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 350058014191 active site 350058014192 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 350058014193 putative active site [active] 350058014194 putative catalytic site [active] 350058014195 (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 350058014196 active site 350058014197 catalytic site [active] 350058014198 Predicted nucleic-acid-binding protein containing a Zn-ribbon [General function prediction only]; Region: COG1545 350058014199 DUF35 OB-fold domain; Region: DUF35; pfam01796 350058014200 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 350058014201 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 350058014202 active site 350058014203 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 350058014204 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 350058014205 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 350058014206 active site 350058014207 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 350058014208 Cytochrome P450; Region: p450; cl12078 350058014209 acetyl-CoA acetyltransferase; Provisional; Region: PRK07850 350058014210 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 350058014211 dimer interface [polypeptide binding]; other site 350058014212 active site 350058014213 Domain of unknown function (DUF385); Region: DUF385; pfam04075 350058014214 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 350058014215 catalytic core [active] 350058014216 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 350058014217 GAF domain; Region: GAF; pfam01590 350058014218 short chain dehydrogenase; Provisional; Region: PRK07791 350058014219 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 350058014220 NAD(P) binding site [chemical binding]; other site 350058014221 active site 350058014222 short chain dehydrogenase; Provisional; Region: PRK07856 350058014223 classical (c) SDRs; Region: SDR_c; cd05233 350058014224 NAD(P) binding site [chemical binding]; other site 350058014225 active site 350058014226 enoyl-CoA hydratase; Provisional; Region: PRK06495 350058014227 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 350058014228 substrate binding site [chemical binding]; other site 350058014229 oxyanion hole (OAH) forming residues; other site 350058014230 trimer interface [polypeptide binding]; other site 350058014231 Acyl CoA:acetate/3-ketoacid CoA transferase, alpha subunit [Lipid metabolism]; Region: AtoD; COG1788 350058014232 Coenzyme A transferase; Region: CoA_trans; cl17247 350058014233 Nitronate monooxygenase; Region: NMO; pfam03060 350058014234 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 350058014235 FMN binding site [chemical binding]; other site 350058014236 substrate binding site [chemical binding]; other site 350058014237 putative catalytic residue [active] 350058014238 oxidoreductase, Rxyl_3153 family; Region: Rxyl_3153; TIGR03989 350058014239 Class III alcohol dehydrogenase; Region: Zn_ADH_class_III; cd08279 350058014240 NAD binding site [chemical binding]; other site 350058014241 catalytic Zn binding site [ion binding]; other site 350058014242 substrate binding site [chemical binding]; other site 350058014243 structural Zn binding site [ion binding]; other site 350058014244 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; cl17312 350058014245 L-ectoine synthase; Reviewed; Region: ectC; PRK13290 350058014246 diaminobutyrate--2-oxoglutarate aminotransferase; Validated; Region: PRK09264 350058014247 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 350058014248 inhibitor-cofactor binding pocket; inhibition site 350058014249 pyridoxal 5'-phosphate binding site [chemical binding]; other site 350058014250 catalytic residue [active] 350058014251 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 350058014252 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 350058014253 Coenzyme A binding pocket [chemical binding]; other site 350058014254 xanthine permease; Region: pbuX; TIGR03173 350058014255 OHCU decarboxylase; Region: OHCU_decarbox; pfam09349 350058014256 putative OHCU decarboxylase; Provisional; Region: PRK13798 350058014257 HIUase (5-hydroxyisourate hydrolase) catalyzes the second step in a three-step ureide pathway in which 5-hydroxyisourate (HIU), a product of the uricase (urate oxidase) reaction, is hydrolyzed to 2-oxo-4-hydroxy-4-carboxy-5-ureidoimidazoline (OHCU); Region: TLP_HIUase; cd05822 350058014258 active site 350058014259 homotetramer interface [polypeptide binding]; other site 350058014260 salicylate hydroxylase; Provisional; Region: PRK08163 350058014261 hypothetical protein; Provisional; Region: PRK07236 350058014262 guanine deaminase; Provisional; Region: PRK09228 350058014263 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 350058014264 active site 350058014265 FAD binding domain in molybdopterin dehydrogenase; Region: FAD_binding_5; pfam00941 350058014266 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 350058014267 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 350058014268 catalytic loop [active] 350058014269 iron binding site [ion binding]; other site 350058014270 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 350058014271 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 350058014272 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 350058014273 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 350058014274 acetyl-CoA acetyltransferase; Provisional; Region: PRK07801 350058014275 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 350058014276 dimer interface [polypeptide binding]; other site 350058014277 active site 350058014278 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 350058014279 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350058014280 YsiA-like protein, C-terminal region; Region: TetR_C_4; pfam08359 350058014281 short chain dehydrogenase; Provisional; Region: PRK07831 350058014282 classical (c) SDRs; Region: SDR_c; cd05233 350058014283 NAD(P) binding site [chemical binding]; other site 350058014284 active site 350058014285 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 350058014286 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 350058014287 active site 350058014288 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07656 350058014289 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 350058014290 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_2; cd05917 350058014291 acyl-activating enzyme (AAE) consensus motif; other site 350058014292 acyl-activating enzyme (AAE) consensus motif; other site 350058014293 putative AMP binding site [chemical binding]; other site 350058014294 putative active site [active] 350058014295 putative CoA binding site [chemical binding]; other site 350058014296 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 350058014297 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 350058014298 active site 350058014299 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 350058014300 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 350058014301 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 350058014302 active site 350058014303 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 350058014304 active site 350058014305 aspartate aminotransferase; Provisional; Region: PRK05764 350058014306 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 350058014307 pyridoxal 5'-phosphate binding site [chemical binding]; other site 350058014308 homodimer interface [polypeptide binding]; other site 350058014309 catalytic residue [active] 350058014310 Transmembrane subunit (TM) of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which are involved in the uptake of branched-chain amino acids (AAs), as well as TMs of transporters involved in the uptake of...; Region: TM_PBP1_branched-chain-AA_like; cl00454 350058014311 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 350058014312 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 350058014313 TM-ABC transporter signature motif; other site 350058014314 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 350058014315 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 350058014316 Walker A/P-loop; other site 350058014317 ATP binding site [chemical binding]; other site 350058014318 Q-loop/lid; other site 350058014319 ABC transporter signature motif; other site 350058014320 Walker B; other site 350058014321 D-loop; other site 350058014322 H-loop/switch region; other site 350058014323 ABC-type xylose transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: XylF; COG4213 350058014324 Periplasmic xylose-binding component of the ABC-type transport systems that belong to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_xylose_binding; cd01538 350058014325 putative ligand binding site [chemical binding]; other site 350058014326 xylose isomerase, Arthrobacter type; Region: xylA_Arthro; TIGR02631 350058014327 xylose isomerase; Provisional; Region: PRK12677 350058014328 MarR family; Region: MarR_2; pfam12802 350058014329 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 350058014330 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 350058014331 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 350058014332 D-xylulose kinase; Region: XylB; TIGR01312 350058014333 nucleotide binding site [chemical binding]; other site 350058014334 Domain of unknown function (DUF222); Region: DUF222; pfam02720 350058014335 acetoacetyl-CoA synthetase; Provisional; Region: PRK03584 350058014336 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 350058014337 acyl-activating enzyme (AAE) consensus motif; other site 350058014338 AMP binding site [chemical binding]; other site 350058014339 active site 350058014340 CoA binding site [chemical binding]; other site 350058014341 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 350058014342 3-hydroxybutyrate dehydrogenase; Region: PHB_DH; TIGR01963 350058014343 NAD(P) binding site [chemical binding]; other site 350058014344 active site 350058014345 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 350058014346 metabolite-proton symporter; Region: 2A0106; TIGR00883 350058014347 putative substrate translocation pore; other site 350058014348 Transcriptional regulator [Transcription]; Region: LysR; COG0583 350058014349 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 350058014350 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 350058014351 dimerization interface [polypeptide binding]; other site 350058014352 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 350058014353 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 350058014354 Protein of unknown function (DUF2867); Region: DUF2867; pfam11066 350058014355 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 350058014356 2,3-dihydroxybiphenyl 1,2-dioxygenase; Region: 23dbph12diox; TIGR03213 350058014357 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 350058014358 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 350058014359 active site 350058014360 Fe binding site [ion binding]; other site 350058014361 2-hydroxy-6-oxo-6-phenylhexa-2,4-dienoate hydrolase; Region: biphenyl_bphD; TIGR03343 350058014362 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 350058014363 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 350058014364 Naphthocyclinone hydroxylase; Region: NcnH; cd01159 350058014365 Flavin binding site [chemical binding]; other site 350058014366 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 350058014367 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 350058014368 FAD binding pocket [chemical binding]; other site 350058014369 FAD binding motif [chemical binding]; other site 350058014370 phosphate binding motif [ion binding]; other site 350058014371 beta-alpha-beta structure motif; other site 350058014372 NAD(p) ribose binding residues [chemical binding]; other site 350058014373 NAD binding pocket [chemical binding]; other site 350058014374 NAD(P)-pyrophosphate-nicotinamide binding residues [chemical binding]; other site 350058014375 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 350058014376 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 350058014377 catalytic loop [active] 350058014378 iron binding site [ion binding]; other site 350058014379 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 350058014380 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 350058014381 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 350058014382 active site 350058014383 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 350058014384 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 350058014385 active site 350058014386 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 350058014387 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350058014388 Trehalose-6-phosphatase [Carbohydrate transport and metabolism]; Region: OtsB; COG1877 350058014389 trehalose-6-phosphate phosphatase; Provisional; Region: PRK10187; cl17105 350058014390 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 350058014391 S-adenosylmethionine binding site [chemical binding]; other site 350058014392 Thioredoxin domain; Region: Thioredoxin_3; pfam13192 350058014393 Predicted permeases [General function prediction only]; Region: COG0701 350058014394 Transcriptional regulators [Transcription]; Region: PurR; COG1609 350058014395 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 350058014396 DNA binding site [nucleotide binding] 350058014397 domain linker motif; other site 350058014398 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 350058014399 putative dimerization interface [polypeptide binding]; other site 350058014400 putative ligand binding site [chemical binding]; other site 350058014401 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 350058014402 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 350058014403 ABC-ATPase subunit interface; other site 350058014404 dimer interface [polypeptide binding]; other site 350058014405 putative PBP binding regions; other site 350058014406 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 350058014407 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 350058014408 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 350058014409 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 350058014410 intersubunit interface [polypeptide binding]; other site 350058014411 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 350058014412 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 350058014413 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; smart00833 350058014414 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 350058014415 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 350058014416 active site residue [active] 350058014417 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 350058014418 active site residue [active] 350058014419 PQQ-like domain; Region: PQQ_2; pfam13360 350058014420 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 350058014421 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 350058014422 intersubunit interface [polypeptide binding]; other site 350058014423 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 350058014424 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cl00462 350058014425 ABC-ATPase subunit interface; other site 350058014426 dimer interface [polypeptide binding]; other site 350058014427 putative PBP binding regions; other site 350058014428 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 350058014429 cobalt transport protein ATP-binding subunit; Region: cbiO; TIGR01166 350058014430 Walker A/P-loop; other site 350058014431 ATP binding site [chemical binding]; other site 350058014432 ABC transporter signature motif; other site 350058014433 Walker B; other site 350058014434 D-loop; other site 350058014435 H-loop/switch region; other site 350058014436 LamB/YcsF family of lactam utilization protein; Region: LamB_YcsF_like; cd10787 350058014437 putative active site [active] 350058014438 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 350058014439 dimerization interface [polypeptide binding]; other site 350058014440 putative DNA binding site [nucleotide binding]; other site 350058014441 putative Zn2+ binding site [ion binding]; other site 350058014442 Predicted permease; Region: DUF318; cl17795 350058014443 TIGR03943 family protein; Region: TIGR03943 350058014444 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 350058014445 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; smart00833 350058014446 50S ribosomal protein L31 type B; Reviewed; Region: rpmE2; PRK01678 350058014447 ANTAR domain; Region: ANTAR; pfam03861 350058014448 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 350058014449 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 350058014450 transmembrane helices; other site 350058014451 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 350058014452 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 350058014453 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 350058014454 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 350058014455 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 350058014456 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 350058014457 active site 350058014458 HIGH motif; other site 350058014459 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 350058014460 KMSKS motif; other site 350058014461 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 350058014462 homotrimer interaction site [polypeptide binding]; other site 350058014463 zinc binding site [ion binding]; other site 350058014464 CDP-binding sites; other site 350058014465 Transcriptional regulators, similar to M. xanthus CarD [Transcription]; Region: COG1329 350058014466 DNA repair protein RadA; Provisional; Region: PRK11823 350058014467 Sms (bacterial radA) DNA repair protein. This protein is not related to archael radA any more than is to other RecA-like NTPases. Sms has a role in recombination and recombinational repair and is responsible for the stabilization or processing of...; Region: Sms; cd01121 350058014468 Walker A motif/ATP binding site; other site 350058014469 ATP binding site [chemical binding]; other site 350058014470 Walker B motif; other site 350058014471 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 350058014472 DNA integrity scanning protein DisA; Provisional; Region: PRK13482 350058014473 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 350058014474 DisA bacterial checkpoint controller linker region; Region: DisA-linker; pfam10635 350058014475 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 350058014476 active site clefts [active] 350058014477 zinc binding site [ion binding]; other site 350058014478 dimer interface [polypeptide binding]; other site 350058014479 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 350058014480 endonuclease III; Region: ENDO3c; smart00478 350058014481 minor groove reading motif; other site 350058014482 helix-hairpin-helix signature motif; other site 350058014483 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; cl15304 350058014484 RNA polymerase sigma-70 factor, TIGR02957 family; Region: SigX4 350058014485 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 350058014486 DNA binding residues [nucleotide binding] 350058014487 SnoaL-like domain; Region: SnoaL_2; pfam12680 350058014488 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 350058014489 transcriptional activator FtrA; Provisional; Region: ftrA; PRK09393 350058014490 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 350058014491 conserved cys residue [active] 350058014492 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 350058014493 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 350058014494 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 350058014495 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 350058014496 catalytic site [active] 350058014497 Uncharacterized enzyme involved in biosynthesis of extracellular polysaccharides [General function prediction only]; Region: COG2329 350058014498 Beta-lactamase class A [Defense mechanisms]; Region: PenP; COG2367 350058014499 Beta-lactamase enzyme family; Region: Beta-lactamase2; pfam13354 350058014500 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 350058014501 catalytic core [active] 350058014502 Probable cobalt transporter subunit (CbtA); Region: CbtA; cl02266 350058014503 Probable cobalt transporter subunit (CbtB); Region: CbtB; cl09723 350058014504 Transposase [DNA replication, recombination, and repair]; Region: COG5421 350058014505 ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]; Region: clpA; COG0542 350058014506 Clp amino terminal domain; Region: Clp_N; pfam02861 350058014507 Clp amino terminal domain; Region: Clp_N; pfam02861 350058014508 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 350058014509 Walker A motif; other site 350058014510 ATP binding site [chemical binding]; other site 350058014511 Walker B motif; other site 350058014512 arginine finger; other site 350058014513 UvrB/uvrC motif; Region: UVR; pfam02151 350058014514 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 350058014515 Walker A motif; other site 350058014516 ATP binding site [chemical binding]; other site 350058014517 Walker B motif; other site 350058014518 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 350058014519 Lsr2; Region: Lsr2; pfam11774 350058014520 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 350058014521 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 350058014522 dimer interface [polypeptide binding]; other site 350058014523 putative anticodon binding site; other site 350058014524 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 350058014525 motif 1; other site 350058014526 dimer interface [polypeptide binding]; other site 350058014527 active site 350058014528 motif 2; other site 350058014529 motif 3; other site 350058014530 Predicted amino acid aldolase or racemase [Amino acid transport and metabolism]; Region: COG3616 350058014531 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Bacterial Cryptic D-Serine Dehydratase; Region: PLPDE_III_cryptic_DSD; cd06818 350058014532 active site 350058014533 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 350058014534 dimer interface [polypeptide binding]; other site 350058014535 substrate binding site [chemical binding]; other site 350058014536 catalytic residue [active] 350058014537 pantothenate kinase; Reviewed; Region: PRK13318 350058014538 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 350058014539 tetramerization interface [polypeptide binding]; other site 350058014540 active site 350058014541 Pantoate-beta-alanine ligase; Region: PanC; cd00560 350058014542 pantoate--beta-alanine ligase; Region: panC; TIGR00018 350058014543 active site 350058014544 ATP-binding site [chemical binding]; other site 350058014545 pantoate-binding site; other site 350058014546 HXXH motif; other site 350058014547 Rossmann-like domain; Region: Rossmann-like; pfam10727 350058014548 Uncharacterized conserved protein [Function unknown]; Region: COG5495 350058014549 Domain of unknown function (DUF2520); Region: DUF2520; pfam10728 350058014550 Protein of unknown function (DUF3180); Region: DUF3180; pfam11377 350058014551 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 350058014552 catalytic center binding site [active] 350058014553 ATP binding site [chemical binding]; other site 350058014554 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 350058014555 homooctamer interface [polypeptide binding]; other site 350058014556 active site 350058014557 dihydropteroate synthase; Region: DHPS; TIGR01496 350058014558 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 350058014559 substrate binding pocket [chemical binding]; other site 350058014560 dimer interface [polypeptide binding]; other site 350058014561 inhibitor binding site; inhibition site 350058014562 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 350058014563 homodecamer interface [polypeptide binding]; other site 350058014564 GTP cyclohydrolase I; Provisional; Region: PLN03044 350058014565 active site 350058014566 putative catalytic site residues [active] 350058014567 zinc binding site [ion binding]; other site 350058014568 GTP-CH-I/GFRP interaction surface; other site 350058014569 FtsH Extracellular; Region: FtsH_ext; pfam06480 350058014570 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 350058014571 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 350058014572 Walker A motif; other site 350058014573 ATP binding site [chemical binding]; other site 350058014574 Walker B motif; other site 350058014575 arginine finger; other site 350058014576 Peptidase family M41; Region: Peptidase_M41; pfam01434 350058014577 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 350058014578 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 350058014579 PE-PPE domain; Region: PE-PPE; pfam08237 350058014580 Uncharacterized conserved protein [Function unknown]; Region: COG2968 350058014581 Protein of unknown function (DUF541); Region: SIMPL; pfam04402 350058014582 The MopB_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. These members belong to...; Region: MopB_1; cd02762 350058014583 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 350058014584 putative [Fe4-S4] binding site [ion binding]; other site 350058014585 putative molybdopterin cofactor binding site [chemical binding]; other site 350058014586 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 350058014587 putative molybdopterin cofactor binding site; other site 350058014588 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 350058014589 active site 350058014590 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 350058014591 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 350058014592 Ligand Binding Site [chemical binding]; other site 350058014593 uncharacterized protein, coenzyme F420 biosynthesis associated; Region: DUF2342_F420; TIGR03883 350058014594 Uncharacterized conserved protein (DUF2342); Region: DUF2342; pfam10103 350058014595 D-alanyl-D-alanine carboxypeptidase (penicillin-binding protein 4) [Cell envelope biogenesis, outer membrane]; Region: DacB; COG2027 350058014596 D-alanyl-D-alanine carboxypeptidase, serine-type, PBP4 family; Region: PBP4; TIGR00666 350058014597 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 350058014598 dimer interface [polypeptide binding]; other site 350058014599 substrate binding site [chemical binding]; other site 350058014600 metal binding sites [ion binding]; metal-binding site 350058014601 putative OHCU decarboxylase; Provisional; Region: PRK13798 350058014602 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 350058014603 Beta-lactamase; Region: Beta-lactamase; pfam00144 350058014604 integral membrane protein, TerC family; Region: R_switched_Alx; TIGR03718 350058014605 yybP-ykoY element as predicted by Rfam (RF00080), score 42.97; Mvan_R0055 350058014606 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 350058014607 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 350058014608 acyl-activating enzyme (AAE) consensus motif; other site 350058014609 AMP binding site [chemical binding]; other site 350058014610 active site 350058014611 CoA binding site [chemical binding]; other site 350058014612 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 350058014613 non-ribosomal peptide synthetase terminal domain of unknown function; Region: NRPS_term_dom; TIGR02353 350058014614 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 350058014615 putative trimer interface [polypeptide binding]; other site 350058014616 putative CoA binding site [chemical binding]; other site 350058014617 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 350058014618 putative trimer interface [polypeptide binding]; other site 350058014619 putative CoA binding site [chemical binding]; other site 350058014620 Peptidase M1 family Aminopeptidase N; Region: M1_APN_4; cd09603 350058014621 Zn binding site [ion binding]; other site 350058014622 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 350058014623 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 350058014624 NAD(P) binding site [chemical binding]; other site 350058014625 active site 350058014626 uncharacterized Actinobacterial protein TIGR03083; Region: TIGR03083 350058014627 Helix-turn-helix domain; Region: HTH_17; pfam12728 350058014628 Protein of unknown function (DUF433); Region: DUF433; cl01030 350058014629 DNA polymerase III subunit delta'; Validated; Region: PRK07940 350058014630 DNA polymerase III subunit delta'; Validated; Region: PRK08485 350058014631 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 350058014632 dimerization interface [polypeptide binding]; other site 350058014633 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 350058014634 cyclase homology domain; Region: CHD; cd07302 350058014635 nucleotidyl binding site; other site 350058014636 metal binding site [ion binding]; metal-binding site 350058014637 dimer interface [polypeptide binding]; other site 350058014638 DNA topoisomerase I subunit omega; Validated; Region: PRK07561 350058014639 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 350058014640 active site 350058014641 interdomain interaction site; other site 350058014642 putative metal-binding site [ion binding]; other site 350058014643 nucleotide binding site [chemical binding]; other site 350058014644 Bacterial DNA topoisomeraes I ATP-binding domain; Region: TOP1Bc; smart00436 350058014645 domain I; other site 350058014646 phosphate binding site [ion binding]; other site 350058014647 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 350058014648 domain II; other site 350058014649 domain III; other site 350058014650 nucleotide binding site [chemical binding]; other site 350058014651 DNA binding groove [nucleotide binding] 350058014652 catalytic site [active] 350058014653 domain IV; other site 350058014654 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 350058014655 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 350058014656 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 350058014657 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 350058014658 DNA-binding site [nucleotide binding]; DNA binding site 350058014659 RNA-binding motif; other site 350058014660 helicase/secretion neighborhood putative DEAH-box helicase; Region: DECH_helic; TIGR03817 350058014661 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 350058014662 ATP binding site [chemical binding]; other site 350058014663 putative Mg++ binding site [ion binding]; other site 350058014664 Domain of unknown function (DUF1998); Region: DUF1998; pfam09369 350058014665 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 350058014666 Catalytic domain of Protein Kinases; Region: PKc; cd00180 350058014667 active site 350058014668 ATP binding site [chemical binding]; other site 350058014669 substrate binding site [chemical binding]; other site 350058014670 activation loop (A-loop); other site 350058014671 Protein of unknown function (DUF4244); Region: DUF4244; pfam14029 350058014672 Flp pilus assembly protein TadC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: TadC; COG2064 350058014673 Flp pilus assembly protein TadB [Intracellular trafficking and secretion]; Region: TadB; COG4965 350058014674 proteobacterial dedicated sortase system histidine kinase; Region: marine_sort_HK; TIGR03785 350058014675 Domain of unknown function DUF302; Region: DUF302; cl01364 350058014676 heavy metal-(Cd/Co/Hg/Pb/Zn)-translocating P-type ATPase; Region: ATPase-IB2_Cd; TIGR01512 350058014677 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 350058014678 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 350058014679 motif II; other site 350058014680 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 350058014681 dimerization interface [polypeptide binding]; other site 350058014682 putative DNA binding site [nucleotide binding]; other site 350058014683 putative Zn2+ binding site [ion binding]; other site 350058014684 Predicted membrane protein [Function unknown]; Region: COG3462 350058014685 Short C-terminal domain; Region: SHOCT; pfam09851 350058014686 Uncharacterized copper-binding protein [Inorganic ion transport and metabolism]; Region: COG4454 350058014687 Domain of unknown function (DUF955); Region: DUF955; cl01076 350058014688 Phage integrase, N-terminal SAM-like domain; Region: Phage_integr_N; cl12235 350058014689 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 350058014690 active site 350058014691 DNA binding site [nucleotide binding] 350058014692 Int/Topo IB signature motif; other site 350058014693 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 350058014694 active site 350058014695 Int/Topo IB signature motif; other site 350058014696 DNA binding site [nucleotide binding] 350058014697 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 350058014698 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 350058014699 ATP binding site [chemical binding]; other site 350058014700 Walker A motif; other site 350058014701 hexamer interface [polypeptide binding]; other site 350058014702 Walker B motif; other site 350058014703 helicase/secretion neighborhood CpaE-like protein; Region: CpaE_hom_Actino; TIGR03815 350058014704 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 350058014705 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 350058014706 motif II; other site 350058014707 acetyl-CoA synthetase; Provisional; Region: PRK00174 350058014708 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 350058014709 active site 350058014710 CoA binding site [chemical binding]; other site 350058014711 acyl-activating enzyme (AAE) consensus motif; other site 350058014712 AMP binding site [chemical binding]; other site 350058014713 acetate binding site [chemical binding]; other site 350058014714 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 350058014715 active site 350058014716 Protein of unknown function (DUF1469); Region: DUF1469; pfam07332 350058014717 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 350058014718 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 350058014719 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 350058014720 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 350058014721 putative active site [active] 350058014722 putative CoA binding site [chemical binding]; other site 350058014723 nudix motif; other site 350058014724 metal binding site [ion binding]; metal-binding site 350058014725 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 350058014726 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 350058014727 catalytic residues [active] 350058014728 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 350058014729 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 350058014730 minor groove reading motif; other site 350058014731 helix-hairpin-helix signature motif; other site 350058014732 substrate binding pocket [chemical binding]; other site 350058014733 active site 350058014734 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 350058014735 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 350058014736 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 350058014737 ligand binding site [chemical binding]; other site 350058014738 flexible hinge region; other site 350058014739 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 350058014740 putative switch regulator; other site 350058014741 non-specific DNA interactions [nucleotide binding]; other site 350058014742 DNA binding site [nucleotide binding] 350058014743 sequence specific DNA binding site [nucleotide binding]; other site 350058014744 putative cAMP binding site [chemical binding]; other site 350058014745 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 350058014746 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 350058014747 homotrimer interaction site [polypeptide binding]; other site 350058014748 putative active site [active] 350058014749 Domain of unknown function (DUF4177); Region: DUF4177; pfam13783 350058014750 Predicted ATPase involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: ArsA; COG0003 350058014751 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 350058014752 P loop; other site 350058014753 Nucleotide binding site [chemical binding]; other site 350058014754 DTAP/Switch II; other site 350058014755 Switch I; other site 350058014756 Predicted ATPase involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: ArsA; COG0003 350058014757 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 350058014758 DTAP/Switch II; other site 350058014759 Switch I; other site 350058014760 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 350058014761 Transcription factor WhiB; Region: Whib; pfam02467 350058014762 Membrane carboxypeptidase (penicillin-binding protein) [Cell envelope biogenesis, outer membrane]; Region: MrcB; COG0744 350058014763 Transglycosylase; Region: Transgly; pfam00912 350058014764 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 350058014765 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 350058014766 phosphodiesterase YaeI; Provisional; Region: PRK11340 350058014767 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 350058014768 putative active site [active] 350058014769 putative metal binding site [ion binding]; other site 350058014770 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 350058014771 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 350058014772 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 350058014773 catalytic residue [active] 350058014774 Adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0827 350058014775 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 350058014776 S-adenosylmethionine binding site [chemical binding]; other site 350058014777 PAP2 superfamily; Region: PAP2; pfam01569 350058014778 active site 350058014779 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 350058014780 F420-dependent oxidoreductase, G6PDH family; Region: F420_G6P_family; TIGR03557 350058014781 AAA ATPase domain; Region: AAA_16; pfam13191 350058014782 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 350058014783 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 350058014784 DNA binding residues [nucleotide binding] 350058014785 dimerization interface [polypeptide binding]; other site 350058014786 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 350058014787 D-arabinose dehydrogenase; Region: arabinose_DH_like; cd05284 350058014788 NAD binding site [chemical binding]; other site 350058014789 substrate binding site [chemical binding]; other site 350058014790 catalytic Zn binding site [ion binding]; other site 350058014791 structural Zn binding site [ion binding]; other site 350058014792 Ketosteroid isomerase-related protein [General function prediction only]; Region: COG3631 350058014793 Domain of unknown function (DUF4350); Region: DUF4350; pfam14258 350058014794 MoxR-like ATPases [General function prediction only]; Region: COG0714 350058014795 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 350058014796 Walker A motif; other site 350058014797 ATP binding site [chemical binding]; other site 350058014798 Walker B motif; other site 350058014799 arginine finger; other site 350058014800 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 350058014801 Protein of unknown function DUF58; Region: DUF58; pfam01882 350058014802 Domain of unknown function (DUF4095); Region: DUF4095; pfam13338 350058014803 Uncharacterized membrane protein [Function unknown]; Region: SpoIIM; COG1300 350058014804 Predicted membrane protein/domain [Function unknown]; Region: COG1714 350058014805 Lignostilbene-alpha,beta-dioxygenase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3670 350058014806 Retinal pigment epithelial membrane protein; Region: RPE65; pfam03055 350058014807 Predicted transcriptional regulators [Transcription]; Region: COG1695 350058014808 Transcriptional regulator PadR-like family; Region: PadR; cl17335 350058014809 Virulence activator alpha C-term; Region: Vir_act_alpha_C; pfam10400 350058014810 Predicted transcriptional regulators [Transcription]; Region: COG1695 350058014811 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 350058014812 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 350058014813 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 350058014814 active site 350058014815 catalytic tetrad [active] 350058014816 Peptide chain release factor RF-3 [Translation, ribosomal structure and biogenesis]; Region: PrfC; COG4108 350058014817 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 350058014818 G1 box; other site 350058014819 putative GEF interaction site [polypeptide binding]; other site 350058014820 GTP/Mg2+ binding site [chemical binding]; other site 350058014821 Switch I region; other site 350058014822 G2 box; other site 350058014823 G3 box; other site 350058014824 Switch II region; other site 350058014825 G4 box; other site 350058014826 G5 box; other site 350058014827 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 350058014828 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 350058014829 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 350058014830 salt bridge; other site 350058014831 non-specific DNA binding site [nucleotide binding]; other site 350058014832 sequence-specific DNA binding site [nucleotide binding]; other site 350058014833 short chain dehydrogenase; Provisional; Region: PRK06180 350058014834 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 350058014835 NADP binding site [chemical binding]; other site 350058014836 active site 350058014837 steroid binding site; other site 350058014838 glycerol kinase; Provisional; Region: glpK; PRK00047 350058014839 Cellulomonas sp. glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_CsGK_like; cd07789 350058014840 N- and C-terminal domain interface [polypeptide binding]; other site 350058014841 active site 350058014842 MgATP binding site [chemical binding]; other site 350058014843 catalytic site [active] 350058014844 metal binding site [ion binding]; metal-binding site 350058014845 putative homotetramer interface [polypeptide binding]; other site 350058014846 glycerol binding site [chemical binding]; other site 350058014847 homodimer interface [polypeptide binding]; other site 350058014848 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 350058014849 S-adenosylmethionine binding site [chemical binding]; other site 350058014850 Methyltransferase domain; Region: Methyltransf_23; pfam13489 350058014851 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 350058014852 S-adenosylmethionine binding site [chemical binding]; other site 350058014853 Methyltransferase domain; Region: Methyltransf_23; pfam13489 350058014854 Methyltransferase domain; Region: Methyltransf_11; pfam08241 350058014855 S-adenosylmethionine binding site [chemical binding]; other site 350058014856 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 350058014857 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 350058014858 active site 350058014859 phosphorylation site [posttranslational modification] 350058014860 intermolecular recognition site; other site 350058014861 dimerization interface [polypeptide binding]; other site 350058014862 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 350058014863 DNA binding residues [nucleotide binding] 350058014864 dimerization interface [polypeptide binding]; other site 350058014865 GAF domain; Region: GAF_3; pfam13492 350058014866 GAF domain; Region: GAF_2; pfam13185 350058014867 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 350058014868 Histidine kinase; Region: HisKA_3; pfam07730 350058014869 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 350058014870 ATP binding site [chemical binding]; other site 350058014871 Mg2+ binding site [ion binding]; other site 350058014872 G-X-G motif; other site 350058014873 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 350058014874 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 350058014875 active site 350058014876 NAD binding site [chemical binding]; other site 350058014877 metal binding site [ion binding]; metal-binding site 350058014878 Protein containing von Willebrand factor type A (vWA) domain [General function prediction only]; Region: CoxE; COG3552 350058014879 MoxR-like ATPases [General function prediction only]; Region: COG0714 350058014880 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 350058014881 Walker A motif; other site 350058014882 ATP binding site [chemical binding]; other site 350058014883 Walker B motif; other site 350058014884 arginine finger; other site 350058014885 NDMA-dependent methanol dehydrogenase; Region: NDMA_methanol; TIGR04266 350058014886 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 350058014887 active site 350058014888 NAD binding site [chemical binding]; other site 350058014889 metal binding site [ion binding]; metal-binding site 350058014890 tetracycline repressor protein TetR; Provisional; Region: PRK13756 350058014891 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350058014892 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 350058014893 Cytochrome P450; Region: p450; cl12078 350058014894 ergothioneine biosynthesis PLP-dependent enzyme EgtE; Region: egtE_PLP_lyase; TIGR04343 350058014895 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 350058014896 catalytic residue [active] 350058014897 dimethylhistidine N-methyltransferase; Region: egtD_ergothio; TIGR03438 350058014898 Uncharacterized conserved protein (DUF2260); Region: DUF2260; pfam10017 350058014899 ergothioneine biosynthesis protein EgtC; Region: TIGR03442 350058014900 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 350058014901 putative active site [active] 350058014902 putative dimer interface [polypeptide binding]; other site 350058014903 ergothioneine biosynthesis protein EgtB; Region: egtB_TIGR03440 350058014904 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 350058014905 ergothioneine biosynthesis glutamate--cysteine ligase EgtA; Region: EgtA_Cys_ligase; TIGR03444 350058014906 PknH-like extracellular domain; Region: PknH_C; pfam14032 350058014907 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 350058014908 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; smart00833 350058014909 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 350058014910 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 350058014911 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 350058014912 30S ribosomal protein S18; Provisional; Region: PRK13401 350058014913 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 350058014914 Clade 3 of the heme-binding enzyme catalase; Region: catalase_clade_3; cd08156 350058014915 tetramer interface [polypeptide binding]; other site 350058014916 heme binding pocket [chemical binding]; other site 350058014917 NADPH binding site [chemical binding]; other site 350058014918 Transposase, Mutator family; Region: Transposase_mut; pfam00872 350058014919 MULE transposase domain; Region: MULE; pfam10551 350058014920 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 350058014921 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 350058014922 active site 350058014923 DNA binding site [nucleotide binding] 350058014924 Int/Topo IB signature motif; other site 350058014925 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 350058014926 DNA binding site [nucleotide binding] 350058014927 Int/Topo IB signature motif; other site 350058014928 active site 350058014929 catalytic residues [active] 350058014930 Domain of unknown function (DUF4185); Region: DUF4185; pfam13810 350058014931 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 350058014932 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 350058014933 aspartate kinase; Reviewed; Region: PRK06635 350058014934 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 350058014935 putative nucleotide binding site [chemical binding]; other site 350058014936 putative catalytic residues [active] 350058014937 putative Mg ion binding site [ion binding]; other site 350058014938 putative aspartate binding site [chemical binding]; other site 350058014939 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 350058014940 putative allosteric regulatory site; other site 350058014941 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 350058014942 putative allosteric regulatory residue; other site 350058014943 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 350058014944 FMN binding site [chemical binding]; other site 350058014945 dimer interface [polypeptide binding]; other site 350058014946 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 350058014947 dimerization interface [polypeptide binding]; other site 350058014948 putative DNA binding site [nucleotide binding]; other site 350058014949 putative Zn2+ binding site [ion binding]; other site 350058014950 Ligand-binding SRPBCC domain of Micromonospora echinospora CalC and related proteins; Region: SRPBCC_CalC; cd08891 350058014951 putative hydrophobic ligand binding site [chemical binding]; other site 350058014952 CLM binding site; other site 350058014953 L1 loop; other site 350058014954 DNA binding site [nucleotide binding] 350058014955 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 350058014956 glutamine synthetase, type III; Region: gln_synth_III; TIGR03105 350058014957 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 350058014958 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 350058014959 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 350058014960 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 350058014961 active site 350058014962 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 350058014963 domain_subunit interface; other site 350058014964 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 350058014965 Conserved region in glutamate synthase; Region: Glu_synthase; pfam01645 350058014966 active site 350058014967 FMN binding site [chemical binding]; other site 350058014968 substrate binding site [chemical binding]; other site 350058014969 3Fe-4S cluster binding site [ion binding]; other site 350058014970 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 350058014971 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 350058014972 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 350058014973 non-specific DNA binding site [nucleotide binding]; other site 350058014974 salt bridge; other site 350058014975 sequence-specific DNA binding site [nucleotide binding]; other site 350058014976 Cupin domain; Region: Cupin_2; pfam07883 350058014977 2-isopropylmalate synthase; Validated; Region: PRK03739 350058014978 Mycobacterium tuberculosis LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA; cd07942 350058014979 active site 350058014980 catalytic residues [active] 350058014981 metal binding site [ion binding]; metal-binding site 350058014982 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 350058014983 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 350058014984 Linear amide C-N hydrolases, choloylglycine hydrolase family; Region: CBAH; pfam02275 350058014985 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 350058014986 Methyltransferase domain; Region: Methyltransf_31; pfam13847 350058014987 S-adenosylmethionine binding site [chemical binding]; other site 350058014988 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 350058014989 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 350058014990 DNA polymerase III subunit epsilon; Provisional; Region: PRK06063 350058014991 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 350058014992 active site 350058014993 catalytic site [active] 350058014994 substrate binding site [chemical binding]; other site 350058014995 UDP-N-acetylmuramyl tripeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurE; COG0769 350058014996 Domain of unknown function (DUF1727); Region: DUF1727; pfam08353 350058014997 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 350058014998 catalytic triad [active] 350058014999 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 350058015000 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 350058015001 active site 350058015002 phosphorylation site [posttranslational modification] 350058015003 intermolecular recognition site; other site 350058015004 dimerization interface [polypeptide binding]; other site 350058015005 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 350058015006 DNA binding residues [nucleotide binding] 350058015007 dimerization interface [polypeptide binding]; other site 350058015008 Histidine kinase; Region: HisKA_3; pfam07730 350058015009 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 350058015010 Cytochrome P450; Region: p450; cl12078 350058015011 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 350058015012 putative active site [active] 350058015013 recombination protein RecR; Reviewed; Region: recR; PRK00076 350058015014 RecR protein; Region: RecR; pfam02132 350058015015 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 350058015016 putative active site [active] 350058015017 putative metal-binding site [ion binding]; other site 350058015018 tetramer interface [polypeptide binding]; other site 350058015019 hypothetical protein; Validated; Region: PRK00153 350058015020 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 350058015021 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 350058015022 active site 350058015023 metal binding site [ion binding]; metal-binding site 350058015024 Polyketide cyclase / dehydrase and lipid transport; Region: Polyketide_cyc2; pfam10604 350058015025 hydrophobic ligand binding site; other site 350058015026 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 350058015027 FAD binding domain; Region: FAD_binding_4; pfam01565 350058015028 Mycolic acid cyclopropane synthetase; Region: CMAS; pfam02353 350058015029 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 350058015030 S-adenosylmethionine binding site [chemical binding]; other site 350058015031 DNA polymerase III, subunit gamma and tau; Region: dnaX_nterm; TIGR02397 350058015032 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 350058015033 Walker A motif; other site 350058015034 ATP binding site [chemical binding]; other site 350058015035 Walker B motif; other site 350058015036 arginine finger; other site 350058015037 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 350058015038 Alanine-glyoxylate amino-transferase; Region: Aminotran_MocR; pfam12897 350058015039 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 350058015040 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 350058015041 catalytic residue [active] 350058015042 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 350058015043 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 350058015044 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 350058015045 protein binding site [polypeptide binding]; other site 350058015046 Uncharacterized conserved protein related to dihydrodipicolinate reductase [Function unknown]; Region: COG3804 350058015047 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 350058015048 EamA-like transporter family; Region: EamA; pfam00892 350058015049 Predicted thioesterase involved in non-ribosomal peptide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: GrsT; COG3208 350058015050 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 350058015051 nucleotide binding site [chemical binding]; other site 350058015052 ATP-dependent DNA ligase; Reviewed; Region: ligC; PRK08224 350058015053 Adenylation domain of Mycobacterium tuberculosis LigC-like ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_LigC; cd07905 350058015054 active site 350058015055 DNA binding site [nucleotide binding] 350058015056 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 350058015057 DNA binding site [nucleotide binding] 350058015058 Domain of unknown function (DUF4331); Region: DUF4331; pfam14224 350058015059 Integral membrane protein (intg_mem_TP0381); Region: Intg_mem_TP0381; pfam09529 350058015060 Domain of unknown function (DUF222); Region: DUF222; pfam02720 350058015061 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 350058015062 active site 350058015063 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 350058015064 FMN binding site [chemical binding]; other site 350058015065 dimer interface [polypeptide binding]; other site 350058015066 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 350058015067 ATP-dependent DNA ligase; Reviewed; Region: ligC; PRK08224 350058015068 Adenylation domain of Mycobacterium tuberculosis LigC-like ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_LigC; cd07905 350058015069 active site 350058015070 DNA binding site [nucleotide binding] 350058015071 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 350058015072 DNA binding site [nucleotide binding] 350058015073 Nodulin-21 and CCC1-related protein family; Region: Nodulin-21_like_1; cd02432 350058015074 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 350058015075 Peptidase family M48; Region: Peptidase_M48; cl12018 350058015076 Penicillinase repressor; Region: Pencillinase_R; pfam03965 350058015077 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 350058015078 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 350058015079 Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: DsbG; COG1651 350058015080 Thioredoxin; Region: Thioredoxin_4; pfam13462 350058015081 IgD-like repeat domain of mycobacterial L,D-transpeptidases; Region: LDT_IgD_like; cl17506 350058015082 IgD-like repeat domain of mycobacterial L,D-transpeptidases; Region: LDT_IgD_like_2; cd13432 350058015083 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 350058015084 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 350058015085 Putative esterase; Region: Esterase; pfam00756 350058015086 S-formylglutathione hydrolase; Region: PLN02442 350058015087 Diol dehydratase reactivase ATPase-like domain; Region: DDR; pfam08841 350058015088 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 350058015089 propanediol dehydratase small subunit; Provisional; Region: pduE; PRK15443 350058015090 propanediol dehydratase large subunit; Provisional; Region: pduC; PRK15444 350058015091 Propanediol dehydratase, large subunit [Secondary metabolites biosynthesis, transport, and catabolism]; Region: PduC; COG4909 350058015092 alpha-alpha subunit/dimer interface [polypeptide binding]; other site 350058015093 alpha-beta subunit interface [polypeptide binding]; other site 350058015094 alpha-gamma subunit interface [polypeptide binding]; other site 350058015095 active site 350058015096 substrate and K+ binding site; other site 350058015097 K+ binding site [ion binding]; other site 350058015098 cobalamin binding site [chemical binding]; other site 350058015099 Dehydratase medium subunit; Region: Dehydratase_MU; cl17703 350058015100 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 350058015101 Ornithine/acetylornithine aminotransferase [Amino acid transport and metabolism]; Region: ArgD; COG4992 350058015102 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 350058015103 inhibitor-cofactor binding pocket; inhibition site 350058015104 pyridoxal 5'-phosphate binding site [chemical binding]; other site 350058015105 catalytic residue [active] 350058015106 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 350058015107 NAD(P) binding site [chemical binding]; other site 350058015108 catalytic residues [active] 350058015109 Bacterial Micro-Compartment (BMC) domain; Region: BMC; cl01982 350058015110 Hexamer interface [polypeptide binding]; other site 350058015111 Hexagonal pore residue; other site 350058015112 Bacterial Micro-Compartment (BMC)-like domain 1 repeat 2; Region: BMC_like_1_repeat2; cd07052 350058015113 putative hexamer interface [polypeptide binding]; other site 350058015114 putative hexagonal pore; other site 350058015115 Ethanolamine utilisation protein and carboxysome structural protein domain family; Region: EutN_CcmL; cd01614 350058015116 Hexamer/Pentamer interface [polypeptide binding]; other site 350058015117 central pore; other site 350058015118 Carbon dioxide concentrating mechanism/carboxysome shell protein [Secondary metabolites biosynthesis, transport, and catabolism / Energy production and conversion]; Region: CcmK; COG4577 350058015119 Carbon dioxide concentrating mechanism K (CcmK)-like proteins, Bacterial Micro-Compartment (BMC) domain; Region: BMC_CcmK_like; cd07045 350058015120 Hexamer interface [polypeptide binding]; other site 350058015121 Hexagonal pore residue; other site 350058015122 Bacterial Micro-Compartment (BMC) domain; Region: BMC; cl01982 350058015123 Hexamer interface [polypeptide binding]; other site 350058015124 Hexagonal pore residue; other site 350058015125 Bacterial Micro-Compartment (BMC)-like domain 1 repeat 2; Region: BMC_like_1_repeat2; cd07052 350058015126 putative hexamer interface [polypeptide binding]; other site 350058015127 putative hexagonal pore; other site 350058015128 Phosphotransferase enzyme family; Region: APH; pfam01636 350058015129 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 350058015130 short chain dehydrogenase; Provisional; Region: PRK12829 350058015131 classical (c) SDRs; Region: SDR_c; cd05233 350058015132 NAD(P) binding site [chemical binding]; other site 350058015133 active site 350058015134 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 350058015135 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 350058015136 DNA-binding site [nucleotide binding]; DNA binding site 350058015137 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 350058015138 glutamyl-Q tRNA(Asp) synthetase; Reviewed; Region: PRK05710 350058015139 active site 350058015140 HIGH motif; other site 350058015141 nucleotide binding site [chemical binding]; other site 350058015142 active site 350058015143 KMSKS motif; other site 350058015144 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 350058015145 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 350058015146 substrate binding pocket [chemical binding]; other site 350058015147 membrane-bound complex binding site; other site 350058015148 hinge residues; other site 350058015149 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 350058015150 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 350058015151 dimer interface [polypeptide binding]; other site 350058015152 conserved gate region; other site 350058015153 putative PBP binding loops; other site 350058015154 ABC-ATPase subunit interface; other site 350058015155 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 350058015156 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 350058015157 Walker A/P-loop; other site 350058015158 ATP binding site [chemical binding]; other site 350058015159 Q-loop/lid; other site 350058015160 ABC transporter signature motif; other site 350058015161 Walker B; other site 350058015162 D-loop; other site 350058015163 H-loop/switch region; other site 350058015164 Monoamine oxidase [Amino acid transport and metabolism]; Region: COG1231 350058015165 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 350058015166 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 350058015167 Cytochrome P450; Region: p450; cl12078 350058015168 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 350058015169 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; cl00409 350058015170 Mycobacterium 19 kDa lipoprotein antigen; Region: Myco_19_kDa; pfam05481 350058015171 Mycobacterium 19 kDa lipoprotein antigen; Region: Myco_19_kDa; pfam05481 350058015172 Protein of unknown function (DUF732); Region: DUF732; pfam05305 350058015173 Uncharacterized conserved protein related to dihydrodipicolinate reductase [Function unknown]; Region: COG3804 350058015174 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 350058015175 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 350058015176 FMN binding site [chemical binding]; other site 350058015177 substrate binding site [chemical binding]; other site 350058015178 putative catalytic residue [active] 350058015179 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 350058015180 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 350058015181 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 350058015182 PTS system mannitol-specific transporter subunit IICBA; Provisional; Region: PRK15083 350058015183 PTS system, mannitol-specific IIC component; Region: mtlA; TIGR00851 350058015184 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 350058015185 active site 350058015186 P-loop; other site 350058015187 phosphorylation site [posttranslational modification] 350058015188 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 350058015189 active site 350058015190 phosphorylation site [posttranslational modification] 350058015191 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 350058015192 L-iditol 2-dehydrogenase; Region: iditol_2_DH_like; cd08235 350058015193 putative NAD(P) binding site [chemical binding]; other site 350058015194 catalytic Zn binding site [ion binding]; other site 350058015195 butyryl-CoA:acetate CoA-transferase; Region: butyr_acet_CoA; TIGR03948 350058015196 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 350058015197 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 350058015198 PAS domain; Region: PAS_9; pfam13426 350058015199 putative active site [active] 350058015200 heme pocket [chemical binding]; other site 350058015201 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 350058015202 PAS domain; Region: PAS_9; pfam13426 350058015203 putative active site [active] 350058015204 heme pocket [chemical binding]; other site 350058015205 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 350058015206 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 350058015207 metal binding site [ion binding]; metal-binding site 350058015208 active site 350058015209 I-site; other site 350058015210 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 350058015211 nucleoside/Zn binding site; other site 350058015212 dimer interface [polypeptide binding]; other site 350058015213 catalytic motif [active] 350058015214 putative tRNA adenosine deaminase-associated protein; Region: tRNA_deam_assoc; TIGR03941 350058015215 prephenate dehydrogenase; Validated; Region: PRK06545 350058015216 prephenate dehydrogenase; Validated; Region: PRK08507 350058015217 Putative glycolipid-binding; Region: Glycolipid_bind; pfam06475 350058015218 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 350058015219 putative PBP binding loops; other site 350058015220 dimer interface [polypeptide binding]; other site 350058015221 ABC-ATPase subunit interface; other site 350058015222 ABC-type proline/glycine betaine transport systems, permease component [Amino acid transport and metabolism]; Region: OpuBB; COG1174 350058015223 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 350058015224 ATP-binding cassette domain of the osmoprotectant transporter; Region: ABC_OpuCA_Osmoprotection; cd03295 350058015225 Walker A/P-loop; other site 350058015226 ATP binding site [chemical binding]; other site 350058015227 Q-loop/lid; other site 350058015228 ABC transporter signature motif; other site 350058015229 Walker B; other site 350058015230 D-loop; other site 350058015231 H-loop/switch region; other site 350058015232 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 350058015233 Protein of unknown function (DUF1049); Region: DUF1049; cl01539 350058015234 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 350058015235 Phosphotransferase enzyme family; Region: APH; pfam01636 350058015236 putative active site [active] 350058015237 putative substrate binding site [chemical binding]; other site 350058015238 ATP binding site [chemical binding]; other site 350058015239 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 350058015240 catalytic core [active] 350058015241 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 350058015242 classical (c) SDRs; Region: SDR_c; cd05233 350058015243 NAD(P) binding site [chemical binding]; other site 350058015244 active site 350058015245 Alkyl sulfatase and related hydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2015 350058015246 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 350058015247 Cupin domain; Region: Cupin_2; pfam07883 350058015248 Protein of unknown function (DUF419); Region: DUF419; cl15265 350058015249 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 350058015250 active site 350058015251 metal binding site [ion binding]; metal-binding site 350058015252 homotetramer interface [polypeptide binding]; other site 350058015253 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 350058015254 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 350058015255 D-pathway; other site 350058015256 Putative ubiquinol binding site [chemical binding]; other site 350058015257 Low-spin heme (heme b) binding site [chemical binding]; other site 350058015258 Putative water exit pathway; other site 350058015259 Binuclear center (heme o3/CuB) [ion binding]; other site 350058015260 K-pathway; other site 350058015261 Putative proton exit pathway; other site 350058015262 histidinol-phosphate aminotransferase; Validated; Region: PRK02731 350058015263 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 350058015264 pyridoxal 5'-phosphate binding site [chemical binding]; other site 350058015265 homodimer interface [polypeptide binding]; other site 350058015266 catalytic residue [active] 350058015267 enoyl-CoA hydratase; Provisional; Region: PRK06142 350058015268 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 350058015269 substrate binding site [chemical binding]; other site 350058015270 oxyanion hole (OAH) forming residues; other site 350058015271 trimer interface [polypeptide binding]; other site 350058015272 MarR family; Region: MarR; pfam01047 350058015273 MarR family; Region: MarR_2; cl17246 350058015274 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 350058015275 PIG3 p53-inducible quinone oxidoreductase; Region: p53_inducible_oxidoreductase; cd05276 350058015276 NAD(P) binding site [chemical binding]; other site 350058015277 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 350058015278 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 350058015279 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 350058015280 catalytic residue [active] 350058015281 Protein of unknown function (DUF2587); Region: DUF2587; pfam10759 350058015282 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 350058015283 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 350058015284 Walker A/P-loop; other site 350058015285 ATP binding site [chemical binding]; other site 350058015286 Q-loop/lid; other site 350058015287 ABC transporter signature motif; other site 350058015288 Walker B; other site 350058015289 D-loop; other site 350058015290 H-loop/switch region; other site 350058015291 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 350058015292 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 350058015293 active site 350058015294 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 350058015295 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 350058015296 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_ox_2; pfam12900 350058015297 Transcription factor zinc-finger; Region: zf-TFIIB; pfam13453 350058015298 Phosphotransferase enzyme family; Region: APH; pfam01636 350058015299 Uncharacterized conserved protein [Function unknown]; Region: COG2128 350058015300 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 350058015301 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 350058015302 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 350058015303 DNA-binding site [nucleotide binding]; DNA binding site 350058015304 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 350058015305 pyridoxal 5'-phosphate binding site [chemical binding]; other site 350058015306 homodimer interface [polypeptide binding]; other site 350058015307 catalytic residue [active] 350058015308 Predicted membrane protein [Function unknown]; Region: COG2246 350058015309 GtrA-like protein; Region: GtrA; pfam04138 350058015310 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 350058015311 FAD binding domain; Region: FAD_binding_4; pfam01565 350058015312 D-arabinono-1,4-lactone oxidase; Region: ALO; pfam04030 350058015313 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 350058015314 classical (c) SDRs; Region: SDR_c; cd05233 350058015315 NAD(P) binding site [chemical binding]; other site 350058015316 active site 350058015317 Arabinofuranosyltransferase N terminal; Region: AftA_N; pfam12250 350058015318 Arabinofuranosyltransferase A C terminal; Region: AftA_C; pfam12249 350058015319 Mycobacterial cell wall arabinan synthesis protein; Region: Arabinose_trans; pfam04602 350058015320 Mycobacterial cell wall arabinan synthesis protein; Region: Arabinose_trans; pfam04602 350058015321 Mycobacterial cell wall arabinan synthesis protein; Region: Arabinose_trans; pfam04602 350058015322 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 350058015323 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 350058015324 substrate binding pocket [chemical binding]; other site 350058015325 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 350058015326 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 350058015327 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 350058015328 membrane-bound complex binding site; other site 350058015329 hinge residues; other site 350058015330 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 350058015331 Catalytic domain of Protein Kinases; Region: PKc; cd00180 350058015332 active site 350058015333 ATP binding site [chemical binding]; other site 350058015334 substrate binding site [chemical binding]; other site 350058015335 activation loop (A-loop); other site 350058015336 RDD family; Region: RDD; pfam06271 350058015337 Domain of unknown function (DUF4331); Region: DUF4331; pfam14224 350058015338 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 350058015339 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 350058015340 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 350058015341 Phosphopantetheine attachment site; Region: PKS_PP; smart00823 350058015342 Beta-ketoacyl synthase; Region: PKS_KS; smart00825 350058015343 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 350058015344 active site 350058015345 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 350058015346 Acyl transferase domain in polyketide synthase (PKS) enzymes; Region: PKS_AT; smart00827 350058015347 Phosphopantetheine attachment site; Region: PKS_PP; smart00823 350058015348 Thioesterase domains of type I polyketide synthases or non-ribosomal peptide synthetases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3319 350058015349 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07769 350058015350 Fatty acyl-AMP ligase (FAAL); Region: FAAL; cd05931 350058015351 acyl-activating enzyme (AAE) consensus motif; other site 350058015352 active site 350058015353 Cutinase; Region: Cutinase; pfam01083 350058015354 Putative esterase; Region: Esterase; pfam00756 350058015355 S-formylglutathione hydrolase; Region: PLN02442 350058015356 Predicted esterase [General function prediction only]; Region: COG0627 350058015357 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 350058015358 phosphoribose diphosphate:decaprenyl-phosphate phosphoribosyltransferase; Provisional; Region: PRK12324 350058015359 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 350058015360 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 350058015361 active site 350058015362 UDP-galactopyranose mutase [Cell envelope biogenesis, outer membrane]; Region: Glf; COG0562 350058015363 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 350058015364 UDP-galactopyranose mutase; Region: GLF; pfam03275 350058015365 Uncharacterized protein potentially involved in peptidoglycan biosynthesis [Cell envelope biogenesis, outer membrane]; Region: COG5479 350058015366 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 350058015367 amidase catalytic site [active] 350058015368 Zn binding residues [ion binding]; other site 350058015369 substrate binding site [chemical binding]; other site 350058015370 LGFP repeat; Region: LGFP; pfam08310 350058015371 AAA ATPase domain; Region: AAA_16; pfam13191 350058015372 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 350058015373 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 350058015374 DNA binding residues [nucleotide binding] 350058015375 dimerization interface [polypeptide binding]; other site 350058015376 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 350058015377 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 350058015378 active site 350058015379 motif I; other site 350058015380 motif II; other site 350058015381 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 350058015382 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 350058015383 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 350058015384 putative acyl-acceptor binding pocket; other site 350058015385 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 350058015386 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 350058015387 putative acyl-acceptor binding pocket; other site 350058015388 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 350058015389 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 350058015390 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 350058015391 iron-sulfur cluster [ion binding]; other site 350058015392 [2Fe-2S] cluster binding site [ion binding]; other site 350058015393 seryl-tRNA synthetase; Provisional; Region: PRK05431 350058015394 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 350058015395 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 350058015396 dimer interface [polypeptide binding]; other site 350058015397 active site 350058015398 motif 1; other site 350058015399 motif 2; other site 350058015400 motif 3; other site 350058015401 Septum formation; Region: Septum_form; pfam13845 350058015402 Septum formation; Region: Septum_form; pfam13845 350058015403 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 350058015404 catalytic core [active] 350058015405 prephenate dehydratase; Provisional; Region: PRK11898 350058015406 Prephenate dehydratase; Region: PDT; pfam00800 350058015407 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 350058015408 putative L-Phe binding site [chemical binding]; other site 350058015409 Protein of unknown function (DUF2470); Region: DUF2470; pfam10615 350058015410 CAAX protease self-immunity; Region: Abi; pfam02517 350058015411 Transcriptional regulator [Transcription]; Region: LytR; COG1316 350058015412 nonheme-containing ferritins; Region: Nonheme_Ferritin; cd01055 350058015413 Ferritin-like domain; Region: Ferritin; pfam00210 350058015414 ferroxidase diiron center [ion binding]; other site 350058015415 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 350058015416 Glycerophosphodiester phosphodiesterase domain of uncharacterized bacterial glycerophosphodiester phosphodiesterases; Region: GDPD_like_2; cd08582 350058015417 putative active site [active] 350058015418 catalytic site [active] 350058015419 putative metal binding site [ion binding]; other site 350058015420 Domain of unknown function (DUF4328); Region: DUF4328; pfam14219 350058015421 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 350058015422 active site residue [active] 350058015423 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 350058015424 Catalytic site [active] 350058015425 Nickel-containing superoxide dismutase; Region: Sod_Ni; pfam09055 350058015426 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 350058015427 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 350058015428 CopC domain; Region: CopC; pfam04234 350058015429 Copper resistance protein D; Region: CopD; pfam05425 350058015430 ribonuclease activity regulator protein RraA; Provisional; Region: PRK09372 350058015431 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 350058015432 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 350058015433 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 350058015434 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350058015435 DNA polymerase IV; Validated; Region: PRK03858 350058015436 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 350058015437 active site 350058015438 DNA binding site [nucleotide binding] 350058015439 probable F420-dependent oxidoreductase, MSMEG_4141 family; Region: F420_MSMEG_4141; TIGR03620 350058015440 F420-dependent oxidoreductase, MSMEG_4879 family; Region: F420_MSMEG_4879; TIGR03564 350058015441 hypothetical protein; Provisional; Region: PRK07945 350058015442 RelA- and SpoT-like ppGpp Synthetases and Hydrolases, catalytic domain; Region: Rel-Spo_like; cl11966 350058015443 Polymerase and Histidinol Phosphatase domain of bacterial polymerase X; Region: PHP_PolX; cd07436 350058015444 active site 350058015445 Protein of unknown function (DUF2580); Region: DUF2580; pfam10824 350058015446 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 350058015447 dimerization interface [polypeptide binding]; other site 350058015448 putative DNA binding site [nucleotide binding]; other site 350058015449 putative Zn2+ binding site [ion binding]; other site 350058015450 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 350058015451 Sulfate transporter family; Region: Sulfate_transp; pfam00916 350058015452 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 350058015453 TIGR03086 family protein; Region: TIGR03086 350058015454 uncharacterized Actinobacterial protein TIGR03083; Region: TIGR03083 350058015455 probable F420-dependent oxidoreductase, Rv1855c family; Region: F420_Rv1855c; TIGR03560 350058015456 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 350058015457 glutamate synthase subunit beta; Reviewed; Region: gltD; PRK12810 350058015458 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 350058015459 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 350058015460 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 350058015461 active site 350058015462 dimer interface [polypeptide binding]; other site 350058015463 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 350058015464 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 350058015465 active site 350058015466 FMN binding site [chemical binding]; other site 350058015467 substrate binding site [chemical binding]; other site 350058015468 3Fe-4S cluster binding site [ion binding]; other site 350058015469 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 350058015470 domain interface; other site 350058015471 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 350058015472 CoenzymeA binding site [chemical binding]; other site 350058015473 subunit interaction site [polypeptide binding]; other site 350058015474 PHB binding site; other site 350058015475 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 350058015476 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 350058015477 dimerization interface [polypeptide binding]; other site 350058015478 DPS ferroxidase diiron center [ion binding]; other site 350058015479 ion pore; other site 350058015480 3-methyladenine DNA glycosylase/8-oxoguanine DNA glycosylase [DNA replication, recombination, and repair]; Region: AlkA; COG0122 350058015481 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 350058015482 minor groove reading motif; other site 350058015483 helix-hairpin-helix signature motif; other site 350058015484 active site 350058015485 Domain of unknown function (DUF427); Region: DUF427; pfam04248 350058015486 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 350058015487 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 350058015488 O-Methyltransferase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3315 350058015489 Leucine carboxyl methyltransferase; Region: LCM; pfam04072 350058015490 hopanoid-associated sugar epimerase; Region: HpnA; TIGR03466 350058015491 uncharacterized subgroup of aldehyde reductase and flavonoid reductase related proteins, extended (e) SDRs; Region: AR_FR_like_1_SDR_e; cd05228 350058015492 putative NADP binding site [chemical binding]; other site 350058015493 putative substrate binding site [chemical binding]; other site 350058015494 active site 350058015495 SnoaL-like domain; Region: SnoaL_2; pfam12680 350058015496 SelR domain; Region: SelR; pfam01641 350058015497 methionine sulfoxide reductase B; Provisional; Region: PRK00222 350058015498 methionine sulfoxide reductase A; Provisional; Region: PRK14054 350058015499 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 350058015500 Cytochrome P450; Region: p450; cl12078 350058015501 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 350058015502 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350058015503 Methyltransferase domain; Region: Methyltransf_24; pfam13578 350058015504 Prenyltransferase-like; Region: Prenyltrans_2; pfam13249 350058015505 Protein of unknown function, DUF608; Region: DUF608; pfam04685 350058015506 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 350058015507 S-adenosylmethionine binding site [chemical binding]; other site 350058015508 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 350058015509 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 350058015510 PPOX class probable F420-dependent enzyme; Region: Rv1155_F420; TIGR03618 350058015511 Domain of unknown function (DUF222); Region: DUF222; pfam02720 350058015512 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 350058015513 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 350058015514 active site 350058015515 ANTAR (AmiR and NasR transcription antitermination regulators) is an RNA-binding domain found in bacterial transcription antitermination regulatory proteins; Region: ANTAR; smart01012 350058015516 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; cl00220 350058015517 catalytic triad [active] 350058015518 conserved cis-peptide bond; other site 350058015519 glycogen debranching enzyme GlgX; Region: glgX_debranch; TIGR02100 350058015520 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 350058015521 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 350058015522 active site 350058015523 catalytic site [active] 350058015524 Type I phosphodiesterase / nucleotide pyrophosphatase; Region: Phosphodiest; pfam01663 350058015525 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 350058015526 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 350058015527 Walker A/P-loop; other site 350058015528 ATP binding site [chemical binding]; other site 350058015529 Q-loop/lid; other site 350058015530 ABC transporter signature motif; other site 350058015531 Walker B; other site 350058015532 D-loop; other site 350058015533 H-loop/switch region; other site 350058015534 TOBE domain; Region: TOBE_2; pfam08402 350058015535 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 350058015536 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 350058015537 dimer interface [polypeptide binding]; other site 350058015538 conserved gate region; other site 350058015539 putative PBP binding loops; other site 350058015540 ABC-ATPase subunit interface; other site 350058015541 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 350058015542 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 350058015543 ABC-ATPase subunit interface; other site 350058015544 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 350058015545 trehalose synthase-fused probable maltokinase; Region: TreS_Cterm; TIGR02457 350058015546 Uncharacterized protein, probably involved in trehalose biosynthesis [Carbohydrate transport and metabolism]; Region: Ble; COG3281 350058015547 Putative heme iron utilization protein [Inorganic ion transport and metabolism]; Region: HugZ; COG0748 350058015548 Pyridoxamine 5'-phosphate oxidase; Region: Pyrid_oxidase_2; pfam13883 350058015549 Protein of unknown function (DUF2470); Region: DUF2470; pfam10615 350058015550 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 350058015551 active site 350058015552 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 350058015553 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 350058015554 Walker A/P-loop; other site 350058015555 ATP binding site [chemical binding]; other site 350058015556 Q-loop/lid; other site 350058015557 ABC transporter signature motif; other site 350058015558 Walker B; other site 350058015559 D-loop; other site 350058015560 H-loop/switch region; other site 350058015561 TOBE domain; Region: TOBE_2; pfam08402 350058015562 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 350058015563 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 350058015564 dimer interface [polypeptide binding]; other site 350058015565 conserved gate region; other site 350058015566 putative PBP binding loops; other site 350058015567 ABC-ATPase subunit interface; other site 350058015568 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 350058015569 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 350058015570 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 350058015571 PPOX class probable F420-dependent enzyme, Rv0121 family; Region: Rv0121_F420; TIGR03668 350058015572 RNA polymerase sigma-70 factor, TIGR02947 family; Region: SigH_actino 350058015573 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 350058015574 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 350058015575 DNA binding residues [nucleotide binding] 350058015576 Threonine/homoserine efflux transporter [Amino acid transport and metabolism]; Region: rhtA; COG5006 350058015577 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 350058015578 metabolite-proton symporter; Region: 2A0106; TIGR00883 350058015579 putative substrate translocation pore; other site 350058015580 Trehalose and maltose hydrolases (possible phosphorylases) [Carbohydrate transport and metabolism]; Region: ATH1; COG1554 350058015581 Glycosyl hydrolase family 65, N-terminal domain; Region: Glyco_hydro_65N; pfam03636 350058015582 Glycosyl hydrolase family 65 central catalytic domain; Region: Glyco_hydro_65m; pfam03632 350058015583 beta-phosphoglucomutase family hydrolase; Region: PGMB-YQAB-SF; TIGR02009 350058015584 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 350058015585 probable F420-dependent oxidoreductase, Rv2161c family; Region: F420_Rv2161c; TIGR03619 350058015586 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 350058015587 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 350058015588 Rhomboid family; Region: Rhomboid; pfam01694 350058015589 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 350058015590 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 350058015591 active site 350058015592 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 350058015593 Beta-lactamase; Region: Beta-lactamase; pfam00144 350058015594 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR6; cd08272 350058015595 Enoylreductase; Region: PKS_ER; smart00829 350058015596 putative NAD(P) binding site [chemical binding]; other site 350058015597 oxidoreductase; Provisional; Region: PRK06196 350058015598 retinol dehydrogenase (retinol-DH), Light dependent Protochlorophyllide (Pchlide) OxidoReductase (LPOR) and related proteins, classical (c) SDRs; Region: retinol-DH_like_SDR_c_like; cd05327 350058015599 putative NAD(P) binding site [chemical binding]; other site 350058015600 active site 350058015601 pyridine nucleotide-disulfide oxidoreductase family protein; Region: Nterm_to_SelD; TIGR03169 350058015602 Glutamine cyclotransferase [Posttranslational modification, protein turnover, chaperones]; Region: COG3823 350058015603 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 350058015604 Alcohol dehydrogenases of the MDR family; Region: Zn_ADH8; cd08262 350058015605 putative NAD(P) binding site [chemical binding]; other site 350058015606 catalytic Zn binding site [ion binding]; other site 350058015607 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 350058015608 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 350058015609 Sugar diacid utilization regulator [Transcription / Signal transduction mechanisms]; Region: CdaR; COG3835 350058015610 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 350058015611 ATP-dependent RNA helicase HrpA; Provisional; Region: PRK11131 350058015612 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 350058015613 ATP binding site [chemical binding]; other site 350058015614 putative Mg++ binding site [ion binding]; other site 350058015615 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 350058015616 nucleotide binding region [chemical binding]; other site 350058015617 Helicase associated domain (HA2); Region: HA2; pfam04408 350058015618 Oligonucleotide/oligosaccharide-binding (OB)-fold; Region: OB_NTP_bind; pfam07717 350058015619 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 350058015620 MspA; Region: MspA; pfam09203 350058015621 Uncharacterized conserved protein [Function unknown]; Region: COG0397 350058015622 hypothetical protein; Validated; Region: PRK00029 350058015623 acyltransferase, WS/DGAT/MGAT; Region: acyl_WS_DGAT; TIGR02946 350058015624 Wax ester synthase-like Acyl-CoA acyltransferase domain; Region: WES_acyltransf; pfam03007 350058015625 Protein of unknown function (DUF1298); Region: DUF1298; pfam06974 350058015626 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 350058015627 active site 350058015628 Transposase zinc-ribbon domain; Region: Zn_Tnp_IS1595; pfam12760 350058015629 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; pfam12762 350058015630 hypothetical protein; Provisional; Region: PRK06062 350058015631 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 350058015632 inhibitor-cofactor binding pocket; inhibition site 350058015633 pyridoxal 5'-phosphate binding site [chemical binding]; other site 350058015634 catalytic residue [active] 350058015635 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 350058015636 classical (c) SDRs; Region: SDR_c; cd05233 350058015637 NAD(P) binding site [chemical binding]; other site 350058015638 active site 350058015639 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 350058015640 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 350058015641 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; smart00833 350058015642 Protein of unknown function (DUF1697); Region: DUF1697; pfam08002 350058015643 Uncharacterized protein conserved in bacteria (DUF2237); Region: DUF2237; pfam09996 350058015644 Domain of unknown function (DUF4333); Region: DUF4333; pfam14230 350058015645 Domain of unknown function (DUF4333); Region: DUF4333; pfam14230 350058015646 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2258 350058015647 MOSC domain; Region: MOSC; pfam03473 350058015648 Mechanosensitive ion channel; Region: MS_channel; pfam00924 350058015649 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 350058015650 Phosphotransferase enzyme family; Region: APH; pfam01636 350058015651 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 350058015652 putative active site [active] 350058015653 putative CoA binding site [chemical binding]; other site 350058015654 nudix motif; other site 350058015655 metal binding site [ion binding]; metal-binding site 350058015656 Iron-binding zinc finger CDGSH type; Region: zf-CDGSH; pfam09360 350058015657 putative methyltransferase; Provisional; Region: PRK14967 350058015658 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 350058015659 S-adenosylmethionine binding site [chemical binding]; other site 350058015660 Cutinase; Region: Cutinase; pfam01083 350058015661 A type 1 glutamine amidotransferase (GATase1)-like domain found in PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_like; cd03134 350058015662 intracellular protease, PfpI family; Region: PfpI; TIGR01382 350058015663 proposed catalytic triad [active] 350058015664 conserved cys residue [active] 350058015665 ribonuclease Z; Reviewed; Region: PRK00055 350058015666 Transmembrane secretion effector; Region: MFS_3; pfam05977 350058015667 Sugar-binding cellulase-like; Region: Cellulase-like; pfam12876 350058015668 Phosphatidylserine/phosphatidylglycerophosphate/car diolipin synthases and related enzymes [Lipid metabolism]; Region: Cls; COG1502 350058015669 Catalytic domain, repeat 1, of uncharacterized bacterial proteins with similarity to vertebrate phospholipases, PLD1 and PLD2; Region: PLDc_vPLD1_2_like_bac_1; cd09140 350058015670 putative active site [active] 350058015671 catalytic site [active] 350058015672 Catalytic domain, repeat 2, of uncharacterized bacterial proteins with similarity to vertebrate phospholipases, PLD1 and PLD2; Region: PLDc_vPLD1_2_like_bac_2; cd09143 350058015673 putative active site [active] 350058015674 catalytic site [active] 350058015675 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 350058015676 4-aminobutyrate aminotransferase and related aminotransferases [Amino acid transport and metabolism]; Region: GabT; COG0160 350058015677 inhibitor-cofactor binding pocket; inhibition site 350058015678 pyridoxal 5'-phosphate binding site [chemical binding]; other site 350058015679 catalytic residue [active] 350058015680 Cutinase; Region: Cutinase; pfam01083 350058015681 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 350058015682 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 350058015683 B12 binding domain; Region: B12-binding_2; pfam02607 350058015684 B12 binding domain; Region: B12-binding; pfam02310 350058015685 B12 binding site [chemical binding]; other site 350058015686 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 350058015687 anti sigma factor interaction site; other site 350058015688 regulatory phosphorylation site [posttranslational modification]; other site 350058015689 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 350058015690 UDP-glucose 4 epimerase (G4E), subgroup 3, extended (e) SDRs; Region: UDP_G4E_3_SDR_e; cd05240 350058015691 putative NAD(P) binding site [chemical binding]; other site 350058015692 active site 350058015693 putative substrate binding site [chemical binding]; other site 350058015694 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 350058015695 active site 350058015696 Hydroxyacid-oxoacid transhydrogenase (HOT) involved in gamma-hydroxybutyrate metabolism; Region: HOT; cd08190 350058015697 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 350058015698 putative active site [active] 350058015699 metal binding site [ion binding]; metal-binding site 350058015700 classical (c) SDRs; Region: SDR_c; cd05233 350058015701 NAD(P) binding site [chemical binding]; other site 350058015702 active site 350058015703 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 350058015704 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 350058015705 putative active site [active] 350058015706 putative metal binding site [ion binding]; other site 350058015707 Acyl-CoA thioesterase [Lipid metabolism]; Region: TesB; COG1946 350058015708 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 350058015709 active site 350058015710 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 350058015711 catalytic triad [active] 350058015712 dimer interface [polypeptide binding]; other site 350058015713 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 350058015714 active site 350058015715 ATP binding site [chemical binding]; other site 350058015716 Phosphotransferase enzyme family; Region: APH; pfam01636 350058015717 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cd07812 350058015718 hydrophobic ligand binding site; other site 350058015719 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 350058015720 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: MGAT-like; Region: LPLAT_MGAT-like; cd07987 350058015721 putative acyl-acceptor binding pocket; other site 350058015722 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 350058015723 ATP binding site [chemical binding]; other site 350058015724 putative Mg++ binding site [ion binding]; other site 350058015725 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 350058015726 nucleotide binding region [chemical binding]; other site 350058015727 ATP-binding site [chemical binding]; other site 350058015728 Domain of unknown function (DUF3516); Region: DUF3516; pfam12029 350058015729 probable F420-dependent oxidoreductase, Rv2161c family; Region: F420_Rv2161c; TIGR03619 350058015730 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 350058015731 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 350058015732 Amidase; Region: Amidase; cl11426 350058015733 nitrile hydratase accessory protein; Region: nitrile_acc; TIGR03889 350058015734 nitrile hydratase, alpha subunit; Region: nitrile_alph; TIGR01323 350058015735 NHLP leader peptide domain; Region: TOMM_pelo; TIGR03793 350058015736 Nitrile hydratase beta subunit; Region: NHase_beta; pfam02211 350058015737 nitrile hydratase, beta subunit; Region: nitrile_beta; TIGR03888 350058015738 Protein of unknown function (DUF1097); Region: DUF1097; pfam06496 350058015739 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 350058015740 conserved cys residue [active] 350058015741 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 350058015742 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 350058015743 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 350058015744 conserved cys residue [active] 350058015745 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 350058015746 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350058015747 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 350058015748 CoenzymeA binding site [chemical binding]; other site 350058015749 subunit interaction site [polypeptide binding]; other site 350058015750 PHB binding site; other site 350058015751 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 350058015752 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 350058015753 Rhodanese-like domain; Region: Rhodanese; pfam00581 350058015754 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 350058015755 active site residue [active] 350058015756 O-Methyltransferase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3315 350058015757 Leucine carboxyl methyltransferase; Region: LCM; pfam04072 350058015758 Glycosyl hydrolases family 6; Region: Glyco_hydro_6; pfam01341 350058015759 Uncharacterized conserved protein [Function unknown]; Region: COG2966 350058015760 Protein of unknown function (DUF1212); Region: DUF1212; pfam06738 350058015761 Protein of unknown function (DUF3815); Region: DUF3815; cl01118 350058015762 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 350058015763 metabolite-proton symporter; Region: 2A0106; TIGR00883 350058015764 putative substrate translocation pore; other site 350058015765 Domain of unknown function (DUF385); Region: DUF385; pfam04075 350058015766 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 350058015767 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 350058015768 Walker A/P-loop; other site 350058015769 ATP binding site [chemical binding]; other site 350058015770 Q-loop/lid; other site 350058015771 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 350058015772 ABC transporter; Region: ABC_tran_2; pfam12848 350058015773 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 350058015774 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 350058015775 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350058015776 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 350058015777 classical (c) SDRs; Region: SDR_c; cd05233 350058015778 NAD(P) binding site [chemical binding]; other site 350058015779 active site 350058015780 (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 350058015781 active site 350058015782 catalytic site [active] 350058015783 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 350058015784 active site 2 [active] 350058015785 active site 1 [active] 350058015786 Predicted membrane protein [Function unknown]; Region: COG2149 350058015787 Glutamate synthase domain 2 [Amino acid transport and metabolism]; Region: GltB; COG0069 350058015788 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 350058015789 active site 350058015790 FMN binding site [chemical binding]; other site 350058015791 substrate binding site [chemical binding]; other site 350058015792 3Fe-4S cluster binding site [ion binding]; other site 350058015793 Predicted transcriptional regulator [Transcription]; Region: COG2345 350058015794 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 350058015795 putative DNA binding site [nucleotide binding]; other site 350058015796 putative Zn2+ binding site [ion binding]; other site 350058015797 Protein of unknown function (DUF1271); Region: DUF1271; cl01443 350058015798 4Fe-4S single cluster domain; Region: Fer4_13; pfam13370 350058015799 Domain of unknown function (DUF309); Region: DUF309; pfam03745 350058015800 Predicted membrane protein [Function unknown]; Region: COG3462 350058015801 Short C-terminal domain; Region: SHOCT; pfam09851 350058015802 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 350058015803 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 350058015804 Soluble P-type ATPase [General function prediction only]; Region: COG4087 350058015805 IgD-like repeat domain of mycobacterial L,D-transpeptidases; Region: LDT_IgD_like_1; cd13431 350058015806 IgD-like repeat domain of mycobacterial L,D-transpeptidases; Region: LDT_IgD_like_2; cd13432 350058015807 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 350058015808 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 350058015809 multidrug resistance protein MdtH; Provisional; Region: PRK11646 350058015810 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 350058015811 putative substrate translocation pore; other site 350058015812 2,3-diaminopropionate biosynthesis protein SbnA; Region: PLP_SbnA_fam; TIGR03945 350058015813 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 350058015814 dimer interface [polypeptide binding]; other site 350058015815 pyridoxal 5'-phosphate binding site [chemical binding]; other site 350058015816 catalytic residue [active] 350058015817 Domain of unknown function (DUF305); Region: DUF305; pfam03713 350058015818 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 350058015819 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 350058015820 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350058015821 Major Facilitator Superfamily; Region: MFS_1; pfam07690 350058015822 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 350058015823 putative substrate translocation pore; other site 350058015824 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 350058015825 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; pfam00690 350058015826 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 350058015827 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 350058015828 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 350058015829 Soluble P-type ATPase [General function prediction only]; Region: COG4087 350058015830 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 350058015831 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 350058015832 cation diffusion facilitator family transporter; Region: CDF; TIGR01297 350058015833 Domain of unknown function (DUF222); Region: DUF222; pfam02720 350058015834 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 350058015835 active site 350058015836 phosphonate metabolism protein PhnM; Provisional; Region: PRK15446 350058015837 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 350058015838 active site 350058015839 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 350058015840 Walker A/P-loop; other site 350058015841 ATP binding site [chemical binding]; other site 350058015842 phosphonate C-P lyase system protein PhnK; Provisional; Region: phnK; PRK11701 350058015843 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 350058015844 Walker A/P-loop; other site 350058015845 ATP binding site [chemical binding]; other site 350058015846 Q-loop/lid; other site 350058015847 ABC transporter signature motif; other site 350058015848 Walker B; other site 350058015849 D-loop; other site 350058015850 H-loop/switch region; other site 350058015851 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 350058015852 Phosphonate metabolism protein PhnJ; Region: PhnJ; pfam06007 350058015853 Bacterial phosphonate metabolism protein (PhnI); Region: PhnI; pfam05861 350058015854 Bacterial phosphonate metabolism protein (PhnH); Region: PhnH; cl01455 350058015855 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 350058015856 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 350058015857 DNA-binding site [nucleotide binding]; DNA binding site 350058015858 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 350058015859 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 350058015860 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 350058015861 dimer interface [polypeptide binding]; other site 350058015862 conserved gate region; other site 350058015863 ABC-ATPase subunit interface; other site 350058015864 ABC-type phosphate/phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: COG3638 350058015865 ATP-binding cassette domain of the binding protein-dependent phosphonate transport system; Region: ABC_PhnC_transporter; cd03256 350058015866 Walker A/P-loop; other site 350058015867 ATP binding site [chemical binding]; other site 350058015868 Q-loop/lid; other site 350058015869 ABC transporter signature motif; other site 350058015870 Walker B; other site 350058015871 D-loop; other site 350058015872 H-loop/switch region; other site 350058015873 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 350058015874 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 350058015875 Hemerythrin HHE cation binding domain; Region: Hemerythrin; pfam01814 350058015876 Putative esterase; Region: Esterase; pfam00756 350058015877 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 350058015878 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350058015879 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 350058015880 Serine hydrolase; Region: Ser_hydrolase; cl17834 350058015881 Predicted Fe-S oxidoreductases [General function prediction only]; Region: COG0535 350058015882 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 350058015883 FeS/SAM binding site; other site 350058015884 ABC-type phosphate/phosphonate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: PhnD; COG3221 350058015885 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 350058015886 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 350058015887 active site 350058015888 Protein of unknown function (DUF2786); Region: DUF2786; pfam10979 350058015889 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 350058015890 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350058015891 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; Region: SRPBCC_CalC_Aha1-like_7; cd08900 350058015892 putative hydrophobic ligand binding site [chemical binding]; other site 350058015893 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 350058015894 dimerization interface [polypeptide binding]; other site 350058015895 putative DNA binding site [nucleotide binding]; other site 350058015896 putative Zn2+ binding site [ion binding]; other site 350058015897 Sulfite oxidase (SO) family, molybdopterin binding domain. This molybdopterin cofactor (Moco) binding domain is found in a variety of oxidoreductases, main members of this family are nitrate reductase (NR) and sulfite oxidase (SO). SO catalyzes the...; Region: SO_family_Moco; cl00199 350058015898 Moco binding site; other site 350058015899 Sulfite oxidase and related enzymes [General function prediction only]; Region: COG2041 350058015900 metal coordination site [ion binding]; other site 350058015901 Erythromycin esterase; Region: Erythro_esteras; pfam05139 350058015902 choline dehydrogenase; Validated; Region: PRK02106 350058015903 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 350058015904 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 350058015905 Beta-lactamase; Region: Beta-lactamase; pfam00144 350058015906 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 350058015907 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 350058015908 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 350058015909 active site 350058015910 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 350058015911 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 350058015912 Mg2+ binding site [ion binding]; other site 350058015913 G-X-G motif; other site 350058015914 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 350058015915 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 350058015916 active site 350058015917 metal binding site [ion binding]; metal-binding site 350058015918 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 350058015919 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 350058015920 CAP-like domain; other site 350058015921 DNA gyrase/topoisomerase IV, subunit A; Region: DNA_topoisoIV; pfam00521 350058015922 active site 350058015923 primary dimer interface [polypeptide binding]; other site 350058015924 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 350058015925 Protein of unknown function (DUF861); Region: Cupin_3; pfam05899 350058015926 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 350058015927 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350058015928 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 350058015929 thioredoxin 2; Provisional; Region: PRK10996 350058015930 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 350058015931 catalytic residues [active] 350058015932 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 350058015933 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 350058015934 active site 350058015935 phosphorylation site [posttranslational modification] 350058015936 intermolecular recognition site; other site 350058015937 dimerization interface [polypeptide binding]; other site 350058015938 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 350058015939 DNA binding residues [nucleotide binding] 350058015940 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 350058015941 Histidine kinase; Region: HisKA_3; pfam07730 350058015942 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 350058015943 ATP binding site [chemical binding]; other site 350058015944 Mg2+ binding site [ion binding]; other site 350058015945 G-X-G motif; other site 350058015946 Transcriptional regulators [Transcription]; Region: FadR; COG2186 350058015947 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl17414 350058015948 DNA-binding site [nucleotide binding]; DNA binding site 350058015949 FCD domain; Region: FCD; pfam07729 350058015950 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 350058015951 AAA domain; Region: AAA_33; pfam13671 350058015952 ATP-binding site [chemical binding]; other site 350058015953 Gluconate-6-phosphate binding site [chemical binding]; other site 350058015954 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 350058015955 fructuronate transporter; Provisional; Region: PRK10034; cl15264 350058015956 Pectate lyase; Region: Pec_lyase_C; cl01593 350058015957 lycopene cyclase family protein; Region: carotene-cycl; TIGR01790 350058015958 lycopene cyclase; Region: lycopene_cycl; TIGR01789 350058015959 Beta-lactamase enzyme family; Region: Beta-lactamase2; pfam13354 350058015960 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 350058015961 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 350058015962 short chain dehydrogenase; Provisional; Region: PRK06523 350058015963 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 350058015964 NAD(P) binding site [chemical binding]; other site 350058015965 active site 350058015966 Pro-kumamolisin, activation domain; Region: Pro-kuma_activ; pfam09286 350058015967 Peptidase domain in the S53 family; Region: Peptidases_S53; cd04056 350058015968 active site 350058015969 catalytic triad [active] 350058015970 calcium binding site [ion binding]; other site 350058015971 mycofactocin system transcriptional regulator; Region: mycofact_TetR; TIGR03968 350058015972 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 350058015973 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 350058015974 Domain of unknown function (DUF1906); Region: DUF1906; pfam08924 350058015975 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl17499 350058015976 Major Facilitator Superfamily; Region: MFS_1; pfam07690 350058015977 Fatty acid desaturase; Region: FA_desaturase_2; pfam03405 350058015978 Acyl ACP desaturase, ferritin-like diiron-binding domain; Region: Acyl_ACP_Desat; cd01050 350058015979 homodimer interface [polypeptide binding]; other site 350058015980 putative substrate binding pocket [chemical binding]; other site 350058015981 diiron center [ion binding]; other site 350058015982 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 350058015983 cyclase homology domain; Region: CHD; cd07302 350058015984 nucleotidyl binding site; other site 350058015985 metal binding site [ion binding]; metal-binding site 350058015986 dimer interface [polypeptide binding]; other site 350058015987 Predicted ATPase [General function prediction only]; Region: COG3903 350058015988 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 350058015989 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 350058015990 DNA binding residues [nucleotide binding] 350058015991 dimerization interface [polypeptide binding]; other site 350058015992 2-polyprenyl-6-methoxyphenol hydroxylase and related FAD-dependent oxidoreductases [Coenzyme metabolism / Energy production and conversion]; Region: UbiH; COG0654 350058015993 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 350058015994 Helix-turn-helix domain; Region: HTH_38; pfam13936 350058015995 Integrase core domain; Region: rve; pfam00665 350058015996 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 350058015997 Peptidase family M48; Region: Peptidase_M48; cl12018 350058015998 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 350058015999 active site 350058016000 DNA binding site [nucleotide binding] 350058016001 Int/Topo IB signature motif; other site 350058016002 Phage integrase, N-terminal SAM-like domain; Region: Phage_integr_N; cl12235 350058016003 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 350058016004 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 350058016005 active site 350058016006 DNA binding site [nucleotide binding] 350058016007 Int/Topo IB signature motif; other site 350058016008 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 350058016009 INT_SG5, DNA breaking-rejoining enzymes, integrase/recombinases subgroup 5, N- and C-terminal domains. The CD contains mainly predicted bacterial integrase/recombinases; Region: INT_SG5; cd01190 350058016010 Int/Topo IB signature motif; other site 350058016011 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 350058016012 active site 350058016013 DNA binding site [nucleotide binding] 350058016014 Int/Topo IB signature motif; other site 350058016015 Phage integrase, N-terminal SAM-like domain; Region: Phage_integr_N; cl12235 350058016016 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 350058016017 pAE1 and related integrases, DNA breaking-rejoining enzymes, integrase/recombinases, C-terminal domain. This CD includes various bacterial integrases, including the predicted integrase of the deletion-prone region of plasmid pAE1 of Alcaligenes eutrophus...; Region: INT_pAE1; cd01188 350058016018 Int/Topo IB signature motif; other site 350058016019 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 350058016020 Cro/C1-type HTH DNA-binding domain; Region: HTH_26; pfam13443 350058016021 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 350058016022 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 350058016023 active site 350058016024 catalytic residues [active] 350058016025 DNA binding site [nucleotide binding] 350058016026 Int/Topo IB signature motif; other site 350058016027 histidinol-phosphate aminotransferase; Provisional; Region: PRK03158 350058016028 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 350058016029 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 350058016030 CHAP domain; Region: CHAP; cl17642 350058016031 Putative bacterial sensory transduction regulator; Region: YbjN; pfam10722 350058016032 Domain of unknown function DUF87; Region: DUF87; pfam01935 350058016033 AAA-like domain; Region: AAA_10; pfam12846 350058016034 Zonular occludens toxin (Zot); Region: Zot; cl17485 350058016035 LabA_like proteins; Region: LabA_like; cd06167 350058016036 putative metal binding site [ion binding]; other site 350058016037 CYTH-like (also known as triphosphate tunnel metalloenzyme (TTM)-like) Phosphatases; Region: CYTH-like_Pase; cl11964 350058016038 putative active site; other site 350058016039 putative triphosphate binding site [ion binding]; other site 350058016040 putative metal binding residues [ion binding]; other site 350058016041 Transposase; Region: DEDD_Tnp_IS110; pfam01548 350058016042 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 350058016043 putative transposase OrfB; Reviewed; Region: PHA02517 350058016044 Integrase core domain; Region: rve; pfam00665 350058016045 Integrase core domain; Region: rve_3; cl15866 350058016046 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 350058016047 Integrase core domain; Region: rve; pfam00665 350058016048 Integrase core domain; Region: rve_3; pfam13683 350058016049 helix_turn_helix, Lux Regulon; Region: HTH_LUXR; smart00421 350058016050 DNA binding residues [nucleotide binding] 350058016051 dimerization interface [polypeptide binding]; other site 350058016052 Transposase; Region: HTH_Tnp_1; cl17663 350058016053 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 350058016054 Transposase; Region: HTH_Tnp_1; cl17663 350058016055 HTH-like domain; Region: HTH_21; pfam13276 350058016056 Integrase core domain; Region: rve; pfam00665 350058016057 Transposase, Mutator family; Region: Transposase_mut; pfam00872 350058016058 MULE transposase domain; Region: MULE; pfam10551 350058016059 Bacterial SH3 domain; Region: SH3_3; cl17532 350058016060 CHAP domain; Region: CHAP; cl17642 350058016061 Putative bacterial sensory transduction regulator; Region: YbjN; pfam10722 350058016062 Domain of unknown function DUF87; Region: DUF87; pfam01935 350058016063 AAA-like domain; Region: AAA_10; pfam12846 350058016064 Zonular occludens toxin (Zot); Region: Zot; cl17485 350058016065 LabA_like proteins; Region: LabA_like; cd06167 350058016066 putative metal binding site [ion binding]; other site 350058016067 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 350058016068 metal ion-dependent adhesion site (MIDAS); other site 350058016069 Domain of unknown function (DUF4407); Region: DUF4407; pfam14362 350058016070 serine/threonine protein kinase; Provisional; Region: PRK14879 350058016071 Protein phosphatase 2C; Region: PP2C_2; pfam13672 350058016072 active site 350058016073 Protein tyrosine phosphatases (PTP) catalyze the dephosphorylation of phosphotyrosine peptides; they regulate phosphotyrosine levels in signal transduction pathways. The depth of the active site cleft renders the enzyme specific for phosphorylated Tyr; Region: PTPc; cl00053 350058016074 active site 350058016075 catalytic residues [active] 350058016076 Prokaryotic homologs of the JAB domain; Region: Prok-JAB; pfam14464 350058016077 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 2 [Coenzyme metabolism]; Region: ThiF; COG0476 350058016078 ThiF family; Region: ThiF; pfam00899 350058016079 ATP binding site [chemical binding]; other site 350058016080 substrate interface [chemical binding]; other site 350058016081 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 350058016082 Walker A motif; other site 350058016083 ATP binding site [chemical binding]; other site 350058016084 Walker B motif; other site 350058016085 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 350058016086 metal ion-dependent adhesion site (MIDAS); other site 350058016087 Nitroreductase family; Region: Nitroreductase; pfam00881 350058016088 FMN binding site [chemical binding]; other site 350058016089 dimer interface [polypeptide binding]; other site 350058016090 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 350058016091 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 350058016092 FeS/SAM binding site; other site 350058016093 aspartate carbamoyltransferase; Region: asp_carb_tr; TIGR00670 350058016094 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 350058016095 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 350058016096 AAA ATPase domain; Region: AAA_16; pfam13191 350058016097 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 350058016098 ATP-grasp domain; Region: ATP-grasp_4; cl17255 350058016099 CHAT domain; Region: CHAT; cl17868 350058016100 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 350058016101 LabA_like proteins; Region: LabA_like; cd06167 350058016102 putative metal binding site [ion binding]; other site 350058016103 HpcH/HpaI aldolase/citrate lyase family; Region: HpcH_HpaI; cl17231 350058016104 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 350058016105 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 350058016106 active site 350058016107 non-prolyl cis peptide bond; other site 350058016108 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 350058016109 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 350058016110 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 350058016111 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 350058016112 dimer interface [polypeptide binding]; other site 350058016113 conserved gate region; other site 350058016114 putative PBP binding loops; other site 350058016115 ABC-ATPase subunit interface; other site 350058016116 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 350058016117 dimer interface [polypeptide binding]; other site 350058016118 conserved gate region; other site 350058016119 putative PBP binding loops; other site 350058016120 ABC-ATPase subunit interface; other site 350058016121 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 350058016122 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 350058016123 Walker A/P-loop; other site 350058016124 ATP binding site [chemical binding]; other site 350058016125 Q-loop/lid; other site 350058016126 ABC transporter signature motif; other site 350058016127 Walker B; other site 350058016128 D-loop; other site 350058016129 H-loop/switch region; other site 350058016130 UvrD/REP helicase N-terminal domain; Region: UvrD-helicase; pfam00580 350058016131 Part of AAA domain; Region: AAA_19; pfam13245 350058016132 Family description; Region: UvrD_C_2; pfam13538 350058016133 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 350058016134 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 350058016135 Walker A motif; other site 350058016136 Hint (Hedgehog/Intein) domain N-terminal region; Region: HintN; smart00306 350058016137 Hom_end-associated Hint; Region: Hom_end_hint; pfam05203 350058016138 DnaB-like helicase C terminal domain; Region: DnaB_C; pfam03796 350058016139 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 350058016140 ATP binding site [chemical binding]; other site 350058016141 Walker B motif; other site 350058016142 DNA binding loops [nucleotide binding] 350058016143 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 350058016144 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 350058016145 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 350058016146 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 350058016147 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 350058016148 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 350058016149 dimer interface [polypeptide binding]; other site 350058016150 ssDNA binding site [nucleotide binding]; other site 350058016151 tetramer (dimer of dimers) interface [polypeptide binding]; other site 350058016152 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 350058016153 Predicted integral membrane protein [Function unknown]; Region: COG5650 350058016154 Membrane carboxypeptidase (penicillin-binding protein) [Cell envelope biogenesis, outer membrane]; Region: MrcB; COG0744 350058016155 Transglycosylase; Region: Transgly; pfam00912 350058016156 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 350058016157 Domain of unknown function (DUF1707); Region: DUF1707; pfam08044 350058016158 Predicted transcriptional regulators [Transcription]; Region: COG1695 350058016159 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 350058016160 Myo-inositol-1-phosphate synthase [Lipid metabolism]; Region: INO1; COG1260 350058016161 Myo-inositol-1-phosphate synthase; Region: NAD_binding_5; cl00554 350058016162 hypothetical protein; Provisional; Region: PRK01346 350058016163 Acetyltransferase (GNAT) domain; Region: Acetyltransf_9; pfam13527 350058016164 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 350058016165 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 350058016166 Predicted phosphatase [General function prediction only]; Region: PhoX; COG3211 350058016167 probable F420-dependent oxidoreductase, MSMEG_2906 family; Region: F420_MSMEG_2906; TIGR03856 350058016168 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 350058016169 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 350058016170 Transcriptional regulators [Transcription]; Region: GntR; COG1802 350058016171 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 350058016172 DNA-binding site [nucleotide binding]; DNA binding site 350058016173 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 350058016174 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 350058016175 substrate binding pocket [chemical binding]; other site 350058016176 membrane-bound complex binding site; other site 350058016177 hinge residues; other site 350058016178 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 350058016179 dimer interface [polypeptide binding]; other site 350058016180 conserved gate region; other site 350058016181 putative PBP binding loops; other site 350058016182 ABC-ATPase subunit interface; other site 350058016183 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 350058016184 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 350058016185 Walker A/P-loop; other site 350058016186 ATP binding site [chemical binding]; other site 350058016187 Q-loop/lid; other site 350058016188 ABC transporter signature motif; other site 350058016189 Walker B; other site 350058016190 D-loop; other site 350058016191 H-loop/switch region; other site 350058016192 MarR family; Region: MarR; pfam01047 350058016193 Glycogen debranching enzyme [Carbohydrate transport and metabolism]; Region: GDB1; COG3408 350058016194 short chain dehydrogenase; Provisional; Region: PRK08219 350058016195 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 350058016196 NAD(P) binding site [chemical binding]; other site 350058016197 active site 350058016198 Transposase; Region: DEDD_Tnp_IS110; pfam01548 350058016199 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 350058016200 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 350058016201 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 350058016202 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 350058016203 HIGH motif; other site 350058016204 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 350058016205 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 350058016206 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 350058016207 active site 350058016208 KMSKS motif; other site 350058016209 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 350058016210 tRNA binding surface [nucleotide binding]; other site 350058016211 Probable lipoprotein LpqN; Region: Lpp-LpqN; pfam10738 350058016212 hypothetical protein; Validated; Region: PRK00228 350058016213 H+ Antiporter protein; Region: 2A0121; TIGR00900 350058016214 TIGR03084 family protein; Region: TIGR03084 350058016215 Mycothiol maleylpyruvate isomerase N-terminal domain; Region: MDMPI_N; pfam11716 350058016216 Wyosine base formation; Region: Wyosine_form; pfam08608 350058016217 tRNA adenylyltransferase; Region: tRNA_CCA_actino; TIGR02692 350058016218 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 350058016219 active site 350058016220 NTP binding site [chemical binding]; other site 350058016221 metal binding triad [ion binding]; metal-binding site 350058016222 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 350058016223 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 350058016224 Zn2+ binding site [ion binding]; other site 350058016225 Mg2+ binding site [ion binding]; other site 350058016226 tRNA nucleotidyltransferase domain 2 putative; Region: tRNA_NucTran2_2; pfam13735 350058016227 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 350058016228 active site 350058016229 Ap6A binding site [chemical binding]; other site 350058016230 nudix motif; other site 350058016231 metal binding site [ion binding]; metal-binding site 350058016232 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 350058016233 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 350058016234 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 350058016235 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 350058016236 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 350058016237 DNA binding residues [nucleotide binding] 350058016238 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 350058016239 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 350058016240 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 350058016241 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 350058016242 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 350058016243 catalytic residues [active] 350058016244 Putative peptidoglycan-binding domain-containing protein [Cell envelope biogenesis, outer membrane]; Region: COG3409 350058016245 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 350058016246 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 350058016247 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 350058016248 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 350058016249 active site 350058016250 metal binding site [ion binding]; metal-binding site 350058016251 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 350058016252 ParB-like nuclease domain; Region: ParBc; pfam02195 350058016253 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 350058016254 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 350058016255 P-loop; other site 350058016256 Magnesium ion binding site [ion binding]; other site 350058016257 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 350058016258 Magnesium ion binding site [ion binding]; other site 350058016259 rRNA small subunit methyltransferase G; Region: GidB; pfam02527 350058016260 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 350058016261 S-adenosylmethionine binding site [chemical binding]; other site 350058016262 Predicted RNA-binding protein [General function prediction only]; Region: Jag; COG1847 350058016263 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 350058016264 G-X-X-G motif; other site 350058016265 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 350058016266 RxxxH motif; other site 350058016267 putative inner membrane protein translocase component YidC; Provisional; Region: PRK03449 350058016268 hypothetical protein; Validated; Region: PRK00041 350058016269 ribonuclease P; Reviewed; Region: rnpA; PRK00588 350058016270 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399