-- dump date 20140620_072011 -- class Genbank::misc_feature -- table misc_feature_note -- id note 392499000001 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 392499000002 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 392499000003 active site 392499000004 DNA binding site [nucleotide binding] 392499000005 Int/Topo IB signature motif; other site 392499000006 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 392499000007 catalytic core [active] 392499000008 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3041; cl17396 392499000009 RelB antitoxin; Region: RelB; cl01171 392499000010 SprT homologues; Region: SprT; cl01182 392499000011 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 392499000012 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 392499000013 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 392499000014 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 392499000015 catalytic residues [active] 392499000016 catalytic nucleophile [active] 392499000017 Presynaptic Site I dimer interface [polypeptide binding]; other site 392499000018 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 392499000019 Synaptic Flat tetramer interface [polypeptide binding]; other site 392499000020 Synaptic Site I dimer interface [polypeptide binding]; other site 392499000021 DNA binding site [nucleotide binding] 392499000022 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 392499000023 DNA-binding interface [nucleotide binding]; DNA binding site 392499000024 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; cl14901 392499000025 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3666 392499000026 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 392499000027 Domain of unknown function (DUF4158); Region: DUF4158; pfam13700 392499000028 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; cl14901 392499000029 aldose 1-epimerase superfamily; Region: Aldose_epim; cl14648 392499000030 catalytic residues [active] 392499000031 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 392499000032 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 392499000033 G1 box; other site 392499000034 putative GEF interaction site [polypeptide binding]; other site 392499000035 GTP/Mg2+ binding site [chemical binding]; other site 392499000036 Switch I region; other site 392499000037 G2 box; other site 392499000038 G3 box; other site 392499000039 Switch II region; other site 392499000040 G4 box; other site 392499000041 G5 box; other site 392499000042 RF3_II: this subfamily represents the domain II of bacterial Release Factor 3 (RF3). Termination of protein synthesis by the ribosome requires two release factor (RF) classes. The class II RF3 is a GTPase that removes class I RFs (RF1 or RF2) from the...; Region: RF3_II; cd03689 392499000043 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 392499000044 putative substrate translocation pore; other site 392499000045 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 392499000046 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 392499000047 N-terminal plug; other site 392499000048 ligand-binding site [chemical binding]; other site 392499000049 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 392499000050 Integrase core domain; Region: rve; pfam00665 392499000051 transposase/IS protein; Provisional; Region: PRK09183 392499000052 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 392499000053 Walker A motif; other site 392499000054 ATP binding site [chemical binding]; other site 392499000055 Walker B motif; other site 392499000056 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 392499000057 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 392499000058 N-terminal plug; other site 392499000059 ligand-binding site [chemical binding]; other site 392499000060 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 392499000061 GAF domain; Region: GAF; pfam01590 392499000062 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 392499000063 Walker A motif; other site 392499000064 ATP binding site [chemical binding]; other site 392499000065 Walker B motif; other site 392499000066 arginine finger; other site 392499000067 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 392499000068 AMP-binding domain protein; Validated; Region: PRK08315 392499000069 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 392499000070 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_2; cd05917 392499000071 acyl-activating enzyme (AAE) consensus motif; other site 392499000072 putative AMP binding site [chemical binding]; other site 392499000073 putative active site [active] 392499000074 putative CoA binding site [chemical binding]; other site 392499000075 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 392499000076 Streptomyces aureofaciens putative aldehyde dehydrogenase AldA (AAD23400)-like; Region: ALDH_AldA-AAD23400; cd07106 392499000077 NAD(P) binding site [chemical binding]; other site 392499000078 catalytic residues [active] 392499000079 PQQ-dependent dehydrogenase, methanol/ethanol family; Region: PQQ_enz_alc_DH; TIGR03075 392499000080 PQQ_like domain of the quinohemoprotein alcohol dehydrogenase (type II); Region: PQQ_ADH_II; cd10279 392499000081 Trp docking motif [polypeptide binding]; other site 392499000082 cytochrome domain interface [polypeptide binding]; other site 392499000083 active site 392499000084 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 392499000085 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; pfam13557 392499000086 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 392499000087 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 392499000088 Walker A motif; other site 392499000089 ATP binding site [chemical binding]; other site 392499000090 Walker B motif; other site 392499000091 arginine finger; other site 392499000092 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 392499000093 Integrase core domain; Region: rve; pfam00665 392499000094 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 392499000095 Integrase core domain; Region: rve; pfam00665 392499000096 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 392499000097 IHF dimer interface [polypeptide binding]; other site 392499000098 IHF - DNA interface [nucleotide binding]; other site 392499000099 Patatin-like phospholipase; includes PNPLA8, PNPLA9, and Pat17; Region: Pat17_PNPLA8_PNPLA9_like; cd07199 392499000100 active site 392499000101 nucleophile elbow; other site 392499000102 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 392499000103 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; pfam08843 392499000104 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 392499000105 active site 392499000106 DNA binding site [nucleotide binding] 392499000107 Int/Topo IB signature motif; other site 392499000108 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06416 392499000109 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 392499000110 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 392499000111 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 392499000112 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 392499000113 pyruvate dehydrogenase complex dihydrolipoamide acetyltransferase, long form; Region: PDHac_trf_mito; TIGR01349 392499000114 E3 interaction surface; other site 392499000115 lipoyl attachment site [posttranslational modification]; other site 392499000116 e3 binding domain; Region: E3_binding; pfam02817 392499000117 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 392499000118 pyruvate dehydrogenase subunit beta; Provisional; Region: PRK11892 392499000119 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 392499000120 E3 interaction surface; other site 392499000121 lipoyl attachment site [posttranslational modification]; other site 392499000122 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 392499000123 alpha subunit interface [polypeptide binding]; other site 392499000124 TPP binding site [chemical binding]; other site 392499000125 heterodimer interface [polypeptide binding]; other site 392499000126 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 392499000127 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_y; TIGR03182 392499000128 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 392499000129 tetramer interface [polypeptide binding]; other site 392499000130 TPP-binding site [chemical binding]; other site 392499000131 heterodimer interface [polypeptide binding]; other site 392499000132 phosphorylation loop region [posttranslational modification] 392499000133 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 392499000134 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 392499000135 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 392499000136 dimerization interface [polypeptide binding]; other site 392499000137 Protein of unknown function (DUF2726); Region: DUF2726; pfam10881 392499000138 conjugative relaxase domain, TrwC/TraI family; Region: relax_trwC; TIGR02686 392499000139 TrwC relaxase; Region: TrwC; pfam08751 392499000140 AAA domain; Region: AAA_30; pfam13604 392499000141 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 392499000142 Type IV secretion-system coupling protein DNA-binding domain; Region: TrwB_AAD_bind; pfam10412 392499000143 Walker A motif; other site 392499000144 ATP binding site [chemical binding]; other site 392499000145 Walker B motif; other site 392499000146 Protein of unknown function (DUF2493); Region: DUF2493; pfam10686 392499000147 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 392499000148 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 392499000149 dimer interface [polypeptide binding]; other site 392499000150 ssDNA binding site [nucleotide binding]; other site 392499000151 tetramer (dimer of dimers) interface [polypeptide binding]; other site 392499000152 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 392499000153 PhnA protein; Region: PhnA; pfam03831 392499000154 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 392499000155 active site 392499000156 substrate-binding site [chemical binding]; other site 392499000157 metal-binding site [ion binding] 392499000158 GTP binding site [chemical binding]; other site 392499000159 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 392499000160 non-specific DNA binding site [nucleotide binding]; other site 392499000161 salt bridge; other site 392499000162 sequence-specific DNA binding site [nucleotide binding]; other site 392499000163 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 392499000164 Sulfate transporter family; Region: Sulfate_transp; pfam00916 392499000165 Protein of unknown function (DUF736); Region: DUF736; pfam05284 392499000166 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 392499000167 oligomeric interface; other site 392499000168 putative active site [active] 392499000169 homodimer interface [polypeptide binding]; other site 392499000170 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 392499000171 Protein of unknown function (DUF736); Region: DUF736; pfam05284 392499000172 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 392499000173 ROS/MUCR transcriptional regulator protein; Region: ROS_MUCR; pfam05443 392499000174 PRTRC system ThiF family protein; Region: PRTRC_ThiF; TIGR03736 392499000175 Superfamily of activating enzymes (E1) of the ubiquitin-like proteins. This family includes classical ubiquitin-activating enzymes E1, ubiquitin-like (ubl) activating enzymes and other mechanistic homologes, like MoeB, Thif1 and others. The common...; Region: E1_enzyme_family; cl17196 392499000176 ATP binding site [chemical binding]; other site 392499000177 substrate interface [chemical binding]; other site 392499000178 PRTRC system protein A; Region: PRTRC_A; TIGR03735 392499000179 Domain of unknown function (DUF2016); Region: DUF2016; pfam09436 392499000180 Prokaryotic homologs of the JAB domain; Region: Prok-JAB; pfam14464 392499000181 Prokaryotic E2 family D; Region: Prok-E2_D; cl14019 392499000182 PRTRC system protein E; Region: PRTRC_E; TIGR03741 392499000183 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 392499000184 ParB-like nuclease domain; Region: ParBc; pfam02195 392499000185 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 392499000186 Transposase; Region: DEDD_Tnp_IS110; pfam01548 392499000187 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 392499000188 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 392499000189 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 392499000190 Ligand Binding Site [chemical binding]; other site 392499000191 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 392499000192 Nitric oxide reductase large subunit [Inorganic ion transport and metabolism]; Region: NorB; COG3256 392499000193 Predicted integral membrane protein [Function unknown]; Region: COG5615 392499000194 Domain of unknown function (DUF1971); Region: DUF1971; pfam09313 392499000195 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 392499000196 heme-binding site [chemical binding]; other site 392499000197 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 392499000198 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 392499000199 ligand binding site [chemical binding]; other site 392499000200 flexible hinge region; other site 392499000201 helix_turn_helix, cAMP Regulatory protein; Region: HTH_CRP; smart00419 392499000202 non-specific DNA interactions [nucleotide binding]; other site 392499000203 DNA binding site [nucleotide binding] 392499000204 sequence specific DNA binding site [nucleotide binding]; other site 392499000205 putative cAMP binding site [chemical binding]; other site 392499000206 ROS/MUCR transcriptional regulator protein; Region: ROS_MUCR; pfam05443 392499000207 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 392499000208 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3316 392499000209 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 392499000210 Integrase core domain; Region: rve; pfam00665 392499000211 MHYT domain (predicted integral membrane sensor domain) [Signal transduction mechanisms]; Region: COG3300 392499000212 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 392499000213 PAS domain; Region: PAS; smart00091 392499000214 PAS fold; Region: PAS_7; pfam12860 392499000215 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 392499000216 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 392499000217 metal binding site [ion binding]; metal-binding site 392499000218 active site 392499000219 I-site; other site 392499000220 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 392499000221 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 392499000222 TrkA-N domain; Region: TrkA_N; pfam02254 392499000223 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 392499000224 IHF dimer interface [polypeptide binding]; other site 392499000225 IHF - DNA interface [nucleotide binding]; other site 392499000226 HipA N-terminal domain; Region: Couple_hipA; cl11853 392499000227 HipA-like N-terminal domain; Region: HipA_N; pfam07805 392499000228 HipA-like C-terminal domain; Region: HipA_C; pfam07804 392499000229 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 392499000230 non-specific DNA binding site [nucleotide binding]; other site 392499000231 salt bridge; other site 392499000232 sequence-specific DNA binding site [nucleotide binding]; other site 392499000233 Replication-relaxation; Region: Replic_Relax; pfam13814 392499000234 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 392499000235 GAF domain; Region: GAF; pfam01590 392499000236 PAS fold; Region: PAS_3; pfam08447 392499000237 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 392499000238 HWE histidine kinase; Region: HWE_HK; smart00911 392499000239 Protein of unknown function (DUF805); Region: DUF805; pfam05656 392499000240 conjugative relaxase domain, TrwC/TraI family; Region: relax_trwC; TIGR02686 392499000241 TrwC relaxase; Region: TrwC; pfam08751 392499000242 AAA domain; Region: AAA_30; pfam13604 392499000243 Family description; Region: UvrD_C_2; pfam13538 392499000244 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 392499000245 Type IV secretion-system coupling protein DNA-binding domain; Region: TrwB_AAD_bind; pfam10412 392499000246 Walker A motif; other site 392499000247 ATP binding site [chemical binding]; other site 392499000248 Walker B motif; other site 392499000249 Protein of unknown function (DUF2493); Region: DUF2493; pfam10686 392499000250 Dynein, heavy chain [Cytoskeleton]; Region: DYN1; COG5245 392499000251 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 392499000252 Uncharacterized subfamily of N-terminal LabA-like domains; Region: LabA_like_N_1; cd11297 392499000253 putative metal binding site [ion binding]; other site 392499000254 C-terminal domain of LabA_like proteins; Region: LabA_like_C; cd10146 392499000255 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 392499000256 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 392499000257 dimer interface [polypeptide binding]; other site 392499000258 ssDNA binding site [nucleotide binding]; other site 392499000259 tetramer (dimer of dimers) interface [polypeptide binding]; other site 392499000260 Permease SLC13 (solute carrier 13). The sodium/dicarboxylate cotransporter NaDC-1 has been shown to translocate Krebs cycle intermediates such as succinate, citrate, and alpha-ketoglutarate across plasma membranes rabbit, human, and rat kidney. It is...; Region: SLC13_permease; cd01115 392499000261 transmembrane helices; other site 392499000262 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 392499000263 Protein of unknown function (DUF736); Region: DUF736; pfam05284 392499000264 Antirestriction protein; Region: Antirestrict; pfam03230 392499000265 Protein of unknown function (DUF736); Region: DUF736; pfam05284 392499000266 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 392499000267 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 392499000268 dimerization interface [polypeptide binding]; other site 392499000269 DPS ferroxidase diiron center [ion binding]; other site 392499000270 ion pore; other site 392499000271 hydroperoxidase II; Provisional; Region: katE; PRK11249 392499000272 Catalase-like heme-binding proteins and protein domains; Region: catalase_like; cl09506 392499000273 heme binding pocket [chemical binding]; other site 392499000274 Type 1 glutamine amidotransferase (GATase1)-like domain found in at the C-terminal of several large catalases; Region: GATase1_catalase; cd03132 392499000275 domain interactions; other site 392499000276 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 392499000277 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 392499000278 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 392499000279 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 392499000280 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 392499000281 dimer interface [polypeptide binding]; other site 392499000282 phosphorylation site [posttranslational modification] 392499000283 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 392499000284 ATP binding site [chemical binding]; other site 392499000285 G-X-G motif; other site 392499000286 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 392499000287 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 392499000288 active site 392499000289 phosphorylation site [posttranslational modification] 392499000290 intermolecular recognition site; other site 392499000291 dimerization interface [polypeptide binding]; other site 392499000292 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 392499000293 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 392499000294 active site 392499000295 phosphorylation site [posttranslational modification] 392499000296 intermolecular recognition site; other site 392499000297 dimerization interface [polypeptide binding]; other site 392499000298 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 392499000299 Ligand Binding Site [chemical binding]; other site 392499000300 Staphylococcal nuclease homologues; Region: SNc; smart00318 392499000301 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cl00140 392499000302 Catalytic site; other site 392499000303 Domain of unknown function (DUF1738); Region: DUF1738; pfam08401 392499000304 Antirestriction protein [DNA replication, recombination, and repair]; Region: COG4227 392499000305 ParB-like nuclease domain; Region: ParBc; pfam02195 392499000306 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 392499000307 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 392499000308 Methyltransferase domain; Region: Methyltransf_26; pfam13659 392499000309 P-loop containing NTP hydrolase pore-1; Region: AAA_34; pfam13872 392499000310 Helicase_C-like; Region: Helicase_C_4; pfam13871 392499000311 Predicted integral membrane protein [Function unknown]; Region: COG0392 392499000312 Uncharacterized conserved protein [Function unknown]; Region: COG2898 392499000313 Uncharacterized conserved protein (DUF2156); Region: DUF2156; pfam09924 392499000314 Uncharacterized conserved protein (DUF2156); Region: DUF2156; cl12090 392499000315 Bacterial virulence protein (VirJ); Region: VirJ; pfam06057 392499000316 ROS/MUCR transcriptional regulator protein; Region: ROS_MUCR; pfam05443 392499000317 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 392499000318 GAF domain; Region: GAF; pfam01590 392499000319 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 392499000320 HWE histidine kinase; Region: HWE_HK; smart00911 392499000321 Response regulator receiver domain; Region: Response_reg; pfam00072 392499000322 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 392499000323 active site 392499000324 phosphorylation site [posttranslational modification] 392499000325 intermolecular recognition site; other site 392499000326 dimerization interface [polypeptide binding]; other site 392499000327 Toprim domain; Region: Toprim_3; pfam13362 392499000328 active site 392499000329 metal binding site [ion binding]; metal-binding site 392499000330 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 392499000331 S-adenosylmethionine binding site [chemical binding]; other site 392499000332 Protein of unknown function (DUF1275); Region: DUF1275; pfam06912 392499000333 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 392499000334 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 392499000335 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 392499000336 protein binding site [polypeptide binding]; other site 392499000337 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 392499000338 protein binding site [polypeptide binding]; other site 392499000339 Initiator Replication protein; Region: Rep_3; pfam01051 392499000340 VirC1 protein; Region: VirC1; cl17401 392499000341 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 392499000342 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 392499000343 catalytic residues [active] 392499000344 catalytic nucleophile [active] 392499000345 Presynaptic Site I dimer interface [polypeptide binding]; other site 392499000346 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 392499000347 Synaptic Flat tetramer interface [polypeptide binding]; other site 392499000348 Synaptic Site I dimer interface [polypeptide binding]; other site 392499000349 DNA binding site [nucleotide binding] 392499000350 Adenylation domain of Mycobacterium tuberculosis LigD and LigC-like ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_LigD_LigC; cd07906 392499000351 active site 392499000352 DNA binding site [nucleotide binding] 392499000353 DNA ligase D; Region: NHEJ_ligase_prk; TIGR02776 392499000354 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 392499000355 DNA binding site [nucleotide binding] 392499000356 PaeLigD_Pol_like: Polymerase (Pol) domain of bacterial LigD proteins similar to Pseudomonas aeruginosa (Pae) LigD. The LigD Pol domain belongs to the archaeal/eukaryal primase (AEP) superfamily. In prokaryotes, LigD along with Ku is required for...; Region: PaeLigD_Pol_like; cd04862 392499000357 nucleotide binding site [chemical binding]; other site 392499000358 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 392499000359 putative catalytic site [active] 392499000360 putative phosphate binding site [ion binding]; other site 392499000361 active site 392499000362 metal binding site A [ion binding]; metal-binding site 392499000363 DNA binding site [nucleotide binding] 392499000364 putative AP binding site [nucleotide binding]; other site 392499000365 putative metal binding site B [ion binding]; other site 392499000366 Uncharacterized protein containing double-stranded beta helix domain [Function unknown]; Region: COG4297 392499000367 Topoisomerase IB [DNA replication, recombination, and repair]; Region: COG3569 392499000368 DNA topoisomerase IB, C-terminal catalytic domain. Topoisomerase I promotes the relaxation of both positive and negative DNA superhelical tension by introducing a transient single-stranded break in duplex DNA. This function is vital for the processes of...; Region: Topo_IB_C; cd00659 392499000369 active site 392499000370 DNA binding site [nucleotide binding] 392499000371 Int/Topo IB signature motif; other site 392499000372 catalytic residues [active] 392499000373 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 392499000374 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 392499000375 Domain of unknown function (DUF4142); Region: DUF4142; pfam13628 392499000376 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 392499000377 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 392499000378 substrate binding site [chemical binding]; other site 392499000379 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 392499000380 Mechanosensitive ion channel; Region: MS_channel; pfam00924 392499000381 short chain dehydrogenase; Provisional; Region: PRK06701 392499000382 classical (c) SDR, subgroup 1; Region: SDR_c1; cd05355 392499000383 NAD binding site [chemical binding]; other site 392499000384 metal binding site [ion binding]; metal-binding site 392499000385 active site 392499000386 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 392499000387 response regulator FixJ; Provisional; Region: fixJ; PRK09390 392499000388 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 392499000389 active site 392499000390 phosphorylation site [posttranslational modification] 392499000391 intermolecular recognition site; other site 392499000392 dimerization interface [polypeptide binding]; other site 392499000393 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 392499000394 DNA binding residues [nucleotide binding] 392499000395 dimerization interface [polypeptide binding]; other site 392499000396 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 392499000397 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 392499000398 putative active site [active] 392499000399 heme pocket [chemical binding]; other site 392499000400 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 392499000401 dimer interface [polypeptide binding]; other site 392499000402 phosphorylation site [posttranslational modification] 392499000403 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 392499000404 ATP binding site [chemical binding]; other site 392499000405 Mg2+ binding site [ion binding]; other site 392499000406 G-X-G motif; other site 392499000407 Alternative oxidase, ferritin-like diiron-binding domain; Region: AOX; cd01053 392499000408 diiron binding motif [ion binding]; other site 392499000409 Response regulator receiver domain; Region: Response_reg; pfam00072 392499000410 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cl17736 392499000411 active site 392499000412 phosphorylation site [posttranslational modification] 392499000413 intermolecular recognition site; other site 392499000414 dimerization interface [polypeptide binding]; other site 392499000415 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 392499000416 apolar tunnel; other site 392499000417 heme binding site [chemical binding]; other site 392499000418 dimerization interface [polypeptide binding]; other site 392499000419 Domain of unknown function (DUF1971); Region: DUF1971; pfam09313 392499000420 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 392499000421 heme-binding site [chemical binding]; other site 392499000422 CHASE4 domain; Region: CHASE4; pfam05228 392499000423 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 392499000424 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 392499000425 metal binding site [ion binding]; metal-binding site 392499000426 active site 392499000427 I-site; other site 392499000428 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 392499000429 Calcium/calmodulin dependent protein kinase II Association; Region: CaMKII_AD; cl17504 392499000430 Bacterial protein of unknown function (DUF937); Region: DUF937; cl01528 392499000431 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 392499000432 DNA binding site [nucleotide binding] 392499000433 camphor resistance protein CrcB; Provisional; Region: PRK14195 392499000434 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 392499000435 curved DNA-binding protein CbpA; Provisional; Region: PRK10266 392499000436 HSP70 interaction site [polypeptide binding]; other site 392499000437 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 392499000438 substrate binding site [polypeptide binding]; other site 392499000439 dimer interface [polypeptide binding]; other site 392499000440 MerR HTH family regulatory protein; Region: MerR_2; pfam13591 392499000441 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 392499000442 beta-ketothiolase; Provisional; Region: PRK09051 392499000443 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 392499000444 dimer interface [polypeptide binding]; other site 392499000445 active site 392499000446 Catalase-like heme-binding proteins similar to the uncharacterized y4iL; Region: y4iL_like; cd08152 392499000447 putative heme binding pocket [chemical binding]; other site 392499000448 short chain dehydrogenase; Provisional; Region: PRK07109 392499000449 classical (c) SDR, subgroup 3; Region: SDR_c3; cd05360 392499000450 putative NAD(P) binding site [chemical binding]; other site 392499000451 active site 392499000452 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 392499000453 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 392499000454 catalytic loop [active] 392499000455 iron binding site [ion binding]; other site 392499000456 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 392499000457 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 392499000458 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; smart01092 392499000459 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 392499000460 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 392499000461 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 392499000462 RES domain; Region: RES; pfam08808 392499000463 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 392499000464 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 392499000465 active site 392499000466 phosphorylation site [posttranslational modification] 392499000467 intermolecular recognition site; other site 392499000468 dimerization interface [polypeptide binding]; other site 392499000469 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 392499000470 DNA binding site [nucleotide binding] 392499000471 rod shape-determining protein MreB; Provisional; Region: PRK13930 392499000472 MreB and similar proteins; Region: MreB_like; cd10225 392499000473 nucleotide binding site [chemical binding]; other site 392499000474 Mg binding site [ion binding]; other site 392499000475 putative protofilament interaction site [polypeptide binding]; other site 392499000476 RodZ interaction site [polypeptide binding]; other site 392499000477 glutamate dehydrogenase; Provisional; Region: PRK09414 392499000478 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 392499000479 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 392499000480 NAD(P) binding site [chemical binding]; other site 392499000481 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c_3; pfam13589 392499000482 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 392499000483 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 392499000484 ATP binding site [chemical binding]; other site 392499000485 Mg2+ binding site [ion binding]; other site 392499000486 G-X-G motif; other site 392499000487 Helix-turn-helix domain; Region: HTH_37; pfam13744 392499000488 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 392499000489 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 392499000490 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 392499000491 catalytic residue [active] 392499000492 Protein of unknown function (DUF4007); Region: DUF4007; pfam13182 392499000493 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 392499000494 hypothetical protein; Provisional; Region: PRK08557 392499000495 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 392499000496 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 392499000497 nucleoside diphosphate kinase regulator; Provisional; Region: PRK05753 392499000498 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 392499000499 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 392499000500 Domain of unknown function (DUF3883); Region: DUF3883; pfam13020 392499000501 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 392499000502 DNA-binding site [nucleotide binding]; DNA binding site 392499000503 RNA-binding motif; other site 392499000504 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_8; cd07817 392499000505 putative hydrophobic ligand binding site [chemical binding]; other site 392499000506 Glutathione-dependent formaldehyde dehydrogenase related proteins, child 1; Region: FDH_like_1; cd08283 392499000507 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 392499000508 NAD binding site [chemical binding]; other site 392499000509 catalytic Zn binding site [ion binding]; other site 392499000510 structural Zn binding site [ion binding]; other site 392499000511 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 392499000512 active site 392499000513 phosphorylation site [posttranslational modification] 392499000514 intermolecular recognition site; other site 392499000515 dimerization interface [polypeptide binding]; other site 392499000516 Domain of unknown function (DUF3597); Region: DUF3597; pfam12200 392499000517 Domain of unknown function (DUF4142); Region: DUF4142; pfam13628 392499000518 Low affinity iron permease; Region: Iron_permease; cl12096 392499000519 heat shock protein 90; Provisional; Region: PRK05218 392499000520 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 392499000521 ATP binding site [chemical binding]; other site 392499000522 Mg2+ binding site [ion binding]; other site 392499000523 G-X-G motif; other site 392499000524 Uncharacterized ACR, YggU family COG1872; Region: DUF167; pfam02594 392499000525 CHASE3 domain; Region: CHASE3; pfam05227 392499000526 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 392499000527 GAF domain; Region: GAF_3; pfam13492 392499000528 His Kinase A (phospho-acceptor) domain; Region: HisKA; pfam00512 392499000529 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 392499000530 ATP binding site [chemical binding]; other site 392499000531 Mg2+ binding site [ion binding]; other site 392499000532 G-X-G motif; other site 392499000533 Response regulator receiver domain; Region: Response_reg; pfam00072 392499000534 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 392499000535 active site 392499000536 phosphorylation site [posttranslational modification] 392499000537 intermolecular recognition site; other site 392499000538 dimerization interface [polypeptide binding]; other site 392499000539 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 392499000540 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 392499000541 active site 392499000542 phosphorylation site [posttranslational modification] 392499000543 intermolecular recognition site; other site 392499000544 dimerization interface [polypeptide binding]; other site 392499000545 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 392499000546 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 392499000547 active site 392499000548 phosphorylation site [posttranslational modification] 392499000549 intermolecular recognition site; other site 392499000550 dimerization interface [polypeptide binding]; other site 392499000551 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 392499000552 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 392499000553 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 392499000554 CheB methylesterase; Region: CheB_methylest; pfam01339 392499000555 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 392499000556 active site 392499000557 phosphorylation site [posttranslational modification] 392499000558 intermolecular recognition site; other site 392499000559 dimerization interface [polypeptide binding]; other site 392499000560 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 392499000561 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 392499000562 dimer interface [polypeptide binding]; other site 392499000563 phosphorylation site [posttranslational modification] 392499000564 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 392499000565 ATP binding site [chemical binding]; other site 392499000566 Mg2+ binding site [ion binding]; other site 392499000567 G-X-G motif; other site 392499000568 Protein of unknown function (DUF983); Region: DUF983; cl02211 392499000569 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 392499000570 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 392499000571 N-acetyl-D-glucosamine binding site [chemical binding]; other site 392499000572 catalytic residue [active] 392499000573 TraL protein; Region: TraL; pfam07178 392499000574 TraE protein; Region: TraE; pfam05309 392499000575 TraK protein; Region: TraK; pfam06586 392499000576 conjugal transfer protein TraK; Provisional; Region: PRK13736; cl05878 392499000577 Bacterial conjugation TrbI-like protein; Region: TrbI; pfam03743 392499000578 DsbA family, DsbC and DsbG subfamily; V-shaped homodimeric proteins containing a redox active CXXC motif imbedded in a TRX fold. They function as protein disulfide isomerases and chaperones in the bacterial periplasm to correct non-native disulfide bonds...; Region: DsbA_DsbC_DsbG; cd03020 392499000579 dimerization domain [polypeptide binding]; other site 392499000580 dimer interface [polypeptide binding]; other site 392499000581 catalytic residues [active] 392499000582 type IV conjugative transfer system lipoprotein TraV; Region: TraV; TIGR02747 392499000583 Type IV conjugative transfer system lipoprotein (TraV); Region: TraV; pfam09676 392499000584 F pilus assembly Type-IV secretion system for plasmid transfer; Region: TraC_F_IV; pfam11130 392499000585 type-IV secretion system protein TraC; Region: TraC-F-type; TIGR02746 392499000586 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cd01983 392499000587 TraM recognition site of TraD and TraG; Region: TraG-D_C; cl17375 392499000588 conjugal transfer pilin processing protease TraF; Provisional; Region: PRK13838 392499000589 Signal peptidase, peptidase S26; Region: Peptidase_S26; pfam10502 392499000590 Sex factor F TraW protein N terminal; Region: TraW_N; cl10149 392499000591 TraU protein; Region: TraU; pfam06834 392499000592 Type-F conjugative transfer system pilin assembly protein; Region: TrbC_Ftype; pfam09673 392499000593 conjugal transfer mating pair stabilization protein TraN; Reviewed; Region: PRK12355 392499000594 conjugal transfer protein TrbB; Provisional; Region: PRK13728; cl17283 392499000595 F plasmid transfer operon protein; Region: TraF; pfam13728 392499000596 Conjugative relaxosome accessory transposon protein; Region: TraH; pfam06122 392499000597 TraG-like protein, N-terminal region; Region: TraG_N; pfam07916 392499000598 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 392499000599 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 392499000600 acyl carrier protein; Provisional; Region: acpP; PRK00982 392499000601 Domain of unknown function (DUF3391); Region: DUF3391; pfam11871 392499000602 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 392499000603 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 392499000604 Zn2+ binding site [ion binding]; other site 392499000605 Mg2+ binding site [ion binding]; other site 392499000606 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 392499000607 putative active site [active] 392499000608 PAS fold; Region: PAS_3; pfam08447 392499000609 heme pocket [chemical binding]; other site 392499000610 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 392499000611 PAS domain; Region: PAS_9; pfam13426 392499000612 putative active site [active] 392499000613 heme pocket [chemical binding]; other site 392499000614 PAS fold; Region: PAS; pfam00989 392499000615 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 392499000616 putative active site [active] 392499000617 heme pocket [chemical binding]; other site 392499000618 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 392499000619 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 392499000620 ATP binding site [chemical binding]; other site 392499000621 Mg2+ binding site [ion binding]; other site 392499000622 G-X-G motif; other site 392499000623 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 392499000624 Response regulator receiver domain; Region: Response_reg; pfam00072 392499000625 active site 392499000626 phosphorylation site [posttranslational modification] 392499000627 intermolecular recognition site; other site 392499000628 dimerization interface [polypeptide binding]; other site 392499000629 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 392499000630 active site 392499000631 Phosphoenolpyruvate carboxykinase; Region: PEPCK_ATP; pfam01293 392499000632 Phosphoenolpyruvate carboxykinase (PEPCK), a critical gluconeogenic enzyme, catalyzes the first committed step in the diversion of tricarboxylic acid cycle intermediates toward gluconeogenesis. It catalyzes the reversible decarboxylation and...; Region: PEPCK_ATP; cd00484 392499000633 active site 392499000634 substrate-binding site [chemical binding]; other site 392499000635 metal-binding site [ion binding] 392499000636 ATP binding site [chemical binding]; other site 392499000637 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 392499000638 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 392499000639 PhnA protein; Region: PhnA; pfam03831 392499000640 Na+/H+ antiporter, bacterial form; Region: a_cpa1; TIGR00831 392499000641 Response regulator receiver domain; Region: Response_reg; pfam00072 392499000642 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 392499000643 active site 392499000644 phosphorylation site [posttranslational modification] 392499000645 intermolecular recognition site; other site 392499000646 dimerization interface [polypeptide binding]; other site 392499000647 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 392499000648 ABC1 family; Region: ABC1; cl17513 392499000649 Domain of unknown function (DUF4158); Region: DUF4158; pfam13700 392499000650 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; pfam01526 392499000651 multiple promoter invertase; Provisional; Region: mpi; PRK13413 392499000652 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 392499000653 catalytic residues [active] 392499000654 catalytic nucleophile [active] 392499000655 Presynaptic Site I dimer interface [polypeptide binding]; other site 392499000656 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 392499000657 Synaptic Flat tetramer interface [polypeptide binding]; other site 392499000658 Synaptic Site I dimer interface [polypeptide binding]; other site 392499000659 DNA binding site [nucleotide binding] 392499000660 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 392499000661 DNA-binding interface [nucleotide binding]; DNA binding site 392499000662 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 392499000663 beta-ketoadipyl CoA thiolase; Validated; Region: PRK09050 392499000664 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 392499000665 dimer interface [polypeptide binding]; other site 392499000666 active site 392499000667 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 392499000668 Acyl CoA:acetate/3-ketoacid CoA transferase, alpha subunit [Lipid metabolism]; Region: AtoD; COG1788 392499000669 Hydroxyquinol 1,2-dioxygenase (1,2-HQD) catalyzes the ring cleavage of hydroxyquinol (1,2,4-trihydroxybenzene), a intermediate in the degradation of a large variety of aromatic compounds including some polychloro- and nitroaromatic pollutants, to form...; Region: 1,2-HQD; cd03461 392499000670 chlorocatechol 1,2-dioxygenase; Region: chlorocat_1_2; TIGR02465 392499000671 dimer interface [polypeptide binding]; other site 392499000672 active site 392499000673 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 392499000674 Maleylacetate reductase is involved in many aromatic compounds degradation pathways of aerobic microbes; Region: MAR; cd08177 392499000675 active site 392499000676 dimer interface [polypeptide binding]; other site 392499000677 metal binding site [ion binding]; metal-binding site 392499000678 hypothetical protein; Provisional; Region: PRK06126 392499000679 hypothetical protein; Provisional; Region: PRK07236 392499000680 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 392499000681 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 392499000682 catalytic loop [active] 392499000683 iron binding site [ion binding]; other site 392499000684 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 392499000685 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 392499000686 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 392499000687 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 392499000688 inter-subunit interface; other site 392499000689 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 392499000690 iron-sulfur cluster [ion binding]; other site 392499000691 [2Fe-2S] cluster binding site [ion binding]; other site 392499000692 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 392499000693 beta subunit interface [polypeptide binding]; other site 392499000694 alpha subunit interface [polypeptide binding]; other site 392499000695 active site 392499000696 substrate binding site [chemical binding]; other site 392499000697 Fe binding site [ion binding]; other site 392499000698 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 392499000699 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 392499000700 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 392499000701 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 392499000702 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 392499000703 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 392499000704 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 392499000705 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 392499000706 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 392499000707 Transcriptional regulators [Transcription]; Region: GntR; COG1802 392499000708 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 392499000709 DNA-binding site [nucleotide binding]; DNA binding site 392499000710 FCD domain; Region: FCD; pfam07729 392499000711 2,3-dihydroxybiphenyl 1,2-dioxygenase; Region: 23dbph12diox; TIGR03213 392499000712 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 392499000713 active site 392499000714 metal binding site [ion binding]; metal-binding site 392499000715 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 392499000716 active site 392499000717 Fe binding site [ion binding]; other site 392499000718 Transposase; Region: HTH_Tnp_1; pfam01527 392499000719 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 392499000720 Helix-turn-helix domain; Region: HTH_28; pfam13518 392499000721 Winged helix-turn helix; Region: HTH_29; pfam13551 392499000722 Homeodomain-like domain; Region: HTH_32; pfam13565 392499000723 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3666 392499000724 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 392499000725 Integrase core domain; Region: rve; pfam00665 392499000726 Integrase core domain; Region: rve_3; pfam13683 392499000727 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 392499000728 HTH-like domain; Region: HTH_21; pfam13276 392499000729 Integrase core domain; Region: rve; pfam00665 392499000730 Integrase core domain; Region: rve_3; pfam13683 392499000731 Transposase; Region: HTH_Tnp_1; pfam01527 392499000732 classical (c) SDRs; Region: SDR_c; cd05233 392499000733 active site 392499000734 Transposase, Mutator family; Region: Transposase_mut; pfam00872 392499000735 MULE transposase domain; Region: MULE; pfam10551 392499000736 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 392499000737 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cl17393 392499000738 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 392499000739 Integrase core domain; Region: rve; pfam00665 392499000740 transposase; Provisional; Region: PRK06526 392499000741 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 392499000742 Walker A motif; other site 392499000743 ATP binding site [chemical binding]; other site 392499000744 Walker B motif; other site 392499000745 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 392499000746 Transposase; Region: HTH_Tnp_1; pfam01527 392499000747 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 392499000748 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 392499000749 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 392499000750 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 392499000751 catalytic residues [active] 392499000752 catalytic nucleophile [active] 392499000753 Recombinase; Region: Recombinase; pfam07508 392499000754 Helix-turn-helix domain; Region: HTH_17; pfam12728 392499000755 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 392499000756 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 392499000757 phenylpropionate dioxygenase ferredoxin reductase subunit; Provisional; Region: PRK09754 392499000758 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 392499000759 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 392499000760 Prokaryotic protein of unknown function (DUF849); Region: DUF849; pfam05853 392499000761 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 392499000762 4-hyroxy-2-oxovalerate/4-hydroxy-2-oxopentanoic acid aldolase,; Validated; Region: PRK08195 392499000763 4-hydroxy-2-oxovalerate aldolase, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_HOA; cd07943 392499000764 active site 392499000765 catalytic residues [active] 392499000766 metal binding site [ion binding]; metal-binding site 392499000767 DmpG-like communication domain; Region: DmpG_comm; pfam07836 392499000768 acetaldehyde dehydrogenase; Validated; Region: PRK08300 392499000769 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 392499000770 Prokaryotic acetaldehyde dehydrogenase, dimerisation; Region: AcetDehyd-dimer; pfam09290 392499000771 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 392499000772 Bacterial transcriptional regulator; Region: IclR; pfam01614 392499000773 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 392499000774 2-dehydropantoate 2-reductase; Region: apbA_panE; TIGR00745 392499000775 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 392499000776 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 392499000777 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 392499000778 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 392499000779 Walker A motif; other site 392499000780 ATP binding site [chemical binding]; other site 392499000781 Walker B motif; other site 392499000782 Domain of unknown function (DUF4158); Region: DUF4158; pfam13700 392499000783 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 392499000784 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 392499000785 catalytic residues [active] 392499000786 catalytic nucleophile [active] 392499000787 Presynaptic Site I dimer interface [polypeptide binding]; other site 392499000788 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 392499000789 Synaptic Flat tetramer interface [polypeptide binding]; other site 392499000790 Synaptic Site I dimer interface [polypeptide binding]; other site 392499000791 DNA binding site [nucleotide binding] 392499000792 Abi-like protein; Region: Abi_2; pfam07751 392499000793 Relaxase/Mobilisation nuclease domain; Region: Relaxase; pfam03432 392499000794 Bacterial mobilisation protein (MobC); Region: MobC; pfam05713 392499000795 ParB-like nuclease domain; Region: ParBc; pfam02195 392499000796 KorB domain; Region: KorB; pfam08535 392499000797 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 392499000798 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 392499000799 P-loop; other site 392499000800 Magnesium ion binding site [ion binding]; other site 392499000801 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 392499000802 Magnesium ion binding site [ion binding]; other site 392499000803 Protein of unknown function (DUF3768); Region: DUF3768; pfam12599 392499000804 Zeta toxin; Region: Zeta_toxin; pfam06414 392499000805 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4185 392499000806 Micrococcal nuclease (thermonuclease) homologs [DNA replication, recombination, and repair]; Region: COG1525 392499000807 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cl00140 392499000808 Catalytic site; other site 392499000809 Protein of unknown function (DUF1810); Region: DUF1810; pfam08837 392499000810 Uncharacterized conserved protein [Function unknown]; Region: COG4544 392499000811 DNA Polymerase Y-family; Region: PolY_like; cd03468 392499000812 active site 392499000813 Nucleotidyltransferase/DNA polymerase involved in DNA repair [DNA replication, recombination, and repair]; Region: DinP; COG0389 392499000814 DNA binding site [nucleotide binding] 392499000815 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 392499000816 ParB-like nuclease domain; Region: ParBc; pfam02195 392499000817 S25 ribosomal protein; Region: Ribosomal_S25; cl02050 392499000818 ParB-like nuclease domain; Region: ParBc; pfam02195 392499000819 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 392499000820 plasmid partitioning protein RepA; Region: partition_RepA; TIGR03453 392499000821 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 392499000822 DNA binding residues [nucleotide binding] 392499000823 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 392499000824 P-loop; other site 392499000825 Magnesium ion binding site [ion binding]; other site 392499000826 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 392499000827 Plasmid encoded RepA protein; Region: RepA_C; pfam04796 392499000828 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 392499000829 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 392499000830 Walker A motif; other site 392499000831 ATP binding site [chemical binding]; other site 392499000832 Walker B motif; other site 392499000833 arginine finger; other site 392499000834 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 392499000835 Helix-turn-helix domain; Region: HTH_28; pfam13518 392499000836 Integrase core domain; Region: rve; pfam00665 392499000837 Membrane-fusion protein [Cell envelope biogenesis, outer membrane]; Region: AcrA; COG0845 392499000838 HlyD family secretion protein; Region: HlyD_3; pfam13437 392499000839 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cl11424 392499000840 active site 392499000841 catalytic triad [active] 392499000842 dimer interface [polypeptide binding]; other site 392499000843 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 392499000844 Transcriptional regulators [Transcription]; Region: MarR; COG1846 392499000845 Protein of unknown function (DUF2493); Region: DUF2493; pfam10686 392499000846 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 392499000847 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 392499000848 dimer interface [polypeptide binding]; other site 392499000849 ssDNA binding site [nucleotide binding]; other site 392499000850 tetramer (dimer of dimers) interface [polypeptide binding]; other site 392499000851 Uncharacterized conserved protein [Function unknown]; Region: COG5654 392499000852 putative toxin-antitoxin system antitoxin component, TIGR02293 family; Region: TAS_TIGR02293 392499000853 Protein of unknown function (DUF2384); Region: DUF2384; cl17718 392499000854 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 392499000855 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 392499000856 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 392499000857 putative active site [active] 392499000858 putative NTP binding site [chemical binding]; other site 392499000859 putative nucleic acid binding site [nucleotide binding]; other site 392499000860 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 392499000861 Type II intron maturase; Region: Intron_maturas2; pfam01348 392499000862 Protein of unknown function (DUF3768); Region: DUF3768; pfam12599 392499000863 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 392499000864 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 392499000865 P-loop; other site 392499000866 Magnesium ion binding site [ion binding]; other site 392499000867 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 392499000868 Magnesium ion binding site [ion binding]; other site 392499000869 ParB-like nuclease domain; Region: ParBc; pfam02195 392499000870 KorB domain; Region: KorB; pfam08535 392499000871 type IV secretion system T-DNA border endonuclease VirD2; Provisional; Region: PRK13863 392499000872 DEAD-like helicases superfamily; Region: DEXDc; smart00487 392499000873 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 392499000874 ATP binding site [chemical binding]; other site 392499000875 putative Mg++ binding site [ion binding]; other site 392499000876 P-loop Domain of unknown function (DUF2791); Region: DUF2791; pfam10923 392499000877 Protein of unknown function (DUF805); Region: DUF805; pfam05656 392499000878 Domain of unknown function (DUF4016); Region: DUF4016; pfam13208 392499000879 tellurite resistance protein terB; Region: terB; cd07176 392499000880 putative metal binding site [ion binding]; other site 392499000881 transposase/IS protein; Provisional; Region: PRK09183 392499000882 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 392499000883 Walker A motif; other site 392499000884 ATP binding site [chemical binding]; other site 392499000885 Walker B motif; other site 392499000886 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 392499000887 Integrase core domain; Region: rve; pfam00665 392499000888 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 392499000889 Integrase core domain; Region: rve; pfam00665 392499000890 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 392499000891 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 392499000892 Walker A motif; other site 392499000893 ATP binding site [chemical binding]; other site 392499000894 Walker B motif; other site 392499000895 arginine finger; other site 392499000896 Glycosyltransferase sugar-binding region containing DXD motif; Region: Gly_transf_sug; pfam04488 392499000897 glycosyl hydrolase family 16; Region: Glyco_hydrolase_16; cl00218 392499000898 active site 392499000899 catalytic residues [active] 392499000900 Predicted carbamoyl transferase, NodU family [Posttranslational modification, protein turnover, chaperones]; Region: COG2192 392499000901 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 392499000902 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 392499000903 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 392499000904 Carbamoyltransferase; Region: CmcH_NodU; pfam02543 392499000905 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 392499000906 ABC transporter signature motif; other site 392499000907 Walker B; other site 392499000908 D-loop; other site 392499000909 H-loop/switch region; other site 392499000910 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 392499000911 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 392499000912 Zn2+ binding site [ion binding]; other site 392499000913 Mg2+ binding site [ion binding]; other site 392499000914 Abi-like protein; Region: Abi_2; pfam07751 392499000915 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 392499000916 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 392499000917 active site 392499000918 metal binding site [ion binding]; metal-binding site 392499000919 DNA binding site [nucleotide binding] 392499000920 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 392499000921 AAA domain; Region: AAA_23; pfam13476 392499000922 Walker A/P-loop; other site 392499000923 ATP binding site [chemical binding]; other site 392499000924 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; pfam08843 392499000925 Predicted transcriptional regulator [Transcription]; Region: COG5340 392499000926 Domain of unknown function (DUF4095); Region: DUF4095; pfam13338 392499000927 Type IV secretory pathway, VirD4 components [Intracellular trafficking and secretion]; Region: VirD4; COG3505 392499000928 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 392499000929 Walker A motif; other site 392499000930 ATP binding site [chemical binding]; other site 392499000931 Walker B motif; other site 392499000932 P-type DNA transfer ATPase VirB11; Region: VirB11; TIGR02788 392499000933 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 392499000934 Walker A motif; other site 392499000935 hexamer interface [polypeptide binding]; other site 392499000936 ATP binding site [chemical binding]; other site 392499000937 Walker B motif; other site 392499000938 Bacterial conjugation TrbI-like protein; Region: TrbI; pfam03743 392499000939 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cl11423 392499000940 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 392499000941 VirB7 interaction site; other site 392499000942 VirB8 protein; Region: VirB8; pfam04335 392499000943 TrbL/VirB6 plasmid conjugal transfer protein; Region: TrbL; pfam04610 392499000944 P-type DNA transfer protein VirB5; Region: VirB5; TIGR02791 392499000945 Type IV secretion system proteins; Region: T4SS; pfam07996 392499000946 type IV secretion/conjugal transfer ATPase, VirB4 family; Region: VirB4_CagE; TIGR00929 392499000947 CagE, TrbE, VirB family, component of type IV transporter system; Region: CagE_TrbE_VirB; pfam03135 392499000948 Type IV secretory pathway, VirB3-like protein; Region: VirB3; cl01501 392499000949 TrbC/VIRB2 family; Region: TrbC; pfam04956 392499000950 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 392499000951 N-acetyl-D-glucosamine binding site [chemical binding]; other site 392499000952 catalytic residue [active] 392499000953 Autoinducer binding domain; Region: Autoind_bind; pfam03472 392499000954 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 392499000955 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 392499000956 DNA binding residues [nucleotide binding] 392499000957 dimerization interface [polypeptide binding]; other site 392499000958 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 392499000959 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 392499000960 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 392499000961 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 392499000962 tetrameric interface [polypeptide binding]; other site 392499000963 NAD binding site [chemical binding]; other site 392499000964 catalytic residues [active] 392499000965 Transcriptional regulator [Transcription]; Region: LysR; COG0583 392499000966 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 392499000967 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 392499000968 dimerization interface [polypeptide binding]; other site 392499000969 beta-ketoadipyl CoA thiolase; Validated; Region: PRK09050 392499000970 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 392499000971 dimer interface [polypeptide binding]; other site 392499000972 active site 392499000973 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 392499000974 Coenzyme A transferase; Region: CoA_trans; cl17247 392499000975 Acyl CoA:acetate/3-ketoacid CoA transferase, alpha subunit [Lipid metabolism]; Region: AtoD; COG1788 392499000976 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 392499000977 NAD(P) binding site [chemical binding]; other site 392499000978 active site 392499000979 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 392499000980 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 392499000981 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 392499000982 N-terminal plug; other site 392499000983 ligand-binding site [chemical binding]; other site 392499000984 Autoinducer synthetase; Region: Autoind_synth; cl17404 392499000985 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 392499000986 integrase; Provisional; Region: PRK09692 392499000987 Bacteriophage P4 integrase. P4-like integrases are found in temperate bacteriophages, integrative plasmids, pathogenicity and symbiosis islands, and other mobile genetic elements. They share the same fold in their catalytic domain and the overall...; Region: INT_P4; cd00801 392499000988 active site 392499000989 Int/Topo IB signature motif; other site 392499000990 Abi-like protein; Region: Abi_2; pfam07751 392499000991 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 392499000992 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 392499000993 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 392499000994 gluconate 5-dehydrogenase; Provisional; Region: PRK08213 392499000995 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 392499000996 NAD(P) binding site [chemical binding]; other site 392499000997 active site 392499000998 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 392499000999 HpcH/HpaI aldolase/citrate lyase family; Region: HpcH_HpaI; cl17231 392499001000 Cupin domain; Region: Cupin_2; pfam07883 392499001001 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 392499001002 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 392499001003 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 392499001004 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 392499001005 Major Facilitator Superfamily; Region: MFS_1; pfam07690 392499001006 putative substrate translocation pore; other site 392499001007 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 392499001008 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 392499001009 chlorocatechol 1,2-dioxygenase; Region: chlorocat_1_2; TIGR02465 392499001010 active site 392499001011 SnoaL-like domain; Region: SnoaL_4; pfam13577 392499001012 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 392499001013 hypothetical protein; Provisional; Region: PRK06184 392499001014 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 392499001015 putative 3-hydroxyphenylpropionic transporter MhpT; Provisional; Region: PRK11551 392499001016 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 392499001017 putative substrate translocation pore; other site 392499001018 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 392499001019 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 392499001020 N-terminal plug; other site 392499001021 ligand-binding site [chemical binding]; other site 392499001022 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 392499001023 Salicylaldehyde dehydrogenase, DoxF-like; Region: ALDH_SaliADH; cd07105 392499001024 NAD(P) binding site [chemical binding]; other site 392499001025 catalytic residues [active] 392499001026 benzoylformate decarboxylase; Reviewed; Region: PRK07092 392499001027 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 392499001028 PYR/PP interface [polypeptide binding]; other site 392499001029 dimer interface [polypeptide binding]; other site 392499001030 TPP binding site [chemical binding]; other site 392499001031 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 392499001032 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 392499001033 TPP-binding site [chemical binding]; other site 392499001034 dimer interface [polypeptide binding]; other site 392499001035 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 392499001036 FAD binding domain; Region: FAD_binding_4; pfam01565 392499001037 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 392499001038 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 392499001039 S-adenosylmethionine binding site [chemical binding]; other site 392499001040 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 392499001041 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 392499001042 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 392499001043 Transcriptional regulator [Transcription]; Region: LysR; COG0583 392499001044 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 392499001045 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 392499001046 dimerization interface [polypeptide binding]; other site 392499001047 EthD domain; Region: EthD; pfam07110 392499001048 EthD domain; Region: EthD; cl17553 392499001049 Predicted acyl esterases [General function prediction only]; Region: COG2936 392499001050 X-Pro dipeptidyl-peptidase C-terminal non-catalytic domain; Region: PepX_C; smart00939 392499001051 Prokaryotic protein of unknown function (DUF849); Region: DUF849; pfam05853 392499001052 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK06130 392499001053 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 392499001054 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 392499001055 gluconate 5-dehydrogenase; Provisional; Region: PRK08213 392499001056 classical (c) SDRs; Region: SDR_c; cd05233 392499001057 NAD(P) binding site [chemical binding]; other site 392499001058 active site 392499001059 Cupin domain; Region: Cupin_2; pfam07883 392499001060 Kynurenine formamidase [Amino acid transport and metabolism]; Region: COG1878 392499001061 Transcriptional regulator [Transcription]; Region: IclR; COG1414 392499001062 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 392499001063 Bacterial transcriptional regulator; Region: IclR; pfam01614 392499001064 Transcriptional regulators [Transcription]; Region: MarR; COG1846 392499001065 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 392499001066 hypothetical protein; Provisional; Region: PRK06126 392499001067 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 392499001068 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 392499001069 Maleylacetate reductase is involved in many aromatic compounds degradation pathways of aerobic microbes; Region: MAR; cd08177 392499001070 active site 392499001071 dimer interface [polypeptide binding]; other site 392499001072 metal binding site [ion binding]; metal-binding site 392499001073 Hydroxyquinol 1,2-dioxygenase (1,2-HQD) catalyzes the ring cleavage of hydroxyquinol (1,2,4-trihydroxybenzene), a intermediate in the degradation of a large variety of aromatic compounds including some polychloro- and nitroaromatic pollutants, to form...; Region: 1,2-HQD; cd03461 392499001074 catechol 1,2-dioxygenase, proteobacterial; Region: catechol_proteo; TIGR02439 392499001075 dimer interface [polypeptide binding]; other site 392499001076 active site 392499001077 Acyl CoA:acetate/3-ketoacid CoA transferase, alpha subunit [Lipid metabolism]; Region: AtoD; COG1788 392499001078 Coenzyme A transferase; Region: CoA_trans; cl17247 392499001079 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 392499001080 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 392499001081 catalytic residues [active] 392499001082 catalytic nucleophile [active] 392499001083 Presynaptic Site I dimer interface [polypeptide binding]; other site 392499001084 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 392499001085 Synaptic Flat tetramer interface [polypeptide binding]; other site 392499001086 Synaptic Site I dimer interface [polypeptide binding]; other site 392499001087 DNA binding site [nucleotide binding] 392499001088 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 392499001089 DNA-binding interface [nucleotide binding]; DNA binding site 392499001090 Domain of unknown function (DUF4158); Region: DUF4158; pfam13700 392499001091 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; pfam01526 392499001092 Transposase; Region: HTH_Tnp_1; pfam01527 392499001093 HTH-like domain; Region: HTH_21; pfam13276 392499001094 transposase; Validated; Region: PRK08181 392499001095 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 392499001096 Walker A motif; other site 392499001097 ATP binding site [chemical binding]; other site 392499001098 Walker B motif; other site 392499001099 Integrase core domain; Region: rve; pfam00665 392499001100 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 392499001101 Domain of unknown function (DUF4158); Region: DUF4158; pfam13700 392499001102 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; cl14901 392499001103 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; cl14901 392499001104 Homeodomain-like domain; Region: HTH_32; pfam13565 392499001105 Integrase core domain; Region: rve; pfam00665 392499001106 Integrase core domain; Region: rve_3; pfam13683 392499001107 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 392499001108 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 392499001109 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 392499001110 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 392499001111 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 392499001112 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 392499001113 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 392499001114 Transposase; Region: HTH_Tnp_1; pfam01527 392499001115 Protein of unknown function (DUF2493); Region: DUF2493; pfam10686 392499001116 GST_N family, Class Zeta subfamily; GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic alkylating agents, including carcinogens; Region: GST_N_Zeta; cd03042 392499001117 maleylacetoacetate isomerase; Region: maiA; TIGR01262 392499001118 C-terminal domain interface [polypeptide binding]; other site 392499001119 GSH binding site (G-site) [chemical binding]; other site 392499001120 putative dimer interface [polypeptide binding]; other site 392499001121 C-terminal, alpha helical domain of Class Zeta Glutathione S-transferases; Region: GST_C_Zeta; cd03191 392499001122 dimer interface [polypeptide binding]; other site 392499001123 N-terminal domain interface [polypeptide binding]; other site 392499001124 maleylacetoacetate (MAA) substrate binding site (H site) [chemical binding]; other site 392499001125 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 392499001126 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 392499001127 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 392499001128 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 392499001129 catalytic loop [active] 392499001130 iron binding site [ion binding]; other site 392499001131 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 392499001132 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 392499001133 Domain of unknown function (DUF4158); Region: DUF4158; pfam13700 392499001134 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; pfam01526 392499001135 multiple promoter invertase; Provisional; Region: mpi; PRK13413 392499001136 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 392499001137 catalytic residues [active] 392499001138 catalytic nucleophile [active] 392499001139 Presynaptic Site I dimer interface [polypeptide binding]; other site 392499001140 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 392499001141 Synaptic Flat tetramer interface [polypeptide binding]; other site 392499001142 Synaptic Site I dimer interface [polypeptide binding]; other site 392499001143 DNA binding site [nucleotide binding] 392499001144 Helix-turn-helix domain; Region: HTH_28; pfam13518 392499001145 Winged helix-turn helix; Region: HTH_29; pfam13551 392499001146 Homeodomain-like domain; Region: HTH_32; pfam13565 392499001147 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: Tra5; COG2801 392499001148 HTH-like domain; Region: HTH_21; pfam13276 392499001149 Integrase core domain; Region: rve; pfam00665 392499001150 Integrase core domain; Region: rve_3; pfam13683 392499001151 Transposase; Region: HTH_Tnp_1; pfam01527 392499001152 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 392499001153 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 392499001154 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 392499001155 2-polyprenyl-6-methoxyphenol hydroxylase and related FAD-dependent oxidoreductases [Coenzyme metabolism / Energy production and conversion]; Region: UbiH; COG0654 392499001156 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 392499001157 hypothetical protein; Provisional; Region: PRK07236 392499001158 Gentisate 1,2-dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3435 392499001159 Cupin domain; Region: Cupin_2; pfam07883 392499001160 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 392499001161 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 392499001162 Walker A motif; other site 392499001163 ATP binding site [chemical binding]; other site 392499001164 Walker B motif; other site 392499001165 arginine finger; other site 392499001166 Helix-turn-helix domain; Region: HTH_38; pfam13936 392499001167 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 392499001168 Integrase core domain; Region: rve; pfam00665 392499001169 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 392499001170 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 392499001171 Walker A motif; other site 392499001172 ATP binding site [chemical binding]; other site 392499001173 Walker B motif; other site 392499001174 Transposase domain (DUF772); Region: DUF772; pfam05598 392499001175 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 392499001176 DDE superfamily endonuclease; Region: DDE_4; cl17710 392499001177 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 392499001178 Transposase, Mutator family; Region: Transposase_mut; pfam00872 392499001179 MULE transposase domain; Region: MULE; pfam10551 392499001180 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 392499001181 DnaA N-terminal domain; Region: DnaA_N; pfam11638 392499001182 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 392499001183 Walker A motif; other site 392499001184 ATP binding site [chemical binding]; other site 392499001185 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 392499001186 Walker B motif; other site 392499001187 arginine finger; other site 392499001188 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 392499001189 DnaA box-binding interface [nucleotide binding]; other site 392499001190 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 392499001191 trimerization site [polypeptide binding]; other site 392499001192 active site 392499001193 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 392499001194 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 392499001195 Kef-type K+ transport systems, predicted NAD-binding component [Inorganic ion transport and metabolism]; Region: Kch; COG1226 392499001196 TrkA-N domain; Region: TrkA_N; pfam02254 392499001197 Uncharacterized small membrane protein [Function unknown]; Region: COG2363 392499001198 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2268 392499001199 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 392499001200 Protein of unknown function (DUF1449); Region: DUF1449; pfam07290 392499001201 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 392499001202 Iron-containing alcohol dehydrogenase; Region: Fe-ADH; pfam00465 392499001203 active site 392499001204 dimer interface [polypeptide binding]; other site 392499001205 metal binding site [ion binding]; metal-binding site 392499001206 Shikimate kinase [Amino acid transport and metabolism]; Region: AroK; COG0703 392499001207 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 392499001208 ADP binding site [chemical binding]; other site 392499001209 magnesium binding site [ion binding]; other site 392499001210 putative shikimate binding site; other site 392499001211 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 392499001212 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 392499001213 active site 392499001214 DNA binding site [nucleotide binding] 392499001215 Int/Topo IB signature motif; other site 392499001216 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 392499001217 putative substrate translocation pore; other site 392499001218 Alanine racemase [Cell envelope biogenesis, outer membrane]; Region: Alr; COG0787 392499001219 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 392499001220 active site 392499001221 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 392499001222 dimer interface [polypeptide binding]; other site 392499001223 substrate binding site [chemical binding]; other site 392499001224 catalytic residues [active] 392499001225 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 392499001226 Permease; Region: Permease; pfam02405 392499001227 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 392499001228 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 392499001229 Walker A/P-loop; other site 392499001230 ATP binding site [chemical binding]; other site 392499001231 Q-loop/lid; other site 392499001232 ABC transporter signature motif; other site 392499001233 Walker B; other site 392499001234 D-loop; other site 392499001235 H-loop/switch region; other site 392499001236 Peroxiredoxin (PRX) family, PRX5-like subfamily; members are similar to the human protein, PRX5, a homodimeric TRX peroxidase, widely expressed in tissues and found cellularly in mitochondria, peroxisomes and the cytosol. The cellular location of PRX5...; Region: PRX5_like; cd03013 392499001237 catalytic triad [active] 392499001238 dimer interface [polypeptide binding]; other site 392499001239 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 392499001240 GST_N family, unknown subfamily 4; composed of uncharacterized bacterial proteins with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of...; Region: GST_N_4; cd03056 392499001241 putative C-terminal domain interface [polypeptide binding]; other site 392499001242 putative GSH binding site (G-site) [chemical binding]; other site 392499001243 putative dimer interface [polypeptide binding]; other site 392499001244 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 392499001245 N-terminal domain interface [polypeptide binding]; other site 392499001246 dimer interface [polypeptide binding]; other site 392499001247 substrate binding pocket (H-site) [chemical binding]; other site 392499001248 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 392499001249 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 392499001250 putative active site [active] 392499001251 putative metal binding site [ion binding]; other site 392499001252 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 392499001253 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 392499001254 Protein of unknown function (DUF1013); Region: DUF1013; pfam06242 392499001255 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 392499001256 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 392499001257 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 392499001258 substrate binding pocket [chemical binding]; other site 392499001259 chain length determination region; other site 392499001260 substrate-Mg2+ binding site; other site 392499001261 catalytic residues [active] 392499001262 aspartate-rich region 1; other site 392499001263 active site lid residues [active] 392499001264 aspartate-rich region 2; other site 392499001265 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 392499001266 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 392499001267 active site 392499001268 (T/H)XGH motif; other site 392499001269 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 392499001270 active site 392499001271 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 392499001272 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 392499001273 Predicted periplasmic lipoprotein (DUF2279); Region: DUF2279; pfam10043 392499001274 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 392499001275 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 392499001276 Major intrinsic protein (MIP) superfamily. Members of the MIP superfamily function as membrane channels that selectively transport water, small neutral molecules, and ions out of and between cells. The channel proteins share a common fold: the N-terminal...; Region: MIP; cd00333 392499001277 amphipathic channel; other site 392499001278 Asn-Pro-Ala signature motifs; other site 392499001279 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 392499001280 PA_M28_1_2: Protease-associated (PA) domain, peptidase family M28, subfamily-1, subgroup 2. A subgroup of PA-domain containing proteins belonging to the peptidase family M28. Family M28 contains aminopeptidases and carboxypeptidases, and has co-catalytic...; Region: PA_M28_1_2; cd04821 392499001281 Predicted aminopeptidases [General function prediction only]; Region: Iap; COG2234 392499001282 PA/protease or protease-like domain interface [polypeptide binding]; other site 392499001283 M28 Zn-Peptidases containing a PA domain insert; Region: M28_like_PA_1; cd05660 392499001284 metal binding site [ion binding]; metal-binding site 392499001285 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 392499001286 active site 392499001287 multimer interface [polypeptide binding]; other site 392499001288 Protein of unknown function (DUF419); Region: DUF419; pfam04237 392499001289 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 392499001290 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 392499001291 active site 392499001292 substrate binding site [chemical binding]; other site 392499001293 cosubstrate binding site; other site 392499001294 catalytic site [active] 392499001295 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 392499001296 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 392499001297 dimerization interface [polypeptide binding]; other site 392499001298 putative ATP binding site [chemical binding]; other site 392499001299 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 392499001300 ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]; Region: DnaA; COG0593 392499001301 polyphosphate kinase; Provisional; Region: PRK05443 392499001302 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 392499001303 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 392499001304 Catalytic C-terminal domain, first repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C1_like; cd09165 392499001305 putative domain interface [polypeptide binding]; other site 392499001306 putative active site [active] 392499001307 catalytic site [active] 392499001308 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 392499001309 putative active site [active] 392499001310 putative domain interface [polypeptide binding]; other site 392499001311 catalytic site [active] 392499001312 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 392499001313 active site 392499001314 exopolyphosphatase; Region: exo_poly_only; TIGR03706 392499001315 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 392499001316 nucleotide binding site [chemical binding]; other site 392499001317 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 392499001318 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4430 392499001319 Domain of unknown function (DU1801); Region: DUF1801; pfam08818 392499001320 Bacteriocin-protection, YdeI or OmpD-Associated; Region: OmdA; pfam13376 392499001321 ribonuclease D; Region: rnd; TIGR01388 392499001322 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 392499001323 catalytic site [active] 392499001324 putative active site [active] 392499001325 putative substrate binding site [chemical binding]; other site 392499001326 HRDC domain; Region: HRDC; pfam00570 392499001327 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 392499001328 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 392499001329 dimer interface [polypeptide binding]; other site 392499001330 anticodon binding site; other site 392499001331 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 392499001332 homodimer interface [polypeptide binding]; other site 392499001333 motif 1; other site 392499001334 active site 392499001335 motif 2; other site 392499001336 GAD domain; Region: GAD; pfam02938 392499001337 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 392499001338 active site 392499001339 motif 3; other site 392499001340 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 392499001341 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 392499001342 IHF dimer interface [polypeptide binding]; other site 392499001343 IHF - DNA interface [nucleotide binding]; other site 392499001344 Uncharacterized protein family (UPF0150); Region: UPF0150; pfam03681 392499001345 YcfA-like protein; Region: YcfA; pfam07927 392499001346 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 392499001347 Phosphotransferase enzyme family; Region: APH; pfam01636 392499001348 active site 392499001349 substrate binding site [chemical binding]; other site 392499001350 ATP binding site [chemical binding]; other site 392499001351 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2945 392499001352 Serine hydrolase (FSH1); Region: FSH1; pfam03959 392499001353 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 392499001354 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 392499001355 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 392499001356 catalytic residue [active] 392499001357 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 392499001358 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 392499001359 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 392499001360 catalytic residue [active] 392499001361 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 392499001362 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 392499001363 catalytic loop [active] 392499001364 iron binding site [ion binding]; other site 392499001365 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 392499001366 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 392499001367 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 392499001368 Repeat of Unknown Function (DUF347); Region: DUF347; pfam03988 392499001369 DNA polymerase III, subunit gamma and tau; Region: dnaX_nterm; TIGR02397 392499001370 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 392499001371 Walker A motif; other site 392499001372 ATP binding site [chemical binding]; other site 392499001373 Walker B motif; other site 392499001374 arginine finger; other site 392499001375 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 392499001376 DNA polymerase III gamma and tau subunits C terminal; Region: DUF3646; pfam12362 392499001377 hypothetical protein; Validated; Region: PRK00153 392499001378 monofunctional biosynthetic peptidoglycan transglycosylase; Provisional; Region: mtgA; PRK00056 392499001379 Transglycosylase; Region: Transgly; cl17702 392499001380 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; pfam13557 392499001381 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 392499001382 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 392499001383 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 392499001384 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 392499001385 DNA binding residues [nucleotide binding] 392499001386 pseudouridine synthase, RluA family; Region: rluA_subfam; TIGR00005 392499001387 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 392499001388 RNA binding surface [nucleotide binding]; other site 392499001389 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 392499001390 active site 392499001391 Mpr1p, Pad1p N-terminal (MPN) domains with catalytic isopeptidase activity (metal-binding); Region: MPN_like; cd08070 392499001392 MPN+ (JAMM) motif; other site 392499001393 Zinc-binding site [ion binding]; other site 392499001394 Uncharacterized protein conserved in bacteria (DUF2328); Region: DUF2328; pfam10090 392499001395 Domain of unknown function (DUF2383); Region: DUF2383; pfam09537 392499001396 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cd00088 392499001397 putative binding surface; other site 392499001398 active site 392499001399 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 392499001400 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 392499001401 ATP binding site [chemical binding]; other site 392499001402 Mg2+ binding site [ion binding]; other site 392499001403 G-X-G motif; other site 392499001404 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cl00256 392499001405 CheW-like domain; Region: CheW; pfam01584 392499001406 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cl00256 392499001407 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 392499001408 Response regulator receiver domain; Region: Response_reg; pfam00072 392499001409 active site 392499001410 phosphorylation site [posttranslational modification] 392499001411 intermolecular recognition site; other site 392499001412 dimerization interface [polypeptide binding]; other site 392499001413 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 392499001414 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 392499001415 active site 392499001416 phosphorylation site [posttranslational modification] 392499001417 intermolecular recognition site; other site 392499001418 CheB methylesterase; Region: CheB_methylest; pfam01339 392499001419 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 392499001420 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 392499001421 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 392499001422 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 392499001423 amidase catalytic site [active] 392499001424 Zn binding residues [ion binding]; other site 392499001425 substrate binding site [chemical binding]; other site 392499001426 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 392499001427 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 392499001428 methionine sulfoxide reductase A; Provisional; Region: PRK14054 392499001429 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 392499001430 Putative GTP-binding controlling metal-binding; Region: SUA5; pfam03481 392499001431 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 392499001432 DNA-binding site [nucleotide binding]; DNA binding site 392499001433 Nitroreductase-like family which includes NADH oxidase and arsenite oxidiase. NADH oxidase catalyses the oxidation of NAD(P)H and accepts a wide broad range of compounds as electron acceptors, such as nitrocompound. Arsenite oxidase in a...; Region: Arsenite_oxidase; cd02135 392499001434 putative FMN binding site [chemical binding]; other site 392499001435 POT family; Region: PTR2; cl17359 392499001436 POT family; Region: PTR2; cl17359 392499001437 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 392499001438 Metallo-dependent hydrolases, subgroup C is part of the superfamily of metallo-dependent hydrolases, a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the...; Region: Met_dep_hydrolase_C; cd01309 392499001439 active site 392499001440 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 392499001441 active site 392499001442 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14315 392499001443 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 392499001444 active site 392499001445 substrate binding site [chemical binding]; other site 392499001446 metal binding site [ion binding]; metal-binding site 392499001447 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 392499001448 dimer interface [polypeptide binding]; other site 392499001449 substrate binding site [chemical binding]; other site 392499001450 ATP binding site [chemical binding]; other site 392499001451 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 392499001452 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 392499001453 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 392499001454 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 392499001455 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 392499001456 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 392499001457 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 392499001458 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 392499001459 NAD(P) binding site [chemical binding]; other site 392499001460 active site 392499001461 acyl carrier protein; Provisional; Region: acpP; PRK00982 392499001462 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 392499001463 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 392499001464 dimer interface [polypeptide binding]; other site 392499001465 active site 392499001466 YceG-like family; Region: YceG; pfam02618 392499001467 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 392499001468 dimerization interface [polypeptide binding]; other site 392499001469 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 392499001470 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 392499001471 AsnC family; Region: AsnC_trans_reg; pfam01037 392499001472 Threonine/homoserine efflux transporter [Amino acid transport and metabolism]; Region: rhtA; COG5006 392499001473 N-acetyl-gamma-glutamyl-phosphate reductase; Provisional; Region: PRK11863 392499001474 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 392499001475 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 392499001476 NlpC/P60 family; Region: NLPC_P60; cl17555 392499001477 MarR family; Region: MarR_2; cl17246 392499001478 multifunctional aminopeptidase A; Provisional; Region: PRK00913 392499001479 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 392499001480 interface (dimer of trimers) [polypeptide binding]; other site 392499001481 Substrate-binding/catalytic site; other site 392499001482 Zn-binding sites [ion binding]; other site 392499001483 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 392499001484 CoenzymeA binding site [chemical binding]; other site 392499001485 subunit interaction site [polypeptide binding]; other site 392499001486 PHB binding site; other site 392499001487 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 392499001488 CoenzymeA binding site [chemical binding]; other site 392499001489 subunit interaction site [polypeptide binding]; other site 392499001490 PHB binding site; other site 392499001491 K+ transporter [Inorganic ion transport and metabolism]; Region: Kup; COG3158 392499001492 potassium uptake protein; Region: kup; TIGR00794 392499001493 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 392499001494 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 392499001495 ATP binding site [chemical binding]; other site 392499001496 active site 392499001497 substrate binding site [chemical binding]; other site 392499001498 Serine hydrolase; Region: Ser_hydrolase; cl17834 392499001499 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 392499001500 Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible electron transfer between NADP(H) and electron carrier proteins such as ferredoxin and flavodoxin. Isoforms of these flavoproteins (i.e. having a non-covalently...; Region: FNR1; cd06195 392499001501 FAD binding pocket [chemical binding]; other site 392499001502 FAD binding motif [chemical binding]; other site 392499001503 phosphate binding motif [ion binding]; other site 392499001504 beta-alpha-beta structure motif; other site 392499001505 NAD binding pocket [chemical binding]; other site 392499001506 Predicted protease with the C-terminal PDZ domain [General function prediction only]; Region: COG3975 392499001507 M61 glycyl aminopeptidase; Region: Peptidase_M61; pfam05299 392499001508 PDZ domain, also called DHR (Dlg homologous region) or GLGF (after a conserved sequence motif). Many PDZ domains bind C-terminal polypeptides, though binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated; Region: PDZ; cl00117 392499001509 protein binding site [polypeptide binding]; other site 392499001510 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 392499001511 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 392499001512 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 392499001513 dimerization interface [polypeptide binding]; other site 392499001514 substrate binding pocket [chemical binding]; other site 392499001515 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 392499001516 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 392499001517 CAP-like domain; other site 392499001518 active site 392499001519 primary dimer interface [polypeptide binding]; other site 392499001520 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 392499001521 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 392499001522 metal binding site [ion binding]; metal-binding site 392499001523 active site 392499001524 I-site; other site 392499001525 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 392499001526 tRNA nucleotidyltransferase/poly(A) polymerase [Translation, ribosomal structure and biogenesis]; Region: PcnB; COG0617 392499001527 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 392499001528 active site 392499001529 NTP binding site [chemical binding]; other site 392499001530 metal binding triad [ion binding]; metal-binding site 392499001531 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 392499001532 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 392499001533 putative active site [active] 392499001534 putative CoA binding site [chemical binding]; other site 392499001535 nudix motif; other site 392499001536 metal binding site [ion binding]; metal-binding site 392499001537 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3816 392499001538 Protein of unknown function (DUF1285); Region: DUF1285; pfam06938 392499001539 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 392499001540 Coenzyme A binding pocket [chemical binding]; other site 392499001541 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 392499001542 GST_N family, Saccharomyces cerevisiae GTT2-like subfamily; composed of predominantly uncharacterized proteins with similarity to the S. cerevisiae GST protein, GTT2. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing...; Region: GST_N_GTT2_like; cd03051 392499001543 putative C-terminal domain interface [polypeptide binding]; other site 392499001544 putative GSH binding site (G-site) [chemical binding]; other site 392499001545 putative dimer interface [polypeptide binding]; other site 392499001546 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 392499001547 N-terminal domain interface [polypeptide binding]; other site 392499001548 dimer interface [polypeptide binding]; other site 392499001549 substrate binding pocket (H-site) [chemical binding]; other site 392499001550 short chain dehydrogenase; Provisional; Region: PRK09134 392499001551 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 392499001552 NAD(P) binding site [chemical binding]; other site 392499001553 active site 392499001554 Dihydroneopterin aldolase; Region: FolB; smart00905 392499001555 active site 392499001556 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 392499001557 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 392499001558 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 392499001559 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 392499001560 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 392499001561 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 392499001562 Adenosine kinase (AK) catalyzes the phosphorylation of ribofuranosyl-containing nucleoside analogues at the 5'-hydroxyl using ATP or GTP as the phosphate donor.The physiological function of AK is associated with the regulation of extracellular...; Region: adenosine_kinase; cd01168 392499001563 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 392499001564 substrate binding site [chemical binding]; other site 392499001565 ATP binding site [chemical binding]; other site 392499001566 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 392499001567 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 392499001568 XdhC Rossmann domain; Region: XdhC_C; pfam13478 392499001569 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 392499001570 Ligand binding site; other site 392499001571 metal-binding site 392499001572 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 392499001573 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG4181 392499001574 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 392499001575 Walker A/P-loop; other site 392499001576 ATP binding site [chemical binding]; other site 392499001577 Q-loop/lid; other site 392499001578 ABC transporter signature motif; other site 392499001579 Walker B; other site 392499001580 D-loop; other site 392499001581 H-loop/switch region; other site 392499001582 ATP-dependent Clp protease ATP-binding subunit clpA; Region: ClpA; TIGR02639 392499001583 Clp amino terminal domain; Region: Clp_N; pfam02861 392499001584 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 392499001585 Walker A motif; other site 392499001586 ATP binding site [chemical binding]; other site 392499001587 Walker B motif; other site 392499001588 arginine finger; other site 392499001589 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 392499001590 Walker A motif; other site 392499001591 ATP binding site [chemical binding]; other site 392499001592 Walker B motif; other site 392499001593 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 392499001594 Protein of unknown function (DUF1192); Region: DUF1192; pfam06698 392499001595 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 392499001596 PIG3 p53-inducible quinone oxidoreductase; Region: p53_inducible_oxidoreductase; cd05276 392499001597 NAD(P) binding site [chemical binding]; other site 392499001598 Domain of unknown function (DUF4142); Region: DUF4142; pfam13628 392499001599 Protein of unknown function, DUF488; Region: DUF488; pfam04343 392499001600 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 392499001601 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 392499001602 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 392499001603 Response regulator receiver domain; Region: Response_reg; pfam00072 392499001604 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 392499001605 active site 392499001606 phosphorylation site [posttranslational modification] 392499001607 intermolecular recognition site; other site 392499001608 dimerization interface [polypeptide binding]; other site 392499001609 N-formylglutamate amidohydrolase; Region: FGase; pfam05013 392499001610 SapC; Region: SapC; pfam07277 392499001611 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 392499001612 FAD binding domain; Region: FAD_binding_4; pfam01565 392499001613 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 392499001614 DEAD-like helicases superfamily; Region: DEXDc; smart00487 392499001615 ATP binding site [chemical binding]; other site 392499001616 Mg++ binding site [ion binding]; other site 392499001617 motif III; other site 392499001618 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 392499001619 nucleotide binding region [chemical binding]; other site 392499001620 ATP-binding site [chemical binding]; other site 392499001621 hypothetical protein; Provisional; Region: PRK09133 392499001622 M20 Peptidase, carboxypeptidase yscS-like; Region: M20_yscS_like; cd05675 392499001623 putative metal binding site [ion binding]; other site 392499001624 Phosphatidylserine/phosphatidylglycerophosphate/car diolipin synthases and related enzymes [Lipid metabolism]; Region: Cls; COG1502 392499001625 Catalytic domain, repeat 1, of uncharacterized bacterial proteins with similarity to vertebrate phospholipases, PLD1 and PLD2; Region: PLDc_vPLD1_2_like_bac_1; cd09140 392499001626 putative active site [active] 392499001627 catalytic site [active] 392499001628 Catalytic domain, repeat 2, of uncharacterized bacterial proteins with similarity to vertebrate phospholipases, PLD1 and PLD2; Region: PLDc_vPLD1_2_like_bac_2; cd09143 392499001629 putative active site [active] 392499001630 catalytic site [active] 392499001631 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 392499001632 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_3; cl17304 392499001633 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 392499001634 GST_N family, Saccharomyces cerevisiae GTT1-like subfamily; composed of predominantly uncharacterized proteins with similarity to the S. cerevisiae GST protein, GTT1, and the Schizosaccharomyces pombe GST-III. GSTs are cytosolic dimeric proteins involved...; Region: GST_N_GTT1_like; cd03046 392499001635 putative C-terminal domain interface [polypeptide binding]; other site 392499001636 putative GSH binding site (G-site) [chemical binding]; other site 392499001637 putative dimer interface [polypeptide binding]; other site 392499001638 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 392499001639 N-terminal domain interface [polypeptide binding]; other site 392499001640 dimer interface [polypeptide binding]; other site 392499001641 substrate binding pocket (H-site) [chemical binding]; other site 392499001642 Predicted transcriptional regulator [Transcription]; Region: COG2378 392499001643 HTH domain; Region: HTH_11; pfam08279 392499001644 WYL domain; Region: WYL; pfam13280 392499001645 Protein of unknown function (DUF2945); Region: DUF2945; pfam11160 392499001646 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 392499001647 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 392499001648 active site 392499001649 phosphorylation site [posttranslational modification] 392499001650 intermolecular recognition site; other site 392499001651 dimerization interface [polypeptide binding]; other site 392499001652 Domain of unknown function (DUF389); Region: DUF389; pfam04087 392499001653 Transcriptional regulator [Transcription]; Region: LysR; COG0583 392499001654 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 392499001655 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 392499001656 dimerization interface [polypeptide binding]; other site 392499001657 Prostaglandin dehydrogenases; Region: PGDH; cd05288 392499001658 Putative NADP-dependent oxidoreductases [General function prediction only]; Region: COG2130 392499001659 NAD(P) binding site [chemical binding]; other site 392499001660 substrate binding site [chemical binding]; other site 392499001661 dimer interface [polypeptide binding]; other site 392499001662 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 392499001663 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 392499001664 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 392499001665 active site 392499001666 DNA binding site [nucleotide binding] 392499001667 Int/Topo IB signature motif; other site 392499001668 Protein of unknown function (DUF1044); Region: DUF1044; pfam06296 392499001669 Predicted transcriptional regulator [Transcription]; Region: COG2944 392499001670 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 392499001671 non-specific DNA binding site [nucleotide binding]; other site 392499001672 salt bridge; other site 392499001673 sequence-specific DNA binding site [nucleotide binding]; other site 392499001674 P-type conjugative transfer ATPase TrbB; Region: TrbB_P; TIGR02782 392499001675 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 392499001676 Walker A motif; other site 392499001677 ATP binding site [chemical binding]; other site 392499001678 Walker B motif; other site 392499001679 TrbC/VIRB2 family; Region: TrbC; cl01583 392499001680 Type IV secretory pathway, VirB3-like protein; Region: VirB3; cl01501 392499001681 conjugal transfer ATPase TrbE; Provisional; Region: PRK13873 392499001682 CagE, TrbE, VirB family, component of type IV transporter system; Region: CagE_TrbE_VirB; pfam03135 392499001683 TraM recognition site of TraD and TraG; Region: TraG-D_C; cl17375 392499001684 conjugal transfer protein TrbJ; Provisional; Region: PRK13874 392499001685 conjugative transfer region protein TrbK; Region: other_trbK; TIGR04360 392499001686 conjugal transfer protein TrbL; Provisional; Region: PRK13875 392499001687 TrbL/VirB6 plasmid conjugal transfer protein; Region: TrbL; cl01503 392499001688 conjugal transfer protein TrbF; Provisional; Region: PRK13872 392499001689 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 392499001690 VirB7 interaction site; other site 392499001691 Bacterial conjugation TrbI-like protein; Region: TrbI; pfam03743 392499001692 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 392499001693 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 392499001694 non-specific DNA binding site [nucleotide binding]; other site 392499001695 salt bridge; other site 392499001696 sequence-specific DNA binding site [nucleotide binding]; other site 392499001697 Transcriptional regulator [Transcription]; Region: LysR; COG0583 392499001698 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 392499001699 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 392499001700 dimerization interface [polypeptide binding]; other site 392499001701 substrate binding pocket [chemical binding]; other site 392499001702 Autoinducer binding domain; Region: Autoind_bind; pfam03472 392499001703 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 392499001704 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 392499001705 DNA binding residues [nucleotide binding] 392499001706 dimerization interface [polypeptide binding]; other site 392499001707 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 392499001708 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 392499001709 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 392499001710 DNA binding residues [nucleotide binding] 392499001711 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 392499001712 Type IV secretion-system coupling protein DNA-binding domain; Region: TrwB_AAD_bind; pfam10412 392499001713 Walker A motif; other site 392499001714 ATP binding site [chemical binding]; other site 392499001715 Walker B motif; other site 392499001716 Ti-type conjugative transfer relaxase TraA; Region: TraA_Ti; TIGR02768 392499001717 MobA/MobL family; Region: MobA_MobL; pfam03389 392499001718 AAA domain; Region: AAA_30; pfam13604 392499001719 Conjugal transfer protein TraD; Region: TraD; pfam06412 392499001720 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 392499001721 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 392499001722 N-acetyl-D-glucosamine binding site [chemical binding]; other site 392499001723 catalytic residue [active] 392499001724 Signal peptidase, peptidase S26; Region: Peptidase_S26; pfam10502 392499001725 conjugal transfer pilin processing protease TraF; Provisional; Region: PRK13838 392499001726 Helix-turn-helix domain; Region: HTH_17; pfam12728 392499001727 Uncharacterized conserved protein [Function unknown]; Region: COG5489 392499001728 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 392499001729 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 392499001730 catalytic residues [active] 392499001731 catalytic nucleophile [active] 392499001732 Recombinase; Region: Recombinase; pfam07508 392499001733 ROS/MUCR transcriptional regulator protein; Region: ROS_MUCR; pfam05443 392499001734 Protein of unknown function (DUF2493); Region: DUF2493; pfam10686 392499001735 Toprim domain; Region: Toprim_3; pfam13362 392499001736 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 392499001737 ParB-like nuclease domain; Region: ParBc; pfam02195 392499001738 Uncharacterized protein conserved in bacteria (DUF2188); Region: DUF2188; pfam09954 392499001739 WYL domain; Region: WYL; pfam13280 392499001740 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 392499001741 ATP binding site [chemical binding]; other site 392499001742 putative Mg++ binding site [ion binding]; other site 392499001743 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 392499001744 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 392499001745 nucleotide binding region [chemical binding]; other site 392499001746 ATP-binding site [chemical binding]; other site 392499001747 Domain of unknown function (DUF4355); Region: DUF4355; pfam14265 392499001748 Domain of unknown function (DUF3883); Region: DUF3883; pfam13020 392499001749 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 392499001750 ATP binding site [chemical binding]; other site 392499001751 Mg2+ binding site [ion binding]; other site 392499001752 G-X-G motif; other site 392499001753 Adenine-specific DNA methylase containing a Zn-ribbon [DNA replication, recombination, and repair]; Region: COG1743 392499001754 Protein of unknown function (DUF1156); Region: DUF1156; pfam06634 392499001755 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 392499001756 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1483 392499001757 Protein of unknown function (DUF499); Region: DUF499; pfam04465 392499001758 TIR domain; Region: TIR_2; pfam13676 392499001759 Piwi_piwi-like_ProArk: PIWI domain, Piwi-like subfamily found in Archaea and Bacteria. RNA silencing refers to a group of related gene-silencing mechanisms mediated by short RNA molecules, including siRNAs, miRNAs, and heterochromatin-related guide RNAs; Region: Piwi_piwi-like_ProArk; cd04659 392499001760 5' RNA guide strand anchoring site; other site 392499001761 active site 392499001762 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 392499001763 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 392499001764 minor groove reading motif; other site 392499001765 helix-hairpin-helix signature motif; other site 392499001766 substrate binding pocket [chemical binding]; other site 392499001767 active site 392499001768 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; pfam10576 392499001769 dihydrodipicolinate reductase; Provisional; Region: PRK00048 392499001770 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 392499001771 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 392499001772 Cupin domain; Region: Cupin_2; pfam07883 392499001773 Bacterial protein of unknown function (DUF922); Region: DUF922; cl02415 392499001774 NAD-dependent deacetylase; Provisional; Region: PRK00481 392499001775 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 392499001776 NAD+ binding site [chemical binding]; other site 392499001777 substrate binding site [chemical binding]; other site 392499001778 Zn binding site [ion binding]; other site 392499001779 GTPase Era; Reviewed; Region: era; PRK00089 392499001780 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 392499001781 G1 box; other site 392499001782 GTP/Mg2+ binding site [chemical binding]; other site 392499001783 Switch I region; other site 392499001784 G2 box; other site 392499001785 Switch II region; other site 392499001786 G3 box; other site 392499001787 G4 box; other site 392499001788 G5 box; other site 392499001789 KH domain; Region: KH_2; pfam07650 392499001790 ribonuclease III, bacterial; Region: RNaseIII; TIGR02191 392499001791 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 392499001792 dimerization interface [polypeptide binding]; other site 392499001793 active site 392499001794 metal binding site [ion binding]; metal-binding site 392499001795 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 392499001796 Domain of unknown function (DUF4169); Region: DUF4169; pfam13770 392499001797 Flagellar protein FliS; Region: FliS; cl00654 392499001798 flagellar capping protein; Provisional; Region: PRK12765 392499001799 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 392499001800 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 392499001801 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 392499001802 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 392499001803 flagellar biosynthesis protein FliR; Reviewed; Region: fliR; PRK05701 392499001804 flagellar biosynthesis protein FliQ; Validated; Region: fliQ; PRK05700 392499001805 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 392499001806 primosome assembly protein PriA; Validated; Region: PRK05580 392499001807 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 392499001808 ATP binding site [chemical binding]; other site 392499001809 putative Mg++ binding site [ion binding]; other site 392499001810 helicase superfamily c-terminal domain; Region: HELICc; smart00490 392499001811 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 392499001812 active site 392499001813 intersubunit interactions; other site 392499001814 catalytic residue [active] 392499001815 Protein of unknown function, DUF484; Region: DUF484; cl17449 392499001816 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 392499001817 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 392499001818 active site 392499001819 DNA binding site [nucleotide binding] 392499001820 Int/Topo IB signature motif; other site 392499001821 LVIVD repeat; Region: LVIVD; pfam08309 392499001822 LVIVD repeat; Region: LVIVD; pfam08309 392499001823 Aldehyde dehydrogenase family 21A1-like; Region: ALDH_F21_RNP123; cd07147 392499001824 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 392499001825 NAD(P) binding site [chemical binding]; other site 392499001826 catalytic residues [active] 392499001827 acetolactate synthase; Reviewed; Region: PRK08322 392499001828 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 392499001829 PYR/PP interface [polypeptide binding]; other site 392499001830 dimer interface [polypeptide binding]; other site 392499001831 TPP binding site [chemical binding]; other site 392499001832 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 392499001833 Thiamine pyrophosphate (TPP) family, Acetolactate synthase (ALS) subfamily, TPP-binding module; composed of proteins similar to Klebsiella pneumoniae ALS, a catabolic enzyme required for butanediol fermentation. ALS catalyzes the conversion of 2...; Region: TPP_ALS; cd02010 392499001834 TPP-binding site [chemical binding]; other site 392499001835 dimer interface [polypeptide binding]; other site 392499001836 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 392499001837 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 392499001838 active site 392499001839 HIGH motif; other site 392499001840 nucleotide binding site [chemical binding]; other site 392499001841 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 392499001842 active site 392499001843 KMSKS motif; other site 392499001844 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 392499001845 Predicted transmembrane sensor domain [Signal transduction mechanisms]; Region: COG4252 392499001846 CHASE2 domain; Region: CHASE2; pfam05226 392499001847 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 392499001848 cyclase homology domain; Region: CHD; cd07302 392499001849 nucleotidyl binding site; other site 392499001850 metal binding site [ion binding]; metal-binding site 392499001851 dimer interface [polypeptide binding]; other site 392499001852 RmuC family; Region: RmuC; pfam02646 392499001853 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 392499001854 GST_N family, Ure2p-like subfamily; composed of the Saccharomyces cerevisiae Ure2p and related GSTs. Ure2p is a regulator for nitrogen catabolism in yeast. It represses the expression of several gene products involved in the use of poor nitrogen sources...; Region: GST_N_Ure2p_like; cd03048 392499001855 C-terminal domain interface [polypeptide binding]; other site 392499001856 GSH binding site (G-site) [chemical binding]; other site 392499001857 dimer interface [polypeptide binding]; other site 392499001858 C-terminal, alpha helical domain of Ure2p and related Glutathione S-transferase-like proteins; Region: GST_C_Ure2p_like; cd03178 392499001859 dimer interface [polypeptide binding]; other site 392499001860 N-terminal domain interface [polypeptide binding]; other site 392499001861 Bacterial protein of unknown function (Gcw_chp); Region: Gcw_chp; cl09901 392499001862 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 392499001863 PA_M28_2: Protease-associated (PA) domain, peptidase family M28, subfamily-2. A subfamily of PA-domain containing proteins belonging to the peptidase family M28. Family M28 contains aminopeptidases and carboxypeptidases, and has co-catalytic zinc ions; Region: PA_M28_2; cd04815 392499001864 PA/protease or protease-like domain interface [polypeptide binding]; other site 392499001865 M28 Zn-Peptidase Plasma glutamate carboxypeptidase; Region: M28_Pgcp_like; cd03883 392499001866 Peptidase family M28; Region: Peptidase_M28; pfam04389 392499001867 metal binding site [ion binding]; metal-binding site 392499001868 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 392499001869 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 392499001870 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 392499001871 ABC transporter; Region: ABC_tran_2; pfam12848 392499001872 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 392499001873 Carbonic anhydrases (CA) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism in which the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide is followed by the regeneration of an...; Region: beta_CA_cladeB; cd00884 392499001874 active site clefts [active] 392499001875 zinc binding site [ion binding]; other site 392499001876 dimer interface [polypeptide binding]; other site 392499001877 lipoyl synthase; Provisional; Region: PRK05481 392499001878 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 392499001879 FeS/SAM binding site; other site 392499001880 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 392499001881 putative coenzyme Q binding site [chemical binding]; other site 392499001882 Competence-damaged protein; Region: CinA; pfam02464 392499001883 bifunctional 2-C-methyl-D-erythritol 4-phosphate cytidylyltransferase/2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase protein; Provisional; Region: ispDF; PRK09382 392499001884 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 392499001885 substrate binding site; other site 392499001886 dimer interface; other site 392499001887 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 392499001888 homotrimer interaction site [polypeptide binding]; other site 392499001889 zinc binding site [ion binding]; other site 392499001890 CDP-binding sites; other site 392499001891 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 392499001892 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 392499001893 FMN binding site [chemical binding]; other site 392499001894 active site 392499001895 catalytic residues [active] 392499001896 substrate binding site [chemical binding]; other site 392499001897 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 392499001898 PAS domain; Region: PAS; smart00091 392499001899 putative active site [active] 392499001900 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 392499001901 phosphorylation site [posttranslational modification] 392499001902 dimer interface [polypeptide binding]; other site 392499001903 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 392499001904 ATP binding site [chemical binding]; other site 392499001905 Mg2+ binding site [ion binding]; other site 392499001906 G-X-G motif; other site 392499001907 nitrogen regulation protein NR(I); Region: ntrC; TIGR01818 392499001908 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 392499001909 active site 392499001910 phosphorylation site [posttranslational modification] 392499001911 intermolecular recognition site; other site 392499001912 dimerization interface [polypeptide binding]; other site 392499001913 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 392499001914 Walker A motif; other site 392499001915 ATP binding site [chemical binding]; other site 392499001916 Walker B motif; other site 392499001917 arginine finger; other site 392499001918 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 392499001919 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 392499001920 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 392499001921 dimerization interface [polypeptide binding]; other site 392499001922 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 392499001923 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 392499001924 putative active site [active] 392499001925 heme pocket [chemical binding]; other site 392499001926 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 392499001927 dimer interface [polypeptide binding]; other site 392499001928 phosphorylation site [posttranslational modification] 392499001929 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 392499001930 ATP binding site [chemical binding]; other site 392499001931 Mg2+ binding site [ion binding]; other site 392499001932 G-X-G motif; other site 392499001933 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 392499001934 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 392499001935 active site 392499001936 phosphorylation site [posttranslational modification] 392499001937 intermolecular recognition site; other site 392499001938 dimerization interface [polypeptide binding]; other site 392499001939 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 392499001940 Walker A motif; other site 392499001941 ATP binding site [chemical binding]; other site 392499001942 Walker B motif; other site 392499001943 arginine finger; other site 392499001944 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 392499001945 RNA-binding protein Hfq; Provisional; Region: PRK14091 392499001946 bacterial Hfq-like; Region: Hfq; cd01716 392499001947 hexamer interface [polypeptide binding]; other site 392499001948 Sm1 motif; other site 392499001949 RNA binding site [nucleotide binding]; other site 392499001950 Sm2 motif; other site 392499001951 bacterial Hfq-like; Region: Hfq; cd01716 392499001952 hexamer interface [polypeptide binding]; other site 392499001953 Sm1 motif; other site 392499001954 RNA binding site [nucleotide binding]; other site 392499001955 Sm2 motif; other site 392499001956 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 392499001957 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 392499001958 HflX GTPase family; Region: HflX; cd01878 392499001959 G1 box; other site 392499001960 GTP/Mg2+ binding site [chemical binding]; other site 392499001961 Switch I region; other site 392499001962 G2 box; other site 392499001963 G3 box; other site 392499001964 Switch II region; other site 392499001965 G4 box; other site 392499001966 G5 box; other site 392499001967 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 392499001968 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 392499001969 homodimer interface [polypeptide binding]; other site 392499001970 metal binding site [ion binding]; metal-binding site 392499001971 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) C-terminal tandem-domain of MazG proteins from Escherichia coli and bacterial homologs' Region: NTP-PPase_MazG_Cterm; cd11529 392499001972 homodimer interface [polypeptide binding]; other site 392499001973 active site 392499001974 putative chemical substrate binding site [chemical binding]; other site 392499001975 metal binding site [ion binding]; metal-binding site 392499001976 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 392499001977 Transcriptional regulator [Transcription]; Region: LysR; COG0583 392499001978 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 392499001979 putative effector binding pocket; other site 392499001980 dimerization interface [polypeptide binding]; other site 392499001981 glycosyltransferase, TIGR04182 family; Region: glyco_TIGR04182 392499001982 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 392499001983 Ligand binding site; other site 392499001984 Putative Catalytic site; other site 392499001985 DXD motif; other site 392499001986 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 392499001987 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 392499001988 Walker A/P-loop; other site 392499001989 ATP binding site [chemical binding]; other site 392499001990 Q-loop/lid; other site 392499001991 ABC transporter signature motif; other site 392499001992 Walker B; other site 392499001993 D-loop; other site 392499001994 H-loop/switch region; other site 392499001995 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 392499001996 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 392499001997 ABC-ATPase subunit interface; other site 392499001998 dimer interface [polypeptide binding]; other site 392499001999 putative PBP binding regions; other site 392499002000 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 392499002001 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 392499002002 intersubunit interface [polypeptide binding]; other site 392499002003 Toxic anion resistance protein (TelA); Region: TelA; pfam05816 392499002004 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 392499002005 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 392499002006 G1 box; other site 392499002007 putative GEF interaction site [polypeptide binding]; other site 392499002008 GTP/Mg2+ binding site [chemical binding]; other site 392499002009 Switch I region; other site 392499002010 G2 box; other site 392499002011 G3 box; other site 392499002012 Switch II region; other site 392499002013 G4 box; other site 392499002014 G5 box; other site 392499002015 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 392499002016 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 392499002017 Transcription factor zinc-finger; Region: zf-TFIIB; cl01565 392499002018 glutamate synthase subunit beta; Reviewed; Region: gltD; PRK12810 392499002019 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 392499002020 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 392499002021 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 392499002022 active site 392499002023 dimer interface [polypeptide binding]; other site 392499002024 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 392499002025 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 392499002026 active site 392499002027 FMN binding site [chemical binding]; other site 392499002028 substrate binding site [chemical binding]; other site 392499002029 3Fe-4S cluster binding site [ion binding]; other site 392499002030 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 392499002031 domain interface; other site 392499002032 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 392499002033 Ligand Binding Site [chemical binding]; other site 392499002034 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 392499002035 PAS domain; Region: PAS_9; pfam13426 392499002036 putative active site [active] 392499002037 heme pocket [chemical binding]; other site 392499002038 PAS domain S-box; Region: sensory_box; TIGR00229 392499002039 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 392499002040 putative active site [active] 392499002041 heme pocket [chemical binding]; other site 392499002042 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 392499002043 dimer interface [polypeptide binding]; other site 392499002044 phosphorylation site [posttranslational modification] 392499002045 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 392499002046 ATP binding site [chemical binding]; other site 392499002047 Mg2+ binding site [ion binding]; other site 392499002048 G-X-G motif; other site 392499002049 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 392499002050 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 392499002051 active site 392499002052 phosphorylation site [posttranslational modification] 392499002053 intermolecular recognition site; other site 392499002054 dimerization interface [polypeptide binding]; other site 392499002055 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 392499002056 DNA binding residues [nucleotide binding] 392499002057 dimerization interface [polypeptide binding]; other site 392499002058 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 392499002059 Clade 3 of the heme-binding enzyme catalase; Region: catalase_clade_3; cd08156 392499002060 tetramer interface [polypeptide binding]; other site 392499002061 heme binding pocket [chemical binding]; other site 392499002062 NADPH binding site [chemical binding]; other site 392499002063 ABC-type anion transport system, duplicated permease component [Inorganic ion transport and metabolism]; Region: COG4986 392499002064 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 392499002065 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 392499002066 dimer interface [polypeptide binding]; other site 392499002067 conserved gate region; other site 392499002068 putative PBP binding loops; other site 392499002069 ABC-ATPase subunit interface; other site 392499002070 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 392499002071 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 392499002072 Walker A/P-loop; other site 392499002073 ATP binding site [chemical binding]; other site 392499002074 Q-loop/lid; other site 392499002075 ABC transporter signature motif; other site 392499002076 Walker B; other site 392499002077 D-loop; other site 392499002078 H-loop/switch region; other site 392499002079 ABC nitrate/sulfonate/bicarbonate family transporter, ATPase subunit; Region: ABC_transp; pfam09821 392499002080 polyphosphate kinase 2, PA0141 family; Region: PPK2_P_aer; TIGR03707 392499002081 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 392499002082 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 392499002083 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 392499002084 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 392499002085 active site 392499002086 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 392499002087 active site 392499002088 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 392499002089 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 392499002090 N-terminal plug; other site 392499002091 ligand-binding site [chemical binding]; other site 392499002092 Transcriptional regulators [Transcription]; Region: GntR; COG1802 392499002093 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 392499002094 FCD domain; Region: FCD; pfam07729 392499002095 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 392499002096 long-chain-fatty-acid--CoA ligase; Provisional; Region: PRK12406 392499002097 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 392499002098 acyl-activating enzyme (AAE) consensus motif; other site 392499002099 putative AMP binding site [chemical binding]; other site 392499002100 putative active site [active] 392499002101 putative CoA binding site [chemical binding]; other site 392499002102 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 392499002103 CoA-transferase family III; Region: CoA_transf_3; pfam02515 392499002104 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 392499002105 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 392499002106 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 392499002107 catalytic loop [active] 392499002108 iron binding site [ion binding]; other site 392499002109 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 392499002110 Alcohol dehydrogenases of the MDR family; Region: Zn_ADH8; cd08262 392499002111 putative NAD(P) binding site [chemical binding]; other site 392499002112 catalytic Zn binding site [ion binding]; other site 392499002113 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 392499002114 active site 392499002115 metal binding site [ion binding]; metal-binding site 392499002116 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 392499002117 CoA-transferase family III; Region: CoA_transf_3; pfam02515 392499002118 enoyl-CoA hydratase; Provisional; Region: PRK08140 392499002119 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 392499002120 substrate binding site [chemical binding]; other site 392499002121 oxyanion hole (OAH) forming residues; other site 392499002122 trimer interface [polypeptide binding]; other site 392499002123 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 392499002124 Old yellow enzyme (OYE)-related FMN binding domain, group 5. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a reducing agent with oxygens, quinones, and alpha,beta-unsaturated aldehydes and ketones, and can act as...; Region: OYE_like_5_FMN; cd04747 392499002125 putative active site [active] 392499002126 putative FMN binding site [chemical binding]; other site 392499002127 putative substrate binding site [chemical binding]; other site 392499002128 putative catalytic residue [active] 392499002129 SnoaL-like domain; Region: SnoaL_4; pfam13577 392499002130 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 392499002131 classical (c) SDRs; Region: SDR_c; cd05233 392499002132 NAD(P) binding site [chemical binding]; other site 392499002133 active site 392499002134 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 392499002135 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 392499002136 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 392499002137 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK08063 392499002138 NAD(P) binding site [chemical binding]; other site 392499002139 active site 392499002140 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 392499002141 acyl-CoA thioesterase II; Region: tesB; TIGR00189 392499002142 active site 392499002143 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 392499002144 catalytic triad [active] 392499002145 dimer interface [polypeptide binding]; other site 392499002146 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 392499002147 Taurine catabolism dioxygenase TauD, TfdA family; Region: TauD; pfam02668 392499002148 substrate binding pocket [chemical binding]; other site 392499002149 active site 392499002150 iron coordination sites [ion binding]; other site 392499002151 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 392499002152 Major Facilitator Superfamily; Region: MFS_1; pfam07690 392499002153 putative substrate translocation pore; other site 392499002154 enoyl-CoA hydratase; Provisional; Region: PRK08140 392499002155 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 392499002156 substrate binding site [chemical binding]; other site 392499002157 oxyanion hole (OAH) forming residues; other site 392499002158 trimer interface [polypeptide binding]; other site 392499002159 short chain dehydrogenase; Provisional; Region: PRK06523 392499002160 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 392499002161 NAD(P) binding site [chemical binding]; other site 392499002162 active site 392499002163 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 392499002164 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 392499002165 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 392499002166 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 392499002167 Ecdysteroid kinase; Region: EcKinase; cl17738 392499002168 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 392499002169 classical (c) SDRs; Region: SDR_c; cd05233 392499002170 NAD(P) binding site [chemical binding]; other site 392499002171 active site 392499002172 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 392499002173 classical (c) SDRs; Region: SDR_c; cd05233 392499002174 NAD(P) binding site [chemical binding]; other site 392499002175 active site 392499002176 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 392499002177 active site 392499002178 metal binding site [ion binding]; metal-binding site 392499002179 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 392499002180 conserved cys residue [active] 392499002181 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 392499002182 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 392499002183 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07656 392499002184 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 392499002185 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_2; cd05917 392499002186 acyl-activating enzyme (AAE) consensus motif; other site 392499002187 putative AMP binding site [chemical binding]; other site 392499002188 putative active site [active] 392499002189 putative CoA binding site [chemical binding]; other site 392499002190 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 392499002191 N-acyl-D-aspartate/D-glutamate deacylase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3653 392499002192 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 392499002193 active site 392499002194 putative substrate binding pocket [chemical binding]; other site 392499002195 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 392499002196 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 392499002197 Transcriptional regulator [Transcription]; Region: IclR; COG1414 392499002198 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 392499002199 Bacterial transcriptional regulator; Region: IclR; pfam01614 392499002200 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 392499002201 Transcriptional regulator [Transcription]; Region: IclR; COG1414 392499002202 Bacterial transcriptional regulator; Region: IclR; pfam01614 392499002203 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 392499002204 2-enoyl thioester reductase (ETR); Region: ETR; cd08290 392499002205 NADP binding site [chemical binding]; other site 392499002206 dimer interface [polypeptide binding]; other site 392499002207 pimeloyl-CoA dehydrogenase, large subunit; Region: pimC_large; TIGR03204 392499002208 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 392499002209 active site 392499002210 pimeloyl-CoA dehydrogenase, small subunit; Region: pimD_small; TIGR03203 392499002211 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 392499002212 active site 392499002213 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; cl17312 392499002214 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 392499002215 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 392499002216 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 392499002217 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 392499002218 substrate binding site [chemical binding]; other site 392499002219 oxyanion hole (OAH) forming residues; other site 392499002220 trimer interface [polypeptide binding]; other site 392499002221 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 392499002222 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadB; PRK11730 392499002223 substrate binding site [chemical binding]; other site 392499002224 oxyanion hole (OAH) forming residues; other site 392499002225 trimer interface [polypeptide binding]; other site 392499002226 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 392499002227 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 392499002228 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 392499002229 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 392499002230 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 392499002231 active site 392499002232 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 392499002233 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 392499002234 [2Fe-2S] cluster binding site [ion binding]; other site 392499002235 C-terminal catalytic domain of Pseudomonas fluorescens MupW and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_MupW-like; cd08882 392499002236 putative alpha subunit interface [polypeptide binding]; other site 392499002237 putative active site [active] 392499002238 putative substrate binding site [chemical binding]; other site 392499002239 Fe binding site [ion binding]; other site 392499002240 3-ketosteroid-delta-1-dehydrogenase; Reviewed; Region: PRK12844 392499002241 Predicted oxidoreductase [General function prediction only]; Region: COG3573 392499002242 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 392499002243 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 392499002244 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 392499002245 conserved cys residue [active] 392499002246 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 392499002247 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 392499002248 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; cl17312 392499002249 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 392499002250 classical (c) SDRs; Region: SDR_c; cd05233 392499002251 NAD(P) binding site [chemical binding]; other site 392499002252 active site 392499002253 Ecdysteroid kinase; Region: EcKinase; cl17738 392499002254 Phosphotransferase enzyme family; Region: APH; pfam01636 392499002255 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 392499002256 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 392499002257 N-terminal plug; other site 392499002258 ligand-binding site [chemical binding]; other site 392499002259 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 392499002260 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 392499002261 NAD(P) binding site [chemical binding]; other site 392499002262 active site 392499002263 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK12825 392499002264 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 392499002265 NAD(P) binding site [chemical binding]; other site 392499002266 active site 392499002267 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 392499002268 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 392499002269 NAD(P) binding site [chemical binding]; other site 392499002270 active site 392499002271 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 392499002272 classical (c) SDRs; Region: SDR_c; cd05233 392499002273 NAD(P) binding site [chemical binding]; other site 392499002274 active site 392499002275 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 392499002276 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 392499002277 [2Fe-2S] cluster binding site [ion binding]; other site 392499002278 C-terminal catalytic domain of Pseudomonas fluorescens MupW and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_MupW-like; cd08882 392499002279 putative alpha subunit interface [polypeptide binding]; other site 392499002280 putative active site [active] 392499002281 putative substrate binding site [chemical binding]; other site 392499002282 Fe binding site [ion binding]; other site 392499002283 short chain dehydrogenase; Provisional; Region: PRK06180 392499002284 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 392499002285 NAD(P) binding site [chemical binding]; other site 392499002286 active site 392499002287 SnoaL-like domain; Region: SnoaL_4; pfam13577 392499002288 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 392499002289 classical (c) SDRs; Region: SDR_c; cd05233 392499002290 NAD(P) binding site [chemical binding]; other site 392499002291 active site 392499002292 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 392499002293 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 392499002294 substrate binding site [chemical binding]; other site 392499002295 oxyanion hole (OAH) forming residues; other site 392499002296 trimer interface [polypeptide binding]; other site 392499002297 thiolase; Provisional; Region: PRK06158 392499002298 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 392499002299 active site 392499002300 Rubredoxin-like zinc ribbon domain (DUF35_N); Region: DUF35_N; pfam12172 392499002301 DUF35 OB-fold domain; Region: DUF35; pfam01796 392499002302 enoyl-CoA hydratase; Provisional; Region: PRK06688 392499002303 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 392499002304 substrate binding site [chemical binding]; other site 392499002305 oxyanion hole (OAH) forming residues; other site 392499002306 trimer interface [polypeptide binding]; other site 392499002307 acetyl-CoA acetyltransferase; Provisional; Region: PRK07108 392499002308 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 392499002309 dimer interface [polypeptide binding]; other site 392499002310 active site 392499002311 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_y; TIGR03182 392499002312 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 392499002313 tetramer interface [polypeptide binding]; other site 392499002314 TPP-binding site [chemical binding]; other site 392499002315 heterodimer interface [polypeptide binding]; other site 392499002316 phosphorylation loop region [posttranslational modification] 392499002317 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 392499002318 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 392499002319 alpha subunit interface [polypeptide binding]; other site 392499002320 TPP binding site [chemical binding]; other site 392499002321 heterodimer interface [polypeptide binding]; other site 392499002322 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 392499002323 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 392499002324 E3 interaction surface; other site 392499002325 lipoyl attachment site [posttranslational modification]; other site 392499002326 Domain of unknown function (DUF4286); Region: DUF4286; pfam14114 392499002327 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 392499002328 alcohol dehydrogenase and quinone reductase-like medium chain degydrogenases/reductases; Region: MDR_like_2; cd05289 392499002329 putative NAD(P) binding site [chemical binding]; other site 392499002330 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 392499002331 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK08276 392499002332 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 392499002333 acyl-activating enzyme (AAE) consensus motif; other site 392499002334 acyl-activating enzyme (AAE) consensus motif; other site 392499002335 putative AMP binding site [chemical binding]; other site 392499002336 putative active site [active] 392499002337 putative CoA binding site [chemical binding]; other site 392499002338 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 392499002339 classical (c) SDRs; Region: SDR_c; cd05233 392499002340 NAD(P) binding site [chemical binding]; other site 392499002341 active site 392499002342 Transcriptional regulator [Transcription]; Region: LysR; COG0583 392499002343 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 392499002344 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 392499002345 putative effector binding pocket; other site 392499002346 dimerization interface [polypeptide binding]; other site 392499002347 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 392499002348 N-acyl-D-aspartate/D-glutamate deacylase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3653 392499002349 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 392499002350 active site 392499002351 putative substrate binding pocket [chemical binding]; other site 392499002352 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 392499002353 Epoxide hydrolase N terminus; Region: EHN; pfam06441 392499002354 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 392499002355 Predicted metal-dependent hydrolase; Region: Metal_hydrol; pfam10118 392499002356 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG3687 392499002357 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 392499002358 Cytochrome P450; Region: p450; cl12078 392499002359 MarR family; Region: MarR_2; cl17246 392499002360 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 392499002361 Cytochrome P450; Region: p450; cl12078 392499002362 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 392499002363 short chain dehydrogenase; Provisional; Region: PRK07791 392499002364 NAD(P) binding site [chemical binding]; other site 392499002365 active site 392499002366 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 392499002367 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cl00159 392499002368 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 392499002369 Cytochrome P450; Region: p450; cl12078 392499002370 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 392499002371 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 392499002372 choline dehydrogenase; Validated; Region: PRK02106 392499002373 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 392499002374 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 392499002375 Beta-lactamase; Region: Beta-lactamase; pfam00144 392499002376 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 392499002377 Enoyl-CoA hydratase/isomerase family; Region: ECH; pfam00378 392499002378 substrate binding site [chemical binding]; other site 392499002379 oxyanion hole (OAH) forming residues; other site 392499002380 trimer interface [polypeptide binding]; other site 392499002381 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 392499002382 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 392499002383 active site 392499002384 FMN binding site [chemical binding]; other site 392499002385 substrate binding site [chemical binding]; other site 392499002386 putative catalytic residue [active] 392499002387 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 392499002388 Taurine catabolism dioxygenase TauD, TfdA family; Region: TauD; pfam02668 392499002389 Transcriptional regulators [Transcription]; Region: MarR; COG1846 392499002390 MarR family; Region: MarR_2; cl17246 392499002391 pimeloyl-CoA dehydrogenase, small subunit; Region: pimD_small; TIGR03203 392499002392 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 392499002393 active site 392499002394 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 392499002395 pimeloyl-CoA dehydrogenase, large subunit; Region: pimC_large; TIGR03204 392499002396 active site 392499002397 classical (c) SDRs; Region: SDR_c; cd05233 392499002398 NAD(P) binding site [chemical binding]; other site 392499002399 active site 392499002400 choline dehydrogenase; Validated; Region: PRK02106 392499002401 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 392499002402 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 392499002403 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 392499002404 NAD(P) binding site [chemical binding]; other site 392499002405 active site 392499002406 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 392499002407 Sulfatase; Region: Sulfatase; pfam00884 392499002408 Mycobacterium tuberculosis aldehyde dehydrogenase AldA-like; Region: ALDH_AldA-Rv0768; cd07139 392499002409 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 392499002410 NAD binding site [chemical binding]; other site 392499002411 catalytic residues [active] 392499002412 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 392499002413 D-galactonate transporter; Region: 2A0114; TIGR00893 392499002414 putative substrate translocation pore; other site 392499002415 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07656 392499002416 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 392499002417 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_2; cd05917 392499002418 acyl-activating enzyme (AAE) consensus motif; other site 392499002419 acyl-activating enzyme (AAE) consensus motif; other site 392499002420 putative AMP binding site [chemical binding]; other site 392499002421 putative active site [active] 392499002422 putative CoA binding site [chemical binding]; other site 392499002423 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 392499002424 substrate binding site [chemical binding]; other site 392499002425 oxyanion hole (OAH) forming residues; other site 392499002426 trimer interface [polypeptide binding]; other site 392499002427 Amidohydrolase; Region: Amidohydro_2; pfam04909 392499002428 Class-II DAHP synthetase family; Region: DAHP_synth_2; pfam01474 392499002429 OpgC protein; Region: OpgC_C; cl17858 392499002430 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 392499002431 Found in ATP-dependent protease La (LON); Region: LON; smart00464 392499002432 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 392499002433 Walker A motif; other site 392499002434 ATP binding site [chemical binding]; other site 392499002435 Walker B motif; other site 392499002436 arginine finger; other site 392499002437 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 392499002438 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 392499002439 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 392499002440 DNA binding residues [nucleotide binding] 392499002441 dimerization interface [polypeptide binding]; other site 392499002442 transcription elongation factor GreB; Reviewed; Region: greB; PRK01885 392499002443 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 392499002444 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 392499002445 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 392499002446 dimerization domain swap beta strand [polypeptide binding]; other site 392499002447 regulatory protein interface [polypeptide binding]; other site 392499002448 active site 392499002449 regulatory phosphorylation site [posttranslational modification]; other site 392499002450 PTS_IIA, PTS system, mannose/sorbose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_man; cd00006 392499002451 active site 392499002452 active pocket/dimerization site; other site 392499002453 phosphorylation site [posttranslational modification] 392499002454 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 392499002455 HprK/P, the bifunctional histidine-containing protein kinase/phosphatase, controls the phosphorylation state of the phosphocarrier protein HPr and regulates the utilization of carbon sources by gram-positive bacteria. It catalyzes both the ATP-dependent...; Region: HprK_C; cd01918 392499002456 Hpr binding site; other site 392499002457 active site 392499002458 homohexamer subunit interaction site [polypeptide binding]; other site 392499002459 Sensor N-terminal transmembrane domain; Region: Sensor_TM1; pfam13755 392499002460 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 392499002461 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 392499002462 dimer interface [polypeptide binding]; other site 392499002463 phosphorylation site [posttranslational modification] 392499002464 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 392499002465 ATP binding site [chemical binding]; other site 392499002466 Mg2+ binding site [ion binding]; other site 392499002467 G-X-G motif; other site 392499002468 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 392499002469 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 392499002470 active site 392499002471 phosphorylation site [posttranslational modification] 392499002472 intermolecular recognition site; other site 392499002473 dimerization interface [polypeptide binding]; other site 392499002474 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 392499002475 DNA binding site [nucleotide binding] 392499002476 Phosphoenolpyruvate carboxykinase; Region: PEPCK_ATP; pfam01293 392499002477 Phosphoenolpyruvate carboxykinase (PEPCK), a critical gluconeogenic enzyme, catalyzes the first committed step in the diversion of tricarboxylic acid cycle intermediates toward gluconeogenesis. It catalyzes the reversible decarboxylation and...; Region: PEPCK_ATP; cd00484 392499002478 active site 392499002479 substrate-binding site [chemical binding]; other site 392499002480 metal-binding site [ion binding] 392499002481 ATP binding site [chemical binding]; other site 392499002482 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 392499002483 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 392499002484 metal binding site [ion binding]; metal-binding site 392499002485 active site 392499002486 I-site; other site 392499002487 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 392499002488 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 392499002489 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 392499002490 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 392499002491 active site 392499002492 NOL1/NOP2/sun family; Region: Nol1_Nop2_Fmu; pfam01189 392499002493 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 392499002494 S-adenosylmethionine binding site [chemical binding]; other site 392499002495 TPR repeat; Region: TPR_11; pfam13414 392499002496 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 392499002497 binding surface 392499002498 TPR motif; other site 392499002499 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 392499002500 Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]; Region: KsgA; COG0030 392499002501 4-hydroxythreonine-4-phosphate dehydrogenase; Provisional; Region: pdxA; PRK05312 392499002502 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 392499002503 SurA N-terminal domain; Region: SurA_N; pfam09312 392499002504 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 392499002505 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 392499002506 OstA-like protein; Region: OstA; cl00844 392499002507 Organic solvent tolerance protein; Region: OstA_C; pfam04453 392499002508 multifunctional aminopeptidase A; Provisional; Region: PRK00913 392499002509 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 392499002510 interface (dimer of trimers) [polypeptide binding]; other site 392499002511 Substrate-binding/catalytic site; other site 392499002512 Zn-binding sites [ion binding]; other site 392499002513 2-phospho-L-lactate guanylyltransferase; Region: F420_cofC; TIGR03552 392499002514 LPPG:FO 2-phospho-L-lactate transferase; important in F420 biosynthesis; Region: CofD_like; cd07186 392499002515 dimer interface [polypeptide binding]; other site 392499002516 substrate binding site [chemical binding]; other site 392499002517 phosphate binding site [ion binding]; other site 392499002518 GTP and metal dependent enzyme involved F420 coenzyme biosynthesis (catalyzes addition of two l-glutamates to F420 precursor) [Coenzyme transport and metabolism]; Region: COG1478 392499002519 F420-0:Gamma-glutamyl ligase; Region: F420_ligase; pfam01996 392499002520 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 392499002521 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 392499002522 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 392499002523 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 392499002524 glutamate dehydrogenase; Provisional; Region: PRK09414 392499002525 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 392499002526 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 392499002527 NAD(P) binding site [chemical binding]; other site 392499002528 Uncharacterized ACR, YhhQ family COG1738; Region: DUF165; pfam02592 392499002529 Uncharacterized conserved protein [Function unknown]; Region: COG1742 392499002530 Uncharacterized conserved protein [Function unknown]; Region: COG3791 392499002531 phosphoribosylformylglycinamidine synthase I; Provisional; Region: PRK03619 392499002532 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 392499002533 putative active site [active] 392499002534 catalytic triad [active] 392499002535 phosphoribosylformylglycinamidine synthase subunit PurS; Reviewed; Region: PRK05974 392499002536 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 392499002537 ApbE family; Region: ApbE; pfam02424 392499002538 Domain of unknown function (DUF4198); Region: DUF4198; pfam10670 392499002539 Predicted periplasmic protein (DUF2271); Region: DUF2271; pfam10029 392499002540 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3295 392499002541 PepSY-associated TM helix; Region: PepSY_TM_1; pfam13172 392499002542 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 392499002543 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 392499002544 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 392499002545 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 392499002546 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 392499002547 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 392499002548 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 392499002549 DNA binding residues [nucleotide binding] 392499002550 DNA primase; Validated; Region: dnaG; PRK05667 392499002551 CHC2 zinc finger; Region: zf-CHC2; pfam01807 392499002552 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 392499002553 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 392499002554 active site 392499002555 metal binding site [ion binding]; metal-binding site 392499002556 interdomain interaction site; other site 392499002557 Domain of unknown function, appears to be related to a diverse group of endonucleases; Region: Endonuclease_DUF559; cd01038 392499002558 putative active site [active] 392499002559 Yqey-like protein; Region: YqeY; pfam09424 392499002560 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 392499002561 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 392499002562 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 392499002563 catalytic site [active] 392499002564 subunit interface [polypeptide binding]; other site 392499002565 Protein of unknown function (DUF1260); Region: DUF1260; pfam06877 392499002566 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 392499002567 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 392499002568 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 392499002569 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 392499002570 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 392499002571 ATP-grasp domain; Region: ATP-grasp_4; cl17255 392499002572 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 392499002573 IMP binding site; other site 392499002574 dimer interface [polypeptide binding]; other site 392499002575 partial ornithine binding site; other site 392499002576 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 392499002577 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 392499002578 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 392499002579 Membrane associated serine protease [Amino acid transport and metabolism]; Region: COG0705 392499002580 Domain of unknown function (DUF4170); Region: DUF4170; pfam13773 392499002581 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; pfam05494 392499002582 Protein of unknown function (DUF1469); Region: DUF1469; pfam07332 392499002583 enolase; Provisional; Region: eno; PRK00077 392499002584 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 392499002585 dimer interface [polypeptide binding]; other site 392499002586 metal binding site [ion binding]; metal-binding site 392499002587 substrate binding pocket [chemical binding]; other site 392499002588 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 392499002589 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 392499002590 purine monophosphate binding site [chemical binding]; other site 392499002591 dimer interface [polypeptide binding]; other site 392499002592 putative catalytic residues [active] 392499002593 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 392499002594 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 392499002595 Transmembrane secretion effector; Region: MFS_3; pfam05977 392499002596 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 392499002597 putative substrate translocation pore; other site 392499002598 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 392499002599 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 392499002600 DNA polymerase I; Provisional; Region: PRK05755 392499002601 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 392499002602 active site 392499002603 metal binding site 1 [ion binding]; metal-binding site 392499002604 putative 5' ssDNA interaction site; other site 392499002605 metal binding site 3; metal-binding site 392499002606 metal binding site 2 [ion binding]; metal-binding site 392499002607 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 392499002608 putative DNA binding site [nucleotide binding]; other site 392499002609 putative metal binding site [ion binding]; other site 392499002610 DEDDy 3'-5' exonuclease domain of Escherichia coli DNA polymerase I and similar bacterial family-A DNA polymerases; Region: DNA_polA_I_Ecoli_like_exo; cd06139 392499002611 active site 392499002612 catalytic site [active] 392499002613 substrate binding site [chemical binding]; other site 392499002614 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 392499002615 active site 392499002616 DNA binding site [nucleotide binding] 392499002617 catalytic site [active] 392499002618 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 392499002619 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 392499002620 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 392499002621 HlyD family secretion protein; Region: HlyD_3; pfam13437 392499002622 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 392499002623 putative substrate translocation pore; other site 392499002624 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 392499002625 glutathione-regulated potassium-efflux system protein KefB; Provisional; Region: PRK03659 392499002626 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 392499002627 TrkA-N domain; Region: TrkA_N; pfam02254 392499002628 putative cation:proton antiport protein; Provisional; Region: PRK10669 392499002629 Kef-type K+ transport system, predicted NAD-binding component [Inorganic ion transport and metabolism]; Region: RosB; COG4651 392499002630 TrkA-N domain; Region: TrkA_N; pfam02254 392499002631 hypothetical protein; Provisional; Region: PRK06185 392499002632 hypothetical protein; Provisional; Region: PRK07236 392499002633 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 392499002634 isocitrate dehydrogenase; Validated; Region: PRK08299 392499002635 phosphatidylserine decarboxylase; Provisional; Region: PRK05305 392499002636 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 392499002637 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 392499002638 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 392499002639 rRNA interaction site [nucleotide binding]; other site 392499002640 S8 interaction site; other site 392499002641 putative laminin-1 binding site; other site 392499002642 elongation factor Ts; Provisional; Region: tsf; PRK09377 392499002643 UBA/TS-N domain; Region: UBA; pfam00627 392499002644 Elongation factor TS; Region: EF_TS; pfam00889 392499002645 Elongation factor TS; Region: EF_TS; pfam00889 392499002646 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 392499002647 putative nucleotide binding site [chemical binding]; other site 392499002648 uridine monophosphate binding site [chemical binding]; other site 392499002649 homohexameric interface [polypeptide binding]; other site 392499002650 ribosome recycling factor; Reviewed; Region: frr; PRK00083 392499002651 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 392499002652 hinge region; other site 392499002653 undecaprenyl pyrophosphate synthase; Provisional; Region: PRK14834 392499002654 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 392499002655 catalytic residue [active] 392499002656 putative FPP diphosphate binding site; other site 392499002657 putative FPP binding hydrophobic cleft; other site 392499002658 dimer interface [polypeptide binding]; other site 392499002659 putative IPP diphosphate binding site; other site 392499002660 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 392499002661 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 392499002662 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 392499002663 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 392499002664 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 392499002665 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 392499002666 Predicted membrane-associated Zn-dependent proteases 1 [Cell envelope biogenesis, outer membrane]; Region: COG0750 392499002667 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 392499002668 active site 392499002669 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 392499002670 protein binding site [polypeptide binding]; other site 392499002671 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 392499002672 putative substrate binding region [chemical binding]; other site 392499002673 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 392499002674 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 392499002675 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 392499002676 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 392499002677 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 392499002678 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 392499002679 Surface antigen; Region: Bac_surface_Ag; pfam01103 392499002680 Surface antigen; Region: Bac_surface_Ag; pfam01103 392499002681 Outer membrane protein (OmpH-like); Region: OmpH; smart00935 392499002682 FabZ is a 17kD beta-hydroxyacyl-acyl carrier protein (ACP) dehydratase that primarily catalyzes the dehydration of beta-hydroxyacyl-ACP to trans-2-acyl-ACP, the third step in the elongation phase of the bacterial/ plastid, type II, fatty-acid...; Region: FabZ; cd01288 392499002683 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00528 392499002684 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 392499002685 Transcriptional regulator [Transcription]; Region: LysR; COG0583 392499002686 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 392499002687 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 392499002688 dimerization interface [polypeptide binding]; other site 392499002689 N-methylhydantoinase A/acetone carboxylase, beta subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuA; COG0145 392499002690 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 392499002691 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; pfam01968 392499002692 N-methylhydantoinase B/acetone carboxylase, alpha subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuB; COG0146 392499002693 Hydantoinase B/oxoprolinase; Region: Hydantoinase_B; pfam02538 392499002694 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 392499002695 putative substrate translocation pore; other site 392499002696 Major Facilitator Superfamily; Region: MFS_1; pfam07690 392499002697 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 392499002698 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 392499002699 N-terminal plug; other site 392499002700 ligand-binding site [chemical binding]; other site 392499002701 Demethylmenaquinone methyltransferase [Coenzyme metabolism]; Region: MenG; COG0684 392499002702 Transglycosylase SLT domain; Region: SLT_2; pfam13406 392499002703 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 392499002704 N-acetyl-D-glucosamine binding site [chemical binding]; other site 392499002705 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 392499002706 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 392499002707 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 392499002708 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 392499002709 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 392499002710 thymidylate kinase; Validated; Region: tmk; PRK00698 392499002711 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 392499002712 TMP-binding site; other site 392499002713 ATP-binding site [chemical binding]; other site 392499002714 DNA polymerase III subunit delta'; Validated; Region: PRK07471 392499002715 DNA polymerase III subunit delta'; Validated; Region: PRK08485 392499002716 methionyl-tRNA synthetase; Reviewed; Region: PRK11893 392499002717 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 392499002718 active site 392499002719 HIGH motif; other site 392499002720 KMSKS motif; other site 392499002721 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 392499002722 tRNA binding surface [nucleotide binding]; other site 392499002723 anticodon binding site; other site 392499002724 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 392499002725 active site 392499002726 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 392499002727 putative hydrolase; Provisional; Region: PRK02113 392499002728 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 392499002729 RibD C-terminal domain; Region: RibD_C; cl17279 392499002730 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 392499002731 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 392499002732 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 392499002733 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 392499002734 ATP binding site [chemical binding]; other site 392499002735 Mg2+ binding site [ion binding]; other site 392499002736 G-X-G motif; other site 392499002737 MutL_Trans: transducer domain, having a ribosomal S5 domain 2-like fold, conserved in the C-terminal domain of DNA mismatch repair (MutL/MLH1/PMS2) family. This transducer domain is homologous to the second domain of the DNA gyrase B subunit, which is...; Region: MutL_Trans; cd00782 392499002738 ATP binding site [chemical binding]; other site 392499002739 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 392499002740 rod shape-determining protein MreB; Provisional; Region: PRK13927 392499002741 MreB and similar proteins; Region: MreB_like; cd10225 392499002742 nucleotide binding site [chemical binding]; other site 392499002743 Mg binding site [ion binding]; other site 392499002744 putative protofilament interaction site [polypeptide binding]; other site 392499002745 RodZ interaction site [polypeptide binding]; other site 392499002746 rod shape-determining protein MreC; Provisional; Region: PRK13922 392499002747 rod shape-determining protein MreC; Region: MreC; pfam04085 392499002748 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 392499002749 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 392499002750 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 392499002751 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 392499002752 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 392499002753 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 392499002754 tetramer interface [polypeptide binding]; other site 392499002755 pyridoxal 5'-phosphate binding site [chemical binding]; other site 392499002756 catalytic residue [active] 392499002757 FAD binding domain in molybdopterin dehydrogenase; Region: FAD_binding_5; pfam00941 392499002758 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 392499002759 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 392499002760 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 392499002761 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 392499002762 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 392499002763 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 392499002764 ATP-dependent transcriptional regulator [Transcription]; Region: MalT; COG2909 392499002765 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 392499002766 DNA binding residues [nucleotide binding] 392499002767 dimerization interface [polypeptide binding]; other site 392499002768 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 392499002769 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 392499002770 catalytic residue [active] 392499002771 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 392499002772 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 392499002773 [2Fe-2S] cluster binding site [ion binding]; other site 392499002774 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 392499002775 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 392499002776 N-terminal plug; other site 392499002777 ligand-binding site [chemical binding]; other site 392499002778 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 392499002779 KR domain; Region: KR; pfam08659 392499002780 NAD(P) binding site [chemical binding]; other site 392499002781 active site 392499002782 Pyrabactin resistance 1 (PYR1), PYR1-like (PYL), regulatory component of abscisic acid receptors (RCARs), and related proteins; Region: PYR_PYL_RCAR_like; cd07821 392499002783 putative hydrophobic ligand binding site [chemical binding]; other site 392499002784 protein interface [polypeptide binding]; other site 392499002785 gate; other site 392499002786 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 392499002787 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 392499002788 motif 1; other site 392499002789 active site 392499002790 motif 2; other site 392499002791 motif 3; other site 392499002792 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 392499002793 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 392499002794 Cytochrome c; Region: Cytochrom_C; pfam00034 392499002795 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 392499002796 GST_N family, Saccharomyces cerevisiae GTT1-like subfamily; composed of predominantly uncharacterized proteins with similarity to the S. cerevisiae GST protein, GTT1, and the Schizosaccharomyces pombe GST-III. GSTs are cytosolic dimeric proteins involved...; Region: GST_N_GTT1_like; cd03046 392499002797 putative C-terminal domain interface [polypeptide binding]; other site 392499002798 putative GSH binding site (G-site) [chemical binding]; other site 392499002799 putative dimer interface [polypeptide binding]; other site 392499002800 C-terminal, alpha helical domain of GTT1-like Glutathione S-transferases; Region: GST_C_GTT1_like; cd03189 392499002801 putative N-terminal domain interface [polypeptide binding]; other site 392499002802 putative dimer interface [polypeptide binding]; other site 392499002803 putative substrate binding pocket (H-site) [chemical binding]; other site 392499002804 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 392499002805 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 392499002806 recombinase A; Provisional; Region: recA; PRK09354 392499002807 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 392499002808 hexamer interface [polypeptide binding]; other site 392499002809 Walker A motif; other site 392499002810 ATP binding site [chemical binding]; other site 392499002811 Walker B motif; other site 392499002812 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 392499002813 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 392499002814 dimer interface [polypeptide binding]; other site 392499002815 phosphorylation site [posttranslational modification] 392499002816 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 392499002817 ATP binding site [chemical binding]; other site 392499002818 Mg2+ binding site [ion binding]; other site 392499002819 G-X-G motif; other site 392499002820 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 392499002821 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 392499002822 active site 392499002823 phosphorylation site [posttranslational modification] 392499002824 intermolecular recognition site; other site 392499002825 dimerization interface [polypeptide binding]; other site 392499002826 Predicted metalloendopeptidase [Posttranslational modification, protein turnover, chaperones]; Region: PepO; COG3590 392499002827 Peptidase family M13 includes neprilysin, endothelin-converting enzyme I; Region: M13; cd08662 392499002828 active site 392499002829 Zn binding site [ion binding]; other site 392499002830 Uncharacterized protein conserved in bacteria (DUF2062); Region: DUF2062; pfam09835 392499002831 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 392499002832 SmpB-tmRNA interface; other site 392499002833 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 392499002834 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 392499002835 dimer interface [polypeptide binding]; other site 392499002836 active site 392499002837 catalytic residue [active] 392499002838 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 392499002839 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 392499002840 N-acetyl-D-glucosamine binding site [chemical binding]; other site 392499002841 catalytic residue [active] 392499002842 Uncharacterized conserved protein [Function unknown]; Region: COG2308 392499002843 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2307 392499002844 A predicted alpha-helical domain with a conserved ER motif; Region: Alpha-E; pfam04168 392499002845 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 392499002846 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 392499002847 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 392499002848 Signal peptide peptidase A (SppA) 67K type, a serine protease, has catalytic Ser-Lys dyad; Region: S49_SppA_67K_type; cd07018 392499002849 tandem repeat interface [polypeptide binding]; other site 392499002850 oligomer interface [polypeptide binding]; other site 392499002851 active site residues [active] 392499002852 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 392499002853 oligomer interface [polypeptide binding]; other site 392499002854 tandem repeat interface [polypeptide binding]; other site 392499002855 active site residues [active] 392499002856 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 392499002857 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 392499002858 Coenzyme A binding pocket [chemical binding]; other site 392499002859 Predicted membrane protein [Function unknown]; Region: COG2860 392499002860 UPF0126 domain; Region: UPF0126; pfam03458 392499002861 Arginine N-succinyltransferase beta subunit; Region: AstA; pfam04958 392499002862 Arginine/ornithine N-succinyltransferase beta subunit [Amino acid transport and metabolism]; Region: AstA; COG3138 392499002863 succinylarginine dihydrolase; Provisional; Region: PRK13281 392499002864 Arginine/ornithine N-succinyltransferase beta subunit [Amino acid transport and metabolism]; Region: AstA; COG3138 392499002865 Arginine N-succinyltransferase beta subunit; Region: AstA; pfam04958 392499002866 succinylglutamic semialdehyde dehydrogenase; Reviewed; Region: astD; PRK09457 392499002867 N-succinylglutamate 5-semialdehyde dehydrogenase, AstD-like; Region: ALDH_SGSD_AstD; cd07095 392499002868 NAD(P) binding site [chemical binding]; other site 392499002869 catalytic residues [active] 392499002870 hypothetical protein; Provisional; Region: PRK07338 392499002871 M20 Peptidase Glutamate carboxypeptidase, a periplasmic enzyme; Region: M20_CPDG2; cd03885 392499002872 metal binding site [ion binding]; metal-binding site 392499002873 dimer interface [polypeptide binding]; other site 392499002874 Phytase; Region: Phytase; cl17685 392499002875 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 392499002876 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 392499002877 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 392499002878 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 392499002879 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 392499002880 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 392499002881 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 392499002882 active site 392499002883 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 392499002884 binding surface 392499002885 TPR motif; other site 392499002886 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 392499002887 binding surface 392499002888 TPR motif; other site 392499002889 Sulfotransferase domain; Region: Sulfotransfer_1; pfam00685 392499002890 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 392499002891 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 392499002892 arginine:agmatin antiporter; Provisional; Region: PRK10644 392499002893 Phytoene dehydrogenase and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG1233 392499002894 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 392499002895 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 392499002896 [2Fe-2S] cluster binding site [ion binding]; other site 392499002897 C-terminal catalytic domain of the oxygenase alpha subunit of Rieske-type non-heme iron aromatic ring-hydroxylating oxygenases; Region: RHO_alpha_C; cd00680 392499002898 alpha subunit interface [polypeptide binding]; other site 392499002899 active site 392499002900 substrate binding site [chemical binding]; other site 392499002901 Fe binding site [ion binding]; other site 392499002902 phosphoglucomutase; Region: PLN02307 392499002903 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 392499002904 active site 392499002905 substrate binding site [chemical binding]; other site 392499002906 metal binding site [ion binding]; metal-binding site 392499002907 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 392499002908 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 392499002909 N-terminal plug; other site 392499002910 ligand-binding site [chemical binding]; other site 392499002911 PhoD-like phosphatase; Region: PhoD; pfam09423 392499002912 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 392499002913 putative active site [active] 392499002914 putative metal binding site [ion binding]; other site 392499002915 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 392499002916 Disulphide bond corrector protein DsbC; Region: DsbC; cl15830 392499002917 Thiol:disulfide interchange protein [Posttranslational modification, protein turnover, chaperones / Energy production and conversion]; Region: COG4232 392499002918 DsbD gamma family; DsbD gamma is the C-terminal periplasmic domain of the bacterial protein DsbD. It contains a CXXC motif in a TRX fold and shuttles the reducing potential from the membrane domain (DsbD beta) to the N-terminal periplasmic domain (DsbD...; Region: DsbDgamma; cd02953 392499002919 DsbD alpha interface [polypeptide binding]; other site 392499002920 catalytic residues [active] 392499002921 Type II secretion system (T2SS), protein N; Region: T2SN; pfam01203 392499002922 Protein of unknown function (DUF983); Region: DUF983; cl02211 392499002923 3-methyladenine DNA glycosylase/8-oxoguanine DNA glycosylase [DNA replication, recombination, and repair]; Region: AlkA; COG0122 392499002924 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 392499002925 minor groove reading motif; other site 392499002926 helix-hairpin-helix signature motif; other site 392499002927 active site 392499002928 alpha-ketoglutarate-dependent dioxygenase AlkB; Provisional; Region: PRK15401 392499002929 Uncharacterized protein conserved in bacteria (DUF2086); Region: DUF2086; pfam09859 392499002930 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 392499002931 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 392499002932 active site 392499002933 DNA binding site [nucleotide binding] 392499002934 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 392499002935 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 392499002936 tetramer interface [polypeptide binding]; other site 392499002937 active site 392499002938 Mg2+/Mn2+ binding site [ion binding]; other site 392499002939 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 392499002940 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 392499002941 putative substrate translocation pore; other site 392499002942 Transcriptional regulator [Transcription]; Region: LysR; COG0583 392499002943 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 392499002944 dimerization interface [polypeptide binding]; other site 392499002945 Uncharacterized protein conserved in bacteria (DUF2147); Region: DUF2147; pfam09917 392499002946 Protein of unknown function (DUF1178); Region: DUF1178; pfam06676 392499002947 nitrilase; Region: PLN02798 392499002948 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 392499002949 putative active site [active] 392499002950 catalytic triad [active] 392499002951 dimer interface [polypeptide binding]; other site 392499002952 Glutaredoxin (GRX) family, GRX bacterial class 1 and 3 (b_1_3)-like subfamily; composed of bacterial GRXs, approximately 10 kDa in size, and proteins containing a GRX or GRX-like domain. GRX is a glutathione (GSH) dependent reductase, catalyzing the...; Region: GRX_GRXb_1_3_like; cd03418 392499002953 GSH binding site [chemical binding]; other site 392499002954 catalytic residues [active] 392499002955 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 392499002956 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 392499002957 active site 392499002958 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 392499002959 Methyltransferase domain; Region: Methyltransf_11; pfam08241 392499002960 S-adenosylmethionine binding site [chemical binding]; other site 392499002961 2-isopropylmalate synthase; Validated; Region: PRK00915 392499002962 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 392499002963 active site 392499002964 catalytic residues [active] 392499002965 metal binding site [ion binding]; metal-binding site 392499002966 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 392499002967 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 392499002968 EamA-like transporter family; Region: EamA; pfam00892 392499002969 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 392499002970 Moco binding site; other site 392499002971 Sulfite oxidase and related enzymes [General function prediction only]; Region: COG2041 392499002972 metal coordination site [ion binding]; other site 392499002973 Prokaryotic cytochrome b561; Region: Ni_hydr_CYTB; pfam01292 392499002974 Cytochrome b(N-terminal)/b6/petB; Region: Cytochrom_B_N; pfam00033 392499002975 PilZ domain; Region: PilZ; pfam07238 392499002976 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 392499002977 Winged helix-turn-helix transcription repressor, HrcA DNA-binding; Region: HrcA_DNA-bdg; pfam03444 392499002978 ribonuclease PH; Reviewed; Region: rph; PRK00173 392499002979 Ribonuclease PH; Region: RNase_PH_bact; cd11362 392499002980 hexamer interface [polypeptide binding]; other site 392499002981 active site 392499002982 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 392499002983 active site 392499002984 dimerization interface [polypeptide binding]; other site 392499002985 coproporphyrinogen III oxidase; Provisional; Region: PRK09057 392499002986 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 392499002987 FeS/SAM binding site; other site 392499002988 HemN C-terminal domain; Region: HemN_C; pfam06969 392499002989 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 392499002990 Periplasmic binding component of lipoprotein LppC, an immunodominant antigen; Region: PBP1_YraM_LppC_lipoprotein_like; cd06339 392499002991 putative ligand binding site [chemical binding]; other site 392499002992 Predicted methyltransferases [General function prediction only]; Region: COG0313 392499002993 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 392499002994 putative SAM binding site [chemical binding]; other site 392499002995 putative homodimer interface [polypeptide binding]; other site 392499002996 hypothetical protein; Reviewed; Region: PRK12497 392499002997 glutathione synthetase; Provisional; Region: PRK05246 392499002998 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 392499002999 Prokaryotic glutathione synthetase, ATP-grasp domain; Region: GSH-S_ATP; pfam02955 392499003000 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 392499003001 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 392499003002 Protein of unknown function (DUF1465); Region: DUF1465; pfam07323 392499003003 Helix-Turn-Helix DNA binding domain of the regulatory protein GnyR; Region: HTH_GnyR; cd04776 392499003004 DNA binding residues [nucleotide binding] 392499003005 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 392499003006 putative dimer interface [polypeptide binding]; other site 392499003007 phosphoribosyl-AMP cyclohydrolase; Reviewed; Region: hisI; PRK00051 392499003008 amidophosphoribosyltransferase; Provisional; Region: PRK09123 392499003009 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 392499003010 active site 392499003011 tetramer interface [polypeptide binding]; other site 392499003012 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 392499003013 active site 392499003014 short chain dehydrogenase; Provisional; Region: PRK08703 392499003015 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 392499003016 NAD(P) binding site [chemical binding]; other site 392499003017 active site 392499003018 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 392499003019 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 392499003020 S-adenosylmethionine binding site [chemical binding]; other site 392499003021 GTP cyclohydrolase I; Provisional; Region: folE; PRK09347 392499003022 GTP cyclohydrolase I; Provisional; Region: PLN03044 392499003023 active site 392499003024 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 392499003025 Glycosyltransferases, probably involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG1215 392499003026 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 392499003027 DXD motif; other site 392499003028 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 392499003029 PhnA protein; Region: PhnA; pfam03831 392499003030 Homoserine O-succinyltransferase; Region: HTS; pfam04204 392499003031 Type 1 glutamine amidotransferase (GATase1)-like domain found in homoserine trans-succinylase (HTS); Region: GATase1_HTS; cd03131 392499003032 proposed active site lysine [active] 392499003033 conserved cys residue [active] 392499003034 Enterobacter aerogenes GpdQ and related proteins, metallophosphatase domain; Region: MPP_GpdQ; cd07402 392499003035 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 392499003036 active site 392499003037 metal binding site [ion binding]; metal-binding site 392499003038 hexamer interface [polypeptide binding]; other site 392499003039 FHA domain; Region: FHA; pfam00498 392499003040 phosphopeptide binding site; other site 392499003041 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 392499003042 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 392499003043 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 392499003044 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 392499003045 ligand binding site [chemical binding]; other site 392499003046 flexible hinge region; other site 392499003047 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 392499003048 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 392499003049 ligand binding site [chemical binding]; other site 392499003050 flexible hinge region; other site 392499003051 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 392499003052 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 392499003053 4Fe-4S binding domain; Region: Fer4_6; pfam12837 392499003054 4Fe-4S double cluster binding domain; Region: Fer4_16; pfam13484 392499003055 TPR repeat; Region: TPR_11; pfam13414 392499003056 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 392499003057 TPR motif; other site 392499003058 binding surface 392499003059 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 392499003060 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 392499003061 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 392499003062 Walker A motif; other site 392499003063 ATP binding site [chemical binding]; other site 392499003064 Walker B motif; other site 392499003065 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 392499003066 Clp protease; Region: CLP_protease; pfam00574 392499003067 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 392499003068 oligomer interface [polypeptide binding]; other site 392499003069 active site residues [active] 392499003070 trigger factor; Provisional; Region: tig; PRK01490 392499003071 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 392499003072 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 392499003073 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 392499003074 acyl-activating enzyme (AAE) consensus motif; other site 392499003075 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 392499003076 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 392499003077 GatB domain; Region: GatB_Yqey; smart00845 392499003078 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 392499003079 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 392499003080 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 392499003081 Protein of unknown function (DUF3089); Region: DUF3089; pfam11288 392499003082 Uncharacterized protein family (UPF0081); Region: UPF0081; pfam03652 392499003083 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 392499003084 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 392499003085 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 392499003086 dihydroorotase; Validated; Region: PRK09059 392499003087 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 392499003088 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 392499003089 active site 392499003090 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 392499003091 binding surface 392499003092 TPR motif; other site 392499003093 Sporulation related domain; Region: SPOR; pfam05036 392499003094 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 392499003095 Sel1-like repeats; Region: SEL1; smart00671 392499003096 Sporulation related domain; Region: SPOR; pfam05036 392499003097 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 392499003098 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 392499003099 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 392499003100 motif II; other site 392499003101 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 392499003102 IPP transferase; Region: IPPT; pfam01715 392499003103 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK09107 392499003104 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 392499003105 PYR/PP interface [polypeptide binding]; other site 392499003106 dimer interface [polypeptide binding]; other site 392499003107 TPP binding site [chemical binding]; other site 392499003108 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 392499003109 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 392499003110 TPP-binding site [chemical binding]; other site 392499003111 dimer interface [polypeptide binding]; other site 392499003112 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 392499003113 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 392499003114 putative valine binding site [chemical binding]; other site 392499003115 dimer interface [polypeptide binding]; other site 392499003116 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 392499003117 ketol-acid reductoisomerase; Provisional; Region: PRK05479 392499003118 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 392499003119 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 392499003120 Uncharacterized conserved protein [Function unknown]; Region: COG2353 392499003121 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 392499003122 active site 392499003123 8-oxo-dGMP binding site [chemical binding]; other site 392499003124 nudix motif; other site 392499003125 metal binding site [ion binding]; metal-binding site 392499003126 Flp pilus assembly protein, pilin Flp [Intracellular trafficking and secretion]; Region: Flp; COG3847 392499003127 Flp/Fap pilin component; Region: Flp_Fap; cl01585 392499003128 Putative Zn-dependent protease [General function prediction only]; Region: COG4784 392499003129 Peptidase family M48; Region: Peptidase_M48; pfam01435 392499003130 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 392499003131 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 392499003132 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 392499003133 Alpha-crystallin domain (ACD) found in Escherichia coli inclusion body-associated proteins IbpA and IbpB, and similar proteins. IbpA and IbpB are 16 kDa small heat shock proteins (sHsps). sHsps are molecular chaperones that suppress protein aggregation...; Region: ACD_IbpA-B_like; cd06470 392499003134 putative dimer interface [polypeptide binding]; other site 392499003135 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 392499003136 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 392499003137 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 392499003138 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 392499003139 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 392499003140 beta subunit interaction interface [polypeptide binding]; other site 392499003141 Walker A motif; other site 392499003142 ATP binding site [chemical binding]; other site 392499003143 Walker B motif; other site 392499003144 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 392499003145 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 392499003146 core domain interface [polypeptide binding]; other site 392499003147 delta subunit interface [polypeptide binding]; other site 392499003148 epsilon subunit interface [polypeptide binding]; other site 392499003149 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 392499003150 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 392499003151 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 392499003152 alpha subunit interaction interface [polypeptide binding]; other site 392499003153 Walker A motif; other site 392499003154 ATP binding site [chemical binding]; other site 392499003155 Walker B motif; other site 392499003156 inhibitor binding site; inhibition site 392499003157 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 392499003158 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 392499003159 gamma subunit interface [polypeptide binding]; other site 392499003160 epsilon subunit interface [polypeptide binding]; other site 392499003161 LBP interface [polypeptide binding]; other site 392499003162 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 392499003163 dimerization interface [polypeptide binding]; other site 392499003164 putative DNA binding site [nucleotide binding]; other site 392499003165 putative Zn2+ binding site [ion binding]; other site 392499003166 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; Region: SRPBCC_CalC_Aha1-like_5; cd08898 392499003167 putative hydrophobic ligand binding site [chemical binding]; other site 392499003168 Zinc-dependent metalloprotease. This super-family of metalloproteases contains two major branches, the astacin-like proteases and the adamalysin/reprolysin-like proteases. Both branches have wide phylogenetic distribution, and contain sub-families, which...; Region: ZnMc; cl00064 392499003169 active site 392499003170 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 392499003171 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 392499003172 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 392499003173 ATP binding site [chemical binding]; other site 392499003174 Walker A motif; other site 392499003175 hexamer interface [polypeptide binding]; other site 392499003176 Walker B motif; other site 392499003177 Predicted methyltransferase [General function prediction only]; Region: COG4798 392499003178 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5394 392499003179 PHB/PHA accumulation regulator DNA-binding domain; Region: PHB_acc_N; pfam07879 392499003180 PHB accumulation regulatory domain; Region: PHB_acc; pfam05233 392499003181 poly(R)-hydroxyalkanoic acid synthase, class III, PhaC subunit; Region: PHA_synth_III_C; TIGR01836 392499003182 putative acyltransferase; Provisional; Region: PRK05790 392499003183 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 392499003184 dimer interface [polypeptide binding]; other site 392499003185 active site 392499003186 PilZ domain; Region: PilZ; pfam07238 392499003187 Uncharacterized conserved small protein containing a coiled-coil domain [Function unknown]; Region: COG5481 392499003188 RNA polymerase-binding protein DksA; Region: dksA; TIGR02420 392499003189 seryl-tRNA synthetase; Provisional; Region: PRK05431 392499003190 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 392499003191 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 392499003192 dimer interface [polypeptide binding]; other site 392499003193 active site 392499003194 motif 1; other site 392499003195 motif 2; other site 392499003196 motif 3; other site 392499003197 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 392499003198 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 392499003199 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 392499003200 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 392499003201 Peptidase family M23; Region: Peptidase_M23; pfam01551 392499003202 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 392499003203 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 392499003204 Sulfate transporter family; Region: Sulfate_transp; pfam00916 392499003205 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 392499003206 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 392499003207 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 392499003208 non-specific DNA binding site [nucleotide binding]; other site 392499003209 salt bridge; other site 392499003210 sequence-specific DNA binding site [nucleotide binding]; other site 392499003211 ribosomal protein S12 methylthiotransferase; Provisional; Region: rimO; PRK14862 392499003212 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 392499003213 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 392499003214 FeS/SAM binding site; other site 392499003215 L-Ala-D/L-Glu epimerase catalyzes the epimerization of L-Ala-D/L-Glu and other dipeptides. The genomic context and the substrate specificity of characterized members of this family from E.coli and B.subtilis indicates a possible role in the metabolism of...; Region: L-Ala-DL-Glu_epimerase; cd03319 392499003216 L-Ala-D/L-Glu epimerase; Provisional; Region: PRK15129 392499003217 active site 392499003218 Poly-beta-hydroxyalkanoate depolymerase [Lipid metabolism]; Region: DepA; COG4553 392499003219 PHB de-polymerase C-terminus; Region: PHB_depo_C; pfam06850 392499003220 ABC transporter, permease/ATP-binding protein; Region: MsbA_rel; TIGR02204 392499003221 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 392499003222 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 392499003223 Walker A/P-loop; other site 392499003224 ATP binding site [chemical binding]; other site 392499003225 Q-loop/lid; other site 392499003226 ABC transporter signature motif; other site 392499003227 Walker B; other site 392499003228 D-loop; other site 392499003229 H-loop/switch region; other site 392499003230 3-hydroxyisobutyrate dehydrogenase; Region: HIBADH; TIGR01692 392499003231 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 392499003232 enoyl-CoA hydratase; Provisional; Region: PRK05862 392499003233 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 392499003234 substrate binding site [chemical binding]; other site 392499003235 oxyanion hole (OAH) forming residues; other site 392499003236 trimer interface [polypeptide binding]; other site 392499003237 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 392499003238 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 392499003239 substrate binding site [chemical binding]; other site 392499003240 oxyanion hole (OAH) forming residues; other site 392499003241 trimer interface [polypeptide binding]; other site 392499003242 2-enoyl-CoA Hydratase C-terminal region; Region: ECH_C; pfam13766 392499003243 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 392499003244 Isobutyryl-CoA dehydrogenase; Region: IBD; cd01162 392499003245 substrate binding pocket [chemical binding]; other site 392499003246 FAD binding site [chemical binding]; other site 392499003247 catalytic base [active] 392499003248 GIY-YIG domain of uncharacterized hypothetical protein found in bacteria; Region: GIY-YIG_unchar_3; cd10448 392499003249 GIY-YIG motif/motif A; other site 392499003250 putative active site [active] 392499003251 putative metal binding site [ion binding]; other site 392499003252 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 392499003253 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 392499003254 tetrameric interface [polypeptide binding]; other site 392499003255 NAD binding site [chemical binding]; other site 392499003256 catalytic residues [active] 392499003257 Transcriptional regulator [Transcription]; Region: LysR; COG0583 392499003258 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 392499003259 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 392499003260 dimerization interface [polypeptide binding]; other site 392499003261 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 392499003262 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 392499003263 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 392499003264 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 392499003265 active site 392499003266 dimer interface [polypeptide binding]; other site 392499003267 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 392499003268 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 392499003269 active site 392499003270 FMN binding site [chemical binding]; other site 392499003271 substrate binding site [chemical binding]; other site 392499003272 3Fe-4S cluster binding site [ion binding]; other site 392499003273 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 392499003274 domain interface; other site 392499003275 Uncharacterized protein conserved in bacteria (DUF2059); Region: DUF2059; pfam09832 392499003276 dihydropyrimidine dehydrogenase subunit A; Provisional; Region: PRK11749 392499003277 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 392499003278 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 392499003279 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 392499003280 NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, subunit 9, 39 kDa, (NDUFA9) -like, atypical (a) SDRs; Region: NDUFA9_like_SDR_a; cd05271 392499003281 putative NAD(P) binding site [chemical binding]; other site 392499003282 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 392499003283 active site 392499003284 integrase; Provisional; Region: PRK09692 392499003285 Bacteriophage P4 integrase. P4-like integrases are found in temperate bacteriophages, integrative plasmids, pathogenicity and symbiosis islands, and other mobile genetic elements. They share the same fold in their catalytic domain and the overall...; Region: INT_P4; cd00801 392499003286 active site 392499003287 Int/Topo IB signature motif; other site 392499003288 Helix-turn-helix domain; Region: HTH_17; cl17695 392499003289 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 392499003290 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 392499003291 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 392499003292 E3 interaction surface; other site 392499003293 lipoyl attachment site [posttranslational modification]; other site 392499003294 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 392499003295 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 392499003296 alpha subunit interface [polypeptide binding]; other site 392499003297 TPP binding site [chemical binding]; other site 392499003298 heterodimer interface [polypeptide binding]; other site 392499003299 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 392499003300 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 392499003301 tetramer interface [polypeptide binding]; other site 392499003302 TPP-binding site [chemical binding]; other site 392499003303 heterodimer interface [polypeptide binding]; other site 392499003304 phosphorylation loop region [posttranslational modification] 392499003305 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 392499003306 Uncharacterized subfamily of medium-chain acyl-CoA synthetase (MACS); Region: MACS_like_1; cd05974 392499003307 active site 392499003308 acyl-activating enzyme (AAE) consensus motif; other site 392499003309 putative CoA binding site [chemical binding]; other site 392499003310 AMP binding site [chemical binding]; other site 392499003311 AAA domain; Region: AAA_14; pfam13173 392499003312 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 392499003313 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 392499003314 DNA binding residues [nucleotide binding] 392499003315 dimerization interface [polypeptide binding]; other site 392499003316 Pyrabactin resistance 1 (PYR1), PYR1-like (PYL), regulatory component of abscisic acid receptors (RCARs), and related proteins; Region: PYR_PYL_RCAR_like; cd07821 392499003317 putative hydrophobic ligand binding site [chemical binding]; other site 392499003318 protein interface [polypeptide binding]; other site 392499003319 gate; other site 392499003320 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 392499003321 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 392499003322 [2Fe-2S] cluster binding site [ion binding]; other site 392499003323 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 392499003324 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 392499003325 N-terminal plug; other site 392499003326 ligand-binding site [chemical binding]; other site 392499003327 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 392499003328 homotrimer interaction site [polypeptide binding]; other site 392499003329 putative active site [active] 392499003330 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 392499003331 Uncharacterized conserved protein [Function unknown]; Region: COG5316 392499003332 Domain of unknown function (DUF4139); Region: DUF4139; pfam13598 392499003333 Domain of unknown function (DUF4139); Region: DUF4139; pfam13598 392499003334 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 392499003335 kynureninase; Region: kynureninase; TIGR01814 392499003336 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 392499003337 catalytic residue [active] 392499003338 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 392499003339 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 392499003340 N-terminal plug; other site 392499003341 ligand-binding site [chemical binding]; other site 392499003342 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 392499003343 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 392499003344 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 392499003345 active site 392499003346 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 392499003347 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 392499003348 AsnC family; Region: AsnC_trans_reg; pfam01037 392499003349 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 392499003350 Plastocyanin [Energy production and conversion]; Region: PetE; COG3794 392499003351 Cupredoxin-like domain; Region: Cupredoxin_1; cl17234 392499003352 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 392499003353 active site residue [active] 392499003354 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 392499003355 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 392499003356 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 392499003357 N-terminal plug; other site 392499003358 ligand-binding site [chemical binding]; other site 392499003359 acetyl-CoA synthetase; Provisional; Region: PRK00174 392499003360 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 392499003361 active site 392499003362 CoA binding site [chemical binding]; other site 392499003363 acyl-activating enzyme (AAE) consensus motif; other site 392499003364 AMP binding site [chemical binding]; other site 392499003365 acetate binding site [chemical binding]; other site 392499003366 Short C-terminal domain; Region: SHOCT; pfam09851 392499003367 Gram-negative porin; Region: Porin_4; pfam13609 392499003368 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 392499003369 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 392499003370 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 392499003371 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 392499003372 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 392499003373 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 392499003374 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 392499003375 substrate binding pocket [chemical binding]; other site 392499003376 membrane-bound complex binding site; other site 392499003377 hinge residues; other site 392499003378 PQQ-dependent dehydrogenase, methanol/ethanol family; Region: PQQ_enz_alc_DH; TIGR03075 392499003379 Ethanol dehydrogenase, a bacterial quinoprotein (PQQ-dependent type I alcohol dehydrogenase); Region: PQQ_ADH_I; cd10277 392499003380 dimer interface [polypeptide binding]; other site 392499003381 Trp docking motif [polypeptide binding]; other site 392499003382 active site 392499003383 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 392499003384 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 392499003385 active site 392499003386 phosphorylation site [posttranslational modification] 392499003387 intermolecular recognition site; other site 392499003388 dimerization interface [polypeptide binding]; other site 392499003389 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 392499003390 DNA binding residues [nucleotide binding] 392499003391 dimerization interface [polypeptide binding]; other site 392499003392 Glycosyl hydrolase families: GH43, GH62, GH32, GH68; Region: GH43_62_32_68; cl14647 392499003393 active site 392499003394 oxidoreductase; Provisional; Region: PRK12743 392499003395 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 392499003396 NAD(P) binding site [chemical binding]; other site 392499003397 active site 392499003398 Tyrosine phosphatase family; Region: Y_phosphatase3; pfam13350 392499003399 Tyrosine phosphatase family C-terminal region; Region: Y_phosphatase3C; pfam13348 392499003400 PAS fold; Region: PAS_7; pfam12860 392499003401 PAS fold; Region: PAS_7; pfam12860 392499003402 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 392499003403 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 392499003404 dimer interface [polypeptide binding]; other site 392499003405 phosphorylation site [posttranslational modification] 392499003406 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 392499003407 ATP binding site [chemical binding]; other site 392499003408 Mg2+ binding site [ion binding]; other site 392499003409 G-X-G motif; other site 392499003410 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 392499003411 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 392499003412 active site 392499003413 phosphorylation site [posttranslational modification] 392499003414 intermolecular recognition site; other site 392499003415 dimerization interface [polypeptide binding]; other site 392499003416 Uncharacterized conserved protein [Function unknown]; Region: COG3287 392499003417 FIST N domain; Region: FIST; pfam08495 392499003418 FIST C domain; Region: FIST_C; pfam10442 392499003419 Protein of unknown function (DUF3422); Region: DUF3422; pfam11902 392499003420 Protein of unknown function (DUF779); Region: DUF779; pfam05610 392499003421 Ralstonia eutrophus NAD+-dependent acetaldehyde dehydrogenase II-like; Region: ALDH_ACDHII-AcoD; cd07116 392499003422 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 392499003423 NAD(P) binding site [chemical binding]; other site 392499003424 catalytic residues [active] 392499003425 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 392499003426 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 392499003427 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 392499003428 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 392499003429 N-terminal plug; other site 392499003430 ligand-binding site [chemical binding]; other site 392499003431 Putative hydrophobic ligand-binding SRPBCC domain of Micromonospora echinospora CalC, human Aha1, and related proteins; Region: SRPBCC_CalC_Aha1-like; cd07814 392499003432 putative hydrophobic ligand binding site [chemical binding]; other site 392499003433 Survival protein SurE; Region: SurE; cl00448 392499003434 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 392499003435 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 392499003436 N-terminal plug; other site 392499003437 ligand-binding site [chemical binding]; other site 392499003438 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 392499003439 Major Facilitator Superfamily; Region: MFS_1; pfam07690 392499003440 putative substrate translocation pore; other site 392499003441 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 392499003442 active site 392499003443 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 392499003444 catalytic tetrad [active] 392499003445 TIGR04076 family protein; Region: TIGR04076 392499003446 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 392499003447 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 392499003448 N-terminal plug; other site 392499003449 ligand-binding site [chemical binding]; other site 392499003450 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 392499003451 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 392499003452 active site 392499003453 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 392499003454 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 392499003455 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 392499003456 FO synthase; Reviewed; Region: fbiC; PRK09234 392499003457 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 392499003458 FeS/SAM binding site; other site 392499003459 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 392499003460 FeS/SAM binding site; other site 392499003461 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 392499003462 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 392499003463 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 392499003464 Major Facilitator Superfamily; Region: MFS_1; pfam07690 392499003465 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 392499003466 PQQ_like domain of the quinohemoprotein alcohol dehydrogenase (type II); Region: PQQ_ADH_II; cd10279 392499003467 PQQ-dependent dehydrogenase, methanol/ethanol family; Region: PQQ_enz_alc_DH; TIGR03075 392499003468 Trp docking motif [polypeptide binding]; other site 392499003469 cytochrome domain interface [polypeptide binding]; other site 392499003470 active site 392499003471 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 392499003472 Helix-turn-helix domain; Region: HTH_18; pfam12833 392499003473 SnoaL-like domain; Region: SnoaL_3; pfam13474 392499003474 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 392499003475 methylenetetrahydromethanopterin reductase; Provisional; Region: PRK02271 392499003476 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 392499003477 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 392499003478 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 392499003479 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 392499003480 N-terminal plug; other site 392499003481 ligand-binding site [chemical binding]; other site 392499003482 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 392499003483 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 392499003484 putative DNA binding site [nucleotide binding]; other site 392499003485 putative Zn2+ binding site [ion binding]; other site 392499003486 AsnC family; Region: AsnC_trans_reg; pfam01037 392499003487 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 392499003488 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 392499003489 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 392499003490 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 392499003491 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 392499003492 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 392499003493 N-terminal plug; other site 392499003494 ligand-binding site [chemical binding]; other site 392499003495 Amidase; Region: Amidase; cl11426 392499003496 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 392499003497 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 392499003498 NAD(P) binding site [chemical binding]; other site 392499003499 catalytic residues [active] 392499003500 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 392499003501 Helix-turn-helix domain; Region: HTH_18; pfam12833 392499003502 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 392499003503 FAD binding domain; Region: FAD_binding_4; pfam01565 392499003504 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 392499003505 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK08269 392499003506 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 392499003507 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 392499003508 NAD/NADP octopine/nopaline dehydrogenase, alpha-helical domain; Region: Octopine_DH; pfam02317 392499003509 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 392499003510 putative substrate translocation pore; other site 392499003511 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 392499003512 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 392499003513 active site 392499003514 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 392499003515 classical (c) SDRs; Region: SDR_c; cd05233 392499003516 NAD(P) binding site [chemical binding]; other site 392499003517 active site 392499003518 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 392499003519 MarR family; Region: MarR_2; pfam12802 392499003520 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 392499003521 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 392499003522 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 392499003523 [2Fe-2S] cluster binding site [ion binding]; other site 392499003524 C-terminal catalytic domain of the oxygenase alpha subunit of Pseudomonas resinovorans strain CA10 anthranilate 1,2-dioxygenase and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_AntDO-like; cd08879 392499003525 putative alpha subunit interface [polypeptide binding]; other site 392499003526 putative active site [active] 392499003527 putative substrate binding site [chemical binding]; other site 392499003528 Fe binding site [ion binding]; other site 392499003529 SnoaL-like domain; Region: SnoaL_4; pfam13577 392499003530 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 392499003531 Amidase; Region: Amidase; cl11426 392499003532 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 392499003533 MarR family; Region: MarR; pfam01047 392499003534 bifunctional aldehyde dehydrogenase/enoyl-CoA hydratase; Provisional; Region: PRK11563 392499003535 N-terminal domain of the monoamine oxidase C dehydratase; Region: ALDH_MaoC-N; cd07128 392499003536 substrate binding site [chemical binding]; other site 392499003537 dimer interface [polypeptide binding]; other site 392499003538 NADP binding site [chemical binding]; other site 392499003539 catalytic residues [active] 392499003540 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 392499003541 active site 2 [active] 392499003542 active site 1 [active] 392499003543 enoyl-CoA hydratase; Provisional; Region: PRK08140 392499003544 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 392499003545 substrate binding site [chemical binding]; other site 392499003546 oxyanion hole (OAH) forming residues; other site 392499003547 trimer interface [polypeptide binding]; other site 392499003548 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism]; Region: FadB; COG1250 392499003549 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 392499003550 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 392499003551 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 392499003552 CoenzymeA binding site [chemical binding]; other site 392499003553 subunit interaction site [polypeptide binding]; other site 392499003554 PHB binding site; other site 392499003555 beta-ketoadipyl CoA thiolase; Validated; Region: PRK09050 392499003556 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 392499003557 dimer interface [polypeptide binding]; other site 392499003558 active site 392499003559 phenylacetate-CoA oxygenase subunit PaaA; Provisional; Region: paaA; PRK13778 392499003560 phenylacetate-CoA oxygenase, PaaG subunit; Region: PA_CoA_Oxy1; TIGR02156 392499003561 phenylacetate-CoA oxygenase subunit PaaB; Provisional; Region: paaB; PRK13781 392499003562 Phenylacetic acid catabolic protein; Region: PaaA_PaaC; pfam05138 392499003563 Predicted metal-sulfur cluster biosynthetic enzyme [General function prediction only]; Region: PaaD; COG2151 392499003564 phenylacetate-CoA oxygenase, PaaJ subunit; Region: PA_CoA_Oxy4; TIGR02159 392499003565 phenylacetate-CoA oxygenase/reductase, PaaK subunit; Region: PA_CoA_Oxy5; TIGR02160 392499003566 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 392499003567 FAD binding pocket [chemical binding]; other site 392499003568 FAD binding motif [chemical binding]; other site 392499003569 phosphate binding motif [ion binding]; other site 392499003570 beta-alpha-beta structure motif; other site 392499003571 NAD(p) ribose binding residues [chemical binding]; other site 392499003572 NAD binding pocket [chemical binding]; other site 392499003573 NAD(P)-pyrophosphate-nicotinamide binding residues [chemical binding]; other site 392499003574 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 392499003575 catalytic loop [active] 392499003576 iron binding site [ion binding]; other site 392499003577 enoyl-CoA hydratase-isomerase; Provisional; Region: PRK09674 392499003578 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 392499003579 substrate binding site [chemical binding]; other site 392499003580 oxyanion hole (OAH) forming residues; other site 392499003581 trimer interface [polypeptide binding]; other site 392499003582 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 392499003583 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 392499003584 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 392499003585 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 392499003586 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 392499003587 E3 interaction surface; other site 392499003588 lipoyl attachment site [posttranslational modification]; other site 392499003589 e3 binding domain; Region: E3_binding; pfam02817 392499003590 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 392499003591 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, alpha subunit [Energy production and conversion]; Region: AcoA; COG1071 392499003592 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cl01629 392499003593 TPP-binding site [chemical binding]; other site 392499003594 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 392499003595 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 392499003596 alpha subunit interface [polypeptide binding]; other site 392499003597 TPP binding site [chemical binding]; other site 392499003598 heterodimer interface [polypeptide binding]; other site 392499003599 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 392499003600 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 392499003601 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 392499003602 pyridoxal 5'-phosphate binding site [chemical binding]; other site 392499003603 homodimer interface [polypeptide binding]; other site 392499003604 catalytic residue [active] 392499003605 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 392499003606 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 392499003607 putative DNA binding site [nucleotide binding]; other site 392499003608 putative Zn2+ binding site [ion binding]; other site 392499003609 AsnC family; Region: AsnC_trans_reg; pfam01037 392499003610 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 392499003611 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 392499003612 N-terminal plug; other site 392499003613 ligand-binding site [chemical binding]; other site 392499003614 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 392499003615 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 392499003616 DNA binding residues [nucleotide binding] 392499003617 dimerization interface [polypeptide binding]; other site 392499003618 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07008 392499003619 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 392499003620 acyl-activating enzyme (AAE) consensus motif; other site 392499003621 AMP binding site [chemical binding]; other site 392499003622 active site 392499003623 CoA binding site [chemical binding]; other site 392499003624 short chain dehydrogenase; Provisional; Region: PRK07060 392499003625 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 392499003626 NAD(P) binding site [chemical binding]; other site 392499003627 active site 392499003628 Methylmalonyl-CoA epimerase (MMCE); Region: MMCE; cd07249 392499003629 dimer interface [polypeptide binding]; other site 392499003630 substrate binding site [chemical binding]; other site 392499003631 metal binding site [ion binding]; metal-binding site 392499003632 Escherichia coli YegD, a putative chaperone protein, and related proteins; Region: YegD_like; cd10231 392499003633 putative chaperone; Provisional; Region: PRK11678 392499003634 nucleotide binding site [chemical binding]; other site 392499003635 putative NEF/HSP70 interaction site [polypeptide binding]; other site 392499003636 SBD interface [polypeptide binding]; other site 392499003637 DNA-binding HTH domain-containing proteins [Transcription]; Region: CsgD; COG2771 392499003638 DNA binding residues [nucleotide binding] 392499003639 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 392499003640 FAD-dependent oxidoreductase; Provisional; Region: PRK08132 392499003641 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 392499003642 Protein of unknown function (DUF2783); Region: DUF2783; pfam10932 392499003643 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 392499003644 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 392499003645 homodimer interface [polypeptide binding]; other site 392499003646 substrate-cofactor binding pocket; other site 392499003647 catalytic residue [active] 392499003648 dihydrolipoamide dehydrogenase; Validated; Region: PRK05976 392499003649 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 392499003650 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 392499003651 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 392499003652 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 392499003653 E3 interaction surface; other site 392499003654 lipoyl attachment site [posttranslational modification]; other site 392499003655 e3 binding domain; Region: E3_binding; pfam02817 392499003656 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 392499003657 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 392499003658 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 392499003659 alpha subunit interface [polypeptide binding]; other site 392499003660 TPP binding site [chemical binding]; other site 392499003661 heterodimer interface [polypeptide binding]; other site 392499003662 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 392499003663 2-oxoisovalerate dehydrogenase E1 alpha subunit N terminal; Region: OxoDH_E1alpha_N; pfam12573 392499003664 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, alpha subunit [Energy production and conversion]; Region: AcoA; COG1071 392499003665 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 392499003666 tetramer interface [polypeptide binding]; other site 392499003667 TPP-binding site [chemical binding]; other site 392499003668 heterodimer interface [polypeptide binding]; other site 392499003669 phosphorylation loop region [posttranslational modification] 392499003670 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 392499003671 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 392499003672 putative DNA binding site [nucleotide binding]; other site 392499003673 putative Zn2+ binding site [ion binding]; other site 392499003674 AsnC family; Region: AsnC_trans_reg; pfam01037 392499003675 dimethylhistidine N-methyltransferase; Region: egtD_ergothio; TIGR03438 392499003676 Uncharacterized conserved protein (DUF2260); Region: DUF2260; pfam10017 392499003677 ergothioneine biosynthesis protein EgtB; Region: egtB_TIGR03440 392499003678 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 392499003679 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 392499003680 dimer interface [polypeptide binding]; other site 392499003681 conserved gate region; other site 392499003682 ABC-ATPase subunit interface; other site 392499003683 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 392499003684 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 392499003685 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 392499003686 Walker A/P-loop; other site 392499003687 ATP binding site [chemical binding]; other site 392499003688 Q-loop/lid; other site 392499003689 ABC transporter signature motif; other site 392499003690 Walker B; other site 392499003691 D-loop; other site 392499003692 H-loop/switch region; other site 392499003693 Beta-lactamase enzyme family; Region: Beta-lactamase2; pfam13354 392499003694 acyl-CoA synthetase; Validated; Region: PRK06188 392499003695 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 392499003696 acyl-activating enzyme (AAE) consensus motif; other site 392499003697 putative AMP binding site [chemical binding]; other site 392499003698 putative active site [active] 392499003699 putative CoA binding site [chemical binding]; other site 392499003700 lipid-transfer protein; Provisional; Region: PRK08256 392499003701 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 392499003702 active site 392499003703 Predicted O-linked N-acetylglucosamine transferase, SPINDLY family [Posttranslational modification, protein turnover, chaperones]; Region: Spy; COG3914 392499003704 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 392499003705 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 392499003706 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 392499003707 catalytic residue [active] 392499003708 Acetyltransferase (isoleucine patch superfamily) [General function prediction only]; Region: WbbJ; COG0110 392499003709 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 392499003710 trimer interface [polypeptide binding]; other site 392499003711 active site 392499003712 substrate binding site [chemical binding]; other site 392499003713 CoA binding site [chemical binding]; other site 392499003714 TIR domain; Region: TIR_2; pfam13676 392499003715 Domain of unknown function (DUF4071); Region: DUF4071; pfam13281 392499003716 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 392499003717 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 392499003718 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; cl17320 392499003719 Caspase domain; Region: Peptidase_C14; pfam00656 392499003720 Caspase, interleukin-1 beta converting enzyme (ICE) homologues; Cysteine-dependent aspartate-directed proteases that mediate programmed cell death (apoptosis). Caspases are synthesized as inactive zymogens and activated by proteolysis of the peptide...; Region: CASc; cl00042 392499003721 TPR repeat; Region: TPR_11; pfam13414 392499003722 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 392499003723 TPR motif; other site 392499003724 binding surface 392499003725 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 392499003726 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 392499003727 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 392499003728 ATP binding site [chemical binding]; other site 392499003729 Mg2+ binding site [ion binding]; other site 392499003730 G-X-G motif; other site 392499003731 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 392499003732 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 392499003733 active site 392499003734 phosphorylation site [posttranslational modification] 392499003735 intermolecular recognition site; other site 392499003736 dimerization interface [polypeptide binding]; other site 392499003737 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 392499003738 DNA binding residues [nucleotide binding] 392499003739 dimerization interface [polypeptide binding]; other site 392499003740 helix_turn_helix ASNC type; Region: HTH_ASNC; smart00344 392499003741 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 392499003742 putative DNA binding site [nucleotide binding]; other site 392499003743 putative Zn2+ binding site [ion binding]; other site 392499003744 AsnC family; Region: AsnC_trans_reg; pfam01037 392499003745 Alanine racemase [Cell envelope biogenesis, outer membrane]; Region: Alr; COG0787 392499003746 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 392499003747 dimer interface [polypeptide binding]; other site 392499003748 active site 392499003749 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 392499003750 substrate binding site [chemical binding]; other site 392499003751 catalytic residues [active] 392499003752 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 392499003753 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 392499003754 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_2; cd06150 392499003755 homotrimer interaction site [polypeptide binding]; other site 392499003756 putative active site [active] 392499003757 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 392499003758 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 392499003759 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 392499003760 Cupin domain; Region: Cupin_2; cl17218 392499003761 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 392499003762 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 392499003763 ligand-binding site [chemical binding]; other site 392499003764 DoxX-like family; Region: DoxX_2; pfam13564 392499003765 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 392499003766 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 392499003767 active site 392499003768 dimethyl sulfone monooxygenase SfnG; Region: LLM_DMSO2_sfnG; TIGR04021 392499003769 dimer interface [polypeptide binding]; other site 392499003770 non-prolyl cis peptide bond; other site 392499003771 insertion regions; other site 392499003772 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 392499003773 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 392499003774 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 392499003775 N-ethylammeline chlorohydrolase; Provisional; Region: PRK07228 392499003776 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 392499003777 active site 392499003778 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 392499003779 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 392499003780 N-terminal plug; other site 392499003781 ligand-binding site [chemical binding]; other site 392499003782 Gentisate 1,2-dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3435 392499003783 Cupin domain; Region: Cupin_2; pfam07883 392499003784 Cupin domain; Region: Cupin_2; pfam07883 392499003785 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 392499003786 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 392499003787 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 392499003788 active site 392499003789 Glutaryl-CoA dehydrogenase; Region: GCD; cd01151 392499003790 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 392499003791 FAD binding site [chemical binding]; other site 392499003792 substrate binding pocket [chemical binding]; other site 392499003793 catalytic base [active] 392499003794 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 392499003795 homotrimer interaction site [polypeptide binding]; other site 392499003796 putative active site [active] 392499003797 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 392499003798 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 392499003799 active site 392499003800 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 392499003801 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 392499003802 substrate binding site [chemical binding]; other site 392499003803 oxyanion hole (OAH) forming residues; other site 392499003804 trimer interface [polypeptide binding]; other site 392499003805 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 392499003806 classical (c) SDRs; Region: SDR_c; cd05233 392499003807 NAD(P) binding site [chemical binding]; other site 392499003808 active site 392499003809 salicylyl-CoA 5-hydroxylase; Reviewed; Region: PRK08255 392499003810 hypothetical protein; Provisional; Region: PRK07236 392499003811 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 392499003812 Old yellow enzyme (OYE) YqjM-like FMN binding domain. YqjM is involved in the oxidative stress response of Bacillus subtilis. Like the other OYE members, each monomer of YqjM contains FMN as a non-covalently bound cofactor and uses NADPH as a reducing...; Region: OYE_YqiM_FMN; cd02932 392499003813 active site 392499003814 FMN binding site [chemical binding]; other site 392499003815 substrate binding site [chemical binding]; other site 392499003816 homotetramer interface [polypeptide binding]; other site 392499003817 catalytic residue [active] 392499003818 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 392499003819 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 392499003820 substrate binding site [chemical binding]; other site 392499003821 oxyanion hole (OAH) forming residues; other site 392499003822 trimer interface [polypeptide binding]; other site 392499003823 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 392499003824 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 392499003825 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 392499003826 benzoate-CoA ligase family; Region: benz_CoA_lig; TIGR02262 392499003827 Benzoate CoA ligase (BCL) and 4-Hydroxybenzoate-Coenzyme A Ligase (4-HBA-CoA ligase); Region: BCL_4HBCL; cd05959 392499003828 dimer interface [polypeptide binding]; other site 392499003829 acyl-activating enzyme (AAE) consensus motif; other site 392499003830 putative active site [active] 392499003831 putative AMP binding site [chemical binding]; other site 392499003832 putative CoA binding site [chemical binding]; other site 392499003833 chemical substrate binding site [chemical binding]; other site 392499003834 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 392499003835 MarR family; Region: MarR_2; cl17246 392499003836 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 392499003837 Predicted amidohydrolase [General function prediction only]; Region: COG0388 392499003838 Nitrilases, cyanide hydratase (CH)s, and similar proteins (class 1 nitrilases); Region: nitrilases_CHs; cd07564 392499003839 putative active site [active] 392499003840 catalytic triad [active] 392499003841 putative dimer interface [polypeptide binding]; other site 392499003842 ATP-dependent transcriptional regulator [Transcription]; Region: MalT; COG2909 392499003843 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 392499003844 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 392499003845 DNA binding residues [nucleotide binding] 392499003846 dimerization interface [polypeptide binding]; other site 392499003847 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 392499003848 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 392499003849 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 392499003850 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 392499003851 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 392499003852 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 392499003853 homotrimer interaction site [polypeptide binding]; other site 392499003854 putative active site [active] 392499003855 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 392499003856 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 392499003857 iron-sulfur cluster [ion binding]; other site 392499003858 [2Fe-2S] cluster binding site [ion binding]; other site 392499003859 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 392499003860 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 392499003861 N-terminal plug; other site 392499003862 ligand-binding site [chemical binding]; other site 392499003863 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, alpha subunit [Energy production and conversion]; Region: AcoA; COG1071 392499003864 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 392499003865 tetramer interface [polypeptide binding]; other site 392499003866 TPP-binding site [chemical binding]; other site 392499003867 heterodimer interface [polypeptide binding]; other site 392499003868 phosphorylation loop region [posttranslational modification] 392499003869 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 392499003870 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 392499003871 alpha subunit interface [polypeptide binding]; other site 392499003872 TPP binding site [chemical binding]; other site 392499003873 heterodimer interface [polypeptide binding]; other site 392499003874 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 392499003875 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 392499003876 E3 interaction surface; other site 392499003877 lipoyl attachment site [posttranslational modification]; other site 392499003878 FAD binding domain in molybdopterin dehydrogenase; Region: FAD_binding_5; pfam00941 392499003879 acyl-CoA synthetase; Validated; Region: PRK08316 392499003880 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 392499003881 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 392499003882 acyl-activating enzyme (AAE) consensus motif; other site 392499003883 putative AMP binding site [chemical binding]; other site 392499003884 putative active site [active] 392499003885 putative CoA binding site [chemical binding]; other site 392499003886 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 392499003887 UDP glucuronic acid epimerase, extended (e) SDRs; Region: UDP_GE_SDE_e; cd05253 392499003888 putative NAD(P) binding site [chemical binding]; other site 392499003889 active site 392499003890 putative substrate binding site [chemical binding]; other site 392499003891 Dienelactone hydrolase family; Region: DLH; pfam01738 392499003892 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 392499003893 GST_N family, Saccharomyces cerevisiae GTT1-like subfamily; composed of predominantly uncharacterized proteins with similarity to the S. cerevisiae GST protein, GTT1, and the Schizosaccharomyces pombe GST-III. GSTs are cytosolic dimeric proteins involved...; Region: GST_N_GTT1_like; cd03046 392499003894 putative C-terminal domain interface [polypeptide binding]; other site 392499003895 putative GSH binding site (G-site) [chemical binding]; other site 392499003896 putative dimer interface [polypeptide binding]; other site 392499003897 C-terminal, alpha helical domain of an unknown subfamily 8 of Glutathione S-transferases; Region: GST_C_8; cd03207 392499003898 dimer interface [polypeptide binding]; other site 392499003899 N-terminal domain interface [polypeptide binding]; other site 392499003900 putative substrate binding pocket (H-site) [chemical binding]; other site 392499003901 Teichoic acid biosynthesis proteins [Cell envelope biogenesis, outer membrane]; Region: WecG; COG1922 392499003902 The glycosyltransferase WecG/TagA superfamily contains Escherichia coli WecG, Bacillus subtilis TagA and related proteins. E. coli WecG is believed to be a UDP-N-acetyl-D-mannosaminuronic acid transferase, and is involved in enterobacterial common...; Region: Glyco_transf_WecG_TagA; cd06533 392499003903 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 392499003904 Bacterial BAX inhibitor (BI)-1/YccA-like proteins; Region: BI-1-like_bacterial; cd10432 392499003905 2'-5' RNA ligase; Region: 2_5_ligase; TIGR02258 392499003906 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 392499003907 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 392499003908 Low molecular weight phosphatase family; Region: LMWPc; cd00115 392499003909 active site 392499003910 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 392499003911 E-class dimer interface [polypeptide binding]; other site 392499003912 P-class dimer interface [polypeptide binding]; other site 392499003913 active site 392499003914 Cu2+ binding site [ion binding]; other site 392499003915 Zn2+ binding site [ion binding]; other site 392499003916 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 392499003917 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 392499003918 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 392499003919 ligand binding site [chemical binding]; other site 392499003920 SOUL heme-binding protein; Region: SOUL; pfam04832 392499003921 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 392499003922 non-specific DNA binding site [nucleotide binding]; other site 392499003923 salt bridge; other site 392499003924 sequence-specific DNA binding site [nucleotide binding]; other site 392499003925 methionine gamma-lyase; Validated; Region: PRK07049 392499003926 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 392499003927 homodimer interface [polypeptide binding]; other site 392499003928 substrate-cofactor binding pocket; other site 392499003929 pyridoxal 5'-phosphate binding site [chemical binding]; other site 392499003930 catalytic residue [active] 392499003931 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 392499003932 Hemerythrin-like domain; Region: Hr-like; cd12108 392499003933 Fe binding site [ion binding]; other site 392499003934 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 392499003935 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 392499003936 hinge; other site 392499003937 active site 392499003938 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 392499003939 Uncharacterized conserved protein [Function unknown]; Region: COG2127 392499003940 Phasin protein; Region: Phasin_2; pfam09361 392499003941 poly(R)-hydroxyalkanoic acid synthase, class I; Region: PHA_synth_I; TIGR01838 392499003942 Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; Region: PhaC_N; pfam07167 392499003943 aminotransferase; Validated; Region: PRK09148 392499003944 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 392499003945 pyridoxal 5'-phosphate binding site [chemical binding]; other site 392499003946 homodimer interface [polypeptide binding]; other site 392499003947 catalytic residue [active] 392499003948 Protein of unknown function (DUF2721); Region: DUF2721; pfam11026 392499003949 Domain of unknown function (DUF4345); Region: DUF4345; pfam14248 392499003950 Domain of unknown function (DU1801); Region: DUF1801; pfam08818 392499003951 Bacteriocin-protection, YdeI or OmpD-Associated; Region: OmdA; pfam13376 392499003952 Extensin-like protein C-terminus; Region: Extensin-like_C; pfam06904 392499003953 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 392499003954 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 392499003955 substrate binding site [chemical binding]; other site 392499003956 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3214 392499003957 Protein of unknown function (DUF1006); Region: DUF1006; pfam06224 392499003958 Entericidin EcnA/B family; Region: Entericidin; pfam08085 392499003959 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 392499003960 Glucose inhibited division protein A; Region: GIDA; pfam01134 392499003961 Low affinity iron permease; Region: Iron_permease; pfam04120 392499003962 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 392499003963 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 392499003964 Uncharacterized protein conserved in bacteria (DUF2218); Region: DUF2218; pfam09981 392499003965 Predicted transcriptional regulators [Transcription]; Region: COG1695 392499003966 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 392499003967 recombination factor protein RarA; Reviewed; Region: PRK13342 392499003968 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 392499003969 Walker A motif; other site 392499003970 ATP binding site [chemical binding]; other site 392499003971 Walker B motif; other site 392499003972 arginine finger; other site 392499003973 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 392499003974 Protein of unknown function (DUF419); Region: DUF419; cl15265 392499003975 Pyroglutamyl peptidase (PGP) type I, also known as pyrrolidone carboxyl peptidase (pcp) type I: Enzymes responsible for cleaving pyroglutamate (pGlu) from the N-terminal end of specialized proteins. The N-terminal pGlu protects these proteins from...; Region: Peptidase_C15; cd00501 392499003976 putative substrate binding pocket [chemical binding]; other site 392499003977 AC domain interface; other site 392499003978 catalytic triad [active] 392499003979 AB domain interface; other site 392499003980 interchain disulfide; other site 392499003981 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 392499003982 amidase; Provisional; Region: PRK07056 392499003983 Amidase; Region: Amidase; cl11426 392499003984 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 392499003985 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 392499003986 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 392499003987 inter-subunit interface; other site 392499003988 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 392499003989 iron-sulfur cluster [ion binding]; other site 392499003990 [2Fe-2S] cluster binding site [ion binding]; other site 392499003991 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 392499003992 beta subunit interface [polypeptide binding]; other site 392499003993 alpha subunit interface [polypeptide binding]; other site 392499003994 active site 392499003995 substrate binding site [chemical binding]; other site 392499003996 Fe binding site [ion binding]; other site 392499003997 Transcriptional regulators [Transcription]; Region: GntR; COG1802 392499003998 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 392499003999 DNA-binding site [nucleotide binding]; DNA binding site 392499004000 FCD domain; Region: FCD; pfam07729 392499004001 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 392499004002 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 392499004003 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 392499004004 [2Fe-2S] cluster binding site [ion binding]; other site 392499004005 2,3-dihydroxybiphenyl 1,2-dioxygenase; Region: 23dbph12diox; TIGR03213 392499004006 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 392499004007 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 392499004008 active site 392499004009 Fe binding site [ion binding]; other site 392499004010 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 392499004011 benzoate 1,2-dioxygenase, large subunit; Region: benzo_1_2_benA; TIGR03229 392499004012 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 392499004013 [2Fe-2S] cluster binding site [ion binding]; other site 392499004014 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 392499004015 hydrophobic ligand binding site; other site 392499004016 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 392499004017 classical (c) SDRs; Region: SDR_c; cd05233 392499004018 NAD(P) binding site [chemical binding]; other site 392499004019 active site 392499004020 phenylpropionate dioxygenase ferredoxin reductase subunit; Provisional; Region: PRK09754 392499004021 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 392499004022 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 392499004023 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 392499004024 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 392499004025 N-terminal plug; other site 392499004026 ligand-binding site [chemical binding]; other site 392499004027 3-polyprenyl-4-hydroxybenzoate decarboxylase [Coenzyme metabolism]; Region: UbiX; COG0163 392499004028 Flavoprotein; Region: Flavoprotein; pfam02441 392499004029 Protein of unknown function (DUF2390); Region: DUF2390; pfam09523 392499004030 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 392499004031 D-galactonate transporter; Region: 2A0114; TIGR00893 392499004032 putative substrate translocation pore; other site 392499004033 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; pfam01977 392499004034 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 392499004035 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 392499004036 N-terminal plug; other site 392499004037 Isochorismatase family; Region: Isochorismatase; pfam00857 392499004038 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 392499004039 catalytic triad [active] 392499004040 conserved cis-peptide bond; other site 392499004041 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 392499004042 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 392499004043 Integrase core domain; Region: rve; pfam00665 392499004044 transposase/IS protein; Provisional; Region: PRK09183 392499004045 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 392499004046 Walker A motif; other site 392499004047 ATP binding site [chemical binding]; other site 392499004048 Walker B motif; other site 392499004049 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 392499004050 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 392499004051 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 392499004052 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 392499004053 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 392499004054 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 392499004055 active site 392499004056 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 392499004057 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 392499004058 N-terminal plug; other site 392499004059 ligand-binding site [chemical binding]; other site 392499004060 Peptidase M14-like domain; uncharacterized subgroup; Region: M14-like_1_3; cd06240 392499004061 putative active site [active] 392499004062 Zn binding site [ion binding]; other site 392499004063 hypothetical protein; Provisional; Region: PRK06446 392499004064 Uncharacterized M20 Dipeptidases; Region: M20_dipept_like_4; cd05681 392499004065 metal binding site [ion binding]; metal-binding site 392499004066 dimer interface [polypeptide binding]; other site 392499004067 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 392499004068 Zn-dependent dipeptidase, microsomal dipeptidase homolog [Amino acid transport and metabolism]; Region: COG2355 392499004069 active site 392499004070 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 392499004071 Major Facilitator Superfamily; Region: MFS_1; pfam07690 392499004072 putative substrate translocation pore; other site 392499004073 Beta-lactamase; Region: Beta-lactamase; pfam00144 392499004074 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 392499004075 Protein related to penicillin acylase [General function prediction only]; Region: COG2366 392499004076 The Ntn hydrolases (N-terminal nucleophile) are a diverse superfamily of of enzymes that are activated autocatalytically via an N-terminally lcated nucleophilic amino acid. N-terminal nucleophile (NTN-) hydrolase superfamily, which contains a...; Region: Ntn_hydrolase; cl00467 392499004077 The Ntn hydrolases (N-terminal nucleophile) are a diverse superfamily of of enzymes that are activated autocatalytically via an N-terminally lcated nucleophilic amino acid. N-terminal nucleophile (NTN-) hydrolase superfamily, which contains a...; Region: Ntn_hydrolase; cl00467 392499004078 active site 392499004079 The Ntn hydrolases (N-terminal nucleophile) are a diverse superfamily of of enzymes that are activated autocatalytically via an N-terminally lcated nucleophilic amino acid. N-terminal nucleophile (NTN-) hydrolase superfamily, which contains a...; Region: Ntn_hydrolase; cl00467 392499004080 Secretin and TonB N terminus short domain; Region: STN; smart00965 392499004081 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 392499004082 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 392499004083 N-terminal plug; other site 392499004084 ligand-binding site [chemical binding]; other site 392499004085 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 392499004086 FecR protein; Region: FecR; pfam04773 392499004087 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 392499004088 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 392499004089 DNA binding residues [nucleotide binding] 392499004090 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 392499004091 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 392499004092 N-terminal plug; other site 392499004093 ligand-binding site [chemical binding]; other site 392499004094 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 392499004095 classical (c) SDRs; Region: SDR_c; cd05233 392499004096 NAD(P) binding site [chemical binding]; other site 392499004097 active site 392499004098 ATP-dependent transcriptional regulator [Transcription]; Region: MalT; COG2909 392499004099 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 392499004100 Walker A motif; other site 392499004101 ATP binding site [chemical binding]; other site 392499004102 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 392499004103 DNA binding residues [nucleotide binding] 392499004104 dimerization interface [polypeptide binding]; other site 392499004105 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 392499004106 Amidase; Region: Amidase; cl11426 392499004107 Catalytic domain of Helicobacter pylori peptidoglycan deacetylase (HpPgdA) and similar proteins; Region: CE4_HpPgdA_like; cd10938 392499004108 active site 392499004109 catalytic site [active] 392499004110 Zn binding site [ion binding]; other site 392499004111 tetramer interface [polypeptide binding]; other site 392499004112 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 392499004113 classical (c) SDRs; Region: SDR_c; cd05233 392499004114 NAD(P) binding site [chemical binding]; other site 392499004115 active site 392499004116 Predicted acyl esterases [General function prediction only]; Region: COG2936 392499004117 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 392499004118 X-Pro dipeptidyl-peptidase C-terminal non-catalytic domain; Region: PepX_C; smart00939 392499004119 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 392499004120 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 392499004121 N-terminal plug; other site 392499004122 ligand-binding site [chemical binding]; other site 392499004123 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 392499004124 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 392499004125 [2Fe-2S] cluster binding site [ion binding]; other site 392499004126 C-terminal catalytic domain of GbcA (glycine betaine catabolism A) from Pseudomonas aeruginosa PAO1 and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_GbcA-like; cd08884 392499004127 putative alpha subunit interface [polypeptide binding]; other site 392499004128 putative active site [active] 392499004129 putative substrate binding site [chemical binding]; other site 392499004130 Fe binding site [ion binding]; other site 392499004131 putative choline sulfate-utilization transcription factor; Region: chol_sulf_TF; TIGR03418 392499004132 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 392499004133 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 392499004134 dimerization interface [polypeptide binding]; other site 392499004135 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 392499004136 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 392499004137 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 392499004138 Predicted acyl esterases [General function prediction only]; Region: COG2936 392499004139 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 392499004140 X-Pro dipeptidyl-peptidase C-terminal non-catalytic domain; Region: PepX_C; smart00939 392499004141 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 392499004142 Predicted acyl esterases [General function prediction only]; Region: COG2936 392499004143 X-Pro dipeptidyl-peptidase C-terminal non-catalytic domain; Region: PepX_C; smart00939 392499004144 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 392499004145 hydroxyglutarate oxidase; Provisional; Region: PRK11728 392499004146 Glycine cleavage system T protein (aminomethyltransferase) [Amino acid transport and metabolism]; Region: GcvT; COG0404 392499004147 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 392499004148 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14188 392499004149 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 392499004150 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 392499004151 homodimer interface [polypeptide binding]; other site 392499004152 NADP binding site [chemical binding]; other site 392499004153 substrate binding site [chemical binding]; other site 392499004154 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 392499004155 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 392499004156 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 392499004157 putative active site [active] 392499004158 putative substrate binding site [chemical binding]; other site 392499004159 putative cosubstrate binding site; other site 392499004160 catalytic site [active] 392499004161 Sarcosine oxidase, gamma subunit family; Region: SoxG; cl01893 392499004162 sarcosine oxidase, alpha subunit family, heterotetrameric form; Region: soxA; TIGR01372 392499004163 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_4; pfam13510 392499004164 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 392499004165 Sarcosine oxidase, delta subunit family; Region: SoxD; pfam04267 392499004166 sarcosine oxidase, beta subunit family, heterotetrameric form; Region: soxB; TIGR01373 392499004167 hydroxyglutarate oxidase; Provisional; Region: PRK11728 392499004168 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 392499004169 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 392499004170 Class II Aldolase and Adducin head (N-terminal) domain. Aldolases are ubiquitous enzymes catalyzing central steps of carbohydrate metabolism. Based on enzymatic mechanisms, this superfamily has been divided into two distinct classes (Class I and II); Region: Aldolase_II; cl00214 392499004171 intersubunit interface [polypeptide binding]; other site 392499004172 active site 392499004173 Zn2+ binding site [ion binding]; other site 392499004174 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 392499004175 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 392499004176 Sulfite oxidase and related enzymes [General function prediction only]; Region: COG2041 392499004177 Moco binding site; other site 392499004178 metal coordination site [ion binding]; other site 392499004179 Conserved hypothetical protein 698; Region: Cons_hypoth698; cl01075 392499004180 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 392499004181 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 392499004182 dimerization interface [polypeptide binding]; other site 392499004183 probable F420-dependent oxidoreductase, MSMEG_4141 family; Region: F420_MSMEG_4141; TIGR03620 392499004184 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 392499004185 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 392499004186 ligand binding site [chemical binding]; other site 392499004187 flexible hinge region; other site 392499004188 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 392499004189 putative switch regulator; other site 392499004190 non-specific DNA interactions [nucleotide binding]; other site 392499004191 DNA binding site [nucleotide binding] 392499004192 sequence specific DNA binding site [nucleotide binding]; other site 392499004193 putative cAMP binding site [chemical binding]; other site 392499004194 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 392499004195 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 392499004196 ligand binding site [chemical binding]; other site 392499004197 flexible hinge region; other site 392499004198 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 392499004199 putative switch regulator; other site 392499004200 non-specific DNA interactions [nucleotide binding]; other site 392499004201 DNA binding site [nucleotide binding] 392499004202 sequence specific DNA binding site [nucleotide binding]; other site 392499004203 putative cAMP binding site [chemical binding]; other site 392499004204 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 392499004205 putative active site [active] 392499004206 putative catalytic site [active] 392499004207 Coenzyme A transferase; Region: CoA_trans; cl17247 392499004208 Acyl CoA:acetate/3-ketoacid CoA transferase, alpha subunit [Lipid metabolism]; Region: AtoD; COG1788 392499004209 Transcriptional regulator [Transcription]; Region: LysR; COG0583 392499004210 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 392499004211 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 392499004212 dimerization interface [polypeptide binding]; other site 392499004213 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 392499004214 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 392499004215 [2Fe-2S] cluster binding site [ion binding]; other site 392499004216 C-terminal catalytic domain of the oxygenase alpha subunit of Rieske-type non-heme iron aromatic ring-hydroxylating oxygenases; Region: RHO_alpha_C; cd00680 392499004217 alpha subunit interface [polypeptide binding]; other site 392499004218 active site 392499004219 substrate binding site [chemical binding]; other site 392499004220 Fe binding site [ion binding]; other site 392499004221 SnoaL-like domain; Region: SnoaL_4; pfam13577 392499004222 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 392499004223 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 392499004224 N-terminal plug; other site 392499004225 ligand-binding site [chemical binding]; other site 392499004226 Predicted acetamidase/formamidase [Energy production and conversion]; Region: COG2421 392499004227 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 392499004228 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 392499004229 [2Fe-2S] cluster binding site [ion binding]; other site 392499004230 C-terminal catalytic domain of the oxygenase alpha subunit of Rieske-type non-heme iron aromatic ring-hydroxylating oxygenases; Region: RHO_alpha_C; cd00680 392499004231 alpha subunit interface [polypeptide binding]; other site 392499004232 active site 392499004233 substrate binding site [chemical binding]; other site 392499004234 Fe binding site [ion binding]; other site 392499004235 SnoaL-like domain; Region: SnoaL_4; pfam13577 392499004236 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 392499004237 [2Fe-2S] cluster binding site [ion binding]; other site 392499004238 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 392499004239 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 392499004240 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 392499004241 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 392499004242 [2Fe-2S] cluster binding site [ion binding]; other site 392499004243 C-terminal catalytic domain of the oxygenase alpha subunit of Rieske-type non-heme iron aromatic ring-hydroxylating oxygenases; Region: RHO_alpha_C; cd00680 392499004244 alpha subunit interface [polypeptide binding]; other site 392499004245 active site 392499004246 substrate binding site [chemical binding]; other site 392499004247 Fe binding site [ion binding]; other site 392499004248 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 392499004249 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 392499004250 The C-terminal substrate binding domain of LysR-type transcriptional regulators involved in benzoate catabolism; contains the type 2 periplasmic binding fold; Region: PBP2_BenM_CatM_CatR; cd08445 392499004251 dimerizarion interface [polypeptide binding]; other site 392499004252 CrgA pocket; other site 392499004253 substrate binding pocket [chemical binding]; other site 392499004254 Muconate Lactonizing Enzyme (MLE), an homooctameric enzyme, catalyses the conversion of cis,cis-muconate (CCM) to muconolactone (ML) in the catechol branch of the beta-ketoadipate pathway. This pathway is used in soil microbes to breakdown lignin-derived...; Region: MLE; cd03318 392499004255 muconate and chloromuconate cycloisomerases; Region: mucon_cyclo; TIGR02534 392499004256 octamer interface [polypeptide binding]; other site 392499004257 active site 392499004258 Muconolactone delta-isomerase; Region: MIase; pfam02426 392499004259 catechol 1,2-dioxygenase, proteobacterial; Region: catechol_proteo; TIGR02439 392499004260 Catechol 1,2 dioxygenase (1,2-CTD) catalyzes an intradiol cleavage reaction of catechol to form cis,cis-muconate. 1,2-CTDs is homodimers with one catalytic non-heme ferric ion per monomer. They belong to the aromatic dioxygenase family, a family of...; Region: 1,2-CTD; cd03460 392499004261 dimer interface [polypeptide binding]; other site 392499004262 active site 392499004263 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 392499004264 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 392499004265 Predicted redox protein, regulator of disulfide bond formation [Posttranslational modification, protein turnover, chaperones]; Region: COG1765 392499004266 Helix-turn-helix domain; Region: HTH_18; pfam12833 392499004267 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 392499004268 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 392499004269 N-terminal plug; other site 392499004270 ligand-binding site [chemical binding]; other site 392499004271 Predicted redox protein, regulator of disulfide bond formation [Posttranslational modification, protein turnover, chaperones]; Region: COG1765 392499004272 Coagulation factor 5/8 C-terminal domain, discoidin domain; Cell surface-attached carbohydrate-binding domain, present in eukaryotes and assumed to have horizontally transferred to eubacterial genomes; Region: FA58C; cl12042 392499004273 sugar binding site [chemical binding]; other site 392499004274 Methyltransferase FkbM domain; Region: Methyltransf_21; cl17387 392499004275 Predicted membrane protein [Function unknown]; Region: COG1238 392499004276 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 392499004277 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 392499004278 putative DNA binding site [nucleotide binding]; other site 392499004279 putative Zn2+ binding site [ion binding]; other site 392499004280 AsnC family; Region: AsnC_trans_reg; pfam01037 392499004281 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 392499004282 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 392499004283 Predicted amidohydrolase [General function prediction only]; Region: COG0388 392499004284 Nitrilases, cyanide hydratase (CH)s, and similar proteins (class 1 nitrilases); Region: nitrilases_CHs; cd07564 392499004285 putative active site [active] 392499004286 catalytic triad [active] 392499004287 putative dimer interface [polypeptide binding]; other site 392499004288 Haem-containing dehydratase; Region: Dehydratase_hem; pfam13816 392499004289 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 392499004290 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 392499004291 N-terminal plug; other site 392499004292 ligand-binding site [chemical binding]; other site 392499004293 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 392499004294 Transposase; Region: DEDD_Tnp_IS110; pfam01548 392499004295 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 392499004296 glycolate oxidase subunit GlcD; Provisional; Region: PRK11230 392499004297 FAD binding domain; Region: FAD_binding_4; pfam01565 392499004298 FAD binding domain; Region: FAD_binding_4; pfam01565 392499004299 glycolate oxidase FAD binding subunit; Provisional; Region: glcE; PRK11282 392499004300 glycolate oxidase iron-sulfur subunit; Provisional; Region: glcF; PRK11274 392499004301 Cysteine-rich domain; Region: CCG; pfam02754 392499004302 Cysteine-rich domain; Region: CCG; pfam02754 392499004303 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 392499004304 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 392499004305 PRC-barrel domain; Region: PRC; pfam05239 392499004306 gluconate 5-dehydrogenase; Provisional; Region: PRK08213 392499004307 classical (c) SDRs; Region: SDR_c; cd05233 392499004308 NAD(P) binding site [chemical binding]; other site 392499004309 active site 392499004310 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 392499004311 Cytochrome P450; Region: p450; cl12078 392499004312 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 392499004313 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 392499004314 catalytic loop [active] 392499004315 iron binding site [ion binding]; other site 392499004316 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 392499004317 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 392499004318 N-terminal plug; other site 392499004319 ligand-binding site [chemical binding]; other site 392499004320 Mycobacterium tuberculosis aldehyde dehydrogenase AldA-like; Region: ALDH_AldA-Rv0768; cd07139 392499004321 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 392499004322 NAD binding site [chemical binding]; other site 392499004323 catalytic residues [active] 392499004324 PQQ_like domain of the quinohemoprotein alcohol dehydrogenase (type II); Region: PQQ_ADH_II; cd10279 392499004325 PQQ-dependent dehydrogenase, methanol/ethanol family; Region: PQQ_enz_alc_DH; TIGR03075 392499004326 Trp docking motif [polypeptide binding]; other site 392499004327 cytochrome domain interface [polypeptide binding]; other site 392499004328 active site 392499004329 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 392499004330 biliverdin IX beta reductase (BVR-B, aka flavin reductase)-like proteins; atypical (a) SDRs; Region: BVR-B_like_SDR_a; cd05244 392499004331 NADH(P)-binding; Region: NAD_binding_10; pfam13460 392499004332 NAD binding site [chemical binding]; other site 392499004333 putative active site [active] 392499004334 substrate binding site [chemical binding]; other site 392499004335 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 392499004336 active site 392499004337 FMN binding site [chemical binding]; other site 392499004338 substrate binding site [chemical binding]; other site 392499004339 putative catalytic residue [active] 392499004340 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II-like protein; Provisional; Region: PRK14019 392499004341 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 392499004342 GTP cyclohydrolase II; Region: GTP_cyclohydro2; pfam00925 392499004343 dimerization interface [polypeptide binding]; other site 392499004344 active site 392499004345 hypothetical protein; Validated; Region: PRK07121 392499004346 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 392499004347 acetyl-CoA acetyltransferase; Provisional; Region: PRK06504 392499004348 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 392499004349 dimer interface [polypeptide binding]; other site 392499004350 active site 392499004351 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 392499004352 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 392499004353 NAD(P) binding site [chemical binding]; other site 392499004354 active site 392499004355 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 392499004356 methyl indole-3-acetate methyltransferase; Region: PLN02211; cl17657 392499004357 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 392499004358 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 392499004359 NAD(P) binding site [chemical binding]; other site 392499004360 active site 392499004361 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 392499004362 substrate binding site [chemical binding]; other site 392499004363 oxyanion hole (OAH) forming residues; other site 392499004364 trimer interface [polypeptide binding]; other site 392499004365 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 392499004366 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 392499004367 enoyl-CoA hydratase; Provisional; Region: PRK08260 392499004368 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 392499004369 substrate binding site [chemical binding]; other site 392499004370 oxyanion hole (OAH) forming residues; other site 392499004371 trimer interface [polypeptide binding]; other site 392499004372 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 392499004373 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 392499004374 substrate binding site [chemical binding]; other site 392499004375 oxyanion hole (OAH) forming residues; other site 392499004376 trimer interface [polypeptide binding]; other site 392499004377 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 392499004378 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 392499004379 active site 392499004380 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 392499004381 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 392499004382 substrate binding site [chemical binding]; other site 392499004383 oxyanion hole (OAH) forming residues; other site 392499004384 trimer interface [polypeptide binding]; other site 392499004385 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 392499004386 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 392499004387 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 392499004388 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 392499004389 acyl-activating enzyme (AAE) consensus motif; other site 392499004390 acyl-activating enzyme (AAE) consensus motif; other site 392499004391 putative AMP binding site [chemical binding]; other site 392499004392 putative active site [active] 392499004393 putative CoA binding site [chemical binding]; other site 392499004394 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 392499004395 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 392499004396 Tetracyclin repressor, C-terminal all-alpha domain; Region: TetR_C; pfam02909 392499004397 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 392499004398 enoyl-CoA hydratase; Provisional; Region: PRK06495 392499004399 substrate binding site [chemical binding]; other site 392499004400 oxyanion hole (OAH) forming residues; other site 392499004401 trimer interface [polypeptide binding]; other site 392499004402 mycofactocin system FadH/OYE family oxidoreductase 2; Region: mycofact_OYE_2; TIGR03997 392499004403 Old yellow enzyme (OYE)-related FMN binding domain, group 3. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a reducing agent with oxygens, quinones, and alpha,beta-unsaturated aldehydes and ketones, and can act as...; Region: OYE_like_3_FMN; cd04734 392499004404 putative active site [active] 392499004405 putative FMN binding site [chemical binding]; other site 392499004406 putative substrate binding site [chemical binding]; other site 392499004407 putative catalytic residue [active] 392499004408 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 392499004409 EthD domain; Region: EthD; pfam07110 392499004410 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 392499004411 Cytochrome P450; Region: p450; cl12078 392499004412 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 392499004413 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 392499004414 N-terminal plug; other site 392499004415 ligand-binding site [chemical binding]; other site 392499004416 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 392499004417 Major Facilitator Superfamily; Region: MFS_1; pfam07690 392499004418 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 392499004419 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 392499004420 SnoaL-like domain; Region: SnoaL_3; pfam13474 392499004421 SnoaL-like domain; Region: SnoaL_4; pfam13577 392499004422 uncharacterized peroxidase-related enzyme; Region: peroxid_rel; TIGR01926 392499004423 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 392499004424 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 392499004425 Cytochrome P450; Region: p450; cl12078 392499004426 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 392499004427 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 392499004428 NAD(P) binding site [chemical binding]; other site 392499004429 active site 392499004430 Pyrabactin resistance 1 (PYR1), PYR1-like (PYL), regulatory component of abscisic acid receptors (RCARs), and related proteins; Region: PYR_PYL_RCAR_like; cd07821 392499004431 putative hydrophobic ligand binding site [chemical binding]; other site 392499004432 protein interface [polypeptide binding]; other site 392499004433 gate; other site 392499004434 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 392499004435 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 392499004436 NAD(P) binding site [chemical binding]; other site 392499004437 active site 392499004438 short chain dehydrogenase; Provisional; Region: PRK07576 392499004439 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 392499004440 NAD(P) binding site [chemical binding]; other site 392499004441 active site 392499004442 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 392499004443 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 392499004444 catalytic site [active] 392499004445 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 392499004446 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 392499004447 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 392499004448 acyl-activating enzyme (AAE) consensus motif; other site 392499004449 acyl-activating enzyme (AAE) consensus motif; other site 392499004450 putative AMP binding site [chemical binding]; other site 392499004451 putative active site [active] 392499004452 putative CoA binding site [chemical binding]; other site 392499004453 acyl-CoA thioesterase II; Region: tesB; TIGR00189 392499004454 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 392499004455 active site 392499004456 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 392499004457 catalytic triad [active] 392499004458 dimer interface [polypeptide binding]; other site 392499004459 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 392499004460 putative FMN binding site [chemical binding]; other site 392499004461 hypothetical protein; Validated; Region: PRK07121 392499004462 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 392499004463 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 392499004464 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 392499004465 E3 interaction surface; other site 392499004466 lipoyl attachment site [posttranslational modification]; other site 392499004467 dihydrolipoamide acetyltransferase; Reviewed; Region: PRK11857 392499004468 e3 binding domain; Region: E3_binding; pfam02817 392499004469 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 392499004470 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 392499004471 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 392499004472 alpha subunit interface [polypeptide binding]; other site 392499004473 TPP binding site [chemical binding]; other site 392499004474 heterodimer interface [polypeptide binding]; other site 392499004475 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 392499004476 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 392499004477 tetramer interface [polypeptide binding]; other site 392499004478 TPP-binding site [chemical binding]; other site 392499004479 heterodimer interface [polypeptide binding]; other site 392499004480 phosphorylation loop region [posttranslational modification] 392499004481 N-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_N_like; cd08346 392499004482 Zn binding site [ion binding]; other site 392499004483 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 392499004484 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 392499004485 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cd00347 392499004486 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 392499004487 CoA-transferase family III; Region: CoA_transf_3; pfam02515 392499004488 mycofactocin system FadH/OYE family oxidoreductase 2; Region: mycofact_OYE_2; TIGR03997 392499004489 Old yellow enzyme (OYE)-related FMN binding domain, group 3. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a reducing agent with oxygens, quinones, and alpha,beta-unsaturated aldehydes and ketones, and can act as...; Region: OYE_like_3_FMN; cd04734 392499004490 putative active site [active] 392499004491 putative FMN binding site [chemical binding]; other site 392499004492 putative substrate binding site [chemical binding]; other site 392499004493 putative catalytic residue [active] 392499004494 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 392499004495 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 392499004496 classical (c) SDRs; Region: SDR_c; cd05233 392499004497 NAD(P) binding site [chemical binding]; other site 392499004498 active site 392499004499 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 392499004500 Uncharacterized conserved protein [Function unknown]; Region: COG1262 392499004501 M20 Peptidase Aminoacylase 1-like protein 2 aminobenzoyl-glutamate utilization protein B subfamily; Region: M20_Acy1L2_AbgB; cd05673 392499004502 amidohydrolase; Region: amidohydrolases; TIGR01891 392499004503 putative metal binding site [ion binding]; other site 392499004504 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 392499004505 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 392499004506 dimerization interface [polypeptide binding]; other site 392499004507 putative DNA binding site [nucleotide binding]; other site 392499004508 putative Zn2+ binding site [ion binding]; other site 392499004509 AsnC family; Region: AsnC_trans_reg; pfam01037 392499004510 Arginase family; Region: Arginase; cd09989 392499004511 active site 392499004512 Mn binding site [ion binding]; other site 392499004513 oligomer interface [polypeptide binding]; other site 392499004514 ornithine cyclodeaminase; Validated; Region: PRK07589 392499004515 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 392499004516 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 392499004517 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 392499004518 Membrane-bound PQQ-dependent glucose dehydrogenase; Region: PQQ_mGDH; cd10280 392499004519 PQQ-dependent dehydrogenase, methanol/ethanol family; Region: PQQ_enz_alc_DH; TIGR03075 392499004520 Trp docking motif [polypeptide binding]; other site 392499004521 putative active site [active] 392499004522 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 392499004523 E3 interaction surface; other site 392499004524 lipoyl attachment site [posttranslational modification]; other site 392499004525 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 392499004526 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 392499004527 alpha subunit interface [polypeptide binding]; other site 392499004528 TPP binding site [chemical binding]; other site 392499004529 heterodimer interface [polypeptide binding]; other site 392499004530 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 392499004531 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_y; TIGR03182 392499004532 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 392499004533 tetramer interface [polypeptide binding]; other site 392499004534 TPP-binding site [chemical binding]; other site 392499004535 heterodimer interface [polypeptide binding]; other site 392499004536 phosphorylation loop region [posttranslational modification] 392499004537 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 392499004538 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 392499004539 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 392499004540 active site 392499004541 ChrR Cupin-like domain; Region: Cupin_7; pfam12973 392499004542 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 392499004543 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 392499004544 NAD(P) binding site [chemical binding]; other site 392499004545 active site 392499004546 Antibiotic biosynthesis monooxygenase; Region: ABM; pfam03992 392499004547 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 392499004548 binding surface 392499004549 TPR motif; other site 392499004550 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 392499004551 binding surface 392499004552 Tetratricopeptide repeat; Region: TPR_16; pfam13432 392499004553 TPR motif; other site 392499004554 TPR repeat; Region: TPR_11; pfam13414 392499004555 Putative 2OG-Fe(II) oxygenase; Region: 2OG-FeII_Oxy_5; pfam13759 392499004556 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 392499004557 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 392499004558 N-terminal plug; other site 392499004559 ligand-binding site [chemical binding]; other site 392499004560 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 392499004561 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 392499004562 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 392499004563 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 392499004564 N-terminal plug; other site 392499004565 ligand-binding site [chemical binding]; other site 392499004566 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 392499004567 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 392499004568 iron-sulfur cluster [ion binding]; other site 392499004569 [2Fe-2S] cluster binding site [ion binding]; other site 392499004570 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 392499004571 hydrophobic ligand binding site; other site 392499004572 Transcriptional regulator [Transcription]; Region: LysR; COG0583 392499004573 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 392499004574 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 392499004575 putative effector binding pocket; other site 392499004576 dimerization interface [polypeptide binding]; other site 392499004577 RT_Bac_retron_I: Reverse transcriptases (RTs) in bacterial retrotransposons or retrons. The polymerase reaction of this enzyme leads to the production of a unique RNA-DNA complex called msDNA (multicopy single-stranded (ss)DNA) in which a small ssDNA...; Region: RT_Bac_retron_I; cd01646 392499004578 putative active site [active] 392499004579 putative NTP binding site [chemical binding]; other site 392499004580 putative nucleic acid binding site [nucleotide binding]; other site 392499004581 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 392499004582 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 392499004583 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 392499004584 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 392499004585 tetramer interface [polypeptide binding]; other site 392499004586 Protocatechuate 3,4-dioxygenase beta subunit [Secondary metabolites biosynthesis, transport, and catabolism]; Region: PcaH; COG3485 392499004587 Protocatechuate 3,4-dioxygenase (3,4-PCD) , alpha subunit. 3,4-PCD catalyzes the oxidative ring cleavage of 3,4-dihydroxybenzoate to produce beta-carboxy-cis,cis-muconate. 3,4-PCDs are large aggregates of 12 protomers, each composed of an alpha- and...; Region: 3,4-PCD_alpha; cd03463 392499004588 heterodimer interface [polypeptide binding]; other site 392499004589 active site 392499004590 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 392499004591 protocatechuate 3,4-dioxygenase, beta subunit; Region: protocat_beta; TIGR02422 392499004592 active site 392499004593 Beta-eliminating lyase; Region: Beta_elim_lyase; pfam01212 392499004594 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 392499004595 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 392499004596 catalytic residue [active] 392499004597 Flavin containing amine oxidoreductase; Region: Amino_oxidase; pfam01593 392499004598 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 392499004599 Carboxypeptidase C (cathepsin A) [Amino acid transport and metabolism]; Region: COG2939 392499004600 Serine carboxypeptidase; Region: Peptidase_S10; cl08270 392499004601 Secretin and TonB N terminus short domain; Region: STN; smart00965 392499004602 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 392499004603 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 392499004604 N-terminal plug; other site 392499004605 ligand-binding site [chemical binding]; other site 392499004606 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 392499004607 FecR protein; Region: FecR; pfam04773 392499004608 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 392499004609 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 392499004610 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 392499004611 DNA binding residues [nucleotide binding] 392499004612 Bacterial capsule synthesis protein PGA_cap; Region: PGA_cap; smart00854 392499004613 CapA and related proteins, metallophosphatase domain; Region: MPP_CapA; cd07381 392499004614 putative active site [active] 392499004615 putative metal binding site [ion binding]; other site 392499004616 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 392499004617 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 392499004618 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 392499004619 N-terminal plug; other site 392499004620 ligand-binding site [chemical binding]; other site 392499004621 Carboxypeptidase C (cathepsin A) [Amino acid transport and metabolism]; Region: COG2939 392499004622 Serine carboxypeptidase; Region: Peptidase_S10; cl08270 392499004623 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 392499004624 Salicylaldehyde dehydrogenase, DoxF-like; Region: ALDH_SaliADH; cd07105 392499004625 NAD(P) binding site [chemical binding]; other site 392499004626 catalytic residues [active] 392499004627 SCP: SCP-like extracellular protein domain, found in eukaryotes and prokaryotes. This family includes plant pathogenesis-related protein 1 (PR-1), which accumulates after infections with pathogens, and may act as an anti-fungal agent or be involved in...; Region: SCP; cl00133 392499004628 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 392499004629 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 392499004630 X-Prolyl Aminopeptidase 2. E.C. 3.4.11.9. Also known as X-Pro aminopeptidase, proline aminopeptidase, aminopeptidase P, and aminoacylproline aminopeptidase. Catalyses release of any N-terminal amino acid, including proline, that is linked with proline; Region: APP; cd01085 392499004631 active site 392499004632 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 392499004633 Gamma carbonic anhydrase-like: This family is composed of gamma carbonic anhydrase (CA), Ferripyochelin Binding Protein (FBP), E. coli paaY protein, and similar proteins. CAs are zinc-containing enzymes that catalyze the reversible hydration of carbon...; Region: LbH_gamma_CA_like; cd04645 392499004634 trimer interface [polypeptide binding]; other site 392499004635 putative metal binding site [ion binding]; other site 392499004636 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 392499004637 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 392499004638 Porphobilinogen synthase (PBGS), which is also called delta-aminolevulinic acid dehydratase (ALAD), catalyzes the condensation of two 5-aminolevulinic acid (ALA) molecules to form the pyrrole porphobilinogen (PBG), which is the second step in the...; Region: ALAD_PBGS_aspartate_rich; cd04823 392499004639 dimer interface [polypeptide binding]; other site 392499004640 active site 392499004641 aspartate-rich active site metal binding site; other site 392499004642 allosteric magnesium binding site [ion binding]; other site 392499004643 Schiff base residues; other site 392499004644 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 392499004645 putative lipid kinase; Reviewed; Region: PRK13057 392499004646 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 392499004647 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Bacillus subtilis yoeA; Region: MATE_yoeA_like; cd13138 392499004648 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 392499004649 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 392499004650 active site 392499004651 HIGH motif; other site 392499004652 nucleotide binding site [chemical binding]; other site 392499004653 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 392499004654 active site 392499004655 KMSKS motif; other site 392499004656 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 392499004657 tRNA binding surface [nucleotide binding]; other site 392499004658 anticodon binding site; other site 392499004659 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 392499004660 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4185 392499004661 AAA domain; Region: AAA_33; pfam13671 392499004662 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 392499004663 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 392499004664 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 392499004665 Protein of unknown function (DUF2497); Region: DUF2497; pfam10691 392499004666 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 392499004667 Methyltransferase domain; Region: Methyltransf_18; pfam12847 392499004668 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 392499004669 Histidine kinase; Region: HisKA_2; pfam07568 392499004670 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 392499004671 ATP binding site [chemical binding]; other site 392499004672 Mg2+ binding site [ion binding]; other site 392499004673 G-X-G motif; other site 392499004674 ABC-type phosphate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: PstB; COG1117 392499004675 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 392499004676 Walker A/P-loop; other site 392499004677 ATP binding site [chemical binding]; other site 392499004678 Q-loop/lid; other site 392499004679 ABC transporter signature motif; other site 392499004680 Walker B; other site 392499004681 D-loop; other site 392499004682 H-loop/switch region; other site 392499004683 phosphate ABC transporter, permease protein PstC; Region: phosphate_pstC; TIGR02138 392499004684 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 392499004685 dimer interface [polypeptide binding]; other site 392499004686 conserved gate region; other site 392499004687 putative PBP binding loops; other site 392499004688 ABC-ATPase subunit interface; other site 392499004689 phosphate transporter permease subunit PstC; Provisional; Region: pstC; PRK11275 392499004690 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 392499004691 dimer interface [polypeptide binding]; other site 392499004692 conserved gate region; other site 392499004693 putative PBP binding loops; other site 392499004694 ABC-ATPase subunit interface; other site 392499004695 PBP superfamily domain; Region: PBP_like_2; cl17296 392499004696 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 392499004697 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 392499004698 Amidohydrolase; Region: Amidohydro_4; pfam13147 392499004699 active site 392499004700 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; Region: SRPBCC_CalC_Aha1-like_3; cd08896 392499004701 putative hydrophobic ligand binding site [chemical binding]; other site 392499004702 Predicted RNA polymerase sigma factor containing a TPR repeat domain [Transcription]; Region: COG4941 392499004703 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 392499004704 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 392499004705 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3795 392499004706 Neutral sphingomyelinases (nSMase) catalyze the hydrolysis of sphingomyelin in biological membranes to ceramide and phosphorylcholine; Region: nSMase; cd09078 392499004707 putative catalytic site [active] 392499004708 metal binding site A [ion binding]; metal-binding site 392499004709 phosphate binding site [ion binding]; other site 392499004710 metal binding site C [ion binding]; metal-binding site 392499004711 metal binding site B [ion binding]; metal-binding site 392499004712 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 392499004713 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 392499004714 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 392499004715 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 392499004716 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 392499004717 bifunctional proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: PRK11904 392499004718 Proline dehydrogenase [Amino acid transport and metabolism]; Region: PutA; COG0506 392499004719 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 392499004720 Glutamate binding site [chemical binding]; other site 392499004721 NAD binding site [chemical binding]; other site 392499004722 catalytic residues [active] 392499004723 leucine-responsive transcriptional regulator; Provisional; Region: PRK11169 392499004724 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 392499004725 putative DNA binding site [nucleotide binding]; other site 392499004726 putative Zn2+ binding site [ion binding]; other site 392499004727 AsnC family; Region: AsnC_trans_reg; pfam01037 392499004728 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 392499004729 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 392499004730 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 392499004731 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 392499004732 active site 392499004733 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 392499004734 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 392499004735 DNA polymerase III subunit alpha; Reviewed; Region: PRK07373 392499004736 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 392499004737 generic binding surface II; other site 392499004738 generic binding surface I; other site 392499004739 DNA Polymerase Y-family; Region: PolY_like; cd03468 392499004740 active site 392499004741 Nucleotidyltransferase/DNA polymerase involved in DNA repair [DNA replication, recombination, and repair]; Region: DinP; COG0389 392499004742 DNA binding site [nucleotide binding] 392499004743 Uncharacterized conserved protein [Function unknown]; Region: COG4544 392499004744 Helix-Turn-Helix DNA binding domain of the MerR1 transcription regulator; Region: HTH_MerR1; cd04783 392499004745 Hg(II)-responsive transcriptional regulator; Region: MerR; TIGR02051 392499004746 DNA binding residues [nucleotide binding] 392499004747 dimer interface [polypeptide binding]; other site 392499004748 mercury binding site [ion binding]; other site 392499004749 Glutaredoxin and related proteins [Posttranslational modification, protein turnover, chaperones]; Region: GrxC; COG0695 392499004750 O-acetylserine/cysteine export protein; Provisional; Region: PRK11453 392499004751 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 392499004752 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 392499004753 metal binding site [ion binding]; metal-binding site 392499004754 active site 392499004755 I-site; other site 392499004756 bifunctional DNA-binding transcriptional dual regulator/O6-methylguanine-DNA methyltransferase; Provisional; Region: PRK15435 392499004757 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 392499004758 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 392499004759 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 392499004760 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 392499004761 DNA binding site [nucleotide binding] 392499004762 active site 392499004763 Ribose/Galactose Isomerase; Region: LacAB_rpiB; pfam02502 392499004764 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 392499004765 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 392499004766 dimer interface [polypeptide binding]; other site 392499004767 active site 392499004768 glycine-pyridoxal phosphate binding site [chemical binding]; other site 392499004769 folate binding site [chemical binding]; other site 392499004770 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 392499004771 ATP cone domain; Region: ATP-cone; pfam03477 392499004772 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 392499004773 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 392499004774 PEP-CTERM motif; Region: VPEP; pfam07589 392499004775 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 392499004776 hypothetical protein; Validated; Region: PRK08238 392499004777 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 392499004778 4-hydroxybenzoate polyprenyltransferase and related prenyltransferases [Coenzyme metabolism]; Region: UbiA; cl00337 392499004779 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 392499004780 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 392499004781 Chorismate mutase type II; Region: CM_2; cl00693 392499004782 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 392499004783 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 392499004784 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 392499004785 RNA binding surface [nucleotide binding]; other site 392499004786 Acyltransferase family; Region: Acyl_transf_3; pfam01757 392499004787 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 392499004788 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 392499004789 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 392499004790 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 392499004791 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 392499004792 HlyD family secretion protein; Region: HlyD_3; pfam13437 392499004793 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 392499004794 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 392499004795 putative substrate translocation pore; other site 392499004796 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 392499004797 Found in ATP-dependent protease La (LON); Region: LON; smart00464 392499004798 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 392499004799 Walker A motif; other site 392499004800 ATP binding site [chemical binding]; other site 392499004801 Walker B motif; other site 392499004802 arginine finger; other site 392499004803 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 392499004804 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 392499004805 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 392499004806 putative dimer interface [polypeptide binding]; other site 392499004807 Carboxylesterase type B [Lipid metabolism]; Region: PnbA; COG2272 392499004808 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 392499004809 substrate binding pocket [chemical binding]; other site 392499004810 catalytic triad [active] 392499004811 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 392499004812 FAD binding domain; Region: FAD_binding_4; pfam01565 392499004813 Transcriptional regulators [Transcription]; Region: FadR; COG2186 392499004814 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 392499004815 DNA-binding site [nucleotide binding]; DNA binding site 392499004816 FCD domain; Region: FCD; pfam07729 392499004817 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 392499004818 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 392499004819 nucleotide binding site [chemical binding]; other site 392499004820 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 392499004821 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 392499004822 HlyD family secretion protein; Region: HlyD_3; pfam13437 392499004823 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 392499004824 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 392499004825 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 392499004826 GAF domain; Region: GAF_3; pfam13492 392499004827 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 392499004828 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 392499004829 metal binding site [ion binding]; metal-binding site 392499004830 active site 392499004831 I-site; other site 392499004832 Peptidase family M1; Region: Peptidase_M1; pfam01433 392499004833 Peptidase M1 Aminopeptidase N family incudes tricorn interacting factor F3, Endoplasmic reticulum aminopeptidase 1 (ERAP1), Aminopeptidase Q (APQ); Region: M1_APN_2; cd09601 392499004834 Zn binding site [ion binding]; other site 392499004835 Domain of unknown function (DUF3358); Region: DUF3358; pfam11838 392499004836 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 392499004837 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 392499004838 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 392499004839 putative active site [active] 392499004840 putative substrate binding site [chemical binding]; other site 392499004841 putative cosubstrate binding site; other site 392499004842 catalytic site [active] 392499004843 Response regulator receiver domain; Region: Response_reg; pfam00072 392499004844 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 392499004845 active site 392499004846 phosphorylation site [posttranslational modification] 392499004847 intermolecular recognition site; other site 392499004848 dimerization interface [polypeptide binding]; other site 392499004849 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 392499004850 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 392499004851 active site 392499004852 phosphorylation site [posttranslational modification] 392499004853 intermolecular recognition site; other site 392499004854 dimerization interface [polypeptide binding]; other site 392499004855 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 392499004856 DNA binding residues [nucleotide binding] 392499004857 dimerization interface [polypeptide binding]; other site 392499004858 CHASE3 domain; Region: CHASE3; pfam05227 392499004859 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 392499004860 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 392499004861 putative active site [active] 392499004862 heme pocket [chemical binding]; other site 392499004863 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 392499004864 dimer interface [polypeptide binding]; other site 392499004865 phosphorylation site [posttranslational modification] 392499004866 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 392499004867 ATP binding site [chemical binding]; other site 392499004868 Mg2+ binding site [ion binding]; other site 392499004869 G-X-G motif; other site 392499004870 Response regulator receiver domain; Region: Response_reg; pfam00072 392499004871 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 392499004872 active site 392499004873 phosphorylation site [posttranslational modification] 392499004874 intermolecular recognition site; other site 392499004875 dimerization interface [polypeptide binding]; other site 392499004876 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 392499004877 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 392499004878 active site 392499004879 phosphorylation site [posttranslational modification] 392499004880 intermolecular recognition site; other site 392499004881 Response regulator receiver domain; Region: Response_reg; pfam00072 392499004882 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 392499004883 active site 392499004884 phosphorylation site [posttranslational modification] 392499004885 intermolecular recognition site; other site 392499004886 dimerization interface [polypeptide binding]; other site 392499004887 MG2 domain; Region: A2M_N; pfam01835 392499004888 Alpha-2-macroglobulin family N-terminal region; Region: A2M_N_2; pfam07703 392499004889 Alpha-2-macroglobulin family; Region: A2M; pfam00207 392499004890 Transglycosylase; Region: Transgly; pfam00912 392499004891 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 392499004892 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 392499004893 Penicillin-Binding Protein C-terminus Family; Region: BiPBP_C; pfam06832 392499004894 Transglutaminase-like superfamily; Region: Transglut_core2; pfam13369 392499004895 Tetratricopeptide repeat; Region: TPR_9; pfam13371 392499004896 helix_turn_helix ASNC type; Region: HTH_ASNC; smart00344 392499004897 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 392499004898 putative DNA binding site [nucleotide binding]; other site 392499004899 putative Zn2+ binding site [ion binding]; other site 392499004900 AsnC family; Region: AsnC_trans_reg; pfam01037 392499004901 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cl01629 392499004902 TPP-binding site [chemical binding]; other site 392499004903 Transketolase, C-terminal subunit [Carbohydrate transport and metabolism]; Region: COG3958 392499004904 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 392499004905 PYR/PP interface [polypeptide binding]; other site 392499004906 dimer interface [polypeptide binding]; other site 392499004907 TPP binding site [chemical binding]; other site 392499004908 Helix-turn-helix domain; Region: HTH_18; pfam12833 392499004909 pyrimidine utilization protein A; Region: RutA; TIGR03612 392499004910 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 392499004911 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 392499004912 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 392499004913 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 392499004914 substrate binding pocket [chemical binding]; other site 392499004915 catalytic triad [active] 392499004916 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 392499004917 homotrimer interaction site [polypeptide binding]; other site 392499004918 putative active site [active] 392499004919 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 392499004920 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 392499004921 ligand binding site [chemical binding]; other site 392499004922 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 392499004923 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 392499004924 dimerization interface [polypeptide binding]; other site 392499004925 putative DNA binding site [nucleotide binding]; other site 392499004926 putative Zn2+ binding site [ion binding]; other site 392499004927 AsnC family; Region: AsnC_trans_reg; pfam01037 392499004928 indolepyruvate ferredoxin oxidoreductase; Validated; Region: PRK09193 392499004929 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 392499004930 dimer interface [polypeptide binding]; other site 392499004931 PYR/PP interface [polypeptide binding]; other site 392499004932 TPP binding site [chemical binding]; other site 392499004933 substrate binding site [chemical binding]; other site 392499004934 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cl01629 392499004935 TPP-binding site [chemical binding]; other site 392499004936 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 392499004937 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 392499004938 Threonine aldolase [Amino acid transport and metabolism]; Region: GLY1; COG2008 392499004939 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 392499004940 catalytic residue [active] 392499004941 S-formylglutathione hydrolase; Region: PLN02442 392499004942 S-formylglutathione hydrolase; Region: fghA_ester_D; TIGR02821 392499004943 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 392499004944 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 392499004945 Zn-dependent alcohol dehydrogenases, class III [Energy production and conversion]; Region: AdhC; COG1062 392499004946 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 392499004947 substrate binding site [chemical binding]; other site 392499004948 catalytic Zn binding site [ion binding]; other site 392499004949 NAD binding site [chemical binding]; other site 392499004950 structural Zn binding site [ion binding]; other site 392499004951 dimer interface [polypeptide binding]; other site 392499004952 Transcriptional regulator [Transcription]; Region: LysR; COG0583 392499004953 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 392499004954 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like_1; cd08470 392499004955 putative effector binding pocket; other site 392499004956 putative dimerization interface [polypeptide binding]; other site 392499004957 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 392499004958 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; COG1282 392499004959 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 392499004960 Rubrum transdehydrogenase NAD-binding and catalytic domains; Region: Rubrum_tdh; cd05304 392499004961 NAD/NADP transhydrogenase alpha subunit [Energy production and conversion]; Region: PntA; COG3288 392499004962 ligand binding site [chemical binding]; other site 392499004963 homodimer interface [polypeptide binding]; other site 392499004964 NAD(P) binding site [chemical binding]; other site 392499004965 trimer interface B [polypeptide binding]; other site 392499004966 trimer interface A [polypeptide binding]; other site 392499004967 Bacterial aa3 type cytochrome c oxidase subunit IV; Region: COX4_pro_2; pfam07835 392499004968 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 392499004969 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 392499004970 active site 392499004971 phosphorylation site [posttranslational modification] 392499004972 intermolecular recognition site; other site 392499004973 dimerization interface [polypeptide binding]; other site 392499004974 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 392499004975 Walker A motif; other site 392499004976 ATP binding site [chemical binding]; other site 392499004977 Walker B motif; other site 392499004978 arginine finger; other site 392499004979 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 392499004980 Predicted naringenin-chalcone synthase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: BcsA; COG3424 392499004981 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 392499004982 malonyl-CoA binding site [chemical binding]; other site 392499004983 dimer interface [polypeptide binding]; other site 392499004984 active site 392499004985 product binding site; other site 392499004986 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 392499004987 Putative hydrophobic ligand-binding SRPBCC domain of Micromonospora echinospora CalC, human Aha1, and related proteins; Region: SRPBCC_CalC_Aha1-like; cd07814 392499004988 putative hydrophobic ligand binding site [chemical binding]; other site 392499004989 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 392499004990 putative DNA binding site [nucleotide binding]; other site 392499004991 putative Zn2+ binding site [ion binding]; other site 392499004992 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 392499004993 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 392499004994 N-terminal plug; other site 392499004995 ligand-binding site [chemical binding]; other site 392499004996 di-heme enzyme, MXAN_0977 family; Region: MXAN_0977_Heme2; TIGR04039 392499004997 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 392499004998 RibD C-terminal domain; Region: RibD_C; cl17279 392499004999 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 392499005000 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 392499005001 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 392499005002 dimerization interface [polypeptide binding]; other site 392499005003 CO2+/MG2+ efflux protein ApaG; Reviewed; Region: apaG; PRK05461 392499005004 O-succinylhomoserine sulfhydrylase; Reviewed; Region: PRK07504 392499005005 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 392499005006 homodimer interface [polypeptide binding]; other site 392499005007 substrate-cofactor binding pocket; other site 392499005008 pyridoxal 5'-phosphate binding site [chemical binding]; other site 392499005009 catalytic residue [active] 392499005010 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 392499005011 catalytic residues [active] 392499005012 dimer interface [polypeptide binding]; other site 392499005013 superfamily containing globins and truncated hemoglobins; Region: globin_like; cl00280 392499005014 heme-binding site [chemical binding]; other site 392499005015 nucleotide sugar dehydrogenase; Region: NDP-sugDHase; TIGR03026 392499005016 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 392499005017 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 392499005018 Vi polysaccharide biosynthesis protein TviC; Provisional; Region: PRK15181 392499005019 UDP-N-acetylglucosamine 4-epimerase, extended (e) SDRs; Region: UDP_AE_SDR_e; cd05256 392499005020 NAD binding site [chemical binding]; other site 392499005021 substrate binding site [chemical binding]; other site 392499005022 homodimer interface [polypeptide binding]; other site 392499005023 active site 392499005024 Peptidylarginine deiminase and related enzymes [Amino acid transport and metabolism]; Region: COG2957; cl01113 392499005025 Porphyromonas-type peptidyl-arginine deiminase; Region: PAD_porph; pfam04371 392499005026 N-carbamoylputrescine amidohydrolase (CPA) (class 11 nitrilases); Region: CPA; cd07573 392499005027 N-carbamoylputrescine amidase; Region: agmatine_aguB; TIGR03381 392499005028 putative active site; other site 392499005029 catalytic triad [active] 392499005030 putative dimer interface [polypeptide binding]; other site 392499005031 Antibiotic biosynthesis monooxygenase; Region: ABM; pfam03992 392499005032 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 392499005033 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 392499005034 muropeptide transporter; Validated; Region: ampG; cl17669 392499005035 muropeptide transporter; Reviewed; Region: ampG; PRK11902 392499005036 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 392499005037 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 392499005038 dimer interface [polypeptide binding]; other site 392499005039 pyridoxal 5'-phosphate binding site [chemical binding]; other site 392499005040 catalytic residue [active] 392499005041 enterobactin exporter EntS; Provisional; Region: PRK10489 392499005042 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 392499005043 putative substrate translocation pore; other site 392499005044 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 392499005045 Family description; Region: UvrD_C_2; pfam13538 392499005046 Protein of unknown function (DUF497); Region: DUF497; pfam04365 392499005047 Domain of unknown function (DUF4415); Region: DUF4415; pfam14384 392499005048 7,8-dihydro-6-hydroxymethylpterin-pyrophosphokinase [Coenzyme metabolism]; Region: FolK; COG0801 392499005049 catalytic center binding site [active] 392499005050 ATP binding site [chemical binding]; other site 392499005051 Protein of unknown function (DUF3897); Region: DUF3897; pfam13036 392499005052 Family-5 Uracil-DNA glycosylases (UDG), found in thermophilic organisms; Region: UDG_F5_TTUDGB_like; cd10031 392499005053 Fe-S cluster binding site [ion binding]; other site 392499005054 DNA binding site [nucleotide binding] 392499005055 active site 392499005056 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 392499005057 Septum formation initiator; Region: DivIC; cl17659 392499005058 RelB antitoxin; Region: RelB; cl01171 392499005059 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_y; TIGR03182 392499005060 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 392499005061 tetramer interface [polypeptide binding]; other site 392499005062 TPP-binding site [chemical binding]; other site 392499005063 heterodimer interface [polypeptide binding]; other site 392499005064 phosphorylation loop region [posttranslational modification] 392499005065 pyruvate dehydrogenase subunit beta; Provisional; Region: PRK11892 392499005066 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 392499005067 E3 interaction surface; other site 392499005068 lipoyl attachment site [posttranslational modification]; other site 392499005069 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 392499005070 alpha subunit interface [polypeptide binding]; other site 392499005071 TPP binding site [chemical binding]; other site 392499005072 heterodimer interface [polypeptide binding]; other site 392499005073 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 392499005074 Response regulator receiver domain; Region: Response_reg; pfam00072 392499005075 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 392499005076 active site 392499005077 phosphorylation site [posttranslational modification] 392499005078 intermolecular recognition site; other site 392499005079 dimerization interface [polypeptide binding]; other site 392499005080 EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to...; Region: EFh; cd00051 392499005081 EF-hand domain pair; Region: EF_hand_5; pfam13499 392499005082 Ca2+ binding site [ion binding]; other site 392499005083 EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to...; Region: EFh; cl17302 392499005084 Ca2+ binding site [ion binding]; other site 392499005085 Uncharacterized conserved protein [Function unknown]; Region: COG1565 392499005086 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 392499005087 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 392499005088 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 392499005089 FecR protein; Region: FecR; pfam04773 392499005090 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 392499005091 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 392499005092 ligand binding site [chemical binding]; other site 392499005093 CHASE2 domain; Region: CHASE2; pfam05226 392499005094 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 392499005095 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 392499005096 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 392499005097 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 392499005098 anti sigma factor interaction site; other site 392499005099 regulatory phosphorylation site [posttranslational modification]; other site 392499005100 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 392499005101 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 392499005102 catalytic triad [active] 392499005103 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 392499005104 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 392499005105 FMN binding site [chemical binding]; other site 392499005106 substrate binding site [chemical binding]; other site 392499005107 putative catalytic residue [active] 392499005108 sugar transferase, PEP-CTERM/EpsH1 system associated; Region: stp2; TIGR03088 392499005109 This family is most closely related to the GT1 family of glycosyltransferases. WabH in Klebsiella pneumoniae has been shown to transfer a GlcNAc residue from UDP-GlcNAc onto the acceptor GalUA residue in the cellular outer core; Region: GT1_WabH_like; cd03811 392499005110 putative ADP-binding pocket [chemical binding]; other site 392499005111 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 392499005112 hypothetical protein; Validated; Region: PRK00029 392499005113 Uncharacterized conserved protein [Function unknown]; Region: COG0397 392499005114 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 392499005115 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 392499005116 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 392499005117 DNA binding site [nucleotide binding] 392499005118 active site 392499005119 chaperone protein DnaJ; Provisional; Region: PRK10767 392499005120 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 392499005121 HSP70 interaction site [polypeptide binding]; other site 392499005122 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 392499005123 substrate binding site [polypeptide binding]; other site 392499005124 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 392499005125 Zn binding sites [ion binding]; other site 392499005126 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 392499005127 dimer interface [polypeptide binding]; other site 392499005128 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 392499005129 Nucleotide-binding domain of human HSPA9, Escherichia coli DnaK, and similar proteins; Region: HSPA9-like_NBD; cd11733 392499005130 nucleotide binding site [chemical binding]; other site 392499005131 NEF interaction site [polypeptide binding]; other site 392499005132 SBD interface [polypeptide binding]; other site 392499005133 Protein of unknown function (DUF461); Region: DUF461; pfam04314 392499005134 Sulfotransferase domain; Region: Sulfotransfer_1; pfam00685 392499005135 GrpE; Region: GrpE; pfam01025 392499005136 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 392499005137 dimer interface [polypeptide binding]; other site 392499005138 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 392499005139 8-amino-7-oxononanoate synthase; Reviewed; Region: PRK05958 392499005140 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 392499005141 catalytic residue [active] 392499005142 AAA domain; Region: AAA_26; pfam13500 392499005143 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 392499005144 adenosylmethionine--8-amino-7-oxononanoate transaminase; Provisional; Region: PRK05964 392499005145 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 392499005146 inhibitor-cofactor binding pocket; inhibition site 392499005147 pyridoxal 5'-phosphate binding site [chemical binding]; other site 392499005148 catalytic residue [active] 392499005149 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 392499005150 N-acetyl-D-glucosamine binding site [chemical binding]; other site 392499005151 catalytic residue [active] 392499005152 flagellar motor protein MotB; Validated; Region: motB; PRK09041 392499005153 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 392499005154 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 392499005155 ligand binding site [chemical binding]; other site 392499005156 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 392499005157 flagellar motor protein MotA; Validated; Region: PRK09110 392499005158 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 392499005159 flagellar hook-associated protein 3; Region: flagell_flgL; TIGR02550 392499005160 flagellar hook-associated protein FlgK; Region: flgK_ends; TIGR02492 392499005161 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 392499005162 Rod binding protein; Region: Rod-binding; cl01626 392499005163 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 392499005164 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 392499005165 Flagellar L-ring protein; Region: FlgH; pfam02107 392499005166 flagellar basal body rod protein FlgG; Reviewed; Region: flgG; PRK12691 392499005167 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 392499005168 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 392499005169 flagellar basal body rod protein FlgF; Reviewed; Region: flgF; PRK12640 392499005170 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 392499005171 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 392499005172 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 392499005173 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 392499005174 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 392499005175 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 392499005176 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 392499005177 flagellar basal-body rod protein FlgC; Region: FlgC; TIGR01395 392499005178 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 392499005179 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK05680 392499005180 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK07182 392499005181 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 392499005182 Domains similar to fish antifreeze type III protein; Region: SAF; cl00555 392499005183 Anti-sigma-28 factor, FlgM; Region: FlgM; pfam04316 392499005184 EamA-like transporter family; Region: EamA; pfam00892 392499005185 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 392499005186 EamA-like transporter family; Region: EamA; pfam00892 392499005187 O-acetylhomoserine sulfhydrylase [Amino acid transport and metabolism]; Region: MET17; COG2873 392499005188 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 392499005189 homodimer interface [polypeptide binding]; other site 392499005190 substrate-cofactor binding pocket; other site 392499005191 pyridoxal 5'-phosphate binding site [chemical binding]; other site 392499005192 catalytic residue [active] 392499005193 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 392499005194 FHIPEP family; Region: FHIPEP; pfam00771 392499005195 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 392499005196 FleN is a member of the Fer4_NifH superfamily. It shares the common function as an ATPase, with the ATP-binding domain at the N-terminus. In Pseudomonas aeruginosa, FleN gene is involved in regulating the number of flagella and chemotactic motility by...; Region: FleN-like; cd02038 392499005197 P-loop; other site 392499005198 RNA polymerase sigma factor, FliA/WhiG family; Region: FliA_WhiG; TIGR02479 392499005199 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 392499005200 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 392499005201 DNA binding residues [nucleotide binding] 392499005202 flagellin; Provisional; Region: PRK12802 392499005203 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 392499005204 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 392499005205 flagellin; Provisional; Region: PRK12802 392499005206 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 392499005207 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 392499005208 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 392499005209 Walker B motif; other site 392499005210 arginine finger; other site 392499005211 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 392499005212 Flagellar hook-basal body complex protein FliE; Region: FliE; pfam02049 392499005213 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 392499005214 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 392499005215 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 392499005216 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 392499005217 MgtE intracellular N domain; Region: MgtE_N; smart00924 392499005218 FliG C-terminal domain; Region: FliG_C; pfam01706 392499005219 flagellar assembly protein H; Validated; Region: fliH; PRK05687 392499005220 Flagellar assembly protein FliH; Region: FliH; pfam02108 392499005221 flagellar protein export ATPase FliI; Region: FliI_clade1; TIGR03496 392499005222 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 392499005223 Walker A motif; other site 392499005224 ATP binding site [chemical binding]; other site 392499005225 Walker B motif; other site 392499005226 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 392499005227 Flagellar basal body-associated protein FliL; Region: FliL; pfam03748 392499005228 Protein of unknown function (DUF3175); Region: DUF3175; pfam11373 392499005229 dihydrolipoamide dehydrogenase; Validated; Region: PRK06327 392499005230 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; cl17730 392499005231 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 392499005232 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 392499005233 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 392499005234 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 392499005235 E3 interaction surface; other site 392499005236 lipoyl attachment site [posttranslational modification]; other site 392499005237 e3 binding domain; Region: E3_binding; pfam02817 392499005238 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 392499005239 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 392499005240 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 392499005241 TPP-binding site [chemical binding]; other site 392499005242 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 392499005243 dimer interface [polypeptide binding]; other site 392499005244 PYR/PP interface [polypeptide binding]; other site 392499005245 TPP binding site [chemical binding]; other site 392499005246 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 392499005247 CoA binding domain; Region: CoA_binding; smart00881 392499005248 CoA-ligase; Region: Ligase_CoA; pfam00549 392499005249 malate dehydrogenase; Reviewed; Region: PRK06223 392499005250 L-lactate dehydrogenase-like malate dehydrogenase proteins; Region: LDH-like_MDH; cd01339 392499005251 NAD(P) binding site [chemical binding]; other site 392499005252 dimer interface [polypeptide binding]; other site 392499005253 tetramer (dimer of dimers) interface [polypeptide binding]; other site 392499005254 substrate binding site [chemical binding]; other site 392499005255 Tetratricopeptide repeat; Region: TPR_12; pfam13424 392499005256 Tetratricopeptide repeat; Region: TPR_12; pfam13424 392499005257 CHAT domain; Region: CHAT; pfam12770 392499005258 Predicted ATPase [General function prediction only]; Region: COG1485 392499005259 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 392499005260 CoenzymeA binding site [chemical binding]; other site 392499005261 subunit interaction site [polypeptide binding]; other site 392499005262 PHB binding site; other site 392499005263 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 392499005264 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 392499005265 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 392499005266 Diadenosine tetraphosphate (Ap4A) hydrolase and other HIT family hydrolases [Nucleotide transport and metabolism / Carbohydrate transport and metabolism / General function prediction only]; Region: Hit; COG0537 392499005267 HIT family signature motif; other site 392499005268 catalytic residue [active] 392499005269 Phosphocholine cytidylyltransferases catalyze the synthesis of CDP-choline; Region: PC_cytidylyltransferase; cd02523 392499005270 active site 392499005271 metal-binding site 392499005272 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK09078 392499005273 L-aspartate oxidase; Provisional; Region: PRK06175 392499005274 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 392499005275 Succinate:quinone oxidoreductase (SQR) Type C subfamily, Succinate dehydrogenase D (SdhD) subunit-like; composed of predominantly uncharacterized bacterial proteins with similarity to the E. coli SdhD subunit. One characterized protein is the respiratory...; Region: SQR_TypeC_SdhD_like; cd03495 392499005276 putative SdhC subunit interface [polypeptide binding]; other site 392499005277 putative proximal heme binding site [chemical binding]; other site 392499005278 putative Iron-sulfur protein interface [polypeptide binding]; other site 392499005279 putative proximal quinone binding site; other site 392499005280 Succinate:quinone oxidoreductase (SQR) Type C subfamily, Succinate dehydrogenase C (SdhC) subunit; composed of bacterial SdhC and eukaryotic large cytochrome b binding (CybL) proteins. SQR catalyzes the oxidation of succinate to fumarate coupled to the...; Region: SQR_TypeC_SdhC; cd03499 392499005281 Iron-sulfur protein interface; other site 392499005282 proximal quinone binding site [chemical binding]; other site 392499005283 SdhD (CybS) interface [polypeptide binding]; other site 392499005284 proximal heme binding site [chemical binding]; other site 392499005285 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 392499005286 dimer interface [polypeptide binding]; other site 392499005287 putative CheW interface [polypeptide binding]; other site 392499005288 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 392499005289 classical (c) SDRs; Region: SDR_c; cd05233 392499005290 NAD(P) binding site [chemical binding]; other site 392499005291 active site 392499005292 Ribosomal protein L11 methylase [Translation, ribosomal structure and biogenesis]; Region: PrmA; COG2264 392499005293 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 392499005294 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 392499005295 S-adenosylmethionine binding site [chemical binding]; other site 392499005296 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 392499005297 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 392499005298 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 392499005299 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 392499005300 metal binding site [ion binding]; metal-binding site 392499005301 active site 392499005302 I-site; other site 392499005303 EVE domain; Region: EVE; pfam01878 392499005304 Antitoxin of toxin-antitoxin stability system [Cell division and chromosome partitioning]; Region: Phd; COG4118 392499005305 PIN domain of the hypothetical protein MT3492 of Mycobacterium tuberculosis CDC1551 and other uncharacterized, annotated PilT protein domain proteins; Region: PIN_MT3492; cd09874 392499005306 putative active site [active] 392499005307 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3795 392499005308 GMP synthase; Reviewed; Region: guaA; PRK00074 392499005309 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 392499005310 AMP/PPi binding site [chemical binding]; other site 392499005311 candidate oxyanion hole; other site 392499005312 catalytic triad [active] 392499005313 potential glutamine specificity residues [chemical binding]; other site 392499005314 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 392499005315 ATP Binding subdomain [chemical binding]; other site 392499005316 Ligand Binding sites [chemical binding]; other site 392499005317 Dimerization subdomain; other site 392499005318 coenzyme F420-reducing hydrogenase subunit beta; Validated; Region: PRK09325 392499005319 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 392499005320 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 392499005321 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 392499005322 Trp docking motif [polypeptide binding]; other site 392499005323 active site 392499005324 PQQ-like domain; Region: PQQ_2; pfam13360 392499005325 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 392499005326 Serine proteases of the peptidase family S9A [Amino acid transport and metabolism]; Region: COG1505 392499005327 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 392499005328 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 392499005329 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 392499005330 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 392499005331 alphaNTD - beta interaction site [polypeptide binding]; other site 392499005332 alphaNTD homodimer interface [polypeptide binding]; other site 392499005333 alphaNTD - beta' interaction site [polypeptide binding]; other site 392499005334 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 392499005335 30S ribosomal protein S11; Validated; Region: PRK05309 392499005336 Ribosomal protein S13 [Translation, ribosomal structure and biogenesis]; Region: RpsM; COG0099 392499005337 30S ribosomal protein S13; Region: bact_S13; TIGR03631 392499005338 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 392499005339 glutamate dehydrogenase; Provisional; Region: PRK09414 392499005340 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 392499005341 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 392499005342 NAD(P) binding site [chemical binding]; other site 392499005343 adenylate kinase; Reviewed; Region: adk; PRK00279 392499005344 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 392499005345 AMP-binding site [chemical binding]; other site 392499005346 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 392499005347 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 392499005348 SecY translocase; Region: SecY; pfam00344 392499005349 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 392499005350 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 392499005351 23S rRNA binding site [nucleotide binding]; other site 392499005352 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 392499005353 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 392499005354 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 392499005355 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 392499005356 5S rRNA interface [nucleotide binding]; other site 392499005357 23S rRNA interface [nucleotide binding]; other site 392499005358 L5 interface [polypeptide binding]; other site 392499005359 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 392499005360 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 392499005361 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 392499005362 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 392499005363 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 392499005364 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 392499005365 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 392499005366 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 392499005367 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 392499005368 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 392499005369 RNA binding site [nucleotide binding]; other site 392499005370 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 392499005371 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 392499005372 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 392499005373 23S rRNA interface [nucleotide binding]; other site 392499005374 putative translocon interaction site; other site 392499005375 signal recognition particle (SRP54) interaction site; other site 392499005376 L23 interface [polypeptide binding]; other site 392499005377 trigger factor interaction site; other site 392499005378 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 392499005379 23S rRNA interface [nucleotide binding]; other site 392499005380 5S rRNA interface [nucleotide binding]; other site 392499005381 putative antibiotic binding site [chemical binding]; other site 392499005382 L25 interface [polypeptide binding]; other site 392499005383 L27 interface [polypeptide binding]; other site 392499005384 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 392499005385 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 392499005386 G-X-X-G motif; other site 392499005387 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 392499005388 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 392499005389 putative translocon binding site; other site 392499005390 protein-rRNA interface [nucleotide binding]; other site 392499005391 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 392499005392 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 392499005393 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 392499005394 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 392499005395 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 392499005396 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 392499005397 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 392499005398 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 392499005399 elongation factor Tu; Reviewed; Region: PRK00049 392499005400 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 392499005401 G1 box; other site 392499005402 GEF interaction site [polypeptide binding]; other site 392499005403 GTP/Mg2+ binding site [chemical binding]; other site 392499005404 Switch I region; other site 392499005405 G2 box; other site 392499005406 G3 box; other site 392499005407 Switch II region; other site 392499005408 G4 box; other site 392499005409 G5 box; other site 392499005410 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 392499005411 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 392499005412 Antibiotic Binding Site [chemical binding]; other site 392499005413 elongation factor G; Reviewed; Region: PRK00007 392499005414 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 392499005415 G1 box; other site 392499005416 putative GEF interaction site [polypeptide binding]; other site 392499005417 GTP/Mg2+ binding site [chemical binding]; other site 392499005418 Switch I region; other site 392499005419 G2 box; other site 392499005420 G3 box; other site 392499005421 Switch II region; other site 392499005422 G4 box; other site 392499005423 G5 box; other site 392499005424 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 392499005425 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 392499005426 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 392499005427 30S ribosomal protein S7; Validated; Region: PRK05302 392499005428 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 392499005429 S17 interaction site [polypeptide binding]; other site 392499005430 S8 interaction site; other site 392499005431 16S rRNA interaction site [nucleotide binding]; other site 392499005432 streptomycin interaction site [chemical binding]; other site 392499005433 23S rRNA interaction site [nucleotide binding]; other site 392499005434 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 392499005435 Uncharacterized protein involved in tolerance to divalent cations [Inorganic ion transport and metabolism]; Region: CutA; COG1324 392499005436 Cation efflux family; Region: Cation_efflux; pfam01545 392499005437 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 392499005438 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 392499005439 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 392499005440 L,D-transpeptidase catalytic domain; Region: YkuD_2; pfam13645 392499005441 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 392499005442 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 392499005443 Domain of unknown function (DUF1971); Region: DUF1971; cl17717 392499005444 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06416 392499005445 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 392499005446 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 392499005447 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 392499005448 Brown fat-inducible thioesterase (BFIT). Brain acyl-CoA hydrolase (BACH). These enzymes deacylate long-chain fatty acids by hydrolyzing acyl-CoA thioesters to free fatty acids and CoA-SH. Eukaryotic members of this family are expressed in brain, testis; Region: BFIT_BACH; cd03442 392499005449 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 392499005450 pyruvate dehydrogenase complex dihydrolipoamide acetyltransferase, long form; Region: PDHac_trf_mito; TIGR01349 392499005451 E3 interaction surface; other site 392499005452 lipoyl attachment site [posttranslational modification]; other site 392499005453 e3 binding domain; Region: E3_binding; pfam02817 392499005454 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 392499005455 Protein of unknown function DUF86; Region: DUF86; cl01031 392499005456 GAF domain-containing protein [Signal transduction mechanisms]; Region: COG1956 392499005457 GAF domain; Region: GAF_2; pfam13185 392499005458 Protein of unknown function with HXXEE motif; Region: HXXEE; pfam13787 392499005459 Protein chain release factor B [Translation, ribosomal structure and biogenesis]; Region: PrfB; COG1186 392499005460 hypothetical protein; Provisional; Region: PRK09256 392499005461 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 392499005462 NADP binding site [chemical binding]; other site 392499005463 active site 392499005464 steroid binding site; other site 392499005465 Cupin; Region: Cupin_6; pfam12852 392499005466 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 392499005467 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 392499005468 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 392499005469 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 392499005470 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 392499005471 active site 392499005472 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 392499005473 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 392499005474 5S rRNA interface [nucleotide binding]; other site 392499005475 CTC domain interface [polypeptide binding]; other site 392499005476 L16 interface [polypeptide binding]; other site 392499005477 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 392499005478 putative active site [active] 392499005479 catalytic residue [active] 392499005480 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 392499005481 dimer interface [polypeptide binding]; other site 392499005482 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 392499005483 Tetratricopeptide repeat; Region: TPR_12; pfam13424 392499005484 CHAT domain; Region: CHAT; pfam12770 392499005485 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 392499005486 TPR motif; other site 392499005487 Protein of unknown function (DUF560); Region: DUF560; pfam04575 392499005488 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 392499005489 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 392499005490 active site 392499005491 phosphorylation site [posttranslational modification] 392499005492 intermolecular recognition site; other site 392499005493 dimerization interface [polypeptide binding]; other site 392499005494 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 392499005495 DNA binding site [nucleotide binding] 392499005496 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 392499005497 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 392499005498 dimerization interface [polypeptide binding]; other site 392499005499 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 392499005500 ATP binding site [chemical binding]; other site 392499005501 Mg2+ binding site [ion binding]; other site 392499005502 G-X-G motif; other site 392499005503 GTP-binding protein YchF; Reviewed; Region: PRK09601 392499005504 YchF GTPase; Region: YchF; cd01900 392499005505 G1 box; other site 392499005506 GTP/Mg2+ binding site [chemical binding]; other site 392499005507 Switch I region; other site 392499005508 G2 box; other site 392499005509 Switch II region; other site 392499005510 G3 box; other site 392499005511 G4 box; other site 392499005512 G5 box; other site 392499005513 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 392499005514 YdeM is a Bacillus subtilis protein that belongs to a family of prokaryotic proteins of unkown function. YdeM has sequence similarity to the hot-dog fold of (R)-specific enoyl-CoA hydratase. Other enzymes with this fold include the peroxisomal...; Region: YdeM; cd03454 392499005515 putative active site [active] 392499005516 putative catalytic site [active] 392499005517 Protein of unknown function (DUF805); Region: DUF805; pfam05656 392499005518 Repair protein; Region: Repair_PSII; pfam04536 392499005519 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 392499005520 Cytochrome C1 family; Region: Cytochrom_C1; pfam02167 392499005521 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cd00284 392499005522 cytochrome b; Provisional; Region: CYTB; MTH00156 392499005523 interchain domain interface [polypeptide binding]; other site 392499005524 intrachain domain interface; other site 392499005525 heme bH binding site [chemical binding]; other site 392499005526 Qi binding site; other site 392499005527 heme bL binding site [chemical binding]; other site 392499005528 Qo binding site; other site 392499005529 Cytochrome b(C-terminus)/b6/petD: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: cytochrome_b_C; cd00290 392499005530 interchain domain interface [polypeptide binding]; other site 392499005531 intrachain domain interface; other site 392499005532 Qi binding site; other site 392499005533 Qo binding site; other site 392499005534 Ubiquitinol-cytochrome C reductase Fe-S subunit TAT signal; Region: UCR_Fe-S_N; pfam10399 392499005535 ubiquinol-cytochrome c reductase, iron-sulfur subunit; Region: Rieske_proteo; TIGR01416 392499005536 Iron-sulfur protein (ISP) component of the bc(1) complex family, Rieske domain; The Rieske domain is a [2Fe-2S] cluster binding domain involved in electron transfer. The bc(1) complex is a multisubunit enzyme found in many different organisms including...; Region: Rieske_cytochrome_bc1; cd03470 392499005537 [2Fe-2S] cluster binding site [ion binding]; other site 392499005538 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 392499005539 coproporphyrinogen III oxidase; Provisional; Region: PRK05330 392499005540 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; cl17752 392499005541 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 392499005542 Acetyltransferase (GNAT) domain; Region: Acetyltransf_7; pfam13508 392499005543 Coenzyme A binding pocket [chemical binding]; other site 392499005544 lipoate-protein ligase B; Provisional; Region: PRK14341 392499005545 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 392499005546 putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE; Region: rSAM_QueE_Ecoli; TIGR04322 392499005547 ExsB is a transcription regulator related protein. It is a subfamily of a Adenosine nucleotide binding superfamily of proteins. This protein family is represented by a single member in nearly every completed large (> 1000 genes) prokaryotic genome. In...; Region: ExsB; cd01995 392499005548 Ligand Binding Site [chemical binding]; other site 392499005549 Predicted proteasome-type protease [Posttranslational modification, protein turnover, chaperones]; Region: COG3484 392499005550 The Ntn hydrolases (N-terminal nucleophile) are a diverse superfamily of of enzymes that are activated autocatalytically via an N-terminally lcated nucleophilic amino acid. N-terminal nucleophile (NTN-) hydrolase superfamily, which contains a...; Region: Ntn_hydrolase; cl00467 392499005551 active site 392499005552 Heat shock protein 33 (Hsp33): Cytosolic protein that acts as a molecular chaperone under oxidative conditions. In normal (reducing) cytosolic conditions, four conserved Cys residues are coordinated by a Zn ion. Under oxidative stress (such as heat...; Region: Hsp33; cd00498 392499005553 dimerization interface [polypeptide binding]; other site 392499005554 domain crossover interface; other site 392499005555 redox-dependent activation switch; other site 392499005556 ornithine carbamoyltransferase; Provisional; Region: PRK00779 392499005557 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 392499005558 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 392499005559 acetylornithine transaminase protein; Provisional; Region: argD; PRK01278 392499005560 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 392499005561 inhibitor-cofactor binding pocket; inhibition site 392499005562 pyridoxal 5'-phosphate binding site [chemical binding]; other site 392499005563 catalytic residue [active] 392499005564 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 392499005565 Coenzyme A binding pocket [chemical binding]; other site 392499005566 Calcium/calmodulin dependent protein kinase II Association; Region: CaMKII_AD; cl17504 392499005567 Uncharacterized conserved protein [Function unknown]; Region: COG3791 392499005568 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 392499005569 Threonine synthase catalyzes the final step of threonine biosynthesis. The conversion of O-phosphohomoserine into threonine and inorganic phosphate is pyridoxal 5'-phosphate dependent. The Thr-synth_1 CD includes members from higher plants; Region: Thr-synth_2; cd01560 392499005570 pyridoxal 5'-phosphate binding site [chemical binding]; other site 392499005571 catalytic residue [active] 392499005572 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 392499005573 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 392499005574 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 392499005575 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 392499005576 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 392499005577 S-adenosylmethionine binding site [chemical binding]; other site 392499005578 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 392499005579 PCD_DCoH: The bifunctional protein pterin-4alpha-carbinolamine dehydratase (PCD), also known as DCoH (dimerization cofactor of hepatocyte nuclear factor-1), is both a transcription activator and a metabolic enzyme. DCoH stimulates gene expression by...; Region: PCD_DCoH_subfamily_b; cd00914 392499005580 aromatic arch; other site 392499005581 DCoH dimer interaction site [polypeptide binding]; other site 392499005582 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 392499005583 DCoH tetramer interaction site [polypeptide binding]; other site 392499005584 substrate binding site [chemical binding]; other site 392499005585 Minimal MMP-like domain found in Acidothermus cellulolyticus hypothetical protein ACEL2062 and similar protein; Region: MMP_ACEL2062; cd12952 392499005586 cytochrome c biogenesis protein CcmA; Provisional; Region: PRK13539 392499005587 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 392499005588 Walker A/P-loop; other site 392499005589 ATP binding site [chemical binding]; other site 392499005590 ABC transporter signature motif; other site 392499005591 Walker B; other site 392499005592 D-loop; other site 392499005593 H-loop/switch region; other site 392499005594 CcmB protein; Region: CcmB; cl17444 392499005595 Protease II [Amino acid transport and metabolism]; Region: PtrB; COG1770 392499005596 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 392499005597 Predicted amino acid aldolase or racemase [Amino acid transport and metabolism]; Region: COG3616 392499005598 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Bacterial Cryptic D-Serine Dehydratase; Region: PLPDE_III_cryptic_DSD; cd06818 392499005599 dimer interface [polypeptide binding]; other site 392499005600 active site 392499005601 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 392499005602 substrate binding site [chemical binding]; other site 392499005603 catalytic residue [active] 392499005604 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 392499005605 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 392499005606 NAD(P) binding site [chemical binding]; other site 392499005607 active site 392499005608 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 392499005609 putative substrate translocation pore; other site 392499005610 Uncharacterized conserved protein [Function unknown]; Region: COG5476 392499005611 Protein of unknown function (DUF1485); Region: DUF1485; pfam07364 392499005612 MlrC C-terminus; Region: MlrC_C; pfam07171 392499005613 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 392499005614 hydroxyglutarate oxidase; Provisional; Region: PRK11728 392499005615 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 392499005616 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 392499005617 non-specific DNA binding site [nucleotide binding]; other site 392499005618 salt bridge; other site 392499005619 sequence-specific DNA binding site [nucleotide binding]; other site 392499005620 Cupin domain; Region: Cupin_2; pfam07883 392499005621 SnoaL-like domain; Region: SnoaL_4; pfam13577 392499005622 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 392499005623 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 392499005624 DNA binding residues [nucleotide binding] 392499005625 dimerization interface [polypeptide binding]; other site 392499005626 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; cl08040 392499005627 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 392499005628 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2258 392499005629 MOSC domain; Region: MOSC; pfam03473 392499005630 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 392499005631 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 392499005632 FAD binding pocket [chemical binding]; other site 392499005633 FAD binding motif [chemical binding]; other site 392499005634 phosphate binding motif [ion binding]; other site 392499005635 beta-alpha-beta structure motif; other site 392499005636 NAD binding pocket [chemical binding]; other site 392499005637 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 392499005638 catalytic loop [active] 392499005639 iron binding site [ion binding]; other site 392499005640 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 392499005641 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 392499005642 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 392499005643 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 392499005644 N-terminal plug; other site 392499005645 ligand-binding site [chemical binding]; other site 392499005646 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 392499005647 GST_N family, Saccharomyces cerevisiae GTT2-like subfamily; composed of predominantly uncharacterized proteins with similarity to the S. cerevisiae GST protein, GTT2. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing...; Region: GST_N_GTT2_like; cd03051 392499005648 putative C-terminal domain interface [polypeptide binding]; other site 392499005649 putative GSH binding site (G-site) [chemical binding]; other site 392499005650 putative dimer interface [polypeptide binding]; other site 392499005651 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 392499005652 N-terminal domain interface [polypeptide binding]; other site 392499005653 dimer interface [polypeptide binding]; other site 392499005654 substrate binding pocket (H-site) [chemical binding]; other site 392499005655 2-polyprenyl-6-methoxyphenol hydroxylase and related FAD-dependent oxidoreductases [Coenzyme metabolism / Energy production and conversion]; Region: UbiH; COG0654 392499005656 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 392499005657 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 392499005658 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 392499005659 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 392499005660 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 392499005661 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 392499005662 PQQ-dependent dehydrogenase, methanol/ethanol family; Region: PQQ_enz_alc_DH; TIGR03075 392499005663 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 392499005664 Trp docking motif [polypeptide binding]; other site 392499005665 active site 392499005666 Glutathione-dependent formaldehyde dehydrogenase related proteins, child 2; Region: FDH_like_2; cd08284 392499005667 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 392499005668 catalytic Zn binding site [ion binding]; other site 392499005669 NAD(P) binding site [chemical binding]; other site 392499005670 structural Zn binding site [ion binding]; other site 392499005671 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 392499005672 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 392499005673 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 392499005674 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 392499005675 probable oxidoreductase, LLM family; Region: LLM_2I7G; TIGR03858 392499005676 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 392499005677 probable oxidoreductase, LLM family; Region: LLM_2I7G; TIGR03858 392499005678 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 392499005679 TAP-like protein; Region: Abhydrolase_4; pfam08386 392499005680 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 392499005681 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 392499005682 DNA binding residues [nucleotide binding] 392499005683 dimerization interface [polypeptide binding]; other site 392499005684 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 392499005685 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 392499005686 substrate binding pocket [chemical binding]; other site 392499005687 AMP-binding domain protein; Validated; Region: PRK08315 392499005688 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 392499005689 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_2; cd05917 392499005690 acyl-activating enzyme (AAE) consensus motif; other site 392499005691 putative AMP binding site [chemical binding]; other site 392499005692 putative active site [active] 392499005693 putative CoA binding site [chemical binding]; other site 392499005694 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 392499005695 phenylacetate-CoA ligase; Region: PA_CoA_ligase; TIGR02155 392499005696 acyl-activating enzyme (AAE) consensus motif; other site 392499005697 AMP binding site [chemical binding]; other site 392499005698 active site 392499005699 CoA binding site [chemical binding]; other site 392499005700 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 392499005701 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 392499005702 Transcriptional regulators RcnR and FrmR, and related domains; this domain family was previously known as part of DUF156; Region: RcnR-FrmR-like_DUF156; cd10153 392499005703 putative metal binding site [ion binding]; other site 392499005704 putative homodimer interface [polypeptide binding]; other site 392499005705 putative homotetramer interface [polypeptide binding]; other site 392499005706 putative homodimer-homodimer interface [polypeptide binding]; other site 392499005707 putative allosteric switch controlling residues; other site 392499005708 Preprotein translocase subunit; Region: YajC; pfam02699 392499005709 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 392499005710 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 392499005711 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 392499005712 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 392499005713 Protein export membrane protein; Region: SecD_SecF; pfam02355 392499005714 Xcc1710_like family, specific to proteobacteria. Xcc1710 is a hypothetical protein from Xanthomonas campestris pv. campestris str. ATCC 33913, similar to Mth938, a hypothetical protein encoded by the Methanobacterium thermoautotrophicum (Mth) genome; Region: Xcc1710_like; cd05560 392499005715 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 392499005716 This family is most closely related to the GT1 family of glycosyltransferases. wlbH in Bordetella parapertussis has been shown to be required for the biosynthesis of a trisaccharide that, when attached to the B. pertussis lipopolysaccharide (LPS) core; Region: GT1_wlbH_like; cd03798 392499005717 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 392499005718 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 392499005719 binding surface 392499005720 TPR motif; other site 392499005721 flagellar motor switch protein FliM; Region: fliM_switch; TIGR01397 392499005722 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 392499005723 flagellar motor switch protein FliN; Region: fliN; TIGR02480 392499005724 Flagellar biosynthesis protein, FliO; Region: FliO; cl01247 392499005725 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 392499005726 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 392499005727 TPP-binding site; other site 392499005728 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 392499005729 PYR/PP interface [polypeptide binding]; other site 392499005730 dimer interface [polypeptide binding]; other site 392499005731 TPP binding site [chemical binding]; other site 392499005732 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 392499005733 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cl17326 392499005734 putative DNA binding helix; other site 392499005735 metal binding site 2 [ion binding]; metal-binding site 392499005736 metal binding site 1 [ion binding]; metal-binding site 392499005737 dimer interface [polypeptide binding]; other site 392499005738 structural Zn2+ binding site [ion binding]; other site 392499005739 MerC mercury resistance protein; Region: MerC; pfam03203 392499005740 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 392499005741 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 392499005742 active site 392499005743 phosphorylation site [posttranslational modification] 392499005744 intermolecular recognition site; other site 392499005745 dimerization interface [polypeptide binding]; other site 392499005746 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 392499005747 DNA binding site [nucleotide binding] 392499005748 Osmosensitive K+ channel histidine kinase [Signal transduction mechanisms]; Region: KdpD; COG2205 392499005749 Osmosensitive K+ channel His kinase sensor domain; Region: KdpD; pfam02702 392499005750 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 392499005751 Ligand Binding Site [chemical binding]; other site 392499005752 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 392499005753 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 392499005754 phosphorylation site [posttranslational modification] 392499005755 dimer interface [polypeptide binding]; other site 392499005756 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 392499005757 ATP binding site [chemical binding]; other site 392499005758 Mg2+ binding site [ion binding]; other site 392499005759 G-X-G motif; other site 392499005760 K+-transporting ATPase, c chain; Region: KdpC; cl00944 392499005761 potassium-transporting ATPase subunit B; Provisional; Region: PRK01122 392499005762 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 392499005763 Soluble P-type ATPase [General function prediction only]; Region: COG4087 392499005764 potassium-transporting ATPase subunit A; Provisional; Region: PRK05482 392499005765 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 392499005766 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 392499005767 active site 392499005768 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 392499005769 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 392499005770 GTP binding site; other site 392499005771 FdhD/NarQ family; Region: FdhD-NarQ; cl00659 392499005772 NADH-dependant formate dehydrogenase delta subunit FdsD; Region: FdsD; pfam11390 392499005773 Uncharacterized anaerobic dehydrogenase [General function prediction only]; Region: COG3383 392499005774 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 392499005775 catalytic loop [active] 392499005776 iron binding site [ion binding]; other site 392499005777 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 392499005778 4Fe-4S binding domain; Region: Fer4; pfam00037 392499005779 Formate dehydrogenase H (Formate-Dh-H) catalyzes the reversible oxidation of formate to CO2 with the release of a proton and two electrons. It is a component of the anaerobic formate hydrogen lyase complex. The E. coli formate dehydrogenase H (Fdh-H) is...; Region: MopB_Formate-Dh-H; cd02753 392499005780 [4Fe-4S] binding site [ion binding]; other site 392499005781 molybdopterin cofactor binding site; other site 392499005782 This CD includes formate dehydrogenases (Fdh) H and N; nitrate reductases, Nap and Nas; and other related proteins. Formate dehydrogenase H is a component of the anaerobic formate hydrogen lyase complex and catalyzes the reversible oxidation of formate...; Region: MopB_CT_Fdh-Nap-like; cd00508 392499005783 molybdopterin cofactor binding site; other site 392499005784 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 392499005785 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 392499005786 SLBB domain; Region: SLBB; pfam10531 392499005787 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 392499005788 formate dehydrogenase subunit gamma; Validated; Region: PRK05988 392499005789 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 392499005790 Transcriptional regulator [Transcription]; Region: LysR; COG0583 392499005791 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 392499005792 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 392499005793 dimerization interface [polypeptide binding]; other site 392499005794 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 392499005795 dimerization interface [polypeptide binding]; other site 392499005796 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 392499005797 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 392499005798 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 392499005799 PAS domain; Region: PAS_9; pfam13426 392499005800 putative active site [active] 392499005801 heme pocket [chemical binding]; other site 392499005802 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 392499005803 cyclase homology domain; Region: CHD; cd07302 392499005804 nucleotidyl binding site; other site 392499005805 metal binding site [ion binding]; metal-binding site 392499005806 dimer interface [polypeptide binding]; other site 392499005807 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 392499005808 Phosphotransferase enzyme family; Region: APH; pfam01636 392499005809 putative active site [active] 392499005810 putative substrate binding site [chemical binding]; other site 392499005811 ATP binding site [chemical binding]; other site 392499005812 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 392499005813 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 392499005814 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 392499005815 active site 392499005816 short chain dehydrogenase; Provisional; Region: PRK06949 392499005817 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 392499005818 NAD(P) binding site [chemical binding]; other site 392499005819 active site 392499005820 Bacterial protein of unknown function (Gcw_chp); Region: Gcw_chp; cl09901 392499005821 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 392499005822 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 392499005823 Esterase-like activity of phytase; Region: Phytase-like; pfam13449 392499005824 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 392499005825 binding surface 392499005826 TPR motif; other site 392499005827 HAMP domain; Region: HAMP; pfam00672 392499005828 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 392499005829 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 392499005830 TLC ATP/ADP transporter; Region: TLC; cl03940 392499005831 Major Facilitator Superfamily; Region: MFS_1; pfam07690 392499005832 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 392499005833 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; cl00047 392499005834 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 392499005835 anti sigma factor interaction site; other site 392499005836 regulatory phosphorylation site [posttranslational modification]; other site 392499005837 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 392499005838 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 392499005839 ATP binding site [chemical binding]; other site 392499005840 Mg2+ binding site [ion binding]; other site 392499005841 G-X-G motif; other site 392499005842 SET (Su(var)3-9, Enhancer-of-zeste, Trithorax) domain; Region: SET; smart00317 392499005843 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 392499005844 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 392499005845 active site 392499005846 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 392499005847 substrate binding site [chemical binding]; other site 392499005848 catalytic residues [active] 392499005849 dimer interface [polypeptide binding]; other site 392499005850 CHASE4 domain; Region: CHASE4; pfam05228 392499005851 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 392499005852 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 392499005853 metal binding site [ion binding]; metal-binding site 392499005854 active site 392499005855 I-site; other site 392499005856 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 392499005857 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 392499005858 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 392499005859 Uncharacterized bacterial subgroup of the Salmonella typhimurium Zn2+ transporter ZntB-like subfamily; Region: ZntB_u1; cd12834 392499005860 Cl binding site [ion binding]; other site 392499005861 oligomer interface [polypeptide binding]; other site 392499005862 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 392499005863 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 392499005864 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 392499005865 DNA binding residues [nucleotide binding] 392499005866 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 392499005867 FecR protein; Region: FecR; pfam04773 392499005868 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 392499005869 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 392499005870 Uncharacterized protein with a C-terminal OMP (outer membrane protein) domain [Function unknown]; Region: COG4625 392499005871 Autotransporter beta-domain; Region: Autotransporter; pfam03797 392499005872 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK09102 392499005873 Class I ribonucleotide reductase; Region: RNR_I; cd01679 392499005874 active site 392499005875 dimer interface [polypeptide binding]; other site 392499005876 catalytic residues [active] 392499005877 effector binding site; other site 392499005878 R2 peptide binding site; other site 392499005879 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 392499005880 dimer interface [polypeptide binding]; other site 392499005881 ribonucleotide-diphosphate reductase subunit beta; Provisional; Region: nrdF2; PRK13966 392499005882 putative radical transfer pathway; other site 392499005883 diiron center [ion binding]; other site 392499005884 tyrosyl radical; other site 392499005885 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 392499005886 metabolite-proton symporter; Region: 2A0106; TIGR00883 392499005887 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 392499005888 putative substrate translocation pore; other site 392499005889 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3825 392499005890 anhydro-N-acetylmuramic acid kinase; Reviewed; Region: anmK; PRK09585 392499005891 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 392499005892 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 392499005893 active site 392499005894 HIGH motif; other site 392499005895 dimer interface [polypeptide binding]; other site 392499005896 KMSKS motif; other site 392499005897 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 392499005898 RNA binding surface [nucleotide binding]; other site 392499005899 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 392499005900 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 392499005901 ssDNA binding site; other site 392499005902 generic binding surface II; other site 392499005903 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 392499005904 ATP binding site [chemical binding]; other site 392499005905 putative Mg++ binding site [ion binding]; other site 392499005906 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 392499005907 nucleotide binding region [chemical binding]; other site 392499005908 ATP-binding site [chemical binding]; other site 392499005909 Flavinator of succinate dehydrogenase; Region: Sdh5; cl01110 392499005910 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 392499005911 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 392499005912 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 392499005913 ATP binding site [chemical binding]; other site 392499005914 putative Mg++ binding site [ion binding]; other site 392499005915 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 392499005916 nucleotide binding region [chemical binding]; other site 392499005917 ATP-binding site [chemical binding]; other site 392499005918 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 392499005919 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 392499005920 metal binding site [ion binding]; metal-binding site 392499005921 active site 392499005922 I-site; other site 392499005923 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 392499005924 molybdenum cofactor biosynthesis protein A; Provisional; Region: PRK13361 392499005925 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 392499005926 FeS/SAM binding site; other site 392499005927 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 392499005928 ATP-NAD kinase; Region: NAD_kinase; pfam01513 392499005929 inorganic polyphosphate/ATP-NAD kinase; Reviewed; Region: ppnK; PRK04761 392499005930 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 392499005931 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 392499005932 catalytic residues [active] 392499005933 catalytic nucleophile [active] 392499005934 Presynaptic Site I dimer interface [polypeptide binding]; other site 392499005935 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 392499005936 Synaptic Flat tetramer interface [polypeptide binding]; other site 392499005937 Synaptic Site I dimer interface [polypeptide binding]; other site 392499005938 DNA binding site [nucleotide binding] 392499005939 Recombinase; Region: Recombinase; pfam07508 392499005940 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 392499005941 Protein of unknown function (DUF2924); Region: DUF2924; pfam11149 392499005942 Protein of unknown function (DUF3489); Region: DUF3489; pfam11994 392499005943 acetolactate synthase catalytic subunit; Validated; Region: PRK08327 392499005944 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 392499005945 PYR/PP interface [polypeptide binding]; other site 392499005946 dimer interface [polypeptide binding]; other site 392499005947 TPP binding site [chemical binding]; other site 392499005948 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 392499005949 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 392499005950 TPP-binding site [chemical binding]; other site 392499005951 dimer interface [polypeptide binding]; other site 392499005952 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 392499005953 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 392499005954 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 392499005955 acetyl-CoA acetyltransferases; Region: AcCoA-C-Actrans; TIGR01930 392499005956 dimer interface [polypeptide binding]; other site 392499005957 active site 392499005958 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 392499005959 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 392499005960 acyl-activating enzyme (AAE) consensus motif; other site 392499005961 AMP binding site [chemical binding]; other site 392499005962 active site 392499005963 CoA binding site [chemical binding]; other site 392499005964 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 392499005965 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 392499005966 iron-sulfur cluster [ion binding]; other site 392499005967 [2Fe-2S] cluster binding site [ion binding]; other site 392499005968 C-terminal catalytic domain of the oxygenase alpha subunit of Pseudomonas resinovorans strain CA10 anthranilate 1,2-dioxygenase and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_AntDO-like; cd08879 392499005969 putative alpha subunit interface [polypeptide binding]; other site 392499005970 putative active site [active] 392499005971 putative substrate binding site [chemical binding]; other site 392499005972 Fe binding site [ion binding]; other site 392499005973 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 392499005974 inter-subunit interface; other site 392499005975 Helix-turn-helix domain; Region: HTH_18; pfam12833 392499005976 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 392499005977 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 392499005978 N-terminal plug; other site 392499005979 ligand-binding site [chemical binding]; other site 392499005980 Transcriptional regulator [Transcription]; Region: LysR; COG0583 392499005981 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 392499005982 The C-terminal substsrate binding domain of NodD family of LysR-type transcriptional regulators that regulates the expression of nodulation (nod) genes; contains the type 2 periplasmic binding fold; Region: PBP2_NodD; cd08462 392499005983 putative substrate binding pocket [chemical binding]; other site 392499005984 putative dimerization interface [polypeptide binding]; other site 392499005985 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 392499005986 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 392499005987 active site 392499005988 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 392499005989 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 392499005990 catechol 2,3 dioxygenase; Region: catechol_2_3; TIGR03211 392499005991 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 392499005992 active site 392499005993 metal binding site [ion binding]; metal-binding site 392499005994 C-terminal domain of type I, class II extradiol dioxygenases; catalytic domain; Region: ED_TypeI_classII_C; cd08343 392499005995 active site 392499005996 metal binding site [ion binding]; metal-binding site 392499005997 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 392499005998 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 392499005999 N-terminal plug; other site 392499006000 ligand-binding site [chemical binding]; other site 392499006001 Cupin; Region: Cupin_6; pfam12852 392499006002 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 392499006003 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 392499006004 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 392499006005 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 392499006006 iron-sulfur cluster [ion binding]; other site 392499006007 [2Fe-2S] cluster binding site [ion binding]; other site 392499006008 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 392499006009 hydrophobic ligand binding site; other site 392499006010 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 392499006011 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 392499006012 iron-sulfur cluster [ion binding]; other site 392499006013 [2Fe-2S] cluster binding site [ion binding]; other site 392499006014 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 392499006015 hydrophobic ligand binding site; other site 392499006016 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 392499006017 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 392499006018 iron-sulfur cluster [ion binding]; other site 392499006019 [2Fe-2S] cluster binding site [ion binding]; other site 392499006020 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 392499006021 hydrophobic ligand binding site; other site 392499006022 EthD domain; Region: EthD; cl17553 392499006023 Mycobacterium tuberculosis aldehyde dehydrogenase AldA-like; Region: ALDH_AldA-Rv0768; cd07139 392499006024 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 392499006025 NAD binding site [chemical binding]; other site 392499006026 catalytic residues [active] 392499006027 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 392499006028 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 392499006029 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 392499006030 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 392499006031 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 392499006032 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 392499006033 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 392499006034 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 392499006035 iron-sulfur cluster [ion binding]; other site 392499006036 [2Fe-2S] cluster binding site [ion binding]; other site 392499006037 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 392499006038 hydrophobic ligand binding site; other site 392499006039 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 392499006040 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 392499006041 iron-sulfur cluster [ion binding]; other site 392499006042 [2Fe-2S] cluster binding site [ion binding]; other site 392499006043 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 392499006044 hydrophobic ligand binding site; other site 392499006045 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 392499006046 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 392499006047 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 392499006048 iron-sulfur cluster [ion binding]; other site 392499006049 [2Fe-2S] cluster binding site [ion binding]; other site 392499006050 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 392499006051 hydrophobic ligand binding site; other site 392499006052 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 392499006053 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 392499006054 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 392499006055 putative substrate translocation pore; other site 392499006056 Cupin domain; Region: Cupin_2; cl17218 392499006057 SnoaL-like domain; Region: SnoaL_3; pfam13474 392499006058 homogentisate 1,2-dioxygenase; Provisional; Region: PRK05341 392499006059 fumarylacetoacetase; Region: fum_ac_acetase; TIGR01266 392499006060 Domain of unknown function (DUF1969); Region: DUF1969; pfam09298 392499006061 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 392499006062 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 392499006063 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 392499006064 iron-sulfur cluster [ion binding]; other site 392499006065 [2Fe-2S] cluster binding site [ion binding]; other site 392499006066 C-terminal catalytic domain of the oxygenase alpha subunit of dicamba O-demethylase and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_DMO-like; cd08878 392499006067 alpha subunit interface [polypeptide binding]; other site 392499006068 active site 392499006069 substrate binding site [chemical binding]; other site 392499006070 Fe binding site [ion binding]; other site 392499006071 MarR family; Region: MarR_2; cl17246 392499006072 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 392499006073 hypothetical protein; Provisional; Region: PRK06847 392499006074 hypothetical protein; Provisional; Region: PRK07236 392499006075 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 392499006076 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 392499006077 Major Facilitator Superfamily; Region: MFS_1; pfam07690 392499006078 putative substrate translocation pore; other site 392499006079 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 392499006080 active site 392499006081 C-terminal domain of Burkholderia sp. NF100 MhqB and similar proteins; MhqB is a type I extradiol dioxygenase involved in the catabolism of methylhydroquinone, an intermediate in the degradation of fenitrothion; Region: MhqB_like_C; cd08360 392499006082 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 392499006083 putative active site [active] 392499006084 putative metal binding site [ion binding]; other site 392499006085 C-terminal domain of Burkholderia sp. NF100 MhqB and similar proteins; MhqB is a type I extradiol dioxygenase involved in the catabolism of methylhydroquinone, an intermediate in the degradation of fenitrothion; Region: MhqB_like_C; cd08360 392499006086 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 392499006087 putative active site [active] 392499006088 putative metal binding site [ion binding]; other site 392499006089 Transcriptional regulators [Transcription]; Region: FadR; COG2186 392499006090 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl17414 392499006091 DNA-binding site [nucleotide binding]; DNA binding site 392499006092 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 392499006093 Predicted ornithine cyclodeaminase, mu-crystallin homolog [Amino acid transport and metabolism]; Region: COG2423 392499006094 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 392499006095 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 392499006096 dimer interface [polypeptide binding]; other site 392499006097 catalytic residue [active] 392499006098 succinic semialdehyde dehydrogenase; Region: PLN02278 392499006099 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 392499006100 tetramerization interface [polypeptide binding]; other site 392499006101 NAD(P) binding site [chemical binding]; other site 392499006102 catalytic residues [active] 392499006103 3-(3-hydroxyphenyl)propionate hydroxylase; Validated; Region: mhpA; PRK06183 392499006104 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 392499006105 classical (c) SDRs; Region: SDR_c; cd05233 392499006106 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 392499006107 NAD(P) binding site [chemical binding]; other site 392499006108 active site 392499006109 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 392499006110 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 392499006111 active site 392499006112 FMN binding site [chemical binding]; other site 392499006113 substrate binding site [chemical binding]; other site 392499006114 putative catalytic residue [active] 392499006115 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 392499006116 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 392499006117 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 392499006118 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 392499006119 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 392499006120 non-specific DNA binding site [nucleotide binding]; other site 392499006121 salt bridge; other site 392499006122 sequence-specific DNA binding site [nucleotide binding]; other site 392499006123 GIY-YIG domain of uncharacterized hypothetical protein found in bacteria; Region: GIY-YIG_unchar_1; cd10446 392499006124 GIY-YIG motif/motif A; other site 392499006125 putative active site [active] 392499006126 putative metal binding site [ion binding]; other site 392499006127 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 392499006128 ParB-like nuclease domain; Region: ParB; smart00470 392499006129 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 392499006130 DNA methylase; Region: N6_N4_Mtase; pfam01555 392499006131 Glycosyltransferase family 9 (heptosyltransferase); Region: Glyco_transf_9; pfam01075 392499006132 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 392499006133 choline dehydrogenase; Validated; Region: PRK02106 392499006134 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 392499006135 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 392499006136 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 392499006137 N-terminal plug; other site 392499006138 ligand-binding site [chemical binding]; other site 392499006139 Peptidase M14-like domain; uncharacterized subfamily; Region: M14-like_6; cd06233 392499006140 putative active site [active] 392499006141 Zn binding site [ion binding]; other site 392499006142 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 392499006143 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 392499006144 MFS/sugar transport protein; Region: MFS_2; pfam13347 392499006145 melibiose:sodium symporter; Provisional; Region: PRK10429; cl15392 392499006146 MFS/sugar transport protein; Region: MFS_2; pfam13347 392499006147 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 392499006148 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 392499006149 NAD(P) binding site [chemical binding]; other site 392499006150 catalytic residues [active] 392499006151 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 392499006152 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 392499006153 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 392499006154 catalytic residue [active] 392499006155 ornithine cyclodeaminase; Validated; Region: PRK06199 392499006156 Predicted ornithine cyclodeaminase, mu-crystallin homolog [Amino acid transport and metabolism]; Region: COG2423 392499006157 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 392499006158 homotrimer interaction site [polypeptide binding]; other site 392499006159 putative active site [active] 392499006160 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 392499006161 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 392499006162 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 392499006163 Helix-turn-helix domain; Region: HTH_18; pfam12833 392499006164 Protein of unknown function (DUF2390); Region: DUF2390; pfam09523 392499006165 3-polyprenyl-4-hydroxybenzoate decarboxylase [Coenzyme metabolism]; Region: UbiX; COG0163 392499006166 Flavoprotein; Region: Flavoprotein; pfam02441 392499006167 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 392499006168 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 392499006169 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 392499006170 active site 392499006171 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 392499006172 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK08276 392499006173 acyl-activating enzyme (AAE) consensus motif; other site 392499006174 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 392499006175 putative AMP binding site [chemical binding]; other site 392499006176 putative active site [active] 392499006177 acyl-activating enzyme (AAE) consensus motif; other site 392499006178 putative CoA binding site [chemical binding]; other site 392499006179 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK08276 392499006180 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 392499006181 acyl-activating enzyme (AAE) consensus motif; other site 392499006182 putative AMP binding site [chemical binding]; other site 392499006183 putative active site [active] 392499006184 putative CoA binding site [chemical binding]; other site 392499006185 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 392499006186 Gamma carbonic anhydrase-like: This family is composed of gamma carbonic anhydrase (CA), Ferripyochelin Binding Protein (FBP), E. coli paaY protein, and similar proteins. CAs are zinc-containing enzymes that catalyze the reversible hydration of carbon...; Region: LbH_gamma_CA_like; cd04645 392499006187 trimer interface [polypeptide binding]; other site 392499006188 putative metal binding site [ion binding]; other site 392499006189 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 392499006190 NAD(P) binding site [chemical binding]; other site 392499006191 active site 392499006192 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 392499006193 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 392499006194 active site 392499006195 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 392499006196 Putative acyl-CoA dehydrogenases similar to fadE6, fadE17, and fadE26; Region: ACAD_fadE6_17_26; cd01152 392499006197 FAD binding site [chemical binding]; other site 392499006198 substrate binding site [chemical binding]; other site 392499006199 catalytic base [active] 392499006200 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 392499006201 Streptomyces aureofaciens putative aldehyde dehydrogenase AldA (AAD23400)-like; Region: ALDH_AldA-AAD23400; cd07106 392499006202 NAD(P) binding site [chemical binding]; other site 392499006203 catalytic residues [active] 392499006204 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 392499006205 CoA-transferase family III; Region: CoA_transf_3; pfam02515 392499006206 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 392499006207 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 392499006208 NAD(P) binding site [chemical binding]; other site 392499006209 active site 392499006210 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 392499006211 active site 392499006212 catalytic site [active] 392499006213 (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 392499006214 active site 392499006215 catalytic site [active] 392499006216 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 392499006217 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 392499006218 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 392499006219 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 392499006220 lipid-transfer protein; Provisional; Region: PRK08256 392499006221 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 392499006222 active site 392499006223 enoyl-CoA hydratase; Provisional; Region: PRK08290 392499006224 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 392499006225 substrate binding site [chemical binding]; other site 392499006226 oxyanion hole (OAH) forming residues; other site 392499006227 trimer interface [polypeptide binding]; other site 392499006228 probable F420-dependent oxidoreductase, Rv3093c family; Region: F420_Rv3093c; TIGR03841 392499006229 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 392499006230 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 392499006231 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 392499006232 active site 392499006233 metal binding site [ion binding]; metal-binding site 392499006234 Amidohydrolase; Region: Amidohydro_2; pfam04909 392499006235 Rhodococcus ruber 6-oxolauric acid dehydrogenase-like; Region: ALDH_CddD_SSP0762; cd07138 392499006236 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 392499006237 NAD binding site [chemical binding]; other site 392499006238 catalytic residues [active] 392499006239 Carboxylesterase type B [Lipid metabolism]; Region: PnbA; COG2272 392499006240 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 392499006241 substrate binding pocket [chemical binding]; other site 392499006242 catalytic triad [active] 392499006243 Cupin domain; Region: Cupin_2; pfam07883 392499006244 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 392499006245 Amidase; Region: Amidase; cl11426 392499006246 Predicted acetamidase/formamidase [Energy production and conversion]; Region: COG2421 392499006247 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 392499006248 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 392499006249 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 392499006250 phosphogluconate dehydratase; Validated; Region: PRK09054 392499006251 6-phosphogluconate dehydratase; Region: edd; TIGR01196 392499006252 glucokinase, proteobacterial type; Region: glk; TIGR00749 392499006253 Glucokinase; Region: Glucokinase; cl17310 392499006254 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 392499006255 active site 392499006256 intersubunit interface [polypeptide binding]; other site 392499006257 catalytic residue [active] 392499006258 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 392499006259 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 392499006260 active site 392499006261 catalytic tetrad [active] 392499006262 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 392499006263 Stress responsive A/B Barrel Domain; Region: Dabb; smart00886 392499006264 Domain of Unknown Function (DUF1080); Region: DUF1080; pfam06439 392499006265 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 392499006266 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 392499006267 N-terminal plug; other site 392499006268 ligand-binding site [chemical binding]; other site 392499006269 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 392499006270 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 392499006271 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 392499006272 Gluconate 2-dehydrogenase subunit 3; Region: Gluconate_2-dh3; pfam13618 392499006273 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 392499006274 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 392499006275 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 392499006276 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 392499006277 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 392499006278 Metal-binding active site; metal-binding site 392499006279 AP endonuclease family 2 C terminus; Region: AP_endonuc_2_N; pfam07582 392499006280 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 392499006281 Transcriptional regulators [Transcription]; Region: PurR; COG1609 392499006282 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 392499006283 DNA binding site [nucleotide binding] 392499006284 domain linker motif; other site 392499006285 Ligand-binding domain of an uncharacterized transcription regulator from Actinobacillus succinogenes and its close homologs from other bacteria; Region: PBP1_LacI_like_6; cd06284 392499006286 dimerization interface [polypeptide binding]; other site 392499006287 ligand binding site [chemical binding]; other site 392499006288 Transcriptional regulator [Transcription]; Region: IclR; COG1414 392499006289 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 392499006290 Bacterial transcriptional regulator; Region: IclR; pfam01614 392499006291 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 392499006292 acetaldehyde dehydrogenase; Validated; Region: PRK08300 392499006293 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 392499006294 Prokaryotic acetaldehyde dehydrogenase, dimerisation; Region: AcetDehyd-dimer; pfam09290 392499006295 4-hyroxy-2-oxovalerate/4-hydroxy-2-oxopentanoic acid aldolase,; Validated; Region: PRK08195 392499006296 4-hydroxy-2-oxovalerate aldolase, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_HOA; cd07943 392499006297 active site 392499006298 catalytic residues [active] 392499006299 metal binding site [ion binding]; metal-binding site 392499006300 DmpG-like communication domain; Region: DmpG_comm; pfam07836 392499006301 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 392499006302 D-glycerate dehydrogenase/hydroxypyruvate reductase (GDH); Region: GDH; cd05301 392499006303 dimerization interface [polypeptide binding]; other site 392499006304 ligand binding site [chemical binding]; other site 392499006305 NADP binding site [chemical binding]; other site 392499006306 catalytic site [active] 392499006307 L-lactate dehydrogenase; Provisional; Region: lldD; PRK11197 392499006308 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 392499006309 phosphate binding site [ion binding]; other site 392499006310 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 392499006311 active site 392499006312 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 392499006313 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 392499006314 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 392499006315 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 392499006316 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 392499006317 N-terminal domain interface [polypeptide binding]; other site 392499006318 dimer interface [polypeptide binding]; other site 392499006319 substrate binding pocket (H-site) [chemical binding]; other site 392499006320 Transcriptional regulators [Transcription]; Region: FadR; COG2186 392499006321 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 392499006322 DNA-binding site [nucleotide binding]; DNA binding site 392499006323 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 392499006324 Class II Aldolase and Adducin head (N-terminal) domain. Aldolases are ubiquitous enzymes catalyzing central steps of carbohydrate metabolism. Based on enzymatic mechanisms, this superfamily has been divided into two distinct classes (Class I and II); Region: Aldolase_II; cl00214 392499006325 active site 392499006326 intersubunit interface [polypeptide binding]; other site 392499006327 Zn2+ binding site [ion binding]; other site 392499006328 amidase; Provisional; Region: PRK07487 392499006329 Amidase; Region: Amidase; cl11426 392499006330 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 392499006331 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 392499006332 recombination factor protein RarA; Reviewed; Region: PRK13342 392499006333 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 392499006334 Walker A motif; other site 392499006335 ATP binding site [chemical binding]; other site 392499006336 Walker B motif; other site 392499006337 arginine finger; other site 392499006338 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 392499006339 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 392499006340 C-terminal, alpha helical domain of Beta etherase LigE; Region: GST_C_etherase_LigE; cd03202 392499006341 putative N-terminal domain interface [polypeptide binding]; other site 392499006342 putative dimer interface [polypeptide binding]; other site 392499006343 putative substrate binding pocket (H-site) [chemical binding]; other site 392499006344 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 392499006345 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 392499006346 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 392499006347 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 392499006348 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 392499006349 N-terminal plug; other site 392499006350 ligand-binding site [chemical binding]; other site 392499006351 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR2; cd08268 392499006352 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 392499006353 putative NAD(P) binding site [chemical binding]; other site 392499006354 3-ketoacyl-(acyl-carrier-protein) reductase; Reviewed; Region: PRK12826 392499006355 classical (c) SDRs; Region: SDR_c; cd05233 392499006356 NAD(P) binding site [chemical binding]; other site 392499006357 active site 392499006358 dihydroxy-acid dehydratase; Provisional; Region: PRK00911 392499006359 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 392499006360 classical (c) SDRs; Region: SDR_c; cd05233 392499006361 NAD(P) binding site [chemical binding]; other site 392499006362 active site 392499006363 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 392499006364 dimer interface [polypeptide binding]; other site 392499006365 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 392499006366 active site 392499006367 metal binding site [ion binding]; metal-binding site 392499006368 glutathione binding site [chemical binding]; other site 392499006369 hydroxyacylglutathione hydrolase; Region: GSH_gloB; TIGR03413 392499006370 GSH-dependent disulfide bond oxidoreductase; Provisional; Region: PRK13972 392499006371 GST_N family, Ure2p-like subfamily; composed of the Saccharomyces cerevisiae Ure2p and related GSTs. Ure2p is a regulator for nitrogen catabolism in yeast. It represses the expression of several gene products involved in the use of poor nitrogen sources...; Region: GST_N_Ure2p_like; cd03048 392499006372 C-terminal domain interface [polypeptide binding]; other site 392499006373 GSH binding site (G-site) [chemical binding]; other site 392499006374 dimer interface [polypeptide binding]; other site 392499006375 C-terminal, alpha helical domain of Ure2p and related Glutathione S-transferase-like proteins; Region: GST_C_Ure2p_like; cd03178 392499006376 dimer interface [polypeptide binding]; other site 392499006377 N-terminal domain interface [polypeptide binding]; other site 392499006378 Calcium/calmodulin dependent protein kinase II Association; Region: CaMKII_AD; cl17504 392499006379 2,3-dihydro-2,3-dihydroxybenzoate dehydrogenase; Region: dhbA_paeA; TIGR04316 392499006380 classical (c) SDRs; Region: SDR_c; cd05233 392499006381 NAD(P) binding site [chemical binding]; other site 392499006382 active site 392499006383 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 392499006384 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 392499006385 Protein of unknown function (DUF1116); Region: DUF1116; pfam06545 392499006386 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 392499006387 classical (c) SDRs; Region: SDR_c; cd05233 392499006388 NAD(P) binding site [chemical binding]; other site 392499006389 active site 392499006390 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 392499006391 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 392499006392 substrate binding pocket [chemical binding]; other site 392499006393 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 392499006394 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 392499006395 N-terminal plug; other site 392499006396 ligand-binding site [chemical binding]; other site 392499006397 Concanavalin A-like lectin/glucanases superfamily; Region: Laminin_G_3; pfam13385 392499006398 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 392499006399 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 392499006400 N-terminal plug; other site 392499006401 ligand-binding site [chemical binding]; other site 392499006402 Transcriptional regulators [Transcription]; Region: FadR; COG2186 392499006403 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 392499006404 DNA-binding site [nucleotide binding]; DNA binding site 392499006405 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 392499006406 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 392499006407 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 392499006408 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 392499006409 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 392499006410 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 392499006411 Major Facilitator Superfamily; Region: MFS_1; pfam07690 392499006412 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 392499006413 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 392499006414 Acetoacetate decarboxylase (ADC); Region: ADC; cl01919 392499006415 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 392499006416 catechol 2,3 dioxygenase; Region: catechol_2_3; TIGR03211 392499006417 active site 392499006418 C-terminal domain of Burkholderia sp. NF100 MhqB and similar proteins; MhqB is a type I extradiol dioxygenase involved in the catabolism of methylhydroquinone, an intermediate in the degradation of fenitrothion; Region: MhqB_like_C; cd08360 392499006419 putative active site [active] 392499006420 putative metal binding site [ion binding]; other site 392499006421 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 392499006422 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 392499006423 Cupin domain; Region: Cupin_2; pfam07883 392499006424 Amidohydrolase; Region: Amidohydro_2; pfam04909 392499006425 hypothetical protein; Provisional; Region: PRK06847 392499006426 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 392499006427 fumarylacetoacetase; Region: fum_ac_acetase; TIGR01266 392499006428 Domain of unknown function (DUF1969); Region: DUF1969; pfam09298 392499006429 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 392499006430 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 392499006431 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 392499006432 iron-sulfur cluster [ion binding]; other site 392499006433 [2Fe-2S] cluster binding site [ion binding]; other site 392499006434 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 392499006435 hydrophobic ligand binding site; other site 392499006436 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 392499006437 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 392499006438 iron-sulfur cluster [ion binding]; other site 392499006439 [2Fe-2S] cluster binding site [ion binding]; other site 392499006440 C-terminal catalytic domain of the oxygenase alpha subunit of dicamba O-demethylase and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_DMO-like; cd08878 392499006441 alpha subunit interface [polypeptide binding]; other site 392499006442 active site 392499006443 substrate binding site [chemical binding]; other site 392499006444 Fe binding site [ion binding]; other site 392499006445 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 392499006446 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 392499006447 N-terminal plug; other site 392499006448 ligand-binding site [chemical binding]; other site 392499006449 hypothetical protein; Provisional; Region: PRK08266 392499006450 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 392499006451 PYR/PP interface [polypeptide binding]; other site 392499006452 dimer interface [polypeptide binding]; other site 392499006453 TPP binding site [chemical binding]; other site 392499006454 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 392499006455 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 392499006456 TPP-binding site [chemical binding]; other site 392499006457 histidinol-phosphate aminotransferase; Validated; Region: PRK02731 392499006458 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 392499006459 pyridoxal 5'-phosphate binding site [chemical binding]; other site 392499006460 homodimer interface [polypeptide binding]; other site 392499006461 catalytic residue [active] 392499006462 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 392499006463 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 392499006464 NAD(P) binding site [chemical binding]; other site 392499006465 catalytic residues [active] 392499006466 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 392499006467 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 392499006468 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 392499006469 dimerization interface [polypeptide binding]; other site 392499006470 substrate binding pocket [chemical binding]; other site 392499006471 bifunctional D-altronate/D-mannonate dehydratase; Provisional; Region: PRK15072 392499006472 The starvation sensing protein RpsA from E.coli and its homologs are lactonizing enzymes whose putative targets are homoserine lactone (HSL)-derivative. They are part of the mandelate racemase (MR)-like subfamily of the enolase superfamily. Enzymes of...; Region: rpsA; cd03322 392499006473 putative active site pocket [active] 392499006474 putative metal binding site [ion binding]; other site 392499006475 Uncharacterized subgroup of the nitrilase superfamily (putative class 13 nitrilases); Region: nitrilase_4; cd07582 392499006476 Predicted amidohydrolase [General function prediction only]; Region: COG0388 392499006477 putative active site [active] 392499006478 catalytic triad [active] 392499006479 putative dimer interface [polypeptide binding]; other site 392499006480 Phytoene dehydrogenase and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG1233 392499006481 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 392499006482 Protein of unknown function (DUF819); Region: DUF819; cl02317 392499006483 short chain dehydrogenase; Provisional; Region: PRK07454 392499006484 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 392499006485 NADP binding site [chemical binding]; other site 392499006486 active site 392499006487 steroid binding site; other site 392499006488 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 392499006489 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 392499006490 substrate binding site [chemical binding]; other site 392499006491 ATP binding site [chemical binding]; other site 392499006492 PAS fold; Region: PAS; pfam00989 392499006493 PAS domain; Region: PAS_8; pfam13188 392499006494 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 392499006495 PAS fold; Region: PAS_3; pfam08447 392499006496 putative active site [active] 392499006497 heme pocket [chemical binding]; other site 392499006498 PAS fold; Region: PAS_7; pfam12860 392499006499 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 392499006500 dimer interface [polypeptide binding]; other site 392499006501 phosphorylation site [posttranslational modification] 392499006502 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 392499006503 ATP binding site [chemical binding]; other site 392499006504 Mg2+ binding site [ion binding]; other site 392499006505 G-X-G motif; other site 392499006506 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 392499006507 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 392499006508 active site 392499006509 phosphorylation site [posttranslational modification] 392499006510 intermolecular recognition site; other site 392499006511 dimerization interface [polypeptide binding]; other site 392499006512 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 392499006513 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 392499006514 Response regulator with putative antiterminator output domain [Signal transduction mechanisms]; Region: AmiR; COG3707 392499006515 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cl17736 392499006516 active site 392499006517 phosphorylation site [posttranslational modification] 392499006518 intermolecular recognition site; other site 392499006519 ANTAR domain; Region: ANTAR; pfam03861 392499006520 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 392499006521 NMT1-like family; Region: NMT1_2; pfam13379 392499006522 Nitrate/nitrite transporter [Inorganic ion transport and metabolism]; Region: NarK; COG2223 392499006523 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 392499006524 putative substrate translocation pore; other site 392499006525 NAD(P)H-nitrite reductase [Energy production and conversion]; Region: NirB; COG1251 392499006526 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 392499006527 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 392499006528 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 392499006529 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 392499006530 Small subunit of nitrite reductase (NirD) family, Rieske domain; composed of proteins similar to the Bacillus subtilis small subunit of assimilatory nitrite reductase containing a Rieske domain. The Rieske domain is a [2Fe-2S] cluster binding domain...; Region: Rieske_NirD_small_Bacillus; cd03530 392499006531 [2Fe-2S] cluster binding site [ion binding]; other site 392499006532 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 392499006533 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 392499006534 [4Fe-4S] binding site [ion binding]; other site 392499006535 molybdopterin cofactor binding site; other site 392499006536 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 392499006537 molybdopterin cofactor binding site; other site 392499006538 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 392499006539 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 392499006540 active site 392499006541 SAM binding site [chemical binding]; other site 392499006542 homodimer interface [polypeptide binding]; other site 392499006543 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 392499006544 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 392499006545 substrate binding site [chemical binding]; other site 392499006546 oxyanion hole (OAH) forming residues; other site 392499006547 trimer interface [polypeptide binding]; other site 392499006548 Predicted metal-dependent enzyme of the double-stranded beta helix superfamily [General function prediction only]; Region: COG5553 392499006549 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 392499006550 CoA-transferase family III; Region: CoA_transf_3; pfam02515 392499006551 Transcriptional regulator [Transcription]; Region: IclR; COG1414 392499006552 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 392499006553 Bacterial transcriptional regulator; Region: IclR; pfam01614 392499006554 ornithine cyclodeaminase; Validated; Region: PRK06141 392499006555 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 392499006556 Cyclophilin type peptidyl-prolyl cis-trans isomerase/CLD; Region: Pro_isomerase; pfam00160 392499006557 active site 392499006558 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 392499006559 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 392499006560 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 392499006561 active site 392499006562 N-methylhydantoinase B/acetone carboxylase, alpha subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuB; COG0146 392499006563 Hydantoinase B/oxoprolinase; Region: Hydantoinase_B; pfam02538 392499006564 N-methylhydantoinase A/acetone carboxylase, beta subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuA; COG0145 392499006565 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 392499006566 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; pfam01968 392499006567 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 392499006568 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 392499006569 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 392499006570 non-specific DNA binding site [nucleotide binding]; other site 392499006571 salt bridge; other site 392499006572 sequence-specific DNA binding site [nucleotide binding]; other site 392499006573 Cupin domain; Region: Cupin_2; pfam07883 392499006574 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 392499006575 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 392499006576 N-terminal plug; other site 392499006577 ligand-binding site [chemical binding]; other site 392499006578 aldehyde dehydrogenase family 7 member; Region: PLN02315 392499006579 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 392499006580 NAD(P) binding site [chemical binding]; other site 392499006581 catalytic residues [active] 392499006582 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 392499006583 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 392499006584 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 392499006585 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 392499006586 The C-terminal substrate binding domain of LysR-type transcriptional regulators GcdR-like, contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_like; cd08481 392499006587 dimerization interface [polypeptide binding]; other site 392499006588 substrate binding pocket [chemical binding]; other site 392499006589 Uncharacterized protein, possibly involved in utilization of glycolate and propanediol [General function prediction only]; Region: GlcG; COG3193 392499006590 phosphogluconate dehydratase; Validated; Region: PRK09054 392499006591 6-phosphogluconate dehydratase; Region: edd; TIGR01196 392499006592 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 392499006593 putative substrate translocation pore; other site 392499006594 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_2; cd07253 392499006595 dimer interface [polypeptide binding]; other site 392499006596 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 392499006597 metal binding site [ion binding]; metal-binding site 392499006598 acyl-CoA synthetase; Validated; Region: PRK06188 392499006599 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 392499006600 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 392499006601 acyl-activating enzyme (AAE) consensus motif; other site 392499006602 putative AMP binding site [chemical binding]; other site 392499006603 putative active site [active] 392499006604 putative CoA binding site [chemical binding]; other site 392499006605 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 392499006606 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 392499006607 active site 392499006608 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 392499006609 Predicted metal-dependent hydrolase; Region: Metal_hydrol; pfam10118 392499006610 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG3687 392499006611 putative CoA-transferase; Provisional; Region: PRK11430 392499006612 CoA-transferase family III; Region: CoA_transf_3; pfam02515 392499006613 N-acyl-D-aspartate/D-glutamate deacylase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3653 392499006614 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 392499006615 active site 392499006616 putative substrate binding pocket [chemical binding]; other site 392499006617 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 392499006618 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 392499006619 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 392499006620 active site 392499006621 catalytic tetrad [active] 392499006622 SnoaL-like domain; Region: SnoaL_4; pfam13577 392499006623 N-acyl-D-aspartate/D-glutamate deacylase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3653 392499006624 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 392499006625 active site 392499006626 putative substrate binding pocket [chemical binding]; other site 392499006627 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 392499006628 choline dehydrogenase; Validated; Region: PRK02106 392499006629 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 392499006630 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 392499006631 Epoxide hydrolase N terminus; Region: EHN; pfam06441 392499006632 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 392499006633 Ferredoxin [Energy production and conversion]; Region: Fer; COG1141 392499006634 Protein of unknown function (DUF1271); Region: DUF1271; cl01443 392499006635 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 392499006636 Cytochrome P450; Region: p450; cl12078 392499006637 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 392499006638 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 392499006639 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 392499006640 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 392499006641 NAD(P) binding site [chemical binding]; other site 392499006642 catalytic residues [active] 392499006643 enoyl-CoA hydratase; Provisional; Region: PRK06688 392499006644 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 392499006645 substrate binding site [chemical binding]; other site 392499006646 oxyanion hole (OAH) forming residues; other site 392499006647 trimer interface [polypeptide binding]; other site 392499006648 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 392499006649 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 392499006650 N-terminal plug; other site 392499006651 ligand-binding site [chemical binding]; other site 392499006652 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 392499006653 Taurine catabolism dioxygenase TauD, TfdA family; Region: TauD; pfam02668 392499006654 Amidohydrolase; Region: Amidohydro_2; pfam04909 392499006655 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 392499006656 CoA-transferase family III; Region: CoA_transf_3; pfam02515 392499006657 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 392499006658 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 392499006659 active site 392499006660 Amidohydrolase; Region: Amidohydro_2; pfam04909 392499006661 2-hydroxy-6-oxo-6-phenylhexa-2,4-dienoate hydrolase; Region: biphenyl_bphD; TIGR03343 392499006662 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 392499006663 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 392499006664 NAD(P) binding site [chemical binding]; other site 392499006665 active site 392499006666 2,3-dihydroxybiphenyl 1,2-dioxygenase; Region: 23dbph12diox; TIGR03213 392499006667 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 392499006668 active site 392499006669 metal binding site [ion binding]; metal-binding site 392499006670 C-terminal domain of 2,3-dihydroxy-p-cumate-3,4-dioxygenase (PpCmtC); Region: PpCmtC_C; cd07258 392499006671 putative active site [active] 392499006672 putative metal binding site [ion binding]; other site 392499006673 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 392499006674 inter-subunit interface; other site 392499006675 benzoate 1,2-dioxygenase, large subunit; Region: benzo_1_2_benA; TIGR03229 392499006676 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 392499006677 [2Fe-2S] cluster binding site [ion binding]; other site 392499006678 C-terminal catalytic domain of the oxygenase alpha subunit of Pseudomonas resinovorans strain CA10 anthranilate 1,2-dioxygenase and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_AntDO-like; cd08879 392499006679 putative alpha subunit interface [polypeptide binding]; other site 392499006680 putative active site [active] 392499006681 putative substrate binding site [chemical binding]; other site 392499006682 Fe binding site [ion binding]; other site 392499006683 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 392499006684 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 392499006685 catalytic loop [active] 392499006686 iron binding site [ion binding]; other site 392499006687 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 392499006688 CoA-transferase family III; Region: CoA_transf_3; pfam02515 392499006689 crotonobetaine/carnitine-CoA ligase; Provisional; Region: PRK06155 392499006690 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 392499006691 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 392499006692 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_DitJ_like; cd05934 392499006693 acyl-activating enzyme (AAE) consensus motif; other site 392499006694 acyl-activating enzyme (AAE) consensus motif; other site 392499006695 putative AMP binding site [chemical binding]; other site 392499006696 putative active site [active] 392499006697 putative CoA binding site [chemical binding]; other site 392499006698 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 392499006699 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 392499006700 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK08276 392499006701 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 392499006702 acyl-activating enzyme (AAE) consensus motif; other site 392499006703 putative AMP binding site [chemical binding]; other site 392499006704 putative active site [active] 392499006705 putative CoA binding site [chemical binding]; other site 392499006706 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 392499006707 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 392499006708 active site 392499006709 Amidohydrolase; Region: Amidohydro_2; pfam04909 392499006710 Isochorismatase family; Region: Isochorismatase; pfam00857 392499006711 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 392499006712 catalytic triad [active] 392499006713 conserved cis-peptide bond; other site 392499006714 Amidohydrolase; Region: Amidohydro_2; pfam04909 392499006715 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 392499006716 SnoaL-like domain; Region: SnoaL_4; pfam13577 392499006717 Prokaryotic protein of unknown function (DUF849); Region: DUF849; pfam05853 392499006718 acetyl-CoA acetyltransferase; Provisional; Region: PRK06025 392499006719 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 392499006720 dimer interface [polypeptide binding]; other site 392499006721 active site 392499006722 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 392499006723 NAD(P) binding site [chemical binding]; other site 392499006724 active site 392499006725 enoyl-CoA hydratase; Provisional; Region: PRK05862 392499006726 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 392499006727 substrate binding site [chemical binding]; other site 392499006728 oxyanion hole (OAH) forming residues; other site 392499006729 trimer interface [polypeptide binding]; other site 392499006730 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 392499006731 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 392499006732 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 392499006733 Cytosine deaminase and related metal-dependent hydrolases [Nucleotide transport and metabolism / General function prediction only]; Region: SsnA; COG0402 392499006734 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 392499006735 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 392499006736 active site 392499006737 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 392499006738 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 392499006739 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 392499006740 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 392499006741 Amidohydrolase; Region: Amidohydro_4; pfam13147 392499006742 active site 392499006743 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 392499006744 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 392499006745 N-terminal plug; other site 392499006746 ligand-binding site [chemical binding]; other site 392499006747 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 392499006748 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 392499006749 The C-terminal substrate binding domain of galactose-binding protein regulator contains the type 2 periplasmic binding fold; Region: PBP2_GbpR; cd08435 392499006750 putative dimerization interface [polypeptide binding]; other site 392499006751 Cupin domain; Region: Cupin_2; pfam07883 392499006752 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 392499006753 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 392499006754 NAD(P) binding site [chemical binding]; other site 392499006755 Prokaryotic protein of unknown function (DUF849); Region: DUF849; pfam05853 392499006756 classical (c) SDRs; Region: SDR_c; cd05233 392499006757 NAD(P) binding site [chemical binding]; other site 392499006758 active site 392499006759 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 392499006760 chlorocatechol 1,2-dioxygenase; Region: chlorocat_1_2; TIGR02465 392499006761 active site 392499006762 Protein of unknown function (DUF2938); Region: DUF2938; pfam11158 392499006763 Transcriptional regulator [Transcription]; Region: LysR; COG0583 392499006764 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 392499006765 TThe C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_4; cd08440 392499006766 putative dimerization interface [polypeptide binding]; other site 392499006767 hypothetical protein; Provisional; Region: PRK08204 392499006768 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 392499006769 active site 392499006770 SnoaL-like domain; Region: SnoaL_4; pfam13577 392499006771 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; cl10015 392499006772 homotrimer interaction site [polypeptide binding]; other site 392499006773 putative active site [active] 392499006774 Amidohydrolase; Region: Amidohydro_2; pfam04909 392499006775 active site 392499006776 Transcriptional regulator; Region: Rrf2; cl17282 392499006777 Rrf2 family protein; Region: rrf2_super; TIGR00738 392499006778 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 392499006779 Putative multicopper oxidases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: SufI; COG2132 392499006780 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 392499006781 Cytochrome c; Region: Cytochrom_C; pfam00034 392499006782 nitrite reductase, copper-containing; Region: Cu_nitrite_red; TIGR02376 392499006783 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 392499006784 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 392499006785 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 392499006786 N-terminal plug; other site 392499006787 ligand-binding site [chemical binding]; other site 392499006788 Cytochrome oxidase maturation protein cbb3-type; Region: CcoS; pfam03597 392499006789 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 392499006790 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 392499006791 metal-binding site [ion binding] 392499006792 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 392499006793 Predicted integral membrane protein (DUF2189); Region: DUF2189; cl02291 392499006794 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 392499006795 Cytochrome c; Region: Cytochrom_C; pfam00034 392499006796 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 392499006797 Cbb3-type cytochrome oxidase component FixQ; Region: FixQ; pfam05545 392499006798 Cbb3-type cytochrome oxidase, cytochrome c subunit [Energy production and conversion]; Region: CcoO; COG2993 392499006799 Cytochrome C oxidase, mono-heme subunit/FixO; Region: FixO; pfam02433 392499006800 Cytochrome cbb3 oxidase subunit I. Cytochrome cbb3 oxidase, the terminal oxidase in the respiratory chains of proteobacteria, is a multi-chain transmembrane protein located in the cell membrane. Like other cytochrome oxidases, it catalyzes the reduction...; Region: cbb3_Oxidase_I; cd01661 392499006801 Low-spin heme binding site [chemical binding]; other site 392499006802 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 392499006803 Putative water exit pathway; other site 392499006804 Binuclear center (active site) [active] 392499006805 Putative proton exit pathway; other site 392499006806 ROS/MUCR transcriptional regulator protein; Region: ROS_MUCR; pfam05443 392499006807 enoyl-CoA hydratase; Provisional; Region: PRK05862 392499006808 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 392499006809 substrate binding site [chemical binding]; other site 392499006810 oxyanion hole (OAH) forming residues; other site 392499006811 trimer interface [polypeptide binding]; other site 392499006812 Neutral sphingomyelinases (nSMase) catalyze the hydrolysis of sphingomyelin in biological membranes to ceramide and phosphorylcholine; Region: nSMase; cd09078 392499006813 putative catalytic site [active] 392499006814 metal binding site A [ion binding]; metal-binding site 392499006815 phosphate binding site [ion binding]; other site 392499006816 metal binding site C [ion binding]; metal-binding site 392499006817 metal binding site B [ion binding]; metal-binding site 392499006818 This family is most closely related to the GT1 family of glycosyltransferases. WabH in Klebsiella pneumoniae has been shown to transfer a GlcNAc residue from UDP-GlcNAc onto the acceptor GalUA residue in the cellular outer core; Region: GT1_WabH_like; cd03811 392499006819 putative ADP-binding pocket [chemical binding]; other site 392499006820 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 392499006821 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 392499006822 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 392499006823 DNA binding residues [nucleotide binding] 392499006824 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 392499006825 FecR protein; Region: FecR; pfam04773 392499006826 Secretin and TonB N terminus short domain; Region: STN; smart00965 392499006827 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 392499006828 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 392499006829 Putative catalytic domain of uncharacterized bacterial proteins from the carbohydrate esterase 4 superfamily; Region: CE4_u10; cd11374 392499006830 putative active site [active] 392499006831 putative Zn binding site [ion binding]; other site 392499006832 Uncharacterized protein conserved in bacteria (DUF2141); Region: DUF2141; pfam09912 392499006833 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 392499006834 Glycosyltransferase Family 4; Region: Glyco_transf_4; pfam13439 392499006835 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 392499006836 This family is most closely related to the GT1 family of glycosyltransferases. WabH in Klebsiella pneumoniae has been shown to transfer a GlcNAc residue from UDP-GlcNAc onto the acceptor GalUA residue in the cellular outer core; Region: GT1_WabH_like; cd03811 392499006837 putative ADP-binding pocket [chemical binding]; other site 392499006838 META domain; Region: META; pfam03724 392499006839 Domain of unknown function (DUF4377); Region: DUF4377; pfam14302 392499006840 Erythromycin esterase; Region: Erythro_esteras; pfam05139 392499006841 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 392499006842 Beta-lactamase; Region: Beta-lactamase; pfam00144 392499006843 Protein of unknown function (DUF1611); Region: DUF1611; pfam07755 392499006844 D-glutamate deacylase; Validated; Region: PRK09061 392499006845 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 392499006846 active site 392499006847 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 392499006848 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 392499006849 N-terminal plug; other site 392499006850 ligand-binding site [chemical binding]; other site 392499006851 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 392499006852 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 392499006853 SIS domain. SIS (Sugar ISomerase) domains are found in many phosphosugar isomerases and phosphosugar binding proteins. SIS domains are also found in proteins that regulate the expression of genes involved in synthesis of phosphosugars; Region: SIS; cl00389 392499006854 L-Ala-D/L-Glu epimerase catalyzes the epimerization of L-Ala-D/L-Glu and other dipeptides. The genomic context and the substrate specificity of characterized members of this family from E.coli and B.subtilis indicates a possible role in the metabolism of...; Region: L-Ala-DL-Glu_epimerase; cd03319 392499006855 L-Ala-D/L-Glu epimerase; Provisional; Region: PRK15129 392499006856 active site 392499006857 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 392499006858 PA_M28_1_1: Protease-associated (PA) domain, peptidase family M28, subfamily-1, subgroup 1. A subgroup of PA-domain containing proteins belonging to the peptidase family M28. Family M28 contains aminopeptidases and carboxypeptidases, and has co-catalytic...; Region: PA_M28_1_1; cd04820 392499006859 PA/protease or protease-like domain interface [polypeptide binding]; other site 392499006860 M28 Zn-Peptidases containing a PA domain insert; Region: M28_like_PA_2; cd05661 392499006861 Peptidase family M28; Region: Peptidase_M28; pfam04389 392499006862 metal binding site [ion binding]; metal-binding site 392499006863 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 392499006864 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 392499006865 2,3-dihydroxybiphenyl 1,2-dioxygenase; Region: 23dbph12diox; TIGR03213 392499006866 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 392499006867 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 392499006868 active site 392499006869 Fe binding site [ion binding]; other site 392499006870 2-hydroxy-6-oxo-6-phenylhexa-2,4-dienoate hydrolase; Region: biphenyl_bphD; TIGR03343 392499006871 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 392499006872 catalytic site [active] 392499006873 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 392499006874 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 392499006875 active site 392499006876 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 392499006877 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 392499006878 [2Fe-2S] cluster binding site [ion binding]; other site 392499006879 3-ketosteroid-delta-1-dehydrogenase; Reviewed; Region: PRK07843 392499006880 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 392499006881 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 392499006882 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 392499006883 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 392499006884 substrate binding site [chemical binding]; other site 392499006885 oxyanion hole (OAH) forming residues; other site 392499006886 trimer interface [polypeptide binding]; other site 392499006887 2-enoyl-CoA Hydratase C-terminal region; Region: ECH_C; pfam13766 392499006888 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 392499006889 active site 2 [active] 392499006890 active site 1 [active] 392499006891 indolepyruvate ferredoxin oxidoreductase; Validated; Region: PRK09193 392499006892 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 392499006893 dimer interface [polypeptide binding]; other site 392499006894 PYR/PP interface [polypeptide binding]; other site 392499006895 TPP binding site [chemical binding]; other site 392499006896 substrate binding site [chemical binding]; other site 392499006897 Thiamine pyrophosphate (TPP) family, IOR-alpha subfamily, TPP-binding module; composed of proteins similar to indolepyruvate ferredoxin oxidoreductase (IOR) alpha subunit. IOR catalyzes the oxidative decarboxylation of arylpyruvates, such as...; Region: TPP_IOR_alpha; cd02008 392499006898 TPP-binding site; other site 392499006899 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 392499006900 lipid-transfer protein; Provisional; Region: PRK07855 392499006901 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 392499006902 active site 392499006903 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 392499006904 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 392499006905 active site 392499006906 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK12825 392499006907 classical (c) SDRs; Region: SDR_c; cd05233 392499006908 NAD(P) binding site [chemical binding]; other site 392499006909 active site 392499006910 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 392499006911 Acetyl-CoA hydrolase [Energy production and conversion]; Region: ACH1; COG0427 392499006912 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 392499006913 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 392499006914 3-ketosteroid-delta-1-dehydrogenase; Reviewed; Region: PRK12844 392499006915 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 392499006916 Predicted oxidoreductase [General function prediction only]; Region: COG3573 392499006917 enoyl-CoA hydratase; Provisional; Region: PRK06688 392499006918 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 392499006919 substrate binding site [chemical binding]; other site 392499006920 oxyanion hole (OAH) forming residues; other site 392499006921 trimer interface [polypeptide binding]; other site 392499006922 AMP-binding domain protein; Validated; Region: PRK08315 392499006923 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 392499006924 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_2; cd05917 392499006925 acyl-activating enzyme (AAE) consensus motif; other site 392499006926 acyl-activating enzyme (AAE) consensus motif; other site 392499006927 putative AMP binding site [chemical binding]; other site 392499006928 putative active site [active] 392499006929 putative CoA binding site [chemical binding]; other site 392499006930 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 392499006931 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 392499006932 active site 392499006933 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 392499006934 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 392499006935 catalytic loop [active] 392499006936 iron binding site [ion binding]; other site 392499006937 Protein of unknown function (DUF1330); Region: DUF1330; pfam07045 392499006938 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 392499006939 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 392499006940 enoyl-CoA hydratase; Provisional; Region: PRK06688 392499006941 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 392499006942 substrate binding site [chemical binding]; other site 392499006943 oxyanion hole (OAH) forming residues; other site 392499006944 trimer interface [polypeptide binding]; other site 392499006945 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 392499006946 Cytochrome P450; Region: p450; cl12078 392499006947 2,3-dihydroxybiphenyl 1,2-dioxygenase; Region: 23dbph12diox; TIGR03213 392499006948 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 392499006949 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 392499006950 active site 392499006951 Fe binding site [ion binding]; other site 392499006952 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 392499006953 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 392499006954 active site 392499006955 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 392499006956 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 392499006957 active site 392499006958 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 392499006959 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 392499006960 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 392499006961 active site 392499006962 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 392499006963 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 392499006964 active site 2 [active] 392499006965 active site 1 [active] 392499006966 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 392499006967 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 392499006968 NAD(P) binding site [chemical binding]; other site 392499006969 active site 392499006970 acetyl-CoA acetyltransferase; Validated; Region: PRK06157 392499006971 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 392499006972 active site 392499006973 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 392499006974 active site 392499006975 Predicted nucleic-acid-binding protein containing a Zn-ribbon [General function prediction only]; Region: COG1545 392499006976 DUF35 OB-fold domain; Region: DUF35; pfam01796 392499006977 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 392499006978 Thioesterase-like superfamily; Region: 4HBT_3; pfam13622 392499006979 CoenzymeA binding site [chemical binding]; other site 392499006980 subunit interaction site [polypeptide binding]; other site 392499006981 PHB binding site; other site 392499006982 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 392499006983 Sulfatase; Region: Sulfatase; pfam00884 392499006984 Concanavalin A-like lectin/glucanases superfamily; Region: Laminin_G_3; pfam13385 392499006985 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 392499006986 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 392499006987 N-terminal plug; other site 392499006988 ligand-binding site [chemical binding]; other site 392499006989 hypothetical protein; Validated; Region: PRK07121 392499006990 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 392499006991 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 392499006992 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 392499006993 EthD domain; Region: EthD; pfam07110 392499006994 EthD domain; Region: EthD; pfam07110 392499006995 alpha-ketoglutarate transporter; Provisional; Region: PRK10406 392499006996 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 392499006997 putative substrate translocation pore; other site 392499006998 diaminopropionate ammonia-lyase; Provisional; Region: PRK08206 392499006999 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 392499007000 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 392499007001 catalytic residue [active] 392499007002 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 392499007003 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 392499007004 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 392499007005 active site 392499007006 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 392499007007 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 392499007008 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 392499007009 active site 392499007010 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 392499007011 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 392499007012 N-terminal plug; other site 392499007013 ligand-binding site [chemical binding]; other site 392499007014 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 392499007015 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 392499007016 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 392499007017 catalytic site [active] 392499007018 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 392499007019 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 392499007020 putative DNA binding site [nucleotide binding]; other site 392499007021 putative Zn2+ binding site [ion binding]; other site 392499007022 AsnC family; Region: AsnC_trans_reg; pfam01037 392499007023 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 392499007024 D-glycerate dehydrogenase/hydroxypyruvate reductase (GDH); Region: GDH; cd05301 392499007025 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 392499007026 dimerization interface [polypeptide binding]; other site 392499007027 ligand binding site [chemical binding]; other site 392499007028 NADP binding site [chemical binding]; other site 392499007029 catalytic site [active] 392499007030 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 392499007031 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 392499007032 iron-sulfur cluster [ion binding]; other site 392499007033 [2Fe-2S] cluster binding site [ion binding]; other site 392499007034 C-terminal catalytic domain of the oxygenase alpha subunit of Pseudomonas resinovorans strain CA10 anthranilate 1,2-dioxygenase and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_AntDO-like; cd08879 392499007035 putative alpha subunit interface [polypeptide binding]; other site 392499007036 putative active site [active] 392499007037 putative substrate binding site [chemical binding]; other site 392499007038 Fe binding site [ion binding]; other site 392499007039 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 392499007040 inter-subunit interface; other site 392499007041 Isochorismatase family; Region: Isochorismatase; pfam00857 392499007042 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 392499007043 catalytic triad [active] 392499007044 conserved cis-peptide bond; other site 392499007045 short chain dehydrogenase; Provisional; Region: PRK08265 392499007046 classical (c) SDRs; Region: SDR_c; cd05233 392499007047 NAD(P) binding site [chemical binding]; other site 392499007048 active site 392499007049 Phytoene dehydrogenase and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG1233 392499007050 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 392499007051 putative indolepyruvate oxidoreductase subunit B; Reviewed; Region: PRK08312 392499007052 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 392499007053 The Ntn hydrolases (N-terminal nucleophile) are a diverse superfamily of of enzymes that are activated autocatalytically via an N-terminally lcated nucleophilic amino acid. N-terminal nucleophile (NTN-) hydrolase superfamily, which contains a...; Region: Ntn_hydrolase; cl00467 392499007054 Indolepyruvate ferredoxin oxidoreductase, alpha and beta subunits [Energy production and conversion]; Region: COG4231 392499007055 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 392499007056 dimer interface [polypeptide binding]; other site 392499007057 PYR/PP interface [polypeptide binding]; other site 392499007058 TPP binding site [chemical binding]; other site 392499007059 substrate binding site [chemical binding]; other site 392499007060 Thiamine pyrophosphate (TPP) family, IOR-alpha subfamily, TPP-binding module; composed of proteins similar to indolepyruvate ferredoxin oxidoreductase (IOR) alpha subunit. IOR catalyzes the oxidative decarboxylation of arylpyruvates, such as...; Region: TPP_IOR_alpha; cd02008 392499007061 TPP-binding site; other site 392499007062 Kynurenine formamidase [Amino acid transport and metabolism]; Region: COG1878 392499007063 Transcriptional regulators [Transcription]; Region: MarR; COG1846 392499007064 MarR family; Region: MarR_2; pfam12802 392499007065 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 392499007066 active site 392499007067 intersubunit interface [polypeptide binding]; other site 392499007068 catalytic residue [active] 392499007069 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 392499007070 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 392499007071 putative sialic acid transporter; Region: 2A0112; TIGR00891 392499007072 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 392499007073 putative substrate translocation pore; other site 392499007074 Mannitol-1-phosphate/altronate dehydrogenases [Carbohydrate transport and metabolism]; Region: MtlD; COG0246 392499007075 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 392499007076 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 392499007077 glucuronate isomerase; Reviewed; Region: PRK02925 392499007078 Glucuronate isomerase [Carbohydrate transport and metabolism]; Region: UxaC; COG1904 392499007079 Transcriptional regulators [Transcription]; Region: FadR; COG2186 392499007080 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 392499007081 DNA-binding site [nucleotide binding]; DNA binding site 392499007082 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 392499007083 bifunctional D-altronate/D-mannonate dehydratase; Provisional; Region: PRK15072 392499007084 Enolase-superfamily, characterized by the presence of an enolate anion intermediate which is generated by abstraction of the alpha-proton of the carboxylate substrate by an active site residue and is stabilized by coordination to the essential Mg2+ ion; Region: enolase_like; cl17188 392499007085 metal binding site [ion binding]; metal-binding site 392499007086 substrate binding pocket [chemical binding]; other site 392499007087 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 392499007088 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 392499007089 substrate binding site [chemical binding]; other site 392499007090 ATP binding site [chemical binding]; other site 392499007091 Transcriptional regulators [Transcription]; Region: FadR; COG2186 392499007092 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 392499007093 DNA-binding site [nucleotide binding]; DNA binding site 392499007094 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 392499007095 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 392499007096 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 392499007097 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 392499007098 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 392499007099 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 392499007100 Gluconate 2-dehydrogenase subunit 3; Region: Gluconate_2-dh3; pfam13618 392499007101 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 392499007102 Protein of unknown function, DUF485; Region: DUF485; pfam04341 392499007103 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 392499007104 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 392499007105 Na binding site [ion binding]; other site 392499007106 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 392499007107 Membrane-bound PQQ-dependent glucose dehydrogenase; Region: PQQ_mGDH; cd10280 392499007108 Trp docking motif [polypeptide binding]; other site 392499007109 putative active site [active] 392499007110 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 392499007111 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 392499007112 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 392499007113 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 392499007114 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 392499007115 N-terminal plug; other site 392499007116 ligand-binding site [chemical binding]; other site 392499007117 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 392499007118 ASC-1 homology or ASCH domain, a small beta-barrel domain found in all three kingdoms of life. ASCH resembles the RNA-binding PUA domain and may also interact with RNA. ASCH has been proposed to function as an RNA-binding domain during coactivation; Region: ASCH; cl01020 392499007119 malic enzyme; Reviewed; Region: PRK12862 392499007120 Malic enzyme, N-terminal domain; Region: malic; pfam00390 392499007121 Malic enzyme, NAD binding domain; Region: Malic_M; smart00919 392499007122 NAD(P) binding pocket [chemical binding]; other site 392499007123 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 392499007124 Protein of unknown function (DUF1330); Region: DUF1330; cl02288 392499007125 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 392499007126 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 392499007127 substrate binding site [chemical binding]; other site 392499007128 oxyanion hole (OAH) forming residues; other site 392499007129 trimer interface [polypeptide binding]; other site 392499007130 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 392499007131 methyl indole-3-acetate methyltransferase; Region: PLN02211; cl17657 392499007132 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 392499007133 Periplasmic binding domain of ATP-binding cassette transporter-like systems that belong to the type I periplasmic binding fold protein superfamily; Region: PBP1_ABC_transporter_LIVBP_like; cd06268 392499007134 ligand binding site [chemical binding]; other site 392499007135 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 392499007136 acyl-CoA synthetase; Validated; Region: PRK06188 392499007137 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 392499007138 acyl-activating enzyme (AAE) consensus motif; other site 392499007139 putative AMP binding site [chemical binding]; other site 392499007140 putative active site [active] 392499007141 putative CoA binding site [chemical binding]; other site 392499007142 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 392499007143 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 392499007144 N-terminal plug; other site 392499007145 ligand-binding site [chemical binding]; other site 392499007146 Cupin; Region: Cupin_6; pfam12852 392499007147 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 392499007148 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 392499007149 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 392499007150 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 392499007151 ABC-type transport system involved in Fe-S cluster assembly, permease and ATPase components [Posttranslational modification, protein turnover, chaperones]; Region: ATM1; COG5265 392499007152 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 392499007153 Walker A/P-loop; other site 392499007154 ATP binding site [chemical binding]; other site 392499007155 Q-loop/lid; other site 392499007156 ABC transporter signature motif; other site 392499007157 Walker B; other site 392499007158 D-loop; other site 392499007159 H-loop/switch region; other site 392499007160 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 392499007161 ATP-dependent DNA helicase RecQ; Region: recQ; TIGR01389 392499007162 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 392499007163 ATP binding site [chemical binding]; other site 392499007164 putative Mg++ binding site [ion binding]; other site 392499007165 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 392499007166 nucleotide binding region [chemical binding]; other site 392499007167 ATP-binding site [chemical binding]; other site 392499007168 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 392499007169 HRDC domain; Region: HRDC; pfam00570 392499007170 Putative phosphatase (DUF442); Region: DUF442; cl17385 392499007171 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 392499007172 putative catalytic site [active] 392499007173 putative metal binding site [ion binding]; other site 392499007174 putative phosphate binding site [ion binding]; other site 392499007175 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 392499007176 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 392499007177 Nitrogen regulatory protein P-II; Region: P-II; smart00938 392499007178 Bacterial protein of unknown function (DUF924); Region: DUF924; pfam06041 392499007179 hypothetical protein; Provisional; Region: PRK10279 392499007180 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 392499007181 nucleophile elbow; other site 392499007182 protease TldD; Provisional; Region: tldD; PRK10735 392499007183 Zinc-finger domain; Region: zf-CHCC; pfam10276 392499007184 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 392499007185 RNA/DNA hybrid binding site [nucleotide binding]; other site 392499007186 active site 392499007187 Sporulation related domain; Region: SPOR; cl10051 392499007188 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 392499007189 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 392499007190 Walker A/P-loop; other site 392499007191 ATP binding site [chemical binding]; other site 392499007192 Q-loop/lid; other site 392499007193 ABC transporter signature motif; other site 392499007194 Walker B; other site 392499007195 D-loop; other site 392499007196 H-loop/switch region; other site 392499007197 L-aspartate oxidase; Provisional; Region: PRK09077 392499007198 L-aspartate oxidase; Provisional; Region: PRK06175 392499007199 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 392499007200 Na+/H+ antiporter 1; Region: Na_H_antiport_1; cl01133 392499007201 Uncharacterized ACR, COG1399; Region: DUF177; pfam02620 392499007202 Ubiquinol-cytochrome C chaperone; Region: Ubiq_cyt_C_chap; cl12045 392499007203 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 392499007204 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 392499007205 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 392499007206 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 392499007207 UGMP family protein; Validated; Region: PRK09604 392499007208 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 392499007209 multidrug efflux protein NorA; Provisional; Region: PRK00187 392499007210 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 392499007211 cation binding site [ion binding]; other site 392499007212 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 392499007213 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 392499007214 domain interfaces; other site 392499007215 active site 392499007216 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 392499007217 active site 392499007218 Peptidase family M48; Region: Peptidase_M48; cl12018 392499007219 16S rRNA methyltransferase B; Provisional; Region: PRK10901 392499007220 RNA binding domain of NusB (N protein-Utilization Substance B) and Sun (also known as RrmB or Fmu) proteins. This family includes two orthologous groups exemplified by the transcription termination factor NusB and the N-terminal domain of the...; Region: NusB_Sun; cl00223 392499007221 NOL1/NOP2/sun family putative RNA methylase; Region: nop2p; TIGR00446 392499007222 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 392499007223 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 392499007224 substrate binding site [chemical binding]; other site 392499007225 hexamer interface [polypeptide binding]; other site 392499007226 metal binding site [ion binding]; metal-binding site 392499007227 Heparinase II/III-like protein; Region: Hepar_II_III; cl15421 392499007228 Glycine cleavage system regulatory protein [Amino acid transport and metabolism]; Region: GcvR; COG2716 392499007229 ACT domain; Region: ACT_6; pfam13740 392499007230 ACT domains that comprise the Glycine Cleavage System Transcriptional Repressor (GcvR) protein, and other related domains; Region: ACT_GcvR_2; cd04869 392499007231 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 392499007232 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 392499007233 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 392499007234 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 392499007235 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 392499007236 ligand binding site [chemical binding]; other site 392499007237 flexible hinge region; other site 392499007238 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 392499007239 putative switch regulator; other site 392499007240 non-specific DNA interactions [nucleotide binding]; other site 392499007241 DNA binding site [nucleotide binding] 392499007242 sequence specific DNA binding site [nucleotide binding]; other site 392499007243 putative cAMP binding site [chemical binding]; other site 392499007244 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 392499007245 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 392499007246 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 392499007247 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 392499007248 putative substrate translocation pore; other site 392499007249 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 392499007250 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 392499007251 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 392499007252 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 392499007253 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 392499007254 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 392499007255 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 392499007256 periplasmic multidrug efflux lipoprotein precursor; Reviewed; Region: PRK09578 392499007257 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 392499007258 HlyD family secretion protein; Region: HlyD_3; pfam13437 392499007259 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 392499007260 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 392499007261 active site 392499007262 phosphorylation site [posttranslational modification] 392499007263 intermolecular recognition site; other site 392499007264 dimerization interface [polypeptide binding]; other site 392499007265 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 392499007266 DNA binding site [nucleotide binding] 392499007267 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 392499007268 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 392499007269 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 392499007270 dimer interface [polypeptide binding]; other site 392499007271 phosphorylation site [posttranslational modification] 392499007272 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 392499007273 ATP binding site [chemical binding]; other site 392499007274 Mg2+ binding site [ion binding]; other site 392499007275 G-X-G motif; other site 392499007276 Domain of unknown function (DUF1338); Region: DUF1338; pfam07063 392499007277 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 392499007278 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 392499007279 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 392499007280 dimerization interface [polypeptide binding]; other site 392499007281 Protein of unknown function (DUF2384); Region: DUF2384; pfam09722 392499007282 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 392499007283 Amidohydrolase; Region: Amidohydro_2; pfam04909 392499007284 membrane-bound PQQ-dependent dehydrogenase, glucose/quinate/shikimate family; Region: PQQ_membr_DH; TIGR03074 392499007285 Membrane-bound PQQ-dependent glucose dehydrogenase; Region: PQQ_mGDH; cd10280 392499007286 Trp docking motif [polypeptide binding]; other site 392499007287 putative active site [active] 392499007288 Transcriptional regulator [Transcription]; Region: LysR; COG0583 392499007289 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 392499007290 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 392499007291 dimerization interface [polypeptide binding]; other site 392499007292 Transcriptional regulator [Transcription]; Region: LysR; COG0583 392499007293 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 392499007294 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 392499007295 dimerization interface [polypeptide binding]; other site 392499007296 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 392499007297 Cytochrome P450; Region: p450; cl12078 392499007298 4Fe-4S single cluster domain; Region: Fer4_15; pfam13459 392499007299 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 392499007300 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 392499007301 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 392499007302 active site 392499007303 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 392499007304 enoyl-CoA hydratase; Provisional; Region: PRK06494 392499007305 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 392499007306 substrate binding site [chemical binding]; other site 392499007307 oxyanion hole (OAH) forming residues; other site 392499007308 trimer interface [polypeptide binding]; other site 392499007309 Amidohydrolase; Region: Amidohydro_2; pfam04909 392499007310 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 392499007311 CoA-transferase family III; Region: CoA_transf_3; pfam02515 392499007312 lipid-transfer protein; Provisional; Region: PRK07855 392499007313 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 392499007314 active site 392499007315 Rubredoxin-like zinc ribbon domain (DUF35_N); Region: DUF35_N; pfam12172 392499007316 DUF35 OB-fold domain; Region: DUF35; pfam01796 392499007317 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 392499007318 putative FMN binding site [chemical binding]; other site 392499007319 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 392499007320 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 392499007321 CoA-transferase family III; Region: CoA_transf_3; pfam02515 392499007322 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 392499007323 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 392499007324 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 392499007325 D-galactonate transporter; Region: 2A0114; TIGR00893 392499007326 enoyl-CoA hydratase; Provisional; Region: PRK08290 392499007327 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 392499007328 substrate binding site [chemical binding]; other site 392499007329 oxyanion hole (OAH) forming residues; other site 392499007330 trimer interface [polypeptide binding]; other site 392499007331 SnoaL-like domain; Region: SnoaL_4; pfam13577 392499007332 SnoaL-like domain; Region: SnoaL_3; pfam13474 392499007333 Mycobacterium tuberculosis aldehyde dehydrogenase AldA-like; Region: ALDH_AldA-Rv0768; cd07139 392499007334 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 392499007335 NAD binding site [chemical binding]; other site 392499007336 catalytic residues [active] 392499007337 Zn-dependent alcohol dehydrogenases, class III [Energy production and conversion]; Region: AdhC; COG1062 392499007338 Class III alcohol dehydrogenase; Region: Zn_ADH_class_III; cd08279 392499007339 NAD binding site [chemical binding]; other site 392499007340 catalytic Zn binding site [ion binding]; other site 392499007341 substrate binding site [chemical binding]; other site 392499007342 structural Zn binding site [ion binding]; other site 392499007343 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 392499007344 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 392499007345 NAD(P) binding site [chemical binding]; other site 392499007346 active site 392499007347 Epoxide hydrolase N terminus; Region: EHN; pfam06441 392499007348 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 392499007349 mycofactocin system FadH/OYE family oxidoreductase 2; Region: mycofact_OYE_2; TIGR03997 392499007350 Old yellow enzyme (OYE)-related FMN binding domain, group 3. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a reducing agent with oxygens, quinones, and alpha,beta-unsaturated aldehydes and ketones, and can act as...; Region: OYE_like_3_FMN; cd04734 392499007351 putative active site [active] 392499007352 putative FMN binding site [chemical binding]; other site 392499007353 putative substrate binding site [chemical binding]; other site 392499007354 putative catalytic residue [active] 392499007355 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 392499007356 SnoaL-like domain; Region: SnoaL_4; pfam13577 392499007357 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 392499007358 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 392499007359 N-terminal plug; other site 392499007360 ligand-binding site [chemical binding]; other site 392499007361 hydroxyacylglutathione hydrolase; Region: GSH_gloB; TIGR03413 392499007362 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 392499007363 iron-sulfur cluster [ion binding]; other site 392499007364 [2Fe-2S] cluster binding site [ion binding]; other site 392499007365 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 392499007366 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 392499007367 [2Fe-2S] cluster binding site [ion binding]; other site 392499007368 C-terminal catalytic domain of Pseudomonas fluorescens MupW and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_MupW-like; cd08882 392499007369 putative alpha subunit interface [polypeptide binding]; other site 392499007370 putative active site [active] 392499007371 putative substrate binding site [chemical binding]; other site 392499007372 Fe binding site [ion binding]; other site 392499007373 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 392499007374 FAD binding domain; Region: FAD_binding_4; pfam01565 392499007375 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 392499007376 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 392499007377 dimer interface [polypeptide binding]; other site 392499007378 active site 392499007379 metal binding site [ion binding]; metal-binding site 392499007380 glutathione binding site [chemical binding]; other site 392499007381 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 392499007382 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 392499007383 substrate binding site [chemical binding]; other site 392499007384 oxyanion hole (OAH) forming residues; other site 392499007385 trimer interface [polypeptide binding]; other site 392499007386 pimeloyl-CoA dehydrogenase, small subunit; Region: pimD_small; TIGR03203 392499007387 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 392499007388 active site 392499007389 pimeloyl-CoA dehydrogenase, large subunit; Region: pimC_large; TIGR03204 392499007390 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 392499007391 active site 392499007392 Acetoacetate decarboxylase (ADC); Region: ADC; pfam06314 392499007393 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 392499007394 Cytochrome P450; Region: p450; cl12078 392499007395 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 392499007396 active site 392499007397 Autoinducer binding domain; Region: Autoind_bind; pfam03472 392499007398 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 392499007399 DNA binding residues [nucleotide binding] 392499007400 dimerization interface [polypeptide binding]; other site 392499007401 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 392499007402 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 392499007403 active site 392499007404 enoyl-CoA hydratase; Provisional; Region: PRK08140 392499007405 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 392499007406 substrate binding site [chemical binding]; other site 392499007407 oxyanion hole (OAH) forming residues; other site 392499007408 trimer interface [polypeptide binding]; other site 392499007409 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 392499007410 acetyl-CoA acetyltransferase; Provisional; Region: PRK07801 392499007411 dimer interface [polypeptide binding]; other site 392499007412 active site 392499007413 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 392499007414 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 392499007415 NAD(P) binding site [chemical binding]; other site 392499007416 active site 392499007417 Helix-turn-helix domain; Region: HTH_18; pfam12833 392499007418 sorbitol dehydrogenase; Provisional; Region: PRK07067 392499007419 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 392499007420 NAD(P) binding site [chemical binding]; other site 392499007421 active site 392499007422 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 392499007423 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 392499007424 NAD(P) binding site [chemical binding]; other site 392499007425 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 392499007426 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 392499007427 Old yellow enzyme (OYE)-related FMN binding domain, group 5. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a reducing agent with oxygens, quinones, and alpha,beta-unsaturated aldehydes and ketones, and can act as...; Region: OYE_like_5_FMN; cd04747 392499007428 putative active site [active] 392499007429 putative FMN binding site [chemical binding]; other site 392499007430 putative substrate binding site [chemical binding]; other site 392499007431 putative catalytic residue [active] 392499007432 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 392499007433 active site 392499007434 metal binding site [ion binding]; metal-binding site 392499007435 EthD domain; Region: EthD; pfam07110 392499007436 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 392499007437 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 392499007438 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 392499007439 Major Facilitator Superfamily; Region: MFS_1; pfam07690 392499007440 putative substrate translocation pore; other site 392499007441 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 392499007442 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 392499007443 N-acyl-D-aspartate/D-glutamate deacylase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3653 392499007444 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 392499007445 active site 392499007446 putative substrate binding pocket [chemical binding]; other site 392499007447 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 392499007448 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 392499007449 Major Facilitator Superfamily; Region: MFS_1; pfam07690 392499007450 putative substrate translocation pore; other site 392499007451 Rubredoxin-like zinc ribbon domain (DUF35_N); Region: DUF35_N; pfam12172 392499007452 DUF35 OB-fold domain; Region: DUF35; pfam01796 392499007453 lipid-transfer protein; Provisional; Region: PRK07855 392499007454 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 392499007455 active site 392499007456 Tyrosine phosphatase family; Region: Y_phosphatase3; pfam13350 392499007457 Tyrosine phosphatase family C-terminal region; Region: Y_phosphatase3C; pfam13348 392499007458 Phosphotransferase enzyme family; Region: APH; pfam01636 392499007459 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 392499007460 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 392499007461 NAD(P) binding site [chemical binding]; other site 392499007462 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 392499007463 active site 392499007464 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 392499007465 Cytochrome P450; Region: p450; cl12078 392499007466 enoyl-CoA hydratase; Provisional; Region: PRK08260 392499007467 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 392499007468 substrate binding site [chemical binding]; other site 392499007469 oxyanion hole (OAH) forming residues; other site 392499007470 trimer interface [polypeptide binding]; other site 392499007471 indolepyruvate ferredoxin oxidoreductase; Validated; Region: PRK09193 392499007472 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 392499007473 dimer interface [polypeptide binding]; other site 392499007474 PYR/PP interface [polypeptide binding]; other site 392499007475 TPP binding site [chemical binding]; other site 392499007476 substrate binding site [chemical binding]; other site 392499007477 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cl01629 392499007478 TPP-binding site [chemical binding]; other site 392499007479 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 392499007480 N-acyl-D-aspartate/D-glutamate deacylase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3653 392499007481 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 392499007482 active site 392499007483 putative substrate binding pocket [chemical binding]; other site 392499007484 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 392499007485 membrane-bound PQQ-dependent dehydrogenase, glucose/quinate/shikimate family; Region: PQQ_membr_DH; TIGR03074 392499007486 Membrane-bound PQQ-dependent glucose dehydrogenase; Region: PQQ_mGDH; cd10280 392499007487 Trp docking motif [polypeptide binding]; other site 392499007488 putative active site [active] 392499007489 Transmembrane secretion effector; Region: MFS_3; pfam05977 392499007490 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 392499007491 putative substrate translocation pore; other site 392499007492 Isochorismatase family; Region: Isochorismatase; pfam00857 392499007493 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 392499007494 catalytic triad [active] 392499007495 conserved cis-peptide bond; other site 392499007496 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 392499007497 classical (c) SDRs; Region: SDR_c; cd05233 392499007498 NAD(P) binding site [chemical binding]; other site 392499007499 active site 392499007500 SnoaL-like domain; Region: SnoaL_4; pfam13577 392499007501 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 392499007502 NAD(P) binding site [chemical binding]; other site 392499007503 active site 392499007504 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 392499007505 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 392499007506 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 392499007507 FMN binding site [chemical binding]; other site 392499007508 substrate binding site [chemical binding]; other site 392499007509 putative catalytic residue [active] 392499007510 enoyl-CoA hydratase; Provisional; Region: PRK08252 392499007511 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 392499007512 substrate binding site [chemical binding]; other site 392499007513 oxyanion hole (OAH) forming residues; other site 392499007514 trimer interface [polypeptide binding]; other site 392499007515 2-enoyl-CoA Hydratase C-terminal region; Region: ECH_C; pfam13766 392499007516 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 392499007517 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 392499007518 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 392499007519 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 392499007520 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 392499007521 [2Fe-2S] cluster binding site [ion binding]; other site 392499007522 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 392499007523 hydrophobic ligand binding site; other site 392499007524 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 392499007525 N-methylhydantoinase A/acetone carboxylase, beta subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuA; COG0145 392499007526 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; pfam01968 392499007527 N-methylhydantoinase B/acetone carboxylase, alpha subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuB; COG0146 392499007528 Hydantoinase B/oxoprolinase; Region: Hydantoinase_B; pfam02538 392499007529 Acetone carboxylase gamma subunit; Region: Acetone_carb_G; pfam08882 392499007530 Acetone carboxylase, gamma subunit [Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcxC; COG4647 392499007531 Isochorismatase family; Region: Isochorismatase; pfam00857 392499007532 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 392499007533 catalytic triad [active] 392499007534 conserved cis-peptide bond; other site 392499007535 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 392499007536 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 392499007537 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 392499007538 N-terminal plug; other site 392499007539 ligand-binding site [chemical binding]; other site 392499007540 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 392499007541 Helix-turn-helix domain; Region: HTH_18; pfam12833 392499007542 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 392499007543 choline dehydrogenase; Validated; Region: PRK02106 392499007544 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 392499007545 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 392499007546 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 392499007547 N-terminal plug; other site 392499007548 ligand-binding site [chemical binding]; other site 392499007549 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 392499007550 NAD(P) binding site [chemical binding]; other site 392499007551 active site 392499007552 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 392499007553 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 392499007554 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 392499007555 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 392499007556 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 392499007557 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 392499007558 Phosphotransferase enzyme family; Region: APH; pfam01636 392499007559 putative active site [active] 392499007560 putative substrate binding site [chemical binding]; other site 392499007561 ATP binding site [chemical binding]; other site 392499007562 SnoaL-like domain; Region: SnoaL_2; pfam12680 392499007563 SnoaL-like domain; Region: SnoaL_2; pfam12680 392499007564 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 392499007565 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 392499007566 iron-sulfur cluster [ion binding]; other site 392499007567 [2Fe-2S] cluster binding site [ion binding]; other site 392499007568 SnoaL-like domain; Region: SnoaL_2; pfam12680 392499007569 phenylpropionate dioxygenase ferredoxin reductase subunit; Provisional; Region: PRK09754 392499007570 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 392499007571 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 392499007572 Protein of unknown function (DUF3775); Region: DUF3775; pfam12616 392499007573 helix_turn_helix, Lux Regulon; Region: HTH_LUXR; smart00421 392499007574 DNA binding residues [nucleotide binding] 392499007575 dimerization interface [polypeptide binding]; other site 392499007576 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 392499007577 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 392499007578 active site 392499007579 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 392499007580 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 392499007581 N-terminal plug; other site 392499007582 ligand-binding site [chemical binding]; other site 392499007583 K+ transporter [Inorganic ion transport and metabolism]; Region: Kup; COG3158 392499007584 potassium uptake protein; Region: kup; TIGR00794 392499007585 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 392499007586 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 392499007587 putative DNA binding site [nucleotide binding]; other site 392499007588 putative Zn2+ binding site [ion binding]; other site 392499007589 AsnC family; Region: AsnC_trans_reg; pfam01037 392499007590 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 392499007591 Alanine dehydrogenase NAD-binding and catalytic domains; Region: L-AlaDH; cd05305 392499007592 hexamer interface [polypeptide binding]; other site 392499007593 ligand binding site [chemical binding]; other site 392499007594 putative active site [active] 392499007595 NAD(P) binding site [chemical binding]; other site 392499007596 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14188 392499007597 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 392499007598 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 392499007599 homodimer interface [polypeptide binding]; other site 392499007600 NADP binding site [chemical binding]; other site 392499007601 substrate binding site [chemical binding]; other site 392499007602 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 392499007603 Streptomyces aureofaciens putative aldehyde dehydrogenase AldA (AAD23400)-like; Region: ALDH_AldA-AAD23400; cd07106 392499007604 NAD(P) binding site [chemical binding]; other site 392499007605 catalytic residues [active] 392499007606 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 392499007607 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 392499007608 active site 392499007609 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 392499007610 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 392499007611 active site 392499007612 enoyl-CoA hydratase; Provisional; Region: PRK08290 392499007613 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 392499007614 substrate binding site [chemical binding]; other site 392499007615 oxyanion hole (OAH) forming residues; other site 392499007616 trimer interface [polypeptide binding]; other site 392499007617 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 392499007618 enoyl-CoA hydratase; Provisional; Region: PRK06688 392499007619 substrate binding site [chemical binding]; other site 392499007620 oxyanion hole (OAH) forming residues; other site 392499007621 trimer interface [polypeptide binding]; other site 392499007622 Amidohydrolase; Region: Amidohydro_2; pfam04909 392499007623 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 392499007624 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 392499007625 acyl-activating enzyme (AAE) consensus motif; other site 392499007626 AMP binding site [chemical binding]; other site 392499007627 active site 392499007628 CoA binding site [chemical binding]; other site 392499007629 Coenzyme A transferase; Region: CoA_trans; cl17247 392499007630 Acyl CoA:acetate/3-ketoacid CoA transferase, alpha subunit [Lipid metabolism]; Region: AtoD; COG1788 392499007631 helix_turn_helix, Lux Regulon; Region: HTH_LUXR; smart00421 392499007632 DNA binding residues [nucleotide binding] 392499007633 dimerization interface [polypeptide binding]; other site 392499007634 probable oxidoreductase, LLM family; Region: LLM_2I7G; TIGR03858 392499007635 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 392499007636 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 392499007637 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 392499007638 N-terminal plug; other site 392499007639 ligand-binding site [chemical binding]; other site 392499007640 Uncharacterized conserved protein related to dihydrodipicolinate reductase [Function unknown]; Region: COG3804 392499007641 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 392499007642 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 392499007643 Amidohydrolase; Region: Amidohydro_2; pfam04909 392499007644 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 392499007645 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 392499007646 NAD(P) binding site [chemical binding]; other site 392499007647 active site 392499007648 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 392499007649 putative substrate translocation pore; other site 392499007650 Dienelactone hydrolase family; Region: DLH; pfam01738 392499007651 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 392499007652 classical (c) SDRs; Region: SDR_c; cd05233 392499007653 NAD(P) binding site [chemical binding]; other site 392499007654 active site 392499007655 N-methylhydantoinase A/acetone carboxylase, beta subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuA; COG0145 392499007656 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 392499007657 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; pfam01968 392499007658 N-methylhydantoinase B/acetone carboxylase, alpha subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuB; COG0146 392499007659 Hydantoinase B/oxoprolinase; Region: Hydantoinase_B; pfam02538 392499007660 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 392499007661 Clavaminic acid synthetase (CAS) -like; CAS is a trifunctional Fe(II)/ 2-oxoglutarate (2OG) oxygenase carrying out three reactions in the biosynthesis of clavulanic acid, an inhibitor of class A serine beta-lactamases. In general, Fe(II)-2OG oxygenases...; Region: CAS_like; cl00184 392499007662 N-acyl-D-aspartate/D-glutamate deacylase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3653 392499007663 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 392499007664 active site 392499007665 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 392499007666 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 392499007667 Uncharacterized Candidatus pelagibacter aldehyde dehydrogenase, DhaS-like; Region: ALDH_DhaS; cd07114 392499007668 NAD(P) binding site [chemical binding]; other site 392499007669 catalytic residues [active] 392499007670 Zn-dependent alcohol dehydrogenases, class III [Energy production and conversion]; Region: AdhC; COG1062 392499007671 Class III alcohol dehydrogenase; Region: Zn_ADH_class_III; cd08279 392499007672 NAD binding site [chemical binding]; other site 392499007673 catalytic Zn binding site [ion binding]; other site 392499007674 substrate binding site [chemical binding]; other site 392499007675 structural Zn binding site [ion binding]; other site 392499007676 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 392499007677 putative substrate translocation pore; other site 392499007678 Major Facilitator Superfamily; Region: MFS_1; pfam07690 392499007679 N-acyl-D-aspartate/D-glutamate deacylase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3653 392499007680 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 392499007681 active site 392499007682 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 392499007683 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 392499007684 Taurine catabolism dioxygenase TauD, TfdA family; Region: TauD; pfam02668 392499007685 active site 392499007686 iron coordination sites [ion binding]; other site 392499007687 substrate binding pocket [chemical binding]; other site 392499007688 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 392499007689 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 392499007690 classical (c) SDRs; Region: SDR_c; cd05233 392499007691 NAD(P) binding site [chemical binding]; other site 392499007692 active site 392499007693 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 392499007694 probable F420-dependent oxidoreductase, Rv2161c family; Region: F420_Rv2161c; TIGR03619 392499007695 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 392499007696 Beta-lactamase; Region: Beta-lactamase; pfam00144 392499007697 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 392499007698 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 392499007699 acyl-activating enzyme (AAE) consensus motif; other site 392499007700 AMP binding site [chemical binding]; other site 392499007701 active site 392499007702 CoA binding site [chemical binding]; other site 392499007703 Rubredoxin-like zinc ribbon domain (DUF35_N); Region: DUF35_N; pfam12172 392499007704 DUF35 OB-fold domain; Region: DUF35; pfam01796 392499007705 Putative cyclase; Region: Cyclase; pfam04199 392499007706 lipid-transfer protein; Provisional; Region: PRK07855 392499007707 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 392499007708 active site 392499007709 Luciferase-like monooxygenase; Region: Bac_luciferase; pfam00296 392499007710 probable oxidoreductase, LLM family; Region: LLM_2I7G; TIGR03858 392499007711 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07656 392499007712 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 392499007713 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 392499007714 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_2; cd05917 392499007715 acyl-activating enzyme (AAE) consensus motif; other site 392499007716 acyl-activating enzyme (AAE) consensus motif; other site 392499007717 putative AMP binding site [chemical binding]; other site 392499007718 putative active site [active] 392499007719 putative CoA binding site [chemical binding]; other site 392499007720 short chain dehydrogenase; Provisional; Region: PRK12827 392499007721 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 392499007722 NAD(P) binding site [chemical binding]; other site 392499007723 active site 392499007724 Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541 392499007725 Luciferase-like monooxygenase; Region: Bac_luciferase; pfam00296 392499007726 probable oxidoreductase, LLM family; Region: LLM_2I7G; TIGR03858 392499007727 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 392499007728 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 392499007729 Transcriptional regulator [Transcription]; Region: IclR; COG1414 392499007730 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 392499007731 Bacterial transcriptional regulator; Region: IclR; pfam01614 392499007732 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 392499007733 acetaldehyde dehydrogenase; Validated; Region: PRK08300 392499007734 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 392499007735 Prokaryotic acetaldehyde dehydrogenase, dimerisation; Region: AcetDehyd-dimer; pfam09290 392499007736 4-hyroxy-2-oxovalerate/4-hydroxy-2-oxopentanoic acid aldolase,; Validated; Region: PRK08195 392499007737 4-hydroxy-2-oxovalerate aldolase, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_HOA; cd07943 392499007738 active site 392499007739 catalytic residues [active] 392499007740 metal binding site [ion binding]; metal-binding site 392499007741 DmpG-like communication domain; Region: DmpG_comm; pfam07836 392499007742 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 392499007743 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 392499007744 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 392499007745 active site 392499007746 Tetratricopeptide repeat; Region: TPR_12; pfam13424 392499007747 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 392499007748 TPR motif; other site 392499007749 Tetratricopeptide repeat; Region: TPR_12; pfam13424 392499007750 binding surface 392499007751 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 392499007752 binding surface 392499007753 TPR motif; other site 392499007754 Tetratricopeptide repeat; Region: TPR_12; pfam13424 392499007755 CHAT domain; Region: CHAT; pfam12770 392499007756 Zn-dependent protease with chaperone function [Posttranslational modification, protein turnover, chaperones]; Region: HtpX; COG0501 392499007757 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 392499007758 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 392499007759 Protein of unknown function (DUF1345); Region: DUF1345; pfam07077 392499007760 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 392499007761 Coenzyme A binding pocket [chemical binding]; other site 392499007762 EamA-like transporter family; Region: EamA; pfam00892 392499007763 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 392499007764 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 392499007765 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 392499007766 L-Asparaginase type 2. L-Asparaginase hydrolyzes L-asparagine to L-aspartate and ammonia. The proenzyme undergoes an autoproteolytic cleavage into alpha and beta subunits to expose a threonine residue which becomes the N-terminal residue of the beta...; Region: Asparaginase_2; cd04701 392499007767 catalytic nucleophile [active] 392499007768 S1/P1 nucleases and related enzymes; Region: S1-P1_nuclease; cd11010 392499007769 active site 392499007770 Zn binding site [ion binding]; other site 392499007771 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4877 392499007772 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 392499007773 A subgroup of the band 7 domain of flotillin (reggie) like proteins. This subgroup contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. Many of these band 7 domain-containing proteins are lipid raft-associated. Individual...; Region: Band_7_2; cd03402 392499007774 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 392499007775 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 392499007776 ligand binding site [chemical binding]; other site 392499007777 translocation protein TolB; Provisional; Region: tolB; PRK05137 392499007778 TolB amino-terminal domain; Region: TolB_N; pfam04052 392499007779 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 392499007780 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 392499007781 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 392499007782 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 392499007783 TolR protein; Region: tolR; TIGR02801 392499007784 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 392499007785 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 392499007786 active site 392499007787 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 392499007788 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 392499007789 Walker A motif; other site 392499007790 ATP binding site [chemical binding]; other site 392499007791 Walker B motif; other site 392499007792 arginine finger; other site 392499007793 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 392499007794 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 392499007795 TPR repeat; Region: TPR_11; pfam13414 392499007796 binding surface 392499007797 TPR motif; other site 392499007798 TPR repeat; Region: TPR_11; pfam13414 392499007799 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 392499007800 binding surface 392499007801 TPR motif; other site 392499007802 Tetratricopeptide repeat; Region: TPR_16; pfam13432 392499007803 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 392499007804 RuvA N terminal domain; Region: RuvA_N; pfam01330 392499007805 Holliday junction resolvase; Reviewed; Region: ruvC; PRK00039 392499007806 active site 392499007807 putative DNA-binding cleft [nucleotide binding]; other site 392499007808 dimer interface [polypeptide binding]; other site 392499007809 hypothetical protein; Validated; Region: PRK00110 392499007810 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 392499007811 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 392499007812 E3 interaction surface; other site 392499007813 lipoyl attachment site [posttranslational modification]; other site 392499007814 e3 binding domain; Region: E3_binding; pfam02817 392499007815 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 392499007816 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 392499007817 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 392499007818 alpha subunit interface [polypeptide binding]; other site 392499007819 TPP binding site [chemical binding]; other site 392499007820 heterodimer interface [polypeptide binding]; other site 392499007821 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 392499007822 2-oxoisovalerate dehydrogenase E1 alpha subunit N terminal; Region: OxoDH_E1alpha_N; pfam12573 392499007823 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, alpha subunit [Energy production and conversion]; Region: AcoA; COG1071 392499007824 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 392499007825 tetramer interface [polypeptide binding]; other site 392499007826 TPP-binding site [chemical binding]; other site 392499007827 heterodimer interface [polypeptide binding]; other site 392499007828 phosphorylation loop region [posttranslational modification] 392499007829 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 392499007830 dimerization interface [polypeptide binding]; other site 392499007831 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 392499007832 dimer interface [polypeptide binding]; other site 392499007833 phosphorylation site [posttranslational modification] 392499007834 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 392499007835 ATP binding site [chemical binding]; other site 392499007836 Mg2+ binding site [ion binding]; other site 392499007837 G-X-G motif; other site 392499007838 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 392499007839 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 392499007840 active site 392499007841 phosphorylation site [posttranslational modification] 392499007842 intermolecular recognition site; other site 392499007843 dimerization interface [polypeptide binding]; other site 392499007844 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 392499007845 DNA binding site [nucleotide binding] 392499007846 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 392499007847 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 392499007848 FtsX-like permease family; Region: FtsX; pfam02687 392499007849 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 392499007850 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 392499007851 Walker A/P-loop; other site 392499007852 ATP binding site [chemical binding]; other site 392499007853 Q-loop/lid; other site 392499007854 ABC transporter signature motif; other site 392499007855 Walker B; other site 392499007856 D-loop; other site 392499007857 H-loop/switch region; other site 392499007858 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 392499007859 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 392499007860 HlyD family secretion protein; Region: HlyD_3; pfam13437 392499007861 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 392499007862 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 392499007863 catalytic motif [active] 392499007864 Catalytic residue [active] 392499007865 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 392499007866 catalytic motif [active] 392499007867 Catalytic residue [active] 392499007868 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 392499007869 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 392499007870 catalytic triad [active] 392499007871 luciferase family oxidoreductase, group 1; Region: oxido_grp_1; TIGR03558 392499007872 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 392499007873 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cd00347 392499007874 Protein of unknown function DUF72; Region: DUF72; pfam01904 392499007875 Uncharacterized conserved protein [Function unknown]; Region: COG3791 392499007876 Protein of unknown function (DUF1428); Region: DUF1428; pfam07237 392499007877 Transcriptional regulator [Transcription]; Region: LysR; COG0583 392499007878 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 392499007879 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 392499007880 dimerization interface [polypeptide binding]; other site 392499007881 isovaleryl-CoA dehydrogenase; Region: PLN02519 392499007882 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 392499007883 active site 392499007884 3-methylcrotonyl-CoA carboxylase, beta chain; Region: PLN02820 392499007885 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 392499007886 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 392499007887 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 392499007888 ATP-grasp domain; Region: ATP-grasp_4; cl17255 392499007889 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 392499007890 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 392499007891 carboxyltransferase (CT) interaction site; other site 392499007892 biotinylation site [posttranslational modification]; other site 392499007893 Methyltransferase domain; Region: Methyltransf_18; pfam12847 392499007894 Transcriptional regulator; Region: Rrf2; pfam02082 392499007895 Rrf2 family protein; Region: rrf2_super; TIGR00738 392499007896 choice-of-anchor C domain; Region: choice_anch_C; TIGR04362 392499007897 peptidyl-prolyl cis-trans isomerase, EpsD family; Region: cis_trans_EpsD; TIGR02925 392499007898 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 392499007899 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 392499007900 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 392499007901 Peptidase M15; Region: Peptidase_M15_3; cl01194 392499007902 Domain of unknown function (DUF4376); Region: DUF4376; pfam14301 392499007903 Domain of unknown function (DUF1983); Region: DUF1983; pfam09327 392499007904 Plasmid maintenance system killer protein; Region: Plasmid_killer; cl01422 392499007905 Plasmid maintenance system antidote protein [General function prediction only]; Region: VapI; COG3093 392499007906 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 392499007907 sequence-specific DNA binding site [nucleotide binding]; other site 392499007908 salt bridge; other site 392499007909 Uncharacterized conserved protein (DUF2190); Region: DUF2190; pfam09956 392499007910 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_1; cd07016 392499007911 oligomer interface [polypeptide binding]; other site 392499007912 active site residues [active] 392499007913 phage portal protein, lambda family; Region: portal_lambda; TIGR01539 392499007914 Phage portal protein, lambda family; Region: Phage_portal_2; pfam05136 392499007915 Phage terminase large subunit (GpA); Region: Terminase_GpA; pfam05876 392499007916 Prim_Pol: Primase-polymerase (primpol) domain of the type found in bifunctional replicases from archaeal plasmids, including ORF904 protein of the crenarchaeal plasmid pRN1 from Sulfolobus islandicus (pRN1 primpol). These primpol domains belong to the...; Region: Prim_Pol; cd04859 392499007917 polymerase nucleotide-binding site; other site 392499007918 DNA-binding residues [nucleotide binding]; DNA binding site 392499007919 nucleotide binding site [chemical binding]; other site 392499007920 primase nucleotide-binding site [nucleotide binding]; other site 392499007921 D5 N terminal like; Region: D5_N; smart00885 392499007922 phage/plasmid primase, P4 family, C-terminal domain; Region: primase_Cterm; TIGR01613 392499007923 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 392499007924 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 392499007925 dimer interface [polypeptide binding]; other site 392499007926 ssDNA binding site [nucleotide binding]; other site 392499007927 tetramer (dimer of dimers) interface [polypeptide binding]; other site 392499007928 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dam; COG0338 392499007929 Predicted transcriptional regulator [Transcription]; Region: COG2932 392499007930 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 392499007931 Catalytic site [active] 392499007932 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 392499007933 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 392499007934 catalytic residues [active] 392499007935 catalytic nucleophile [active] 392499007936 Recombinase; Region: Recombinase; pfam07508 392499007937 Copper resistance protein B precursor (CopB); Region: CopB; pfam05275 392499007938 copper-resistance protein, CopA family; Region: copper_res_A; TIGR01480 392499007939 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 392499007940 Multicopper oxidase; Region: Cu-oxidase; pfam00394 392499007941 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 392499007942 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 392499007943 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 392499007944 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 392499007945 active site 392499007946 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 392499007947 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 392499007948 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 392499007949 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 392499007950 N-terminal plug; other site 392499007951 ligand-binding site [chemical binding]; other site 392499007952 PQQ_like domain of the quinohemoprotein alcohol dehydrogenase (type II); Region: PQQ_ADH_II; cd10279 392499007953 PQQ-dependent dehydrogenase, methanol/ethanol family; Region: PQQ_enz_alc_DH; TIGR03075 392499007954 Trp docking motif [polypeptide binding]; other site 392499007955 cytochrome domain interface [polypeptide binding]; other site 392499007956 active site 392499007957 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 392499007958 Cytochrome c; Region: Cytochrom_C; pfam00034 392499007959 Domain of unknown function (DUF336); Region: DUF336; pfam03928 392499007960 Phosphate-selective porin O and P; Region: Porin_O_P; pfam07396 392499007961 Bacterial protein of unknown function (Gcw_chp); Region: Gcw_chp; cl09901 392499007962 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 392499007963 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 392499007964 Sulfate transporter family; Region: Sulfate_transp; pfam00916 392499007965 Carbonic anhydrases (CA) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism in which the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide is followed by the regeneration of an...; Region: beta_CA_cladeB; cd00884 392499007966 active site clefts [active] 392499007967 zinc binding site [ion binding]; other site 392499007968 dimer interface [polypeptide binding]; other site 392499007969 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 392499007970 dimerization interface [polypeptide binding]; other site 392499007971 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 392499007972 dimer interface [polypeptide binding]; other site 392499007973 phosphorylation site [posttranslational modification] 392499007974 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 392499007975 ATP binding site [chemical binding]; other site 392499007976 Mg2+ binding site [ion binding]; other site 392499007977 G-X-G motif; other site 392499007978 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 392499007979 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 392499007980 active site 392499007981 phosphorylation site [posttranslational modification] 392499007982 intermolecular recognition site; other site 392499007983 dimerization interface [polypeptide binding]; other site 392499007984 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 392499007985 DNA binding site [nucleotide binding] 392499007986 putative acyl-CoA synthetase; Provisional; Region: PRK06018 392499007987 Fatty acyl-CoA synthetases similar to LC-FACS from Thermus thermophiles; Region: ttLC_FACS_AlkK_like; cd12119 392499007988 dimer interface [polypeptide binding]; other site 392499007989 acyl-activating enzyme (AAE) consensus motif; other site 392499007990 putative active site [active] 392499007991 AMP binding site [chemical binding]; other site 392499007992 putative CoA binding site [chemical binding]; other site 392499007993 Pyrabactin resistance 1 (PYR1), PYR1-like (PYL), regulatory component of abscisic acid receptors (RCARs), and related proteins; Region: PYR_PYL_RCAR_like; cd07821 392499007994 putative hydrophobic ligand binding site [chemical binding]; other site 392499007995 protein interface [polypeptide binding]; other site 392499007996 gate; other site 392499007997 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 392499007998 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 392499007999 [2Fe-2S] cluster binding site [ion binding]; other site 392499008000 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 392499008001 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 392499008002 N-terminal plug; other site 392499008003 ligand-binding site [chemical binding]; other site 392499008004 arsenical resistance protein ArsH; Region: resist_ArsH; TIGR02690 392499008005 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 392499008006 Major intrinsic protein (MIP) superfamily. Members of the MIP superfamily function as membrane channels that selectively transport water, small neutral molecules, and ions out of and between cells. The channel proteins share a common fold: the N-terminal...; Region: MIP; cl00200 392499008007 amphipathic channel; other site 392499008008 Asn-Pro-Ala signature motifs; other site 392499008009 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 392499008010 ArsC family; Region: ArsC; pfam03960 392499008011 catalytic residues [active] 392499008012 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 392499008013 putative DNA binding site [nucleotide binding]; other site 392499008014 putative Zn2+ binding site [ion binding]; other site 392499008015 GST_N family, Saccharomyces cerevisiae GTT1-like subfamily; composed of predominantly uncharacterized proteins with similarity to the S. cerevisiae GST protein, GTT1, and the Schizosaccharomyces pombe GST-III. GSTs are cytosolic dimeric proteins involved...; Region: GST_N_GTT1_like; cd03046 392499008016 putative C-terminal domain interface [polypeptide binding]; other site 392499008017 putative GSH binding site (G-site) [chemical binding]; other site 392499008018 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 392499008019 putative dimer interface [polypeptide binding]; other site 392499008020 C-terminal, alpha helical domain of an unknown subfamily 8 of Glutathione S-transferases; Region: GST_C_8; cd03207 392499008021 dimer interface [polypeptide binding]; other site 392499008022 N-terminal domain interface [polypeptide binding]; other site 392499008023 putative substrate binding pocket (H-site) [chemical binding]; other site 392499008024 ATP-dependent transcriptional regulator [Transcription]; Region: MalT; COG2909 392499008025 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 392499008026 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 392499008027 DNA binding residues [nucleotide binding] 392499008028 dimerization interface [polypeptide binding]; other site 392499008029 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Escherichia coli Hsp31 protein; Region: GATase1_Hsp31_like; cd03141 392499008030 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 392499008031 potential catalytic triad [active] 392499008032 conserved cys residue [active] 392499008033 Acyl-CoA thioesterase [Lipid metabolism]; Region: TesB; COG1946 392499008034 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 392499008035 active site 392499008036 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 392499008037 catalytic triad [active] 392499008038 dimer interface [polypeptide binding]; other site 392499008039 YdeM is a Bacillus subtilis protein that belongs to a family of prokaryotic proteins of unkown function. YdeM has sequence similarity to the hot-dog fold of (R)-specific enoyl-CoA hydratase. Other enzymes with this fold include the peroxisomal...; Region: YdeM; cd03454 392499008040 putative active site [active] 392499008041 putative catalytic site [active] 392499008042 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 392499008043 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 392499008044 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 392499008045 [2Fe-2S] cluster binding site [ion binding]; other site 392499008046 putative acyl-CoA dehydrogenase; Provisional; Region: PRK12341 392499008047 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 392499008048 active site 392499008049 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 392499008050 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 392499008051 [2Fe-2S] cluster binding site [ion binding]; other site 392499008052 C-terminal catalytic domain of the oxygenase alpha subunit of Rieske-type non-heme iron aromatic ring-hydroxylating oxygenases; Region: RHO_alpha_C; cd00680 392499008053 alpha subunit interface [polypeptide binding]; other site 392499008054 active site 392499008055 substrate binding site [chemical binding]; other site 392499008056 Fe binding site [ion binding]; other site 392499008057 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 392499008058 Methylmalonyl-CoA epimerase (MMCE); Region: MMCE; cd07249 392499008059 dimer interface [polypeptide binding]; other site 392499008060 substrate binding site [chemical binding]; other site 392499008061 metal binding site [ion binding]; metal-binding site 392499008062 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 392499008063 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 392499008064 active site 392499008065 metal binding site [ion binding]; metal-binding site 392499008066 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 392499008067 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 392499008068 NAD(P) binding site [chemical binding]; other site 392499008069 active site 392499008070 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 392499008071 short chain dehydrogenase; Provisional; Region: PRK07677 392499008072 NAD(P) binding site [chemical binding]; other site 392499008073 active site 392499008074 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 392499008075 short chain dehydrogenase; Validated; Region: PRK07069 392499008076 NAD(P) binding site [chemical binding]; other site 392499008077 active site 392499008078 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 392499008079 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 392499008080 [2Fe-2S] cluster binding site [ion binding]; other site 392499008081 C-terminal catalytic domain of Pseudomonas fluorescens MupW and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_MupW-like; cd08882 392499008082 putative alpha subunit interface [polypeptide binding]; other site 392499008083 putative active site [active] 392499008084 putative substrate binding site [chemical binding]; other site 392499008085 Fe binding site [ion binding]; other site 392499008086 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 392499008087 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 392499008088 [2Fe-2S] cluster binding site [ion binding]; other site 392499008089 C-terminal catalytic domain of Pseudomonas fluorescens MupW and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_MupW-like; cd08882 392499008090 putative alpha subunit interface [polypeptide binding]; other site 392499008091 putative active site [active] 392499008092 putative substrate binding site [chemical binding]; other site 392499008093 Fe binding site [ion binding]; other site 392499008094 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 392499008095 active site 392499008096 metal binding site [ion binding]; metal-binding site 392499008097 Uncharacterized conserved protein [Function unknown]; Region: COG2128 392499008098 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 392499008099 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 392499008100 N-terminal plug; other site 392499008101 ligand-binding site [chemical binding]; other site 392499008102 Uncharacterized conserved protein [Function unknown]; Region: COG1359 392499008103 AMP-binding domain protein; Validated; Region: PRK08315 392499008104 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 392499008105 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_2; cd05917 392499008106 acyl-activating enzyme (AAE) consensus motif; other site 392499008107 putative AMP binding site [chemical binding]; other site 392499008108 putative active site [active] 392499008109 putative CoA binding site [chemical binding]; other site 392499008110 Antibiotic biosynthesis monooxygenase; Region: ABM; pfam03992 392499008111 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 392499008112 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 392499008113 E3 interaction surface; other site 392499008114 lipoyl attachment site [posttranslational modification]; other site 392499008115 e3 binding domain; Region: E3_binding; pfam02817 392499008116 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 392499008117 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 392499008118 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 392499008119 alpha subunit interface [polypeptide binding]; other site 392499008120 TPP binding site [chemical binding]; other site 392499008121 heterodimer interface [polypeptide binding]; other site 392499008122 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 392499008123 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 392499008124 tetramer interface [polypeptide binding]; other site 392499008125 TPP-binding site [chemical binding]; other site 392499008126 heterodimer interface [polypeptide binding]; other site 392499008127 phosphorylation loop region [posttranslational modification] 392499008128 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 392499008129 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 392499008130 [2Fe-2S] cluster binding site [ion binding]; other site 392499008131 C-terminal catalytic domain of Pseudomonas fluorescens MupW and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_MupW-like; cd08882 392499008132 putative alpha subunit interface [polypeptide binding]; other site 392499008133 putative active site [active] 392499008134 putative substrate binding site [chemical binding]; other site 392499008135 Fe binding site [ion binding]; other site 392499008136 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 392499008137 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 392499008138 NAD(P) binding site [chemical binding]; other site 392499008139 active site 392499008140 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 392499008141 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 392499008142 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 392499008143 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 392499008144 CoA-transferase family III; Region: CoA_transf_3; pfam02515 392499008145 Rubredoxin-like zinc ribbon domain (DUF35_N); Region: DUF35_N; pfam12172 392499008146 DUF35 OB-fold domain; Region: DUF35; pfam01796 392499008147 thiolase; Provisional; Region: PRK06158 392499008148 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 392499008149 active site 392499008150 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]; Region: COG3637 392499008151 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 392499008152 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 392499008153 ligand binding site [chemical binding]; other site 392499008154 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 392499008155 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 392499008156 substrate binding site [chemical binding]; other site 392499008157 oxyanion hole (OAH) forming residues; other site 392499008158 trimer interface [polypeptide binding]; other site 392499008159 SnoaL-like domain; Region: SnoaL_4; pfam13577 392499008160 Predicted transcriptional regulators [Transcription]; Region: COG1733 392499008161 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 392499008162 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 392499008163 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 392499008164 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 392499008165 active site 392499008166 non-prolyl cis peptide bond; other site 392499008167 The single-domain 2,3-dihydroxybiphenyl 1,2-dioxygenases (BphC, EC 1.13.11.39) from Rhodococcus globerulus P6, BphC2-RGP6 and BphC3-RGP6, and similar proteins; Region: BphC2-C3-RGP6_C_like; cd08348 392499008168 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 392499008169 putative active site [active] 392499008170 putative metal binding site [ion binding]; other site 392499008171 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 392499008172 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 392499008173 iron-sulfur cluster [ion binding]; other site 392499008174 [2Fe-2S] cluster binding site [ion binding]; other site 392499008175 C-terminal catalytic domain of the oxygenase alpha subunit of dicamba O-demethylase and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_DMO-like; cd08878 392499008176 alpha subunit interface [polypeptide binding]; other site 392499008177 active site 392499008178 substrate binding site [chemical binding]; other site 392499008179 Fe binding site [ion binding]; other site 392499008180 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 392499008181 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 392499008182 putative 3-hydroxyphenylpropionic transporter MhpT; Provisional; Region: PRK11551 392499008183 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 392499008184 putative active site [active] 392499008185 homotrimer interaction site [polypeptide binding]; other site 392499008186 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 392499008187 homotrimer interaction site [polypeptide binding]; other site 392499008188 putative active site [active] 392499008189 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 392499008190 Ricin-type beta-trefoil; Carbohydrate-binding domain formed from presumed gene triplication. The domain is found in a variety of molecules serving diverse functions such as enzymatic activity, inhibitory toxicity and signal transduction. Highly specific...; Region: RICIN; cl15820 392499008191 putative sugar binding sites [chemical binding]; other site 392499008192 Q-X-W motif; other site 392499008193 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 392499008194 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 392499008195 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 392499008196 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 392499008197 The single-domain 2,3-dihydroxybiphenyl 1,2-dioxygenases (BphC, EC 1.13.11.39) from Rhodococcus globerulus P6, BphC2-RGP6 and BphC3-RGP6, and similar proteins; Region: BphC2-C3-RGP6_C_like; cd08348 392499008198 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 392499008199 putative active site [active] 392499008200 putative metal binding site [ion binding]; other site 392499008201 Transcriptional regulators [Transcription]; Region: GntR; COG1802 392499008202 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 392499008203 DNA-binding site [nucleotide binding]; DNA binding site 392499008204 FCD domain; Region: FCD; pfam07729 392499008205 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 392499008206 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 392499008207 NAD(P) binding site [chemical binding]; other site 392499008208 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 392499008209 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 392499008210 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 392499008211 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 392499008212 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 392499008213 FAD binding domain; Region: FAD_binding_3; pfam01494 392499008214 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 392499008215 Metal-dependent hydrolases of the beta-lactamase superfamily III [General function prediction only]; Region: ElaC; COG1234 392499008216 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 392499008217 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 392499008218 N-terminal plug; other site 392499008219 ligand-binding site [chemical binding]; other site 392499008220 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 392499008221 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 392499008222 N-terminal plug; other site 392499008223 ligand-binding site [chemical binding]; other site 392499008224 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 392499008225 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 392499008226 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 392499008227 Prokaryotic protein of unknown function (DUF849); Region: DUF849; pfam05853 392499008228 Transcriptional regulator [Transcription]; Region: LysR; COG0583 392499008229 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 392499008230 The C-terminal substrate binding domain of LysR-type transcriptional regulators that involved in the catabolism of nitroaromatic/naphthalene compounds and that of related regulators; contains the type 2 periplasmic binding fold; Region: PBP2_Nitroaromatics_like; cd08417 392499008231 substrate binding pocket [chemical binding]; other site 392499008232 dimerization interface [polypeptide binding]; other site 392499008233 gluconate 5-dehydrogenase; Provisional; Region: PRK08213 392499008234 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 392499008235 NAD(P) binding site [chemical binding]; other site 392499008236 active site 392499008237 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 392499008238 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 392499008239 NAD(P) binding site [chemical binding]; other site 392499008240 active site 392499008241 Amidohydrolase; Region: Amidohydro_2; pfam04909 392499008242 SnoaL-like domain; Region: SnoaL_3; pfam13474 392499008243 SnoaL-like domain; Region: SnoaL_2; pfam12680 392499008244 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 392499008245 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 392499008246 iron-sulfur cluster [ion binding]; other site 392499008247 [2Fe-2S] cluster binding site [ion binding]; other site 392499008248 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 392499008249 hydrophobic ligand binding site; other site 392499008250 2,3-dihydroxybiphenyl 1,2-dioxygenase; Region: 23dbph12diox; TIGR03213 392499008251 Glyoxalase-like domain; Region: Glyoxalase_2; pfam12681 392499008252 active site 392499008253 C-terminal domain of Burkholderia sp. NF100 MhqB and similar proteins; MhqB is a type I extradiol dioxygenase involved in the catabolism of methylhydroquinone, an intermediate in the degradation of fenitrothion; Region: MhqB_like_C; cd08360 392499008254 putative active site [active] 392499008255 putative metal binding site [ion binding]; other site 392499008256 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 392499008257 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 392499008258 active site 392499008259 Amidohydrolase; Region: Amidohydro_2; pfam04909 392499008260 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 392499008261 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 392499008262 NAD(P) binding site [chemical binding]; other site 392499008263 active site 392499008264 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 392499008265 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 392499008266 substrate binding site [chemical binding]; other site 392499008267 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 392499008268 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 392499008269 substrate binding site [chemical binding]; other site 392499008270 ligand binding site [chemical binding]; other site 392499008271 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 392499008272 active site 392499008273 catalytic residues [active] 392499008274 metal binding site [ion binding]; metal-binding site 392499008275 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 392499008276 CoA-transferase family III; Region: CoA_transf_3; pfam02515 392499008277 Transcriptional regulator [Transcription]; Region: LysR; COG0583 392499008278 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 392499008279 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_1; cd08421 392499008280 putative dimerization interface [polypeptide binding]; other site 392499008281 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 392499008282 IHF dimer interface [polypeptide binding]; other site 392499008283 IHF - DNA interface [nucleotide binding]; other site 392499008284 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 392499008285 Domain of unknown function DUF21; Region: DUF21; pfam01595 392499008286 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 392499008287 Transporter associated domain; Region: CorC_HlyC; smart01091 392499008288 putative outer membrane lipoprotein; Provisional; Region: PRK10510 392499008289 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 392499008290 ligand binding site [chemical binding]; other site 392499008291 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 392499008292 nucleoside/Zn binding site; other site 392499008293 dimer interface [polypeptide binding]; other site 392499008294 catalytic motif [active] 392499008295 Proteolipid membrane potential modulator; Region: Pmp3; pfam01679 392499008296 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 392499008297 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4246 392499008298 Esterase-like activity of phytase; Region: Phytase-like; pfam13449 392499008299 Cobalamin biosynthesis protein CobT; Region: CobT; pfam06213 392499008300 cobaltochelatase, CobT subunit; Region: CobT; TIGR01651 392499008301 norD type: Denitrifying bacteria contain both membrane bound and periplasmic nitrate reductases. Denitrification plays a major role in completing the nitrogen cycle by converting nitrate or nitrite to nitrogen gas. The pathway for microbial...; Region: vWA_norD_type; cd01454 392499008302 metal ion-dependent adhesion site (MIDAS); other site 392499008303 Tyrosine phosphatase family; Region: Y_phosphatase3; pfam13350 392499008304 Cobaltochelatase CobS subunit N terminal; Region: CobS_N; pfam12556 392499008305 cobaltochelatase, CobS subunit; Region: PD_CobS; TIGR01650 392499008306 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 392499008307 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 392499008308 HSP70 interaction site [polypeptide binding]; other site 392499008309 Stress-induced morphogen (activity unknown) [Signal transduction mechanisms]; Region: BolA; COG0271 392499008310 Protein of unknown function (DUF3667); Region: DUF3667; pfam12412 392499008311 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 392499008312 putative catalytic cysteine [active] 392499008313 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 392499008314 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 392499008315 Domain of unknown function (DUF4136); Region: DUF4136; pfam13590 392499008316 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 392499008317 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE1; Region: PHP_PolIIIA_DnaE1; cd07433 392499008318 putative active site [active] 392499008319 putative PHP Thumb interface [polypeptide binding]; other site 392499008320 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 392499008321 generic binding surface II; other site 392499008322 generic binding surface I; other site 392499008323 Cytochrome c peroxidase [Inorganic ion transport and metabolism]; Region: MauG; COG1858 392499008324 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 392499008325 TadE-like protein; Region: TadE; pfam07811 392499008326 TadE-like protein; Region: TadE; pfam07811 392499008327 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 392499008328 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 392499008329 Walker A/P-loop; other site 392499008330 ATP binding site [chemical binding]; other site 392499008331 Q-loop/lid; other site 392499008332 ABC transporter signature motif; other site 392499008333 Walker B; other site 392499008334 D-loop; other site 392499008335 H-loop/switch region; other site 392499008336 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 392499008337 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 392499008338 FtsX-like permease family; Region: FtsX; pfam02687 392499008339 prolyl-tRNA synthetase; Provisional; Region: PRK12325 392499008340 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 392499008341 dimer interface [polypeptide binding]; other site 392499008342 motif 1; other site 392499008343 active site 392499008344 motif 2; other site 392499008345 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 392499008346 active site 392499008347 motif 3; other site 392499008348 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 392499008349 anticodon binding site; other site 392499008350 CTP synthetase; Validated; Region: pyrG; PRK05380 392499008351 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 392499008352 Catalytic site [active] 392499008353 active site 392499008354 UTP binding site [chemical binding]; other site 392499008355 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 392499008356 active site 392499008357 putative oxyanion hole; other site 392499008358 catalytic triad [active] 392499008359 Preprotein translocase SecG subunit; Region: SecG; cl09123 392499008360 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 392499008361 triosephosphate isomerase; Provisional; Region: PRK14565 392499008362 substrate binding site [chemical binding]; other site 392499008363 dimer interface [polypeptide binding]; other site 392499008364 catalytic triad [active] 392499008365 C-terminal domain of eIF4-gamma/eIF5/eIF2b-epsilon; Region: W2; cl17013 392499008366 anthranilate synthase component I; Provisional; Region: PRK13573 392499008367 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 392499008368 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 392499008369 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl17254 392499008370 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 392499008371 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 392499008372 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 392499008373 protein binding site [polypeptide binding]; other site 392499008374 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 392499008375 HflC protein; Region: hflC; TIGR01932 392499008376 Band_7_HflC: The band 7 domain of flotillin (reggie) like proteins. This group includes proteins similar to prokaryotic HlfC (High frequency of lysogenization C). Although many members of the band 7 family are lipid raft associated, prokaryote plasma...; Region: Band_7_HflC; cd03405 392499008377 Band_7_HflK: The band 7 domain of flotillin (reggie) like proteins. This group includes proteins similar to prokaryotic HlfK (High frequency of lysogenization K). Although many members of the band 7 family are lipid raft associated, prokaryote plasma...; Region: Band_7_HflK; cd03404 392499008378 HflK protein; Region: hflK; TIGR01933 392499008379 Domain of unknown function DUF59; Region: DUF59; pfam01883 392499008380 cell division ATPase MinD, archaeal; Region: minD_arch; TIGR01969 392499008381 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 392499008382 Walker A motif; other site 392499008383 Predicted CoA-binding protein [General function prediction only]; Region: COG1832 392499008384 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 392499008385 Helix-turn-helix domain; Region: HTH_38; pfam13936 392499008386 Integrase core domain; Region: rve; pfam00665 392499008387 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 392499008388 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 392499008389 active site 392499008390 peptidase PmbA; Provisional; Region: PRK11040 392499008391 4-hydroxybenzoate polyprenyltransferase; Reviewed; Region: ubiA; PRK12878 392499008392 UbiA prenyltransferase family; Region: UbiA; pfam01040 392499008393 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 392499008394 Glutamate-cysteine ligase family 2(GCS2); Region: GCS2; cl00954 392499008395 SCP: SCP-like extracellular protein domain, found in eukaryotes and prokaryotes. This family includes plant pathogenesis-related protein 1 (PR-1), which accumulates after infections with pathogens, and may act as an anti-fungal agent or be involved in...; Region: SCP; cl00133 392499008396 Predicted membrane protein [Function unknown]; Region: COG4083; cl15694 392499008397 Transmembrane exosortase (Exosortase_EpsH); Region: Exosortase_EpsH; pfam09721 392499008398 Protein of unknown function (DUF3485); Region: DUF3485; pfam11984 392499008399 peptidyl-prolyl cis-trans isomerase, EpsD family; Region: cis_trans_EpsD; TIGR02925 392499008400 SurA N-terminal domain; Region: SurA_N_3; cl07813 392499008401 Undecaprenyl-phosphate glucose phosphotransferase; Region: WcaJ_sugtrans; TIGR03023 392499008402 Sugar transferases involved in lipopolysaccharide synthesis [Cell envelope biogenesis, outer membrane]; Region: WcaJ; COG2148 392499008403 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 392499008404 TPR motif; other site 392499008405 TPR repeat; Region: TPR_11; pfam13414 392499008406 binding surface 392499008407 EpsO protein participates in the methanolan synthesis; Region: EpsO_like; cd06438 392499008408 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 392499008409 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 392499008410 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 392499008411 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 392499008412 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 392499008413 O-antigen ligase like membrane protein; Region: O-antigen_lig; pfam13425 392499008414 Scaffold protein Nfu/NifU N terminal; Region: Nfu_N; pfam08712 392499008415 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 392499008416 Nitroreductase-like family 5. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes, nitrofurans and...; Region: Nitroreductase_5; cd02148 392499008417 putative FMN binding site [chemical binding]; other site 392499008418 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 392499008419 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 392499008420 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 392499008421 ROS/MUCR transcriptional regulator protein; Region: ROS_MUCR; pfam05443 392499008422 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 392499008423 metal binding site 2 [ion binding]; metal-binding site 392499008424 putative DNA binding helix; other site 392499008425 metal binding site 1 [ion binding]; metal-binding site 392499008426 dimer interface [polypeptide binding]; other site 392499008427 structural Zn2+ binding site [ion binding]; other site 392499008428 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 392499008429 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 392499008430 putative acyl-acceptor binding pocket; other site 392499008431 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 392499008432 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 392499008433 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 392499008434 FeS/SAM binding site; other site 392499008435 TRAM domain; Region: TRAM; cl01282 392499008436 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 392499008437 PhoH-like protein; Region: PhoH; pfam02562 392499008438 metal-binding heat shock protein; Provisional; Region: PRK00016 392499008439 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 392499008440 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 392499008441 FOG: CBS domain [General function prediction only]; Region: COG0517 392499008442 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 392499008443 Transporter associated domain; Region: CorC_HlyC; smart01091 392499008444 Glucose/sorbosone dehydrogenases [Carbohydrate transport and metabolism]; Region: COG2133 392499008445 arginyl-tRNA-protein transferase; Provisional; Region: PRK01305 392499008446 Arginine-tRNA-protein transferase, N terminus; Region: ATE_N; pfam04376 392499008447 Arginine-tRNA-protein transferase, C terminus; Region: ATE_C; pfam04377 392499008448 threonine dehydratase; Provisional; Region: PRK07334 392499008449 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 392499008450 tetramer interface [polypeptide binding]; other site 392499008451 pyridoxal 5'-phosphate binding site [chemical binding]; other site 392499008452 catalytic residue [active] 392499008453 C-terminal ACT domain of biodegradative (catabolic) threonine dehydratase II (ThrD-II) and other related ACT domains; Region: ACT_ThrD-II-like; cd04886 392499008454 NAD(P) binding domain of amino acid dehydrogenase-like proteins; Region: NAD_bind_amino_acid_DH; cl17226 392499008455 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 392499008456 NAD(P) binding pocket [chemical binding]; other site 392499008457 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 392499008458 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 392499008459 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 392499008460 active site 392499008461 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 392499008462 Type I phosphodiesterase / nucleotide pyrophosphatase; Region: Phosphodiest; pfam01663 392499008463 phosphonoacetate hydrolase; Region: hydr_PhnA; TIGR02335 392499008464 Sulfatase; Region: Sulfatase; cl17466 392499008465 Right handed beta helix region; Region: Beta_helix; pfam13229 392499008466 Methionine synthase I, cobalamin-binding domain [Amino acid transport and metabolism]; Region: MetH; COG1410 392499008467 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 392499008468 substrate binding pocket [chemical binding]; other site 392499008469 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 392499008470 B12 binding site [chemical binding]; other site 392499008471 cobalt ligand [ion binding]; other site 392499008472 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 392499008473 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; COG0646 392499008474 Homocysteine S-methyltransferase; Region: S-methyl_trans; pfam02574 392499008475 Methylenetetrahydrofolate reductase (MTHFR). 5,10-Methylenetetrahydrofolate is reduced to 5-methyltetrahydrofolate by methylenetetrahydrofolate reductase, a cytoplasmic, NAD(P)-dependent enzyme. 5-methyltetrahydrofolate is utilized by methionine synthase...; Region: MTHFR; cd00537 392499008476 FAD binding site [chemical binding]; other site 392499008477 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 392499008478 dimerization interface [polypeptide binding]; other site 392499008479 putative DNA binding site [nucleotide binding]; other site 392499008480 putative Zn2+ binding site [ion binding]; other site 392499008481 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 392499008482 Methyltransferase domain; Region: Methyltransf_31; pfam13847 392499008483 S-adenosylmethionine binding site [chemical binding]; other site 392499008484 VacJ like lipoprotein; Region: VacJ; cl01073 392499008485 PAP2, bacterial acid phosphatase or class A non-specific acid phosphatases. These enzymes catalyze phosphomonoester hydrolysis, with optimal activity in low pH conditions. They are secreted into the periplasmic space, and their physiological role remains...; Region: PAP2_acid_phosphatase; cd03397 392499008486 active site 392499008487 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 392499008488 AAA domain; Region: AAA_31; pfam13614 392499008489 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 392499008490 polysaccharide chain length determinant protein, PEP-CTERM locus subfamily; Region: pepcterm_ChnLen; TIGR03007 392499008491 Chain length determinant protein; Region: Wzz; cl15801 392499008492 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 392499008493 putative polysaccharide export protein, PEP-CTERM sytem-associated; Region: pepcterm_export; TIGR03027 392499008494 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 392499008495 IHF - DNA interface [nucleotide binding]; other site 392499008496 IHF dimer interface [polypeptide binding]; other site 392499008497 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 392499008498 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 392499008499 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 392499008500 Cytochrome c; Region: Cytochrom_C; cl11414 392499008501 alpha-L-glutamate ligases, RimK family; Region: rimK_fam; TIGR00768 392499008502 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 392499008503 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 392499008504 putative DNA binding site [nucleotide binding]; other site 392499008505 putative Zn2+ binding site [ion binding]; other site 392499008506 AsnC family; Region: AsnC_trans_reg; pfam01037 392499008507 Carboxypeptidase C (cathepsin A) [Amino acid transport and metabolism]; Region: COG2939 392499008508 Serine carboxypeptidase; Region: Peptidase_S10; cl08270 392499008509 Predicted ornithine cyclodeaminase, mu-crystallin homolog [Amino acid transport and metabolism]; Region: COG2423 392499008510 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 392499008511 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 392499008512 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 392499008513 Amidohydrolase; Region: Amidohydro_4; pfam13147 392499008514 active site 392499008515 Carboxypeptidase C (cathepsin A) [Amino acid transport and metabolism]; Region: COG2939 392499008516 Serine carboxypeptidase; Region: Peptidase_S10; cl08270 392499008517 Cactus-binding C-terminus of cactin protein; Region: CactinC_cactus; cl10717 392499008518 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 392499008519 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 392499008520 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 392499008521 pyridoxal 5'-phosphate binding site [chemical binding]; other site 392499008522 homodimer interface [polypeptide binding]; other site 392499008523 catalytic residue [active] 392499008524 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 392499008525 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 392499008526 N-terminal plug; other site 392499008527 ligand-binding site [chemical binding]; other site 392499008528 Predicted protease with the C-terminal PDZ domain [General function prediction only]; Region: COG3975 392499008529 Peptidase MA superfamily; Region: Peptidase_MA_2; pfam13485 392499008530 PDZ domain, also called DHR (Dlg homologous region) or GLGF (after a conserved sequence motif). Many PDZ domains bind C-terminal polypeptides, though binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated; Region: PDZ; cl00117 392499008531 Predicted membrane protein [Function unknown]; Region: COG2261 392499008532 DNA repair protein RadA; Provisional; Region: PRK11823 392499008533 Plasmid maintenance system killer protein; Region: Plasmid_killer; cl01422 392499008534 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 392499008535 non-specific DNA binding site [nucleotide binding]; other site 392499008536 salt bridge; other site 392499008537 sequence-specific DNA binding site [nucleotide binding]; other site 392499008538 rRNA methylase, putative, group 3; Region: rRNA_methyl_3; TIGR00186 392499008539 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 392499008540 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 392499008541 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 392499008542 endonuclease III; Region: ENDO3c; smart00478 392499008543 minor groove reading motif; other site 392499008544 helix-hairpin-helix signature motif; other site 392499008545 substrate binding pocket [chemical binding]; other site 392499008546 active site 392499008547 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 392499008548 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 392499008549 putative tRNA-binding site [nucleotide binding]; other site 392499008550 B3/4 domain; Region: B3_4; pfam03483 392499008551 tRNA synthetase B5 domain; Region: B5; smart00874 392499008552 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 392499008553 dimer interface [polypeptide binding]; other site 392499008554 motif 1; other site 392499008555 motif 3; other site 392499008556 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; smart00896 392499008557 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 392499008558 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 392499008559 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 392499008560 dimer interface [polypeptide binding]; other site 392499008561 motif 1; other site 392499008562 active site 392499008563 motif 2; other site 392499008564 motif 3; other site 392499008565 GIY-YIG domain of uncharacterized hypothetical protein found in bacteria; Region: GIY-YIG_unchar_3; cd10448 392499008566 GIY-YIG motif/motif A; other site 392499008567 putative active site [active] 392499008568 putative metal binding site [ion binding]; other site 392499008569 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 392499008570 23S rRNA binding site [nucleotide binding]; other site 392499008571 L21 binding site [polypeptide binding]; other site 392499008572 L13 binding site [polypeptide binding]; other site 392499008573 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 392499008574 Uncharacterized protein involved in outer membrane biogenesis [Cell envelope biogenesis, outer membrane]; Region: AsmA; COG2982 392499008575 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 392499008576 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 392499008577 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 392499008578 active site 392499008579 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 392499008580 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 392499008581 Predicted integral membrane protein (DUF2269); Region: DUF2269; pfam10027 392499008582 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 392499008583 NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, subunit 9, 39 kDa, (NDUFA9) -like, atypical (a) SDRs; Region: NDUFA9_like_SDR_a; cd05271 392499008584 putative NAD(P) binding site [chemical binding]; other site 392499008585 active site 392499008586 DoxX-like family; Region: DoxX_3; pfam13781 392499008587 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 392499008588 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 392499008589 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 392499008590 active site 392499008591 glutamyl-tRNA synthetase; Provisional; Region: PRK12558 392499008592 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 392499008593 active site 392499008594 HIGH motif; other site 392499008595 nucleotide binding site [chemical binding]; other site 392499008596 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 392499008597 active site 392499008598 KMSKS motif; other site 392499008599 PspC domain; Region: PspC; pfam04024 392499008600 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 392499008601 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 392499008602 catalytic motif [active] 392499008603 Zn binding site [ion binding]; other site 392499008604 RibD C-terminal domain; Region: RibD_C; cl17279 392499008605 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 392499008606 Lumazine binding domain; Region: Lum_binding; pfam00677 392499008607 Lumazine binding domain; Region: Lum_binding; pfam00677 392499008608 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II-like protein; Provisional; Region: PRK14019 392499008609 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 392499008610 GTP cyclohydrolase II; Region: GTP_cyclohydro2; pfam00925 392499008611 dimerization interface [polypeptide binding]; other site 392499008612 active site 392499008613 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 392499008614 homopentamer interface [polypeptide binding]; other site 392499008615 active site 392499008616 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 392499008617 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 392499008618 FMN binding site [chemical binding]; other site 392499008619 active site 392499008620 substrate binding site [chemical binding]; other site 392499008621 catalytic residue [active] 392499008622 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 392499008623 EamA-like transporter family; Region: EamA; pfam00892 392499008624 rpsU-divergently transcribed protein; Region: diverge_rpsU; TIGR02396 392499008625 COQ9; Region: COQ9; pfam08511 392499008626 FeoA domain; Region: FeoA; pfam04023 392499008627 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 392499008628 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 392499008629 G1 box; other site 392499008630 GTP/Mg2+ binding site [chemical binding]; other site 392499008631 Switch I region; other site 392499008632 G2 box; other site 392499008633 G3 box; other site 392499008634 Switch II region; other site 392499008635 G4 box; other site 392499008636 G5 box; other site 392499008637 Nucleoside recognition; Region: Gate; pfam07670 392499008638 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 392499008639 Nucleoside recognition; Region: Gate; pfam07670 392499008640 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 392499008641 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 392499008642 dimer interface [polypeptide binding]; other site 392499008643 ssDNA binding site [nucleotide binding]; other site 392499008644 tetramer (dimer of dimers) interface [polypeptide binding]; other site 392499008645 Capsule polysaccharide biosynthesis protein; Region: Capsule_synth; pfam05159 392499008646 Capsule polysaccharide export protein [Cell envelope biogenesis, outer membrane]; Region: KpsS; COG3562 392499008647 Capsule polysaccharide biosynthesis protein; Region: Capsule_synth; pfam05159 392499008648 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 392499008649 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 392499008650 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 392499008651 RNA binding site [nucleotide binding]; other site 392499008652 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 392499008653 RNA binding site [nucleotide binding]; other site 392499008654 S1_RPS1_repeat_ec3: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec3; cd05688 392499008655 RNA binding site [nucleotide binding]; other site 392499008656 S1_RPS1_repeat_ec4: 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_ec4; cd05689 392499008657 RNA binding site [nucleotide binding]; other site 392499008658 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 392499008659 RNA binding site [nucleotide binding]; other site 392499008660 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 392499008661 RNA binding site [nucleotide binding]; other site 392499008662 cytidylate kinase; Provisional; Region: cmk; PRK00023 392499008663 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 392499008664 CMP-binding site; other site 392499008665 The sites determining sugar specificity; other site 392499008666 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 392499008667 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 392499008668 hinge; other site 392499008669 active site 392499008670 Protein of unknown function (FYDLN_acid); Region: FYDLN_acid; pfam09538 392499008671 TIGR02300 family protein; Region: FYDLN_acid 392499008672 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 392499008673 active site 392499008674 DNA binding site [nucleotide binding] 392499008675 Int/Topo IB signature motif; other site 392499008676 Restriction endonuclease EcoRV; Region: Endonuc-EcoRV; pfam09233 392499008677 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 392499008678 DNA-methyltransferase (dcm); Region: dcm; TIGR00675 392499008679 cofactor binding site; other site 392499008680 DNA binding site [nucleotide binding] 392499008681 substrate interaction site [chemical binding]; other site 392499008682 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 392499008683 Integrase core domain; Region: rve; pfam00665 392499008684 transposase/IS protein; Provisional; Region: PRK09183 392499008685 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 392499008686 Walker A motif; other site 392499008687 ATP binding site [chemical binding]; other site 392499008688 Walker B motif; other site 392499008689 Domain of unknown function (DUF4102); Region: DUF4102; pfam13356 392499008690 Transcriptional regulator [Transcription]; Region: LysR; COG0583 392499008691 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 392499008692 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 392499008693 dimerization interface [polypeptide binding]; other site 392499008694 Demethylmenaquinone methyltransferase [Coenzyme metabolism]; Region: MenG; COG0684 392499008695 hypothetical protein; Validated; Region: PRK06201 392499008696 Demethylmenaquinone methyltransferase [Coenzyme metabolism]; Region: MenG; COG0684 392499008697 nitrilase; Region: PLN02798 392499008698 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 392499008699 putative active site [active] 392499008700 catalytic triad [active] 392499008701 dimer interface [polypeptide binding]; other site 392499008702 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 392499008703 Major Facilitator Superfamily; Region: MFS_1; pfam07690 392499008704 putative substrate translocation pore; other site 392499008705 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 392499008706 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 392499008707 N-terminal plug; other site 392499008708 ligand-binding site [chemical binding]; other site 392499008709 Predicted phosphatase [General function prediction only]; Region: PhoX; COG3211 392499008710 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 392499008711 SCO (an acronym for Synthesis of Cytochrome c Oxidase) family; composed of proteins similar to Sco1, a membrane-anchored protein possessing a soluble domain with a TRX fold. Members of this family are required for the proper assembly of cytochrome c...; Region: SCO; cd02968 392499008712 Cu(I) binding site [ion binding]; other site 392499008713 Protein of unknown function (DUF461); Region: DUF461; pfam04314 392499008714 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 392499008715 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 392499008716 N-terminal plug; other site 392499008717 ligand-binding site [chemical binding]; other site 392499008718 Domain of unknown function (DUF1905); Region: DUF1905; pfam08922 392499008719 Protein of unknown function (DUF969); Region: DUF969; pfam06149 392499008720 Predicted membrane protein [Function unknown]; Region: COG3817 392499008721 Protein of unknown function (DUF979); Region: DUF979; pfam06166 392499008722 Protein of unknown function (DUF2891); Region: DUF2891; pfam11199 392499008723 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 392499008724 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 392499008725 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 392499008726 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 392499008727 SBF-like CPA transporter family (DUF4137); Region: DUF4137; pfam13593 392499008728 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 392499008729 Adenosine deaminase (ADA) is a monomeric zinc dependent enzyme which catalyzes the irreversible hydrolytic deamination of both adenosine, as well as desoxyadenosine, to ammonia and inosine or desoxyinosine, respectively. ADA plays an important role in...; Region: ADA; cd01320 392499008730 active site 392499008731 purine riboside binding site [chemical binding]; other site 392499008732 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 392499008733 active site 392499008734 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 392499008735 Transposase; Region: DEDD_Tnp_IS110; pfam01548 392499008736 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 392499008737 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 392499008738 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 392499008739 Walker A/P-loop; other site 392499008740 ATP binding site [chemical binding]; other site 392499008741 ABC transporter signature motif; other site 392499008742 Walker B; other site 392499008743 D-loop; other site 392499008744 H-loop/switch region; other site 392499008745 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 392499008746 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 392499008747 active site 392499008748 nucleoside diphosphate kinase regulator; Provisional; Region: PRK05753 392499008749 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 392499008750 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 392499008751 Hydroxy(phenyl)pyruvate Reductase, D-isomer-specific 2-hydroxyacid-related dehydrogenase; Region: HPPR; cd12156 392499008752 putative ligand binding site [chemical binding]; other site 392499008753 NAD binding site [chemical binding]; other site 392499008754 catalytic site [active] 392499008755 malonyl-CoA synthase; Validated; Region: PRK07514 392499008756 Malonyl-CoA synthetase (MCS); Region: MCS; cd05941 392499008757 acyl-activating enzyme (AAE) consensus motif; other site 392499008758 active site 392499008759 AMP binding site [chemical binding]; other site 392499008760 CoA binding site [chemical binding]; other site 392499008761 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 392499008762 This family is most closely related to the GT1 family of glycosyltransferases. WabH in Klebsiella pneumoniae has been shown to transfer a GlcNAc residue from UDP-GlcNAc onto the acceptor GalUA residue in the cellular outer core; Region: GT1_WabH_like; cd03811 392499008763 putative ADP-binding pocket [chemical binding]; other site 392499008764 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 392499008765 alpha-L-glutamate ligase-related protein; Region: rimK_rel_E_lig; TIGR02291 392499008766 ATP-grasp domain; Region: ATP-grasp_4; cl17255 392499008767 active site 392499008768 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 392499008769 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 392499008770 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 392499008771 homotrimer interaction site [polypeptide binding]; other site 392499008772 putative active site [active] 392499008773 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 392499008774 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 392499008775 N-terminal plug; other site 392499008776 ligand-binding site [chemical binding]; other site 392499008777 Beta-N-acetylhexosaminidases of glycosyl hydrolase family 20 (GH20) catalyze the removal of beta-1,4-linked N-acetyl-D-hexosamine residues from the non-reducing ends of N-acetyl-beta-D-hexosaminides including N-acetylglucosides and N-acetylgalactosides; Region: GH20_hexosaminidase; cl02948 392499008778 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 392499008779 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 392499008780 [2Fe-2S] cluster binding site [ion binding]; other site 392499008781 helix_turn_helix ASNC type; Region: HTH_ASNC; smart00344 392499008782 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 392499008783 putative DNA binding site [nucleotide binding]; other site 392499008784 putative Zn2+ binding site [ion binding]; other site 392499008785 AsnC family; Region: AsnC_trans_reg; pfam01037 392499008786 Pyrabactin resistance 1 (PYR1), PYR1-like (PYL), regulatory component of abscisic acid receptors (RCARs), and related proteins; Region: PYR_PYL_RCAR_like; cd07821 392499008787 putative hydrophobic ligand binding site [chemical binding]; other site 392499008788 protein interface [polypeptide binding]; other site 392499008789 gate; other site 392499008790 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 392499008791 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4529 392499008792 FAD-NAD(P)-binding; Region: NAD_binding_9; pfam13454 392499008793 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 392499008794 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 392499008795 N-terminal plug; other site 392499008796 ligand-binding site [chemical binding]; other site 392499008797 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 392499008798 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 392499008799 membrane-bound complex binding site; other site 392499008800 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 392499008801 active site 392499008802 alkanesulfonate monooxygenase, FMNH(2)-dependent; Region: alk_sulf_monoox; TIGR03565 392499008803 dimer interface [polypeptide binding]; other site 392499008804 non-prolyl cis peptide bond; other site 392499008805 insertion regions; other site 392499008806 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 392499008807 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 392499008808 Walker A/P-loop; other site 392499008809 ATP binding site [chemical binding]; other site 392499008810 Q-loop/lid; other site 392499008811 ABC transporter signature motif; other site 392499008812 Walker B; other site 392499008813 D-loop; other site 392499008814 H-loop/switch region; other site 392499008815 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 392499008816 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 392499008817 dimer interface [polypeptide binding]; other site 392499008818 conserved gate region; other site 392499008819 putative PBP binding loops; other site 392499008820 ABC-ATPase subunit interface; other site 392499008821 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 392499008822 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 392499008823 dimerization interface [polypeptide binding]; other site 392499008824 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 392499008825 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 392499008826 metal binding site [ion binding]; metal-binding site 392499008827 active site 392499008828 I-site; other site 392499008829 aspartate aminotransferase; Provisional; Region: PRK05764 392499008830 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 392499008831 pyridoxal 5'-phosphate binding site [chemical binding]; other site 392499008832 homodimer interface [polypeptide binding]; other site 392499008833 catalytic residue [active] 392499008834 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 392499008835 Sulfatase; Region: Sulfatase; pfam00884 392499008836 Laminin G domain; Laminin G-like domains are usually Ca++ mediated receptors that can have binding sites for steroids, beta1 integrins, heparin, sulfatides, fibulin-1, and alpha-dystroglycans. Proteins that contain LamG domains serve a variety of...; Region: LamG; cl17353 392499008837 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 392499008838 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 392499008839 N-terminal plug; other site 392499008840 ligand-binding site [chemical binding]; other site 392499008841 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 392499008842 Sulfatase; Region: Sulfatase; pfam00884 392499008843 Pyrabactin resistance 1 (PYR1), PYR1-like (PYL), regulatory component of abscisic acid receptors (RCARs), and related proteins; Region: PYR_PYL_RCAR_like; cd07821 392499008844 putative hydrophobic ligand binding site [chemical binding]; other site 392499008845 protein interface [polypeptide binding]; other site 392499008846 gate; other site 392499008847 SnoaL-like domain; Region: SnoaL_2; pfam12680 392499008848 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 392499008849 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 392499008850 iron-sulfur cluster [ion binding]; other site 392499008851 [2Fe-2S] cluster binding site [ion binding]; other site 392499008852 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 392499008853 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 392499008854 N-terminal plug; other site 392499008855 ligand-binding site [chemical binding]; other site 392499008856 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 392499008857 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 392499008858 DNA binding residues [nucleotide binding] 392499008859 dimerization interface [polypeptide binding]; other site 392499008860 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Escherichia coli Hsp31 protein; Region: GATase1_Hsp31_like; cd03141 392499008861 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 392499008862 potential catalytic triad [active] 392499008863 conserved cys residue [active] 392499008864 Domain of unknown function (DUF2383); Region: DUF2383; pfam09537 392499008865 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 392499008866 FOG: CBS domain [General function prediction only]; Region: COG0517 392499008867 Domain of unknown function (DUF4167); Region: DUF4167; pfam13763 392499008868 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 392499008869 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 392499008870 peptide chain release factor 1; Validated; Region: prfA; PRK00591 392499008871 This domain is found in peptide chain release factors; Region: PCRF; smart00937 392499008872 RF-1 domain; Region: RF-1; pfam00472 392499008873 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 392499008874 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 392499008875 dimer interface [polypeptide binding]; other site 392499008876 motif 1; other site 392499008877 active site 392499008878 motif 2; other site 392499008879 motif 3; other site 392499008880 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 392499008881 anticodon binding site; other site 392499008882 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 392499008883 dimer interface [polypeptide binding]; other site 392499008884 substrate binding site [chemical binding]; other site 392499008885 metal binding sites [ion binding]; metal-binding site 392499008886 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 392499008887 putative substrate translocation pore; other site 392499008888 Major Facilitator Superfamily; Region: MFS_1; pfam07690 392499008889 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 392499008890 active site 392499008891 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 392499008892 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 392499008893 cofactor binding site; other site 392499008894 DNA binding site [nucleotide binding] 392499008895 substrate interaction site [chemical binding]; other site 392499008896 Very Short Patch Repair (Vsr) Endonuclease. Endonucleases in DNA repair that recognize damaged DNA and cleave the phosphodiester backbone. Vsr endonucleases have a common endonuclease topology that has been tailored for recognition of TG mismatches; Region: Vsr; cd00221 392499008897 additional DNA contacts [nucleotide binding]; other site 392499008898 mismatch recognition site; other site 392499008899 active site 392499008900 zinc binding site [ion binding]; other site 392499008901 DNA intercalation site [nucleotide binding]; other site 392499008902 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 392499008903 Chromate transport protein ChrA [Inorganic ion transport and metabolism]; Region: ChrA; COG2059 392499008904 Chromate transporter; Region: Chromate_transp; pfam02417 392499008905 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 392499008906 active site residue [active] 392499008907 Chromate resistance exported protein; Region: Chrome_Resist; pfam09828 392499008908 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cl17736 392499008909 active site 392499008910 phosphorylation site [posttranslational modification] 392499008911 intermolecular recognition site; other site 392499008912 dimerization interface [polypeptide binding]; other site 392499008913 Outer membrane lipoprotein-sorting protein [Cell envelope biogenesis, outer membrane]; Region: LolA; COG2834 392499008914 Outer membrane lipoprotein carrier protein LolA; Region: LolA; pfam03548 392499008915 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 392499008916 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 392499008917 active site 392499008918 (T/H)XGH motif; other site 392499008919 iojap-like ribosome-associated protein; Region: iojap_ybeB; TIGR00090 392499008920 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 392499008921 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 392499008922 Peptidase family M23; Region: Peptidase_M23; pfam01551 392499008923 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 392499008924 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 392499008925 PDZ domain of C-terminal processing-, tail-specific-, and tricorn proteases, which function in posttranslational protein processing, maturation, and disassembly or degradation, in Bacteria, Archaea, and plant chloroplasts. May be responsible for...; Region: PDZ_CTP_protease; cd00988 392499008926 protein binding site [polypeptide binding]; other site 392499008927 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 392499008928 Catalytic dyad [active] 392499008929 Disulfide bond formation protein DsbB; Region: DsbB; pfam02600 392499008930 Demethoxyubiquinone hydroxylase, ferritin-like diiron-binding domain; Region: DMQH; cd01042 392499008931 diiron binding motif [ion binding]; other site 392499008932 leucyl/phenylalanyl-tRNA--protein transferase; Reviewed; Region: aat; PRK00301 392499008933 mce related protein; Region: MCE; pfam02470 392499008934 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 392499008935 NADH dehydrogenase; Validated; Region: PRK08183 392499008936 Uncharacterized ACR, COG1430; Region: DUF192; pfam02643 392499008937 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 392499008938 DNA-binding site [nucleotide binding]; DNA binding site 392499008939 RNA-binding motif; other site 392499008940 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 392499008941 DNA-binding site [nucleotide binding]; DNA binding site 392499008942 RNA-binding motif; other site 392499008943 recombination regulator RecX; Reviewed; Region: recX; PRK00117 392499008944 acyl-CoA synthetase; Validated; Region: PRK09192 392499008945 Fatty acyl-AMP ligase (FAAL); Region: FAAL; cd05931 392499008946 acyl-activating enzyme (AAE) consensus motif; other site 392499008947 active site 392499008948 SecE/Sec61-gamma subunits of protein translocation complex; Region: SecE; pfam00584 392499008949 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 392499008950 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 392499008951 putative homodimer interface [polypeptide binding]; other site 392499008952 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 392499008953 heterodimer interface [polypeptide binding]; other site 392499008954 homodimer interface [polypeptide binding]; other site 392499008955 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 392499008956 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 392499008957 23S rRNA interface [nucleotide binding]; other site 392499008958 L7/L12 interface [polypeptide binding]; other site 392499008959 putative thiostrepton binding site; other site 392499008960 L25 interface [polypeptide binding]; other site 392499008961 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 392499008962 mRNA/rRNA interface [nucleotide binding]; other site 392499008963 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in Escherichia coli phosphoribosyl-ATP pyrophosphohydrolase (HisIE or PRATP-PH) and its homologs; Region: NTP-PPase_HisIE_like; cd11534 392499008964 metal binding site [ion binding]; metal-binding site 392499008965 Protein Kinase C Interacting protein related (PKCI): PKCI and related proteins belong to the ubiquitous HIT family of hydrolases that act on alpha-phosphates of ribonucleotides. The members of this subgroup have a conserved HxHxHxx motif (x is a...; Region: PKCI_related; cd01276 392499008966 nucleotide binding site/active site [active] 392499008967 HIT family signature motif; other site 392499008968 catalytic residue [active] 392499008969 amino acid transporter; Region: 2A0306; TIGR00909 392499008970 C-terminus of AA_permease; Region: AA_permease_C; pfam13906 392499008971 Adenosine kinase (AK) catalyzes the phosphorylation of ribofuranosyl-containing nucleoside analogues at the 5'-hydroxyl using ATP or GTP as the phosphate donor.The physiological function of AK is associated with the regulation of extracellular...; Region: adenosine_kinase; cd01168 392499008972 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 392499008973 substrate binding site [chemical binding]; other site 392499008974 ATP binding site [chemical binding]; other site 392499008975 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 392499008976 Glutathione S-transferase (GST) family, N-terminal domain; a large, diverse group of cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic...; Region: GST_N_family; cd00570 392499008977 C-terminal domain interface [polypeptide binding]; other site 392499008978 GSH binding site (G-site) [chemical binding]; other site 392499008979 dimer interface [polypeptide binding]; other site 392499008980 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cd00299 392499008981 N-terminal domain interface [polypeptide binding]; other site 392499008982 dimer interface [polypeptide binding]; other site 392499008983 substrate binding pocket (H-site) [chemical binding]; other site 392499008984 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 392499008985 RibD C-terminal domain; Region: RibD_C; cl17279 392499008986 Predicted transcriptional regulators [Transcription]; Region: COG1733 392499008987 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 392499008988 Prolyl 4-hydroxylase alpha subunit homologues; Region: P4Hc; smart00702 392499008989 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 392499008990 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 392499008991 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 392499008992 Glycosyl hydrolase families: GH43, GH62, GH32, GH68; Region: GH43_62_32_68; cl14647 392499008993 active site 392499008994 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 392499008995 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 392499008996 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 392499008997 PA_M28_1_2: Protease-associated (PA) domain, peptidase family M28, subfamily-1, subgroup 2. A subgroup of PA-domain containing proteins belonging to the peptidase family M28. Family M28 contains aminopeptidases and carboxypeptidases, and has co-catalytic...; Region: PA_M28_1_2; cd04821 392499008998 Predicted aminopeptidases [General function prediction only]; Region: Iap; COG2234 392499008999 PA/protease or protease-like domain interface [polypeptide binding]; other site 392499009000 M28 Zn-Peptidases containing a PA domain insert; Region: M28_like_PA_1; cd05660 392499009001 metal binding site [ion binding]; metal-binding site 392499009002 Type II secretion system (T2SS), protein K; Region: T2SK; pfam03934 392499009003 Type II secretion system (T2SS), protein J; Region: T2SJ; pfam11612 392499009004 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 392499009005 Periplasmic binding component of lipoprotein LppC, an immunodominant antigen; Region: PBP1_YraM_LppC_lipoprotein_like; cd06339 392499009006 putative ligand binding site [chemical binding]; other site 392499009007 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 392499009008 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 392499009009 type II secretion system protein E; Region: type_II_gspE; TIGR02533 392499009010 PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP). It is responsible for the export the majority of Gram-negative bacterial exoenzymes and toxins. PulE is a cytoplasmic protein of the GSP, which...; Region: PulE-GspE; cd01129 392499009011 Walker A motif; other site 392499009012 ATP binding site [chemical binding]; other site 392499009013 Walker B motif; other site 392499009014 Type II secretion system (T2SS), protein M; Region: T2SM; pfam04612 392499009015 Type II secretion system (T2SS), protein L; Region: T2SL; pfam05134 392499009016 type II secretion system protein G; Region: typeII_sec_gspG; TIGR01710 392499009017 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 392499009018 type II secretion system protein H; Region: typeII_sec_gspH; TIGR01708 392499009019 Type II transport protein GspH; Region: GspH; pfam12019 392499009020 Type II secretion system (T2SS), protein I; Region: T2SI; pfam02501 392499009021 Type IV pilus biogenesis; Region: Pilus_PilP; pfam11356 392499009022 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 392499009023 type II secretion system protein D; Region: type_II_gspD; TIGR02517 392499009024 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 392499009025 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 392499009026 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 392499009027 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 392499009028 NAD synthetase; Reviewed; Region: nadE; PRK02628 392499009029 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 392499009030 multimer interface [polypeptide binding]; other site 392499009031 active site 392499009032 catalytic triad [active] 392499009033 protein interface 1 [polypeptide binding]; other site 392499009034 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 392499009035 homodimer interface [polypeptide binding]; other site 392499009036 NAD binding pocket [chemical binding]; other site 392499009037 ATP binding pocket [chemical binding]; other site 392499009038 Mg binding site [ion binding]; other site 392499009039 active-site loop [active] 392499009040 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 392499009041 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 392499009042 metal binding site [ion binding]; metal-binding site 392499009043 active site 392499009044 I-site; other site 392499009045 Protein of unknown function (DUF2842); Region: DUF2842; pfam11003 392499009046 5-formyltetrahydrofolate cyclo-ligase [Coenzyme metabolism]; Region: COG0212 392499009047 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 392499009048 GIY-YIG domain of uncharacterized hypothetical protein found in bacteria; Region: GIY-YIG_unchar_3; cd10448 392499009049 GIY-YIG motif/motif A; other site 392499009050 putative active site [active] 392499009051 putative metal binding site [ion binding]; other site 392499009052 Cell division protein ZapA; Region: ZapA; pfam05164 392499009053 Transketolase [Carbohydrate transport and metabolism]; Region: TktA; COG0021 392499009054 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 392499009055 TPP-binding site [chemical binding]; other site 392499009056 dimer interface [polypeptide binding]; other site 392499009057 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 392499009058 PYR/PP interface [polypeptide binding]; other site 392499009059 dimer interface [polypeptide binding]; other site 392499009060 TPP binding site [chemical binding]; other site 392499009061 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 392499009062 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 392499009063 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 392499009064 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 392499009065 MOSC domain; Region: MOSC; pfam03473 392499009066 Phosphoglycerate kinase; Region: PGK; pfam00162 392499009067 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 392499009068 substrate binding site [chemical binding]; other site 392499009069 hinge regions; other site 392499009070 ADP binding site [chemical binding]; other site 392499009071 catalytic site [active] 392499009072 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_2; cd07253 392499009073 dimer interface [polypeptide binding]; other site 392499009074 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 392499009075 metal binding site [ion binding]; metal-binding site 392499009076 fructose-1,6-bisphosphate aldolase; Reviewed; Region: PRK05377 392499009077 catalytic residue [active] 392499009078 heavy metal efflux pump, CzcA family; Region: 2A0601; TIGR00914 392499009079 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 392499009080 HlyD family secretion protein; Region: HlyD_3; pfam13437 392499009081 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 392499009082 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 392499009083 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 392499009084 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 392499009085 catalytic residue [active] 392499009086 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 392499009087 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 392499009088 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 392499009089 DNA binding residues [nucleotide binding] 392499009090 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cl01482 392499009091 dimer interface [polypeptide binding]; other site 392499009092 CopC domain; Region: CopC; pfam04234 392499009093 Copper resistance protein D; Region: CopD; cl00563 392499009094 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 392499009095 DNA-binding transcriptional regulator LysR; Provisional; Region: PRK11013 392499009096 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 392499009097 The C-terminal substrate-domain of LysR-type transcriptional regulators involved in the catabolism of opines and that of related regulators, contains the type 2 periplasmic binding fold; Region: PBP2_LysR_opines_like; cd08415 392499009098 putative dimerization interface [polypeptide binding]; other site 392499009099 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 392499009100 Amidase; Region: Amidase; cl11426 392499009101 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 392499009102 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 392499009103 N-terminal plug; other site 392499009104 ligand-binding site [chemical binding]; other site 392499009105 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 392499009106 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 392499009107 Walker A/P-loop; other site 392499009108 ATP binding site [chemical binding]; other site 392499009109 Q-loop/lid; other site 392499009110 ABC transporter signature motif; other site 392499009111 Walker B; other site 392499009112 D-loop; other site 392499009113 H-loop/switch region; other site 392499009114 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 392499009115 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 392499009116 dimer interface [polypeptide binding]; other site 392499009117 conserved gate region; other site 392499009118 putative PBP binding loops; other site 392499009119 ABC-ATPase subunit interface; other site 392499009120 ABC-type amino acid transport system, permease component [Amino acid transport and metabolism]; Region: BatB; COG4597 392499009121 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 392499009122 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 392499009123 putative PBP binding loops; other site 392499009124 dimer interface [polypeptide binding]; other site 392499009125 ABC-ATPase subunit interface; other site 392499009126 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 392499009127 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 392499009128 substrate binding pocket [chemical binding]; other site 392499009129 membrane-bound complex binding site; other site 392499009130 hinge residues; other site 392499009131 cystathionine beta-lyase; Provisional; Region: PRK07050 392499009132 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 392499009133 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 392499009134 catalytic residue [active] 392499009135 carbon starvation protein A; Provisional; Region: PRK15015 392499009136 Carbon starvation protein CstA; Region: CstA; pfam02554 392499009137 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 392499009138 Protein of unknown function (DUF466); Region: DUF466; pfam04328 392499009139 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 392499009140 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 392499009141 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_3; cd06151 392499009142 homotrimer interaction site [polypeptide binding]; other site 392499009143 putative active site [active] 392499009144 PIN domain; Region: PIN_3; pfam13470 392499009145 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 392499009146 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 392499009147 The C-terminal substrate binding domain of LysR-type transcriptional regulators involved in benzoate catabolism; contains the type 2 periplasmic binding fold; Region: PBP2_BenM_CatM_CatR; cd08445 392499009148 dimerizarion interface [polypeptide binding]; other site 392499009149 CrgA pocket; other site 392499009150 substrate binding pocket [chemical binding]; other site 392499009151 benzoate 1,2-dioxygenase, large subunit; Region: benzo_1_2_benA; TIGR03229 392499009152 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 392499009153 iron-sulfur cluster [ion binding]; other site 392499009154 [2Fe-2S] cluster binding site [ion binding]; other site 392499009155 C-terminal catalytic domain of the oxygenase alpha subunit of Pseudomonas resinovorans strain CA10 anthranilate 1,2-dioxygenase and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_AntDO-like; cd08879 392499009156 putative alpha subunit interface [polypeptide binding]; other site 392499009157 putative active site [active] 392499009158 putative substrate binding site [chemical binding]; other site 392499009159 Fe binding site [ion binding]; other site 392499009160 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 392499009161 inter-subunit interface; other site 392499009162 1,6-dihydroxycyclohexa-2,4-diene-1-carboxylate dehydrogenase; Provisional; Region: benD; PRK12823 392499009163 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 392499009164 NAD(P) binding site [chemical binding]; other site 392499009165 active site 392499009166 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 392499009167 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 392499009168 Walker A motif; other site 392499009169 ATP binding site [chemical binding]; other site 392499009170 Walker B motif; other site 392499009171 arginine finger; other site 392499009172 Bacterial sugar transferase; Region: Bac_transf; pfam02397 392499009173 Putative Acyltransferase (AT), Left-handed parallel beta-Helix (LbH) domain; This group is composed of mostly uncharacterized proteins containing an N-terminal helical subdomain followed by a LbH domain. The alignment contains 6 turns, each containing...; Region: LbH_AT_putative; cd03360 392499009174 sugar O-acyltransferase, sialic acid O-acetyltransferase NeuD family; Region: NeuD_NnaD; TIGR03570 392499009175 putative trimer interface [polypeptide binding]; other site 392499009176 putative CoA binding site [chemical binding]; other site 392499009177 Bacterial sugar transferase; Region: Bac_transf; pfam02397 392499009178 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 392499009179 NAD(P) binding site [chemical binding]; other site 392499009180 homodimer interface [polypeptide binding]; other site 392499009181 substrate binding site [chemical binding]; other site 392499009182 active site 392499009183 aminotransferase, LLPSF_NHT_00031 family; Region: NHT_00031; TIGR04181 392499009184 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 392499009185 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 392499009186 catalytic residue [active] 392499009187 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 392499009188 This family is most closely related to the GT1 family of glycosyltransferases. cap1E in Streptococcus pneumoniae is required for the synthesis of type 1 capsular polysaccharides; Region: GT1_cap1E_like; cd03808 392499009189 putative ADP-binding pocket [chemical binding]; other site 392499009190 This family is most closely related to the GT1 family of glycosyltransferases. WbnK in Shigella dysenteriae has been shown to be involved in the type 7 O-antigen biosynthesis; Region: GT1_WbnK_like; cd03807 392499009191 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 392499009192 putative ADP-binding pocket [chemical binding]; other site 392499009193 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 392499009194 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 392499009195 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 392499009196 ATP-grasp domain; Region: ATP-grasp_4; cl17255 392499009197 Polysaccharide biosynthesis protein; Region: Polysacc_synt; cl10513 392499009198 Serine acetyltransferase (SAT): SAT catalyzes the CoA-dependent acetylation of the side chain hydroxyl group of L-serine to form O-acetylserine, as the first step of a two-step biosynthetic pathway in bacteria and plants leading to the formation of...; Region: LbH_SAT; cd03354 392499009199 trimer interface [polypeptide binding]; other site 392499009200 active site 392499009201 substrate binding site [chemical binding]; other site 392499009202 CoA binding site [chemical binding]; other site 392499009203 Putative catalytic domain of uncharacterized bacterial proteins from the carbohydrate esterase 4 superfamily; Region: CE4_u1; cd10925 392499009204 NodB motif; other site 392499009205 putative active site [active] 392499009206 putative catalytic site [active] 392499009207 putative Zn binding site [ion binding]; other site 392499009208 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 392499009209 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 392499009210 signal recognition particle protein; Provisional; Region: PRK10867 392499009211 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 392499009212 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 392499009213 P loop; other site 392499009214 GTP binding site [chemical binding]; other site 392499009215 Signal peptide binding domain; Region: SRP_SPB; pfam02978 392499009216 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 392499009217 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 392499009218 RimM N-terminal domain; Region: RimM; pfam01782 392499009219 PRC-barrel domain; Region: PRC; pfam05239 392499009220 SpoVT / AbrB like domain; Region: SpoVT_AbrB; smart00966 392499009221 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 392499009222 oligomeric interface; other site 392499009223 putative active site [active] 392499009224 homodimer interface [polypeptide binding]; other site 392499009225 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 392499009226 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 392499009227 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 392499009228 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 392499009229 Uncharacterized conserved protein [Function unknown]; Region: COG3791 392499009230 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 392499009231 Peptidase family M2 Angiotensin converting enzyme (ACE); Region: M2_ACE; cd06461 392499009232 active site 392499009233 Zn binding site [ion binding]; other site 392499009234 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 392499009235 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 392499009236 metal binding site [ion binding]; metal-binding site 392499009237 active site 392499009238 I-site; other site 392499009239 AMP nucleosidase; Provisional; Region: PRK08292 392499009240 Bacterial AMP nucleoside phosphorylase N-terminus; Region: AMNp_N; pfam10423 392499009241 Nucleoside phosphorylase [Nucleotide transport and metabolism]; Region: Pfs; COG0775 392499009242 Peroxiredoxin (PRX) family, PRX5-like subfamily; members are similar to the human protein, PRX5, a homodimeric TRX peroxidase, widely expressed in tissues and found cellularly in mitochondria, peroxisomes and the cytosol. The cellular location of PRX5...; Region: PRX5_like; cd03013 392499009243 catalytic triad [active] 392499009244 dimer interface [polypeptide binding]; other site 392499009245 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 392499009246 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 392499009247 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 392499009248 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 392499009249 active site 392499009250 Uncharacterized ACR, COG1678; Region: DUF179; pfam02622 392499009251 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 392499009252 S-Adenosylhomocysteine Hydrolase, NAD-binding and catalytic domains; Region: SAHH; cd00401 392499009253 homotetramer interface [polypeptide binding]; other site 392499009254 ligand binding site [chemical binding]; other site 392499009255 catalytic site [active] 392499009256 NAD binding site [chemical binding]; other site 392499009257 PAS fold; Region: PAS_7; pfam12860 392499009258 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 392499009259 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 392499009260 dimer interface [polypeptide binding]; other site 392499009261 phosphorylation site [posttranslational modification] 392499009262 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 392499009263 ATP binding site [chemical binding]; other site 392499009264 Mg2+ binding site [ion binding]; other site 392499009265 G-X-G motif; other site 392499009266 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 392499009267 Predicted phosphotransferase related to Ser/Thr protein kinases [General function prediction only]; Region: COG3178 392499009268 Phosphotransferase enzyme family; Region: APH; pfam01636 392499009269 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 392499009270 NTP_transferase_like_1 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_1; cd06422 392499009271 Substrate binding site; other site 392499009272 metal-binding site 392499009273 Uncharacterized conserved protein [Function unknown]; Region: COG3422 392499009274 double-strand break repair protein AddB, alphaproteobacterial type; Region: addB_alphas; TIGR02786 392499009275 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 392499009276 UvrD-like helicase C-terminal domain; Region: UvrD_C; pfam13361 392499009277 Family description; Region: UvrD_C_2; pfam13538 392499009278 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 392499009279 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 392499009280 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 392499009281 catalytic residues [active] 392499009282 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 392499009283 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 392499009284 active site 392499009285 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 392499009286 GST_N family, unknown subfamily 2; composed of uncharacterized bacterial proteins with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of...; Region: GST_N_2; cd03047 392499009287 putative C-terminal domain interface [polypeptide binding]; other site 392499009288 putative GSH binding site (G-site) [chemical binding]; other site 392499009289 putative dimer interface [polypeptide binding]; other site 392499009290 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 392499009291 substrate binding pocket (H-site) [chemical binding]; other site 392499009292 N-terminal domain interface [polypeptide binding]; other site 392499009293 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 392499009294 heterotetramer interface [polypeptide binding]; other site 392499009295 active site pocket [active] 392499009296 cleavage site 392499009297 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 392499009298 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 392499009299 SEC-C motif; Region: SEC-C; pfam02810 392499009300 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2832 392499009301 PAS fold; Region: PAS_3; pfam08447 392499009302 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 392499009303 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 392499009304 dimer interface [polypeptide binding]; other site 392499009305 phosphorylation site [posttranslational modification] 392499009306 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 392499009307 ATP binding site [chemical binding]; other site 392499009308 Mg2+ binding site [ion binding]; other site 392499009309 G-X-G motif; other site 392499009310 Response regulator receiver domain; Region: Response_reg; pfam00072 392499009311 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 392499009312 active site 392499009313 phosphorylation site [posttranslational modification] 392499009314 intermolecular recognition site; other site 392499009315 dimerization interface [polypeptide binding]; other site 392499009316 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 392499009317 RNA/DNA hybrid binding site [nucleotide binding]; other site 392499009318 active site 392499009319 Putative homoserine kinase type II (protein kinase fold) [General function prediction only]; Region: COG2334 392499009320 Homoserine Kinase, type II. Homoserine kinase is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs), RIO kinases, actin-fragmin kinase (AFK), and...; Region: HomoserineK_II; cd05153 392499009321 putative active site [active] 392499009322 putative substrate binding site [chemical binding]; other site 392499009323 ATP binding site [chemical binding]; other site 392499009324 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 392499009325 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 392499009326 glycine cleavage system aminomethyltransferase T; Provisional; Region: gcvT; PRK13579 392499009327 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 392499009328 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 392499009329 lipoyl attachment site [posttranslational modification]; other site 392499009330 Glycine cleavage system protein P (pyridoxal-binding), N-terminal domain [Amino acid transport and metabolism]; Region: GcvP; COG0403 392499009331 glycine dehydrogenase subunit 1; Validated; Region: PRK00451 392499009332 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 392499009333 catalytic residue [active] 392499009334 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 392499009335 tetramer interface [polypeptide binding]; other site 392499009336 pyridoxal 5'-phosphate binding site [chemical binding]; other site 392499009337 catalytic residue [active] 392499009338 Protein of unknown function (DUF938); Region: DUF938; pfam06080 392499009339 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 392499009340 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 392499009341 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 392499009342 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 392499009343 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 392499009344 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 392499009345 catalytic residue [active] 392499009346 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 392499009347 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 392499009348 putative DNA binding site [nucleotide binding]; other site 392499009349 putative Zn2+ binding site [ion binding]; other site 392499009350 AsnC family; Region: AsnC_trans_reg; pfam01037 392499009351 Class II Aldolase and Adducin head (N-terminal) domain. Aldolases are ubiquitous enzymes catalyzing central steps of carbohydrate metabolism. Based on enzymatic mechanisms, this superfamily has been divided into two distinct classes (Class I and II); Region: Aldolase_II; cl00214 392499009352 intersubunit interface [polypeptide binding]; other site 392499009353 active site 392499009354 Zn2+ binding site [ion binding]; other site 392499009355 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 392499009356 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 392499009357 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 392499009358 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 392499009359 S-adenosylmethionine binding site [chemical binding]; other site 392499009360 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 392499009361 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 392499009362 RNA binding surface [nucleotide binding]; other site 392499009363 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 392499009364 active site 392499009365 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 392499009366 global nitrogen regulator NtcA, cyanobacterial; Region: NtcA_cyano; TIGR03697 392499009367 ligand binding site [chemical binding]; other site 392499009368 flexible hinge region; other site 392499009369 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 392499009370 putative switch regulator; other site 392499009371 non-specific DNA interactions [nucleotide binding]; other site 392499009372 DNA binding site [nucleotide binding] 392499009373 sequence specific DNA binding site [nucleotide binding]; other site 392499009374 putative cAMP binding site [chemical binding]; other site 392499009375 CrcB-like protein; Region: CRCB; cl09114 392499009376 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 392499009377 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 392499009378 active site 392499009379 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 392499009380 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 392499009381 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 392499009382 motif II; other site 392499009383 ATP12 chaperone protein; Region: ATP12; cl02228 392499009384 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 392499009385 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 392499009386 catalytic site [active] 392499009387 G-X2-G-X-G-K; other site 392499009388 fumarate hydratase; Reviewed; Region: fumC; PRK00485 392499009389 Class II fumarases; Region: Fumarase_classII; cd01362 392499009390 active site 392499009391 tetramer interface [polypeptide binding]; other site 392499009392 Stringent starvation protein B; Region: SspB; pfam04386 392499009393 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 392499009394 putative active site pocket [active] 392499009395 4-fold oligomerization interface [polypeptide binding]; other site 392499009396 metal binding residues [ion binding]; metal-binding site 392499009397 3-fold/trimer interface [polypeptide binding]; other site 392499009398 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13146 392499009399 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 392499009400 putative active site [active] 392499009401 oxyanion strand; other site 392499009402 catalytic triad [active] 392499009403 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 392499009404 phosphoribosylformimino-5-aminoimidazole carboxamide ribotide isomerase; Region: TIGR00007 392499009405 catalytic residues [active] 392499009406 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 392499009407 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 392499009408 substrate binding site [chemical binding]; other site 392499009409 glutamase interaction surface [polypeptide binding]; other site 392499009410 Glycosyltransferase Family 4; Region: Glyco_transf_4; pfam13439 392499009411 glutathione reductase; Validated; Region: PRK06116 392499009412 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 392499009413 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 392499009414 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 392499009415 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 392499009416 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 392499009417 active site 392499009418 dimer interface [polypeptide binding]; other site 392499009419 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 392499009420 dimer interface [polypeptide binding]; other site 392499009421 active site 392499009422 Phosphoribosylanthranilate isomerase (PRAI) catalyzes the fourth step of the tryptophan biosynthesis, the conversion of N-(5'- phosphoribosyl)-anthranilate (PRA) to 1-(o-carboxyphenylamino)- 1-deoxyribulose 5-phosphate (CdRP). Most PRAIs are...; Region: PRAI; cd00405 392499009423 active site 392499009424 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 392499009425 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 392499009426 pyridoxal 5'-phosphate binding site [chemical binding]; other site 392499009427 catalytic residue [active] 392499009428 tryptophan synthase alpha subunit; Provisional; Region: trpA; CHL00200 392499009429 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 392499009430 substrate binding site [chemical binding]; other site 392499009431 active site 392499009432 catalytic residues [active] 392499009433 heterodimer interface [polypeptide binding]; other site 392499009434 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 392499009435 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 392499009436 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 392499009437 aconitate hydratase; Validated; Region: PRK09277 392499009438 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 392499009439 substrate binding site [chemical binding]; other site 392499009440 ligand binding site [chemical binding]; other site 392499009441 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 392499009442 substrate binding site [chemical binding]; other site 392499009443 bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase; Validated; Region: PRK09238 392499009444 Aconitate hydratase 2 N-terminus; Region: Aconitase_2_N; pfam06434 392499009445 substrate binding site [chemical binding]; other site 392499009446 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 392499009447 substrate binding site [chemical binding]; other site 392499009448 ligand binding site [chemical binding]; other site 392499009449 metabolite-proton symporter; Region: 2A0106; TIGR00883 392499009450 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 392499009451 putative substrate translocation pore; other site 392499009452 Predicted aminomethyltransferase related to GcvT [General function prediction only]; Region: COG0354 392499009453 Uncharacterized protein conserved in bacteria (DUF2218); Region: DUF2218; cl01424 392499009454 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 392499009455 dihydroorotase; Validated; Region: PRK09060 392499009456 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 392499009457 Dihydroorotase (DHOase), subgroup IIb; DHOases catalyze the reversible interconversion of carbamoyl aspartate to dihydroorotate, a key reaction in pyrimidine biosynthesis. This group contains the archeal members of the DHOase family; Region: DHOase_IIb; cd01318 392499009458 active site 392499009459 CHAP domain; Region: CHAP; cl17642 392499009460 Surface antigen [General function prediction only]; Region: COG3942 392499009461 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 392499009462 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 392499009463 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 392499009464 Sulphate Transporter and Anti-Sigma factor antagonist domain found in the C-terminal region of sulphate transporters as well as in bacterial and archaeal proteins involved in the regulation of sigma factors; Region: STAS; cl00604 392499009465 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 392499009466 Permease; Region: Permease; pfam02405 392499009467 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 392499009468 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 392499009469 Walker A/P-loop; other site 392499009470 ATP binding site [chemical binding]; other site 392499009471 Q-loop/lid; other site 392499009472 ABC transporter signature motif; other site 392499009473 Walker B; other site 392499009474 D-loop; other site 392499009475 H-loop/switch region; other site 392499009476 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 392499009477 mce related protein; Region: MCE; pfam02470 392499009478 Phasin protein; Region: Phasin_2; cl11491 392499009479 Protein of unknown function (DUF330); Region: DUF330; cl01135 392499009480 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 392499009481 TGS _ThrRS_N: ThrRS (threonyl-tRNA Synthetase) is a class II tRNA synthetase that couples threonine to its cognate tRNA. In addition to its catalytic and anticodon-binding domains, ThrRS has an N-terminal TGS domain, named after the ThrRS, GTPase, and...; Region: TGS_ThrRS_N; cd01667 392499009482 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; pfam07973 392499009483 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 392499009484 active site 392499009485 dimer interface [polypeptide binding]; other site 392499009486 motif 1; other site 392499009487 motif 2; other site 392499009488 motif 3; other site 392499009489 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 392499009490 anticodon binding site; other site 392499009491 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 392499009492 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 392499009493 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 392499009494 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 392499009495 active site 392499009496 GH18 domain of an uncharacterized family of bacterial proteins, which share a common three-domain architecture: an N-terminal glycosyl hydrolase family 18 (GH18) domain, a glycosyl transferase family 2 domain, and a C-terminal polysaccharide deacetylase...; Region: GH18_trifunctional; cd06549 392499009497 putative active site [active] 392499009498 Catalytic NodB homology domain of uncharacterized bacterial glycosyl transferase, group 2-like family proteins; Region: CE4_GT2-like; cd10962 392499009499 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 392499009500 NodB motif; other site 392499009501 putative active site [active] 392499009502 putative catalytic site [active] 392499009503 putative Zn binding site [ion binding]; other site 392499009504 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 392499009505 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 392499009506 DXD motif; other site 392499009507 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 392499009508 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 392499009509 NAD(P) binding site [chemical binding]; other site 392499009510 active site 392499009511 aminopeptidase N; Provisional; Region: pepN; PRK14015 392499009512 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_1; cd09600 392499009513 active site 392499009514 Zn binding site [ion binding]; other site 392499009515 Bacterial protein of unknown function (DUF898); Region: DUF898; pfam05987 392499009516 Peptidase family M48; Region: Peptidase_M48; cl12018 392499009517 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 392499009518 Tetratricopeptide repeat; Region: TPR_16; pfam13432 392499009519 bifunctional malic enzyme oxidoreductase/phosphotransacetylase; Reviewed; Region: PRK07232 392499009520 Malic enzyme, N-terminal domain; Region: malic; pfam00390 392499009521 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 392499009522 putative NAD(P) binding site [chemical binding]; other site 392499009523 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 392499009524 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 392499009525 MutS domain I; Region: MutS_I; pfam01624 392499009526 MutS domain III; Region: MutS_III; pfam05192 392499009527 MutS domain V; Region: MutS_V; pfam00488 392499009528 Walker A/P-loop; other site 392499009529 ATP binding site [chemical binding]; other site 392499009530 Q-loop/lid; other site 392499009531 ABC transporter signature motif; other site 392499009532 Walker B; other site 392499009533 D-loop; other site 392499009534 H-loop/switch region; other site 392499009535 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 392499009536 CoenzymeA binding site [chemical binding]; other site 392499009537 subunit interaction site [polypeptide binding]; other site 392499009538 PHB binding site; other site 392499009539 Thioesterase-like superfamily; Region: 4HBT_3; pfam13622 392499009540 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 392499009541 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 392499009542 DNA-binding site [nucleotide binding]; DNA binding site 392499009543 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 392499009544 pyridoxal 5'-phosphate binding site [chemical binding]; other site 392499009545 homodimer interface [polypeptide binding]; other site 392499009546 catalytic residue [active] 392499009547 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5349 392499009548 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 392499009549 metal binding triad; other site 392499009550 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 392499009551 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3666 392499009552 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 392499009553 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 392499009554 Zn2+ binding site [ion binding]; other site 392499009555 Mg2+ binding site [ion binding]; other site 392499009556 ACT domain family, ACT_UUR-like_1, includes the first of two C-terminal ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD and related domains; Region: ACT_UUR-like_1; cd04900 392499009557 C-terminal ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD and related domains; Region: ACT_ACR-UUR-like_2; cd04899 392499009558 Chloramphenicol (Cm) phosphotransferase (CPT). Cm-inactivating enzyme; modifies the primary (C-3) hydroxyl of the antibiotic. Related structurally to shikimate kinase II; Region: CPT; cl17391 392499009559 AAA domain; Region: AAA_18; pfam13238 392499009560 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 392499009561 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 392499009562 H(+) -translocating inorganic pyrophosphatase; Region: PLN02255; cl11452 392499009563 Inorganic H+ pyrophosphatase; Region: H_PPase; pfam03030 392499009564 thiamine-monophosphate kinase; Region: thiL; TIGR01379 392499009565 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 392499009566 ATP binding site [chemical binding]; other site 392499009567 dimerization interface [polypeptide binding]; other site 392499009568 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 392499009569 transcription antitermination protein NusB; Reviewed; Region: nusB; PRK00202 392499009570 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 392499009571 histidinol dehydrogenase; Region: hisD; TIGR00069 392499009572 NAD binding site [chemical binding]; other site 392499009573 dimerization interface [polypeptide binding]; other site 392499009574 product binding site; other site 392499009575 substrate binding site [chemical binding]; other site 392499009576 zinc binding site [ion binding]; other site 392499009577 catalytic residues [active] 392499009578 ATP phosphoribosyltransferase catalytic subunit; Reviewed; Region: hisG; PRK01686 392499009579 ATP phosphoribosyltransferase [Amino acid transport and metabolism]; Region: HisG; COG0040 392499009580 Predicted membrane protein [Function unknown]; Region: COG2119 392499009581 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 392499009582 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 392499009583 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 392499009584 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 392499009585 dimerization interface [polypeptide binding]; other site 392499009586 DPS ferroxidase diiron center [ion binding]; other site 392499009587 ion pore; other site 392499009588 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 392499009589 Response regulator receiver domain; Region: Response_reg; pfam00072 392499009590 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 392499009591 active site 392499009592 phosphorylation site [posttranslational modification] 392499009593 intermolecular recognition site; other site 392499009594 dimerization interface [polypeptide binding]; other site 392499009595 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 392499009596 homotrimer interaction site [polypeptide binding]; other site 392499009597 putative active site [active] 392499009598 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 392499009599 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 392499009600 active site 392499009601 catalytic site [active] 392499009602 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; cl17497 392499009603 Protein of unknown function, DUF482; Region: DUF482; pfam04339 392499009604 pantoate--beta-alanine ligase; Region: panC; TIGR00018 392499009605 Pantoate-beta-alanine ligase; Region: PanC; cd00560 392499009606 active site 392499009607 ATP-binding site [chemical binding]; other site 392499009608 pantoate-binding site; other site 392499009609 HXXH motif; other site 392499009610 ATPase MipZ; Region: MipZ; pfam09140 392499009611 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 392499009612 P-loop; other site 392499009613 Magnesium ion binding site [ion binding]; other site 392499009614 DnaJ chaperone protein; Provisional; Region: PTZ00100 392499009615 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 392499009616 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 392499009617 active site 392499009618 substrate binding site [chemical binding]; other site 392499009619 metal binding site [ion binding]; metal-binding site 392499009620 DEXH box helicase, DNA ligase-associated; Region: DEXH_lig_assoc; TIGR04121 392499009621 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 392499009622 ATP binding site [chemical binding]; other site 392499009623 putative Mg++ binding site [ion binding]; other site 392499009624 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 392499009625 nucleotide binding region [chemical binding]; other site 392499009626 ATP-binding site [chemical binding]; other site 392499009627 DEAD/H associated; Region: DEAD_assoc; pfam08494 392499009628 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 392499009629 DNA polymerase III subunit beta; Validated; Region: PRK05643 392499009630 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 392499009631 putative DNA binding surface [nucleotide binding]; other site 392499009632 dimer interface [polypeptide binding]; other site 392499009633 beta-clamp/clamp loader binding surface; other site 392499009634 beta-clamp/translesion DNA polymerase binding surface; other site 392499009635 Glutaminase [Amino acid transport and metabolism]; Region: GlsA; COG2066 392499009636 glutaminase; Provisional; Region: PRK00971 392499009637 hydroxyacylglutathione hydrolase; Region: GSH_gloB; TIGR03413 392499009638 recombination protein F; Reviewed; Region: recF; PRK00064 392499009639 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 392499009640 Walker A/P-loop; other site 392499009641 ATP binding site [chemical binding]; other site 392499009642 Q-loop/lid; other site 392499009643 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 392499009644 ABC transporter signature motif; other site 392499009645 Walker B; other site 392499009646 D-loop; other site 392499009647 H-loop/switch region; other site 392499009648 Integral membrane protein possibly involved in chromosome condensation [Cell division and chromosome partitioning]; Region: CrcB; COG0239 392499009649 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 392499009650 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 392499009651 Mg2+ binding site [ion binding]; other site 392499009652 G-X-G motif; other site 392499009653 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 392499009654 anchoring element; other site 392499009655 dimer interface [polypeptide binding]; other site 392499009656 ATP binding site [chemical binding]; other site 392499009657 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 392499009658 active site 392499009659 putative metal-binding site [ion binding]; other site 392499009660 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 392499009661 Protein of unknown function (DUF3999); Region: DUF3999; pfam13163 392499009662 Predicted membrane protein (DUF2339); Region: DUF2339; pfam10101 392499009663 RDD family; Region: RDD; pfam06271 392499009664 Uncharacterized BCR, YaiI/YqxD family COG1671; Region: DUF188; pfam02639 392499009665 Putative hydrophobic ligand-binding SRPBCC domain of Micromonospora echinospora CalC, human Aha1, and related proteins; Region: SRPBCC_CalC_Aha1-like; cd07814 392499009666 putative hydrophobic ligand binding site [chemical binding]; other site 392499009667 Domain of unknown function (DUF1993); Region: DUF1993; pfam09351 392499009668 NAD(P)H:quinone oxidoreductase; Provisional; Region: PRK03767 392499009669 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 392499009670 Pirin-related protein [General function prediction only]; Region: COG1741 392499009671 Pirin; Region: Pirin; pfam02678 392499009672 Transcriptional regulator [Transcription]; Region: LysR; COG0583 392499009673 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 392499009674 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 392499009675 putative effector binding pocket; other site 392499009676 dimerization interface [polypeptide binding]; other site 392499009677 Protein of unknown function (DUF3297); Region: DUF3297; pfam11730 392499009678 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 392499009679 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 392499009680 DNA binding residues [nucleotide binding] 392499009681 Protein of unknown function (DUF4199); Region: DUF4199; pfam13858 392499009682 methionine sulfoxide reductase B; Provisional; Region: PRK00222 392499009683 SelR domain; Region: SelR; pfam01641 392499009684 Transglycosylase; Region: Transgly; pfam00912 392499009685 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 392499009686 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 392499009687 Protein of unknown function DUF45; Region: DUF45; pfam01863 392499009688 hypothetical protein; Provisional; Region: PRK05170 392499009689 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 392499009690 SCO (an acronym for Synthesis of Cytochrome c Oxidase) family; composed of proteins similar to Sco1, a membrane-anchored protein possessing a soluble domain with a TRX fold. Members of this family are required for the proper assembly of cytochrome c...; Region: SCO; cd02968 392499009691 Cu(I) binding site [ion binding]; other site 392499009692 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 392499009693 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 392499009694 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 392499009695 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 392499009696 Coenzyme A binding pocket [chemical binding]; other site 392499009697 Protein of unknown function (DUF1052); Region: DUF1052; cl02197 392499009698 Protein of unknown function (DUF1491); Region: DUF1491; pfam07372 392499009699 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 392499009700 CoenzymeA binding site [chemical binding]; other site 392499009701 subunit interaction site [polypeptide binding]; other site 392499009702 PHB binding site; other site 392499009703 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 392499009704 active site 392499009705 phosphorylation site [posttranslational modification] 392499009706 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 392499009707 30S subunit binding site; other site 392499009708 DNA polymerase III, epsilon subunit, Proteobacterial; Region: dnaQ_proteo; TIGR01406 392499009709 DEDDh 3'-5' exonuclease domain of the epsilon subunit of Escherichia coli DNA polymerase III and similar proteins; Region: DNA_pol_III_epsilon_Ecoli_like; cd06131 392499009710 active site 392499009711 catalytic site [active] 392499009712 substrate binding site [chemical binding]; other site 392499009713 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 392499009714 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 392499009715 CoA-binding site [chemical binding]; other site 392499009716 ATP-binding [chemical binding]; other site 392499009717 shikimate 5-dehydrogenase; Region: aroE; TIGR00507 392499009718 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 392499009719 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 392499009720 shikimate binding site; other site 392499009721 NAD(P) binding site [chemical binding]; other site 392499009722 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 392499009723 active site 392499009724 dimer interface [polypeptide binding]; other site 392499009725 PEP synthetase regulatory protein; Provisional; Region: PRK05339 392499009726 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 392499009727 substrate binding site [chemical binding]; other site 392499009728 active site 392499009729 Uncharacterized protein family (UPF0093); Region: UPF0093; pfam03653 392499009730 transcription termination factor Rho; Provisional; Region: rho; PRK09376 392499009731 Rho termination factor, N-terminal domain; Region: Rho_N; pfam07498 392499009732 Rho_CSD: Rho protein cold-shock domain (CSD). Rho protein is a transcription termination factor in most bacteria. In bacteria, there are two distinct mechanisms for mRNA transcription termination. In intrinsic termination, RNA polymerase and nascent mRNA...; Region: Rho_CSD; cd04459 392499009733 RNA binding site [nucleotide binding]; other site 392499009734 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 392499009735 multimer interface [polypeptide binding]; other site 392499009736 Walker A motif; other site 392499009737 ATP binding site [chemical binding]; other site 392499009738 Walker B motif; other site 392499009739 Methyltransferase domain; Region: Methyltransf_23; pfam13489 392499009740 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 392499009741 S-adenosylmethionine binding site [chemical binding]; other site 392499009742 Helix-Turn-Helix DNA binding domain of putative transcription regulators from the MerR superfamily; Region: HTH_MerR-like_sg6; cd04781 392499009743 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 392499009744 DNA binding residues [nucleotide binding] 392499009745 putative dimer interface [polypeptide binding]; other site 392499009746 putative metal binding residues [ion binding]; other site 392499009747 Methyltransferase domain; Region: Methyltransf_11; pfam08241 392499009748 integral membrane protein, YjbE family; Region: R_switched_YjbE; TIGR03717 392499009749 choice-of-anchor A domain; Region: choice_anch_A; TIGR04215 392499009750 PEP-CTERM motif; Region: VPEP; pfam07589 392499009751 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 392499009752 quinone oxidoreductase, NADPH-dependent; Provisional; Region: PRK10754 392499009753 NADP binding site [chemical binding]; other site 392499009754 dimer interface [polypeptide binding]; other site 392499009755 Dienelactone hydrolase family; Region: DLH; pfam01738 392499009756 methylated-DNA--protein-cysteine methyltransferase; Provisional; Region: PRK00901 392499009757 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 392499009758 active site 392499009759 DNA binding site [nucleotide binding] 392499009760 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 392499009761 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 392499009762 trmE is a tRNA modification GTPase; Region: trmE; cd04164 392499009763 G1 box; other site 392499009764 Switch I region; other site 392499009765 G2 box; other site 392499009766 Switch II region; other site 392499009767 G3 box; other site 392499009768 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 392499009769 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 392499009770 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 392499009771 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 392499009772 16S rRNA methyltransferase GidB; Reviewed; Region: gidB; PRK00107 392499009773 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 392499009774 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 392499009775 P-loop; other site 392499009776 Magnesium ion binding site [ion binding]; other site 392499009777 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 392499009778 Magnesium ion binding site [ion binding]; other site 392499009779 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 392499009780 ParB-like nuclease domain; Region: ParBc; pfam02195 392499009781 KorB domain; Region: KorB; pfam08535 392499009782 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK06585 392499009783 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 392499009784 Lipopolysaccharide-assembly; Region: LptE; pfam04390 392499009785 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 392499009786 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 392499009787 HIGH motif; other site 392499009788 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 392499009789 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 392499009790 active site 392499009791 KMSKS motif; other site 392499009792 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 392499009793 tRNA binding surface [nucleotide binding]; other site 392499009794 Domain of unknown function (DUF3576); Region: DUF3576; pfam12100 392499009795 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 392499009796 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 392499009797 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 392499009798 catalytic residue [active] 392499009799 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 392499009800 Salmonella typhimurium Zn2+ transporter ZntB-like subgroup; Region: ZntB-like_1; cd12833 392499009801 Cl binding site [ion binding]; other site 392499009802 oligomer interface [polypeptide binding]; other site 392499009803 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 392499009804 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 392499009805 active site 392499009806 catalytic tetrad [active] 392499009807 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 392499009808 active site 392499009809 tetramer interface; other site 392499009810 diaminopimelate decarboxylase; Region: lysA; TIGR01048 392499009811 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 392499009812 active site 392499009813 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 392499009814 substrate binding site [chemical binding]; other site 392499009815 catalytic residues [active] 392499009816 dimer interface [polypeptide binding]; other site 392499009817 argininosuccinate lyase; Provisional; Region: PRK00855 392499009818 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 392499009819 active sites [active] 392499009820 tetramer interface [polypeptide binding]; other site 392499009821 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 392499009822 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 392499009823 catalytic residues [active] 392499009824 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 392499009825 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 392499009826 The Class III extradiol dioxygenase, 4,5-DOPA Dioxygenase, catalyzes the incorporation of both atoms of molecular oxygen into 4,5-dihydroxy-phenylalanine; Region: 45_DOPA_Dioxygenase; cd07363 392499009827 putative active site [active] 392499009828 metal binding site [ion binding]; metal-binding site 392499009829 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 392499009830 Domain of unknown function DUF20; Region: UPF0118; pfam01594 392499009831 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 392499009832 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 392499009833 YGGT family; Region: YGGT; pfam02325 392499009834 Uncharacterized ACR, YggU family COG1872; Region: DUF167; cl00811 392499009835 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14188 392499009836 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 392499009837 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 392499009838 homodimer interface [polypeptide binding]; other site 392499009839 NADP binding site [chemical binding]; other site 392499009840 substrate binding site [chemical binding]; other site 392499009841 MarC family integral membrane protein; Region: MarC; pfam01914 392499009842 Predicted membrane protein [Function unknown]; Region: COG2246 392499009843 GtrA-like protein; Region: GtrA; pfam04138 392499009844 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 392499009845 Putative Catalytic site; other site 392499009846 DXD motif; other site 392499009847 Methyltransferase domain; Region: Methyltransf_23; pfam13489 392499009848 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 392499009849 S-adenosylmethionine binding site [chemical binding]; other site 392499009850 hypothetical protein; Provisional; Region: PRK07208 392499009851 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 392499009852 RNA polymerase sigma factor sigma-28; Reviewed; Region: PRK05911 392499009853 Cupin-like domain; Region: Cupin_8; pfam13621 392499009854 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 392499009855 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 392499009856 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 392499009857 active site 392499009858 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 392499009859 Zn-dependent dipeptidase, microsomal dipeptidase homolog [Amino acid transport and metabolism]; Region: COG2355 392499009860 active site 392499009861 GST_N family, Saccharomyces cerevisiae GTT1-like subfamily; composed of predominantly uncharacterized proteins with similarity to the S. cerevisiae GST protein, GTT1, and the Schizosaccharomyces pombe GST-III. GSTs are cytosolic dimeric proteins involved...; Region: GST_N_GTT1_like; cd03046 392499009862 putative C-terminal domain interface [polypeptide binding]; other site 392499009863 putative GSH binding site (G-site) [chemical binding]; other site 392499009864 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 392499009865 putative dimer interface [polypeptide binding]; other site 392499009866 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 392499009867 N-terminal domain interface [polypeptide binding]; other site 392499009868 dimer interface [polypeptide binding]; other site 392499009869 substrate binding pocket (H-site) [chemical binding]; other site 392499009870 C4-dicarboxylate transporter DctA; Reviewed; Region: PRK01663 392499009871 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 392499009872 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 392499009873 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 392499009874 N-terminal plug; other site 392499009875 ligand-binding site [chemical binding]; other site 392499009876 Acetyltransferase (GNAT) domain; Region: Acetyltransf_5; cl17496 392499009877 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 392499009878 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 392499009879 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 392499009880 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 392499009881 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 392499009882 putative active site [active] 392499009883 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 392499009884 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 392499009885 ATP-grasp domain; Region: ATP-grasp_4; cl17255 392499009886 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 392499009887 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 392499009888 carboxyltransferase (CT) interaction site; other site 392499009889 biotinylation site [posttranslational modification]; other site 392499009890 biotin synthase; Region: bioB; TIGR00433 392499009891 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 392499009892 FeS/SAM binding site; other site 392499009893 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 392499009894 methylmalonyl-CoA mutase; Reviewed; Region: PRK09426 392499009895 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 392499009896 active site 392499009897 substrate binding site [chemical binding]; other site 392499009898 coenzyme B12 binding site [chemical binding]; other site 392499009899 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 392499009900 B12 binding site [chemical binding]; other site 392499009901 cobalt ligand [ion binding]; other site 392499009902 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 392499009903 Methylmalonyl-CoA epimerase (MMCE); Region: MMCE; cd07249 392499009904 dimer interface [polypeptide binding]; other site 392499009905 substrate binding site [chemical binding]; other site 392499009906 metal binding site [ion binding]; metal-binding site 392499009907 beta-ketothiolase; Provisional; Region: PRK09051 392499009908 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 392499009909 dimer interface [polypeptide binding]; other site 392499009910 active site 392499009911 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 392499009912 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 392499009913 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 392499009914 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 392499009915 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 392499009916 non-specific DNA binding site [nucleotide binding]; other site 392499009917 salt bridge; other site 392499009918 sequence-specific DNA binding site [nucleotide binding]; other site 392499009919 Predicted transcriptional regulator [General function prediction only]; Region: COG3800 392499009920 Domain of unknown function (DUF955); Region: DUF955; pfam06114 392499009921 Predicted transcriptional regulator (DUF2083); Region: DUF2083; pfam09856 392499009922 Protein of unknown function (DUF952); Region: DUF952; pfam06108 392499009923 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 392499009924 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 392499009925 epoxyqueuosine reductase; Region: TIGR00276 392499009926 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 392499009927 Conserved domain frequently associated with peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: COG0229; cl15841 392499009928 SelR domain; Region: SelR; pfam01641 392499009929 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 392499009930 DNA-binding site [nucleotide binding]; DNA binding site 392499009931 RNA-binding motif; other site 392499009932 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 392499009933 DNA-binding site [nucleotide binding]; DNA binding site 392499009934 RNA-binding motif; other site 392499009935 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 392499009936 Ribonuclease D [Translation, ribosomal structure and biogenesis]; Region: Rnd; COG0349 392499009937 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 392499009938 catalytic site [active] 392499009939 putative active site [active] 392499009940 putative substrate binding site [chemical binding]; other site 392499009941 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5375 392499009942 OstA-like protein; Region: OstA; pfam03968 392499009943 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 392499009944 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 392499009945 Walker A/P-loop; other site 392499009946 ATP binding site [chemical binding]; other site 392499009947 Q-loop/lid; other site 392499009948 ABC transporter signature motif; other site 392499009949 Walker B; other site 392499009950 D-loop; other site 392499009951 H-loop/switch region; other site 392499009952 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 392499009953 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 392499009954 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 392499009955 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 392499009956 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 392499009957 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 392499009958 Nucleoside recognition; Region: Gate; pfam07670 392499009959 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 392499009960 Uncharacterized ACR, YhhQ family COG1738; Region: DUF165; pfam02592 392499009961 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 392499009962 feedback inhibition sensing region; other site 392499009963 homohexameric interface [polypeptide binding]; other site 392499009964 nucleotide binding site [chemical binding]; other site 392499009965 N-acetyl-L-glutamate binding site [chemical binding]; other site 392499009966 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 392499009967 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate (THDP) N-succinyltransferase (also called THP succinyltransferase): THDP N-succinyltransferase catalyzes the conversion of tetrahydrodipicolinate and succinyl-CoA to N-succinyltetrahydrodipicolinate and CoA; Region: LbH_THP_succinylT; cd03350 392499009968 trimer interface [polypeptide binding]; other site 392499009969 active site 392499009970 substrate binding site [chemical binding]; other site 392499009971 CoA binding site [chemical binding]; other site 392499009972 pyrimidine 5'-nucleotidase; Region: Pyr-5-nucltdase; TIGR01993 392499009973 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 392499009974 motif II; other site 392499009975 Iron-sulfur cluster assembly accessory protein; Region: TIGR00049 392499009976 FeS assembly SUF system protein; Region: SUF_assoc; TIGR02945 392499009977 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 392499009978 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 392499009979 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 392499009980 catalytic residue [active] 392499009981 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814; cl03223 392499009982 Uncharacterized protein family (UPF0051); Region: UPF0051; pfam01458 392499009983 FeS assembly ATPase SufC; Region: sufC; TIGR01978 392499009984 ABC-type transport system involved in Fe-S cluster assembly, ATPase component; Region: ABC_FeS_Assembly; cd03217 392499009985 Walker A/P-loop; other site 392499009986 ATP binding site [chemical binding]; other site 392499009987 Q-loop/lid; other site 392499009988 ABC transporter signature motif; other site 392499009989 Walker B; other site 392499009990 D-loop; other site 392499009991 H-loop/switch region; other site 392499009992 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814 392499009993 putative ABC transporter; Region: ycf24; CHL00085 392499009994 FeS assembly SUF system regulator, gammaproteobacterial; Region: suf_reg_Xantho; TIGR02944 392499009995 Transcriptional regulator; Region: Rrf2; pfam02082 392499009996 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 392499009997 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 392499009998 quinone interaction residues [chemical binding]; other site 392499009999 active site 392499010000 catalytic residues [active] 392499010001 FMN binding site [chemical binding]; other site 392499010002 substrate binding site [chemical binding]; other site 392499010003 Transcriptional regulator [Transcription]; Region: LysR; COG0583 392499010004 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 392499010005 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 392499010006 dimerization interface [polypeptide binding]; other site 392499010007 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 392499010008 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 392499010009 Amidohydrolase; Region: Amidohydro_4; pfam13147 392499010010 active site 392499010011 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 392499010012 nucleoside/Zn binding site; other site 392499010013 dimer interface [polypeptide binding]; other site 392499010014 catalytic motif [active] 392499010015 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 392499010016 putative cyanate transporter; Provisional; Region: cynX; PRK09705 392499010017 Predicted signal transduction protein containing sensor and EAL domains [Signal transduction mechanisms]; Region: COG4943 392499010018 CSS motif domain associated with EAL; Region: CSS-motif; pfam12792 392499010019 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 392499010020 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 392499010021 tetramer interface [polypeptide binding]; other site 392499010022 active site 392499010023 Mg2+/Mn2+ binding site [ion binding]; other site 392499010024 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 392499010025 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 392499010026 metal binding site [ion binding]; metal-binding site 392499010027 active site 392499010028 I-site; other site 392499010029 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 392499010030 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 392499010031 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 392499010032 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 392499010033 MiaB-like tRNA modifying enzyme; Region: MiaB-like-C; TIGR01579 392499010034 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 392499010035 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 392499010036 FeS/SAM binding site; other site 392499010037 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 392499010038 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 392499010039 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 392499010040 P loop; other site 392499010041 GTP binding site [chemical binding]; other site 392499010042 Intracellular septation protein A; Region: IspA; pfam04279 392499010043 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 392499010044 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 392499010045 dimer interface [polypeptide binding]; other site 392499010046 putative CheW interface [polypeptide binding]; other site 392499010047 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 392499010048 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 392499010049 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 392499010050 Protein of unknown function (DUF989); Region: DUF989; pfam06181 392499010051 Glycosyltransferase family 25 [lipooligosaccharide (LOS) biosynthesis protein] is a family of glycosyltransferases involved in LOS biosynthesis. The members include the beta(1,4) galactosyltransferases: Lgt2 of Moraxella catarrhalis, LgtB and LgtE of...; Region: Glyco_transf_25; cd06532 392499010052 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 392499010053 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 392499010054 Walker A motif; other site 392499010055 ATP binding site [chemical binding]; other site 392499010056 Walker B motif; other site 392499010057 arginine finger; other site 392499010058 phage shock protein A; Region: phageshock_pspA; TIGR02977 392499010059 Phage shock protein B; Region: PspB; pfam06667 392499010060 phage shock protein C; Region: phageshock_pspC; TIGR02978 392499010061 PspC domain; Region: PspC; pfam04024 392499010062 phage shock protein C; Region: phageshock_pspC; TIGR02978 392499010063 Fe-S metabolism associated domain; Region: SufE; cl00951 392499010064 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 392499010065 Topoisomerase IB [DNA replication, recombination, and repair]; Region: COG3569 392499010066 Eukaryotic DNA topoisomerase I, catalytic core; Region: Topoisom_I; pfam01028 392499010067 active site 392499010068 DNA binding site [nucleotide binding] 392499010069 Int/Topo IB signature motif; other site 392499010070 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 392499010071 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 392499010072 active site 392499010073 phosphorylation site [posttranslational modification] 392499010074 intermolecular recognition site; other site 392499010075 dimerization interface [polypeptide binding]; other site 392499010076 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 392499010077 HSP70 interaction site [polypeptide binding]; other site 392499010078 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 392499010079 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 392499010080 Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907 392499010081 acyl-activating enzyme (AAE) consensus motif; other site 392499010082 putative AMP binding site [chemical binding]; other site 392499010083 putative active site [active] 392499010084 putative CoA binding site [chemical binding]; other site 392499010085 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 392499010086 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 392499010087 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 392499010088 Predicted membrane protein [Function unknown]; Region: COG4763 392499010089 Acyltransferase family; Region: Acyl_transf_3; pfam01757 392499010090 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 392499010091 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 392499010092 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 392499010093 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain; Region: HAMP; smart00304 392499010094 dimerization interface [polypeptide binding]; other site 392499010095 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 392499010096 ATP binding site [chemical binding]; other site 392499010097 Mg2+ binding site [ion binding]; other site 392499010098 G-X-G motif; other site 392499010099 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 392499010100 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 392499010101 active site 392499010102 phosphorylation site [posttranslational modification] 392499010103 intermolecular recognition site; other site 392499010104 dimerization interface [polypeptide binding]; other site 392499010105 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 392499010106 DNA binding site [nucleotide binding] 392499010107 MarR family; Region: MarR; pfam01047 392499010108 peroxiredoxin, Ohr subfamily; Region: organ_hyd_perox; TIGR03561 392499010109 Predicted transcriptional regulator [Transcription]; Region: COG1959 392499010110 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 392499010111 putative Zn2+ binding site [ion binding]; other site 392499010112 putative DNA binding site [nucleotide binding]; other site 392499010113 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 392499010114 Bacterial low temperature requirement A protein (LtrA); Region: LtrA; cl01754 392499010115 Predicted Fe-S-cluster redox enzyme [General function prediction only]; Region: COG0820 392499010116 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 392499010117 FeS/SAM binding site; other site 392499010118 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 392499010119 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 392499010120 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 392499010121 S-adenosylmethionine binding site [chemical binding]; other site 392499010122 oxidoreductase; Provisional; Region: PRK12742 392499010123 classical (c) SDRs; Region: SDR_c; cd05233 392499010124 NAD(P) binding site [chemical binding]; other site 392499010125 active site 392499010126 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 392499010127 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 392499010128 EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to...; Region: EFh; cl17302 392499010129 EF-hand domain pair; Region: EF_hand_5; pfam13499 392499010130 Ca2+ binding site [ion binding]; other site 392499010131 EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to...; Region: EFh; cl17302 392499010132 Ca2+ binding site [ion binding]; other site 392499010133 argininosuccinate synthase; Provisional; Region: PRK13820 392499010134 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 392499010135 ANP binding site [chemical binding]; other site 392499010136 Substrate Binding Site II [chemical binding]; other site 392499010137 Substrate Binding Site I [chemical binding]; other site 392499010138 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 392499010139 Transposase; Region: DEDD_Tnp_IS110; pfam01548 392499010140 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 392499010141 Histidine kinase; Region: His_kinase; pfam06580 392499010142 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 392499010143 ATP binding site [chemical binding]; other site 392499010144 Mg2+ binding site [ion binding]; other site 392499010145 G-X-G motif; other site 392499010146 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 392499010147 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 392499010148 active site 392499010149 phosphorylation site [posttranslational modification] 392499010150 intermolecular recognition site; other site 392499010151 dimerization interface [polypeptide binding]; other site 392499010152 LytTr DNA-binding domain; Region: LytTR; smart00850 392499010153 Citrate lyase beta subunit [Carbohydrate transport and metabolism]; Region: CitE; COG2301 392499010154 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 392499010155 PAS domain; Region: PAS_9; pfam13426 392499010156 putative active site [active] 392499010157 heme pocket [chemical binding]; other site 392499010158 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 392499010159 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 392499010160 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 392499010161 putative active site [active] 392499010162 heme pocket [chemical binding]; other site 392499010163 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 392499010164 dimer interface [polypeptide binding]; other site 392499010165 phosphorylation site [posttranslational modification] 392499010166 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 392499010167 ATP binding site [chemical binding]; other site 392499010168 Mg2+ binding site [ion binding]; other site 392499010169 G-X-G motif; other site 392499010170 response regulator FixJ; Provisional; Region: fixJ; PRK09390 392499010171 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 392499010172 active site 392499010173 phosphorylation site [posttranslational modification] 392499010174 intermolecular recognition site; other site 392499010175 dimerization interface [polypeptide binding]; other site 392499010176 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 392499010177 DNA binding residues [nucleotide binding] 392499010178 dimerization interface [polypeptide binding]; other site 392499010179 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 392499010180 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 392499010181 NAD binding site [chemical binding]; other site 392499010182 homodimer interface [polypeptide binding]; other site 392499010183 active site 392499010184 substrate binding site [chemical binding]; other site 392499010185 Predicted membrane protein [Function unknown]; Region: COG1297 392499010186 putative oligopeptide transporter, OPT family; Region: TIGR00733 392499010187 elongation factor P; Validated; Region: PRK00529 392499010188 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 392499010189 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 392499010190 RNA binding site [nucleotide binding]; other site 392499010191 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 392499010192 RNA binding site [nucleotide binding]; other site 392499010193 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 392499010194 IMPase, inositol monophosphatase and related domains. A family of Mg++ dependent phosphatases, inhibited by lithium, many of which may act on inositol monophosphate substrate. They dephosphorylate inositol phosphate to generate inositol, which may be...; Region: IMPase; cd01639 392499010195 active site 392499010196 dimerization interface [polypeptide binding]; other site 392499010197 NADH:ubiquinone oxidoreductase subunit A; Validated; Region: PRK06602 392499010198 NADH dehydrogenase subunit B; Validated; Region: PRK06411 392499010199 NADH dehydrogenase subunit C; Provisional; Region: PRK06074 392499010200 NADH (or F420H2) dehydrogenase, subunit C; Region: NuoC_fam; TIGR01961 392499010201 NADH:ubiquinone oxidoreductase 49 kD subunit 7 [Energy production and conversion]; Region: NuoD; COG0649 392499010202 NADH dehydrogenase subunit D; Validated; Region: PRK06075 392499010203 Respiratory-chain NADH dehydrogenase 24 Kd subunit; Region: Complex1_24kDa; pfam01257 392499010204 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 392499010205 putative dimer interface [polypeptide binding]; other site 392499010206 [2Fe-2S] cluster binding site [ion binding]; other site 392499010207 NADH dehydrogenase I subunit F; Provisional; Region: PRK13596 392499010208 SLBB domain; Region: SLBB; pfam10531 392499010209 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 392499010210 NADH dehydrogenase subunit G; Validated; Region: PRK09130 392499010211 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 392499010212 catalytic loop [active] 392499010213 iron binding site [ion binding]; other site 392499010214 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 392499010215 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 392499010216 molybdopterin cofactor binding site; other site 392499010217 Domain of unknown function (DUF1982); Region: DUF1982; pfam09326 392499010218 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 392499010219 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 392499010220 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 392499010221 4Fe-4S binding domain; Region: Fer4; pfam00037 392499010222 4Fe-4S binding domain; Region: Fer4; pfam00037 392499010223 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 392499010224 NADH dehydrogenase subunit J; Provisional; Region: PRK06433 392499010225 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 392499010226 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 392499010227 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 392499010228 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 392499010229 proton-translocating NADH-quinone oxidoreductase, chain M; Region: NDH_I_M; TIGR01972 392499010230 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 392499010231 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 392499010232 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 392499010233 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 392499010234 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 392499010235 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 392499010236 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 392499010237 pantothenate kinase; Reviewed; Region: PRK13318 392499010238 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 392499010239 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 392499010240 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 392499010241 Protein of unknown function (DUF1467); Region: DUF1467; pfam07330 392499010242 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 392499010243 PA_M28_1_1: Protease-associated (PA) domain, peptidase family M28, subfamily-1, subgroup 1. A subgroup of PA-domain containing proteins belonging to the peptidase family M28. Family M28 contains aminopeptidases and carboxypeptidases, and has co-catalytic...; Region: PA_M28_1_1; cd04820 392499010244 PA/protease or protease-like domain interface [polypeptide binding]; other site 392499010245 M28 Zn-Peptidases containing a PA domain insert; Region: M28_like_PA_2; cd05661 392499010246 Peptidase family M28; Region: Peptidase_M28; pfam04389 392499010247 metal binding site [ion binding]; metal-binding site 392499010248 Methyltransferase domain; Region: Methyltransf_31; pfam13847 392499010249 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 392499010250 S-adenosylmethionine binding site [chemical binding]; other site 392499010251 homoserine O-acetyltransferase; Provisional; Region: metX; PRK00175 392499010252 homoserine O-acetyltransferase; Region: homoserO_Ac_trn; TIGR01392 392499010253 histidinol-phosphate aminotransferase; Validated; Region: PRK02731 392499010254 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 392499010255 pyridoxal 5'-phosphate binding site [chemical binding]; other site 392499010256 homodimer interface [polypeptide binding]; other site 392499010257 catalytic residue [active] 392499010258 cyclohexadienyl dehydrogenase; Validated; Region: PRK07502 392499010259 prephenate dehydrogenase; Validated; Region: PRK08507 392499010260 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 392499010261 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 392499010262 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 392499010263 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 392499010264 putative acyl-acceptor binding pocket; other site 392499010265 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 392499010266 putative active site [active] 392499010267 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 392499010268 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 392499010269 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 392499010270 Walker A/P-loop; other site 392499010271 ATP binding site [chemical binding]; other site 392499010272 Q-loop/lid; other site 392499010273 ABC transporter signature motif; other site 392499010274 Walker B; other site 392499010275 D-loop; other site 392499010276 H-loop/switch region; other site 392499010277 Phosphofructokinase, a key regulatory enzyme in glycolysis, catalyzes the phosphorylation of fructose-6-phosphate to fructose-1,6-biphosphate. The members belong to PFK family that includes ATP- and pyrophosphate (PPi)- dependent phosphofructokinases; Region: PFK; cl00204 392499010278 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 392499010279 active site 392499010280 ADP/pyrophosphate binding site [chemical binding]; other site 392499010281 dimerization interface [polypeptide binding]; other site 392499010282 allosteric effector site; other site 392499010283 fructose-1,6-bisphosphate binding site; other site 392499010284 Bacillus subtilis NADP+-dependent alpha-ketoglutaric semialdehyde dehydrogenase ycbD-like; Region: ALDH_KGSADH-YcbD; cd07097 392499010285 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 392499010286 NAD(P) binding site [chemical binding]; other site 392499010287 catalytic residues [active] 392499010288 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 392499010289 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 392499010290 NAD(P) binding site [chemical binding]; other site 392499010291 The single-domain 2,3-dihydroxybiphenyl 1,2-dioxygenases (BphC, EC 1.13.11.39) from Rhodococcus globerulus P6, BphC2-RGP6 and BphC3-RGP6, and similar proteins; Region: BphC2-C3-RGP6_C_like; cd08348 392499010292 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 392499010293 putative active site [active] 392499010294 putative metal binding site [ion binding]; other site 392499010295 Malate/L-lactate dehydrogenase; Region: Ldh_2; cl00900 392499010296 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 392499010297 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 392499010298 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 392499010299 Domain of unknown function (DUF2437); Region: DUF2437; pfam10370 392499010300 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 392499010301 Transcriptional regulators [Transcription]; Region: GntR; COG1802 392499010302 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 392499010303 DNA-binding site [nucleotide binding]; DNA binding site 392499010304 FCD domain; Region: FCD; pfam07729 392499010305 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 392499010306 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 392499010307 iron-sulfur cluster [ion binding]; other site 392499010308 [2Fe-2S] cluster binding site [ion binding]; other site 392499010309 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 392499010310 hydrophobic ligand binding site; other site 392499010311 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 392499010312 Cytochrome P450; Region: p450; cl12078 392499010313 Cupin domain; Region: Cupin_2; pfam07883 392499010314 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 392499010315 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 392499010316 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 392499010317 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 392499010318 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 392499010319 ligand binding site [chemical binding]; other site 392499010320 flexible hinge region; other site 392499010321 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 392499010322 putative switch regulator; other site 392499010323 non-specific DNA interactions [nucleotide binding]; other site 392499010324 DNA binding site [nucleotide binding] 392499010325 sequence specific DNA binding site [nucleotide binding]; other site 392499010326 putative cAMP binding site [chemical binding]; other site 392499010327 indolepyruvate ferredoxin oxidoreductase; Validated; Region: PRK09193 392499010328 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 392499010329 dimer interface [polypeptide binding]; other site 392499010330 PYR/PP interface [polypeptide binding]; other site 392499010331 TPP binding site [chemical binding]; other site 392499010332 substrate binding site [chemical binding]; other site 392499010333 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cl01629 392499010334 TPP-binding site [chemical binding]; other site 392499010335 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 392499010336 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 392499010337 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 392499010338 AsnC family; Region: AsnC_trans_reg; pfam01037 392499010339 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 392499010340 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 392499010341 N-terminal plug; other site 392499010342 ligand-binding site [chemical binding]; other site 392499010343 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 392499010344 D-galactonate transporter; Region: 2A0114; TIGR00893 392499010345 putative substrate translocation pore; other site 392499010346 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 392499010347 Ornithine/acetylornithine aminotransferase [Amino acid transport and metabolism]; Region: ArgD; COG4992 392499010348 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 392499010349 catalytic residue [active] 392499010350 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 392499010351 homotrimer interaction site [polypeptide binding]; other site 392499010352 putative active site [active] 392499010353 succinic semialdehyde dehydrogenase; Region: PLN02278 392499010354 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 392499010355 tetramerization interface [polypeptide binding]; other site 392499010356 NAD(P) binding site [chemical binding]; other site 392499010357 catalytic residues [active] 392499010358 dihydroxy-acid dehydratase; Provisional; Region: PRK12448 392499010359 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 392499010360 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 392499010361 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 392499010362 Protein of unknown function (DUF3100); Region: DUF3100; pfam11299 392499010363 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 392499010364 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 392499010365 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 392499010366 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 392499010367 metal binding site [ion binding]; metal-binding site 392499010368 putative dimer interface [polypeptide binding]; other site 392499010369 MarR family; Region: MarR_2; cl17246 392499010370 Transcriptional regulators [Transcription]; Region: MarR; COG1846 392499010371 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 392499010372 Sulfatase; Region: Sulfatase; pfam00884 392499010373 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 392499010374 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 392499010375 FAD binding domain; Region: FAD_binding_3; pfam01494 392499010376 2,3-dihydroxybiphenyl 1,2-dioxygenase; Region: 23dbph12diox; TIGR03213 392499010377 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 392499010378 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 392499010379 active site 392499010380 Fe binding site [ion binding]; other site 392499010381 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; pfam05721 392499010382 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 392499010383 N-terminal plug; other site 392499010384 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 392499010385 ligand-binding site [chemical binding]; other site 392499010386 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3666 392499010387 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 392499010388 transposase/IS protein; Provisional; Region: PRK09183 392499010389 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 392499010390 Walker A motif; other site 392499010391 ATP binding site [chemical binding]; other site 392499010392 Walker B motif; other site 392499010393 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 392499010394 Integrase core domain; Region: rve; pfam00665 392499010395 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 392499010396 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 392499010397 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 392499010398 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 392499010399 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 392499010400 iron-sulfur cluster [ion binding]; other site 392499010401 [2Fe-2S] cluster binding site [ion binding]; other site 392499010402 C-terminal catalytic domain of the large/alpha subunit (ahdA1c) of a ring-hydroxylating dioxygenase from Sphingomonas sp. strain P2 and related proteins; Region: RHO_alpha_C_ahdA1c-like; cd08880 392499010403 putative alpha subunit interface [polypeptide binding]; other site 392499010404 putative active site [active] 392499010405 putative substrate binding site [chemical binding]; other site 392499010406 Fe binding site [ion binding]; other site 392499010407 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 392499010408 inter-subunit interface; other site 392499010409 GST_N family, Class Zeta subfamily; GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic alkylating agents, including carcinogens; Region: GST_N_Zeta; cd03042 392499010410 C-terminal domain interface [polypeptide binding]; other site 392499010411 GSH binding site (G-site) [chemical binding]; other site 392499010412 putative dimer interface [polypeptide binding]; other site 392499010413 C-terminal, alpha helical domain of Class Zeta Glutathione S-transferases; Region: GST_C_Zeta; cd03191 392499010414 dimer interface [polypeptide binding]; other site 392499010415 N-terminal domain interface [polypeptide binding]; other site 392499010416 maleylacetoacetate (MAA) substrate binding site (H site) [chemical binding]; other site 392499010417 gentisate 1,2-dioxygenase; Region: gentisate_1_2; TIGR02272 392499010418 Cupin domain; Region: Cupin_2; pfam07883 392499010419 Cupin domain; Region: Cupin_2; pfam07883 392499010420 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 392499010421 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 392499010422 hypothetical protein; Provisional; Region: PRK07538 392499010423 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 392499010424 Rieske non-heme iron oxygenase (RO) family, Phthalate 4,5-dioxygenase (PhDO)-like subfamily, N-terminal Rieske domain of the oxygenase alpha subunit; composed of the oxygenase alpha subunits of PhDO and similar proteins including 3-chlorobenzoate 3; Region: Rieske_RO_Alpha_PhDO_like; cd03479 392499010425 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 392499010426 C-terminal catalytic domain of the oxygenase alpha subunit of dicamba O-demethylase and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_DMO-like; cd08878 392499010427 alpha subunit interface [polypeptide binding]; other site 392499010428 active site 392499010429 substrate binding site [chemical binding]; other site 392499010430 Fe binding site [ion binding]; other site 392499010431 Amidohydrolase; Region: Amidohydro_2; pfam04909 392499010432 Subunit B of the Class III Extradiol ring-cleavage dioxygenase, 3-O-Methylgallate Dioxygenase, which catalyzes the oxidization and subsequent ring-opening of 3-O-Methylgallate; Region: 3MGA_Dioxygenase; cd07366 392499010433 putative active site [active] 392499010434 putative Fe(II) binding site [ion binding]; other site 392499010435 putative dimer interface [polypeptide binding]; other site 392499010436 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 392499010437 putative tetramer interface [polypeptide binding]; other site 392499010438 Demethylmenaquinone methyltransferase; Region: Methyltransf_6; cl00480 392499010439 Demethylmenaquinone methyltransferase [Coenzyme metabolism]; Region: MenG; COG0684 392499010440 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 392499010441 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 392499010442 tetramerization interface [polypeptide binding]; other site 392499010443 NAD(P) binding site [chemical binding]; other site 392499010444 catalytic residues [active] 392499010445 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 392499010446 classical (c) SDRs; Region: SDR_c; cd05233 392499010447 NAD(P) binding site [chemical binding]; other site 392499010448 active site 392499010449 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 392499010450 Cytochrome P450; Region: p450; cl12078 392499010451 Demethylmenaquinone methyltransferase; Region: Methyltransf_6; cl00480 392499010452 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 392499010453 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 392499010454 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 392499010455 N-terminal domain interface [polypeptide binding]; other site 392499010456 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 392499010457 active site 392499010458 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK12825 392499010459 classical (c) SDRs; Region: SDR_c; cd05233 392499010460 NAD(P) binding site [chemical binding]; other site 392499010461 active site 392499010462 N-methylhydantoinase B/acetone carboxylase, alpha subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuB; COG0146 392499010463 Hydantoinase B/oxoprolinase; Region: Hydantoinase_B; pfam02538 392499010464 N-methylhydantoinase A/acetone carboxylase, beta subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuA; COG0145 392499010465 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 392499010466 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; pfam01968 392499010467 Prokaryotic protein of unknown function (DUF849); Region: DUF849; pfam05853 392499010468 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 392499010469 D-galactonate transporter; Region: 2A0114; TIGR00893 392499010470 putative substrate translocation pore; other site 392499010471 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 392499010472 classical (c) SDRs; Region: SDR_c; cd05233 392499010473 NAD(P) binding site [chemical binding]; other site 392499010474 active site 392499010475 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 392499010476 Beta-lactamase; Region: Beta-lactamase; pfam00144 392499010477 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 392499010478 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 392499010479 N-terminal plug; other site 392499010480 ligand-binding site [chemical binding]; other site 392499010481 Transcriptional regulators [Transcription]; Region: GntR; COG1802 392499010482 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 392499010483 DNA-binding site [nucleotide binding]; DNA binding site 392499010484 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 392499010485 Integrase core domain; Region: rve; pfam00665 392499010486 Predicted ornithine cyclodeaminase, mu-crystallin homolog [Amino acid transport and metabolism]; Region: COG2423 392499010487 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 392499010488 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 392499010489 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 392499010490 Transcriptional regulator [Transcription]; Region: LysR; COG0583 392499010491 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 392499010492 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 392499010493 putative effector binding pocket; other site 392499010494 dimerization interface [polypeptide binding]; other site 392499010495 Gentisate 1,2-dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3435 392499010496 HpcH/HpaI aldolase/citrate lyase family; Region: HpcH_HpaI; cl17231 392499010497 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 392499010498 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 392499010499 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 392499010500 active site 392499010501 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 392499010502 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 392499010503 N-terminal plug; other site 392499010504 ligand-binding site [chemical binding]; other site 392499010505 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 392499010506 active site 392499010507 metal binding site [ion binding]; metal-binding site 392499010508 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 392499010509 Prokaryotic protein of unknown function (DUF849); Region: DUF849; pfam05853 392499010510 N-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_N_like; cd08346 392499010511 Zn binding site [ion binding]; other site 392499010512 SnoaL-like domain; Region: SnoaL_4; pfam13577 392499010513 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 392499010514 Cytochrome P450; Region: p450; cl12078 392499010515 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cl11423 392499010516 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 392499010517 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 392499010518 FMN-binding pocket [chemical binding]; other site 392499010519 flavin binding motif; other site 392499010520 phosphate binding motif [ion binding]; other site 392499010521 beta-alpha-beta structure motif; other site 392499010522 NAD binding pocket [chemical binding]; other site 392499010523 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 392499010524 catalytic loop [active] 392499010525 iron binding site [ion binding]; other site 392499010526 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 392499010527 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cl02529 392499010528 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 392499010529 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 392499010530 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 392499010531 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 392499010532 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 392499010533 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 392499010534 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 392499010535 Bacterial transcriptional repressor; Region: TetR_C_6; pfam13977 392499010536 Catalytic domain of Helicobacter pylori peptidoglycan deacetylase (HpPgdA) and similar proteins; Region: CE4_HpPgdA_like; cd10938 392499010537 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 392499010538 active site 392499010539 catalytic site [active] 392499010540 Zn binding site [ion binding]; other site 392499010541 tetramer interface [polypeptide binding]; other site 392499010542 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 392499010543 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 392499010544 catalytic triad [active] 392499010545 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 392499010546 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 392499010547 N-terminal plug; other site 392499010548 ligand-binding site [chemical binding]; other site 392499010549 Uncharacterized conserved protein [Function unknown]; Region: COG2135 392499010550 Protein of unknown function (DUF817); Region: DUF817; pfam05675 392499010551 RTX toxins and related Ca2+-binding proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2931 392499010552 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 392499010553 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 392499010554 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 392499010555 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 392499010556 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; pfam01923 392499010557 glutamyl-Q tRNA(Asp) synthetase; Reviewed; Region: PRK05710 392499010558 active site 392499010559 HIGH motif; other site 392499010560 nucleotide binding site [chemical binding]; other site 392499010561 active site 392499010562 KMSKS motif; other site 392499010563 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 392499010564 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 392499010565 active site 392499010566 PilZ domain; Region: PilZ; pfam07238 392499010567 Predicted carboxypeptidase [Amino acid transport and metabolism]; Region: COG2866 392499010568 Peptidase M14-like domain of ATP/GTP binding proteins and cytosolic carboxypeptidases; uncharacterized bacterial subgroup; Region: M14_Nna1_like_1; cd06234 392499010569 putative active site [active] 392499010570 Zn binding site [ion binding]; other site 392499010571 Domain of unknown function (DUF4136); Region: DUF4136; pfam13590 392499010572 50S ribosomal protein L36; Validated; Region: rpmJ; PRK00831 392499010573 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 392499010574 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 392499010575 motif II; other site 392499010576 Carboxypeptidase C (cathepsin A) [Amino acid transport and metabolism]; Region: COG2939 392499010577 Serine carboxypeptidase; Region: Peptidase_S10; cl08270 392499010578 amidase; Provisional; Region: PRK07486 392499010579 Amidase; Region: Amidase; pfam01425 392499010580 pyruvate kinase; Provisional; Region: PRK06247 392499010581 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 392499010582 domain interfaces; other site 392499010583 active site 392499010584 Uncharacterized protein conserved in bacteria (DUF2312); Region: DUF2312; pfam10073 392499010585 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 392499010586 oligomerization interface [polypeptide binding]; other site 392499010587 active site 392499010588 metal binding site [ion binding]; metal-binding site 392499010589 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4649 392499010590 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 392499010591 Trp docking motif [polypeptide binding]; other site 392499010592 active site 392499010593 PQQ-like domain; Region: PQQ_2; pfam13360 392499010594 PQQ-like domain; Region: PQQ_2; pfam13360 392499010595 GTP-binding protein Der; Reviewed; Region: PRK00093 392499010596 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 392499010597 G1 box; other site 392499010598 GTP/Mg2+ binding site [chemical binding]; other site 392499010599 Switch I region; other site 392499010600 G2 box; other site 392499010601 Switch II region; other site 392499010602 G3 box; other site 392499010603 G4 box; other site 392499010604 G5 box; other site 392499010605 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 392499010606 G1 box; other site 392499010607 GTP/Mg2+ binding site [chemical binding]; other site 392499010608 Switch I region; other site 392499010609 G2 box; other site 392499010610 G3 box; other site 392499010611 Switch II region; other site 392499010612 G4 box; other site 392499010613 G5 box; other site 392499010614 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cl00086 392499010615 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 392499010616 Clp amino terminal domain; Region: Clp_N; pfam02861 392499010617 Clp amino terminal domain; Region: Clp_N; pfam02861 392499010618 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 392499010619 Walker A motif; other site 392499010620 ATP binding site [chemical binding]; other site 392499010621 Walker B motif; other site 392499010622 arginine finger; other site 392499010623 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 392499010624 Walker A motif; other site 392499010625 ATP binding site [chemical binding]; other site 392499010626 Walker B motif; other site 392499010627 arginine finger; other site 392499010628 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 392499010629 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 392499010630 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 392499010631 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 392499010632 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 392499010633 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 392499010634 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 392499010635 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 392499010636 D-isomer specific 2-hydroxyacid dehydrogenase, NAD binding domain; Region: 2-Hacid_dh_C; pfam02826 392499010637 ATP-grasp domain; Region: ATP-grasp; pfam02222 392499010638 AIR carboxylase; Region: AIRC; pfam00731 392499010639 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 392499010640 catalytic core [active] 392499010641 Histidine phosphatase domain found in a functionally diverse set of proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP; cd07040 392499010642 Dienelactone hydrolase family; Region: DLH; pfam01738 392499010643 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 392499010644 phosphoenolpyruvate carboxylase; Reviewed; Region: PRK00009 392499010645 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 392499010646 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 392499010647 FMN binding site [chemical binding]; other site 392499010648 substrate binding site [chemical binding]; other site 392499010649 putative catalytic residue [active] 392499010650 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 392499010651 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 392499010652 S-adenosylmethionine binding site [chemical binding]; other site 392499010653 Bacterioferritin-associated ferredoxin [Inorganic ion transport and metabolism]; Region: Bfd; COG2906 392499010654 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 392499010655 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 392499010656 heme binding site [chemical binding]; other site 392499010657 ferroxidase pore; other site 392499010658 ferroxidase diiron center [ion binding]; other site 392499010659 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 392499010660 TPR motif; other site 392499010661 binding surface 392499010662 TPR repeat; Region: TPR_11; pfam13414 392499010663 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 392499010664 TPR motif; other site 392499010665 binding surface 392499010666 Sulfotransferase domain; Region: Sulfotransfer_1; pfam00685 392499010667 Bacterial transcriptional activator domain; Region: BTAD; smart01043 392499010668 Putative 2OG-Fe(II) oxygenase; Region: 2OG-FeII_Oxy_5; pfam13759 392499010669 Aspartyl/Asparaginyl beta-hydroxylase; Region: Asp_Arg_Hydrox; cl17820 392499010670 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 392499010671 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 392499010672 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 392499010673 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 392499010674 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 392499010675 Peptidase family M23; Region: Peptidase_M23; pfam01551 392499010676 Uncharacterized protein conserved in bacteria (DUF2093); Region: DUF2093; cl11535 392499010677 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 392499010678 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 392499010679 generic binding surface II; other site 392499010680 generic binding surface I; other site 392499010681 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 392499010682 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 392499010683 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 392499010684 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 392499010685 Uncharacterized conserved protein [Function unknown]; Region: COG3743 392499010686 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 392499010687 thiamine phosphate binding site [chemical binding]; other site 392499010688 active site 392499010689 pyrophosphate binding site [ion binding]; other site 392499010690 Uncharacterized conserved protein [Function unknown]; Region: COG3189 392499010691 O-succinylhomoserine (thiol)-lyase; Region: O_succ_thio_ly; TIGR02080 392499010692 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 392499010693 homodimer interface [polypeptide binding]; other site 392499010694 substrate-cofactor binding pocket; other site 392499010695 pyridoxal 5'-phosphate binding site [chemical binding]; other site 392499010696 catalytic residue [active] 392499010697 sulfite reductase subunit beta; Provisional; Region: PRK13504 392499010698 Transcriptional regulators [Transcription]; Region: MarR; COG1846 392499010699 MarR family; Region: MarR_2; pfam12802 392499010700 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 392499010701 CLC voltage-gated chloride channel. The ClC chloride channels catalyse the selective flow of Cl- ions across cell membranes, thereby regulating electrical excitation in skeletal muscle and the flow of salt and water across epithelial barriers. This...; Region: Voltage_gated_ClC; cd00400 392499010702 Cl- selectivity filter; other site 392499010703 Cl- binding residues [ion binding]; other site 392499010704 pore gating glutamate residue; other site 392499010705 FOG: CBS domain [General function prediction only]; Region: COG0517 392499010706 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 392499010707 Transcriptional regulator [Transcription]; Region: LysR; COG0583 392499010708 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 392499010709 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 392499010710 dimerization interface [polypeptide binding]; other site 392499010711 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 392499010712 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 392499010713 dimer interface [polypeptide binding]; other site 392499010714 decamer (pentamer of dimers) interface [polypeptide binding]; other site 392499010715 catalytic triad [active] 392499010716 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 392499010717 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 392499010718 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 392499010719 Na+/H+ antiporter, bacterial form; Region: a_cpa1; TIGR00831 392499010720 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 392499010721 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 392499010722 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 392499010723 HlyD family secretion protein; Region: HlyD_3; pfam13437 392499010724 Fusaric acid resistance protein family; Region: FUSC; pfam04632 392499010725 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 392499010726 Predicted integral membrane protein [Function unknown]; Region: COG5615 392499010727 bifunctional nitric oxide dioxygenase/dihydropteridine reductase 2; Provisional; Region: PRK13289 392499010728 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 392499010729 heme-binding site [chemical binding]; other site 392499010730 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 392499010731 FAD binding pocket [chemical binding]; other site 392499010732 FAD binding motif [chemical binding]; other site 392499010733 phosphate binding motif [ion binding]; other site 392499010734 beta-alpha-beta structure motif; other site 392499010735 NAD binding pocket [chemical binding]; other site 392499010736 Heme binding pocket [chemical binding]; other site 392499010737 Domain of unknown function (DUF1971); Region: DUF1971; pfam09313 392499010738 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 392499010739 apolar tunnel; other site 392499010740 heme binding site [chemical binding]; other site 392499010741 dimerization interface [polypeptide binding]; other site 392499010742 GTP-binding protein LepA; Provisional; Region: PRK05433 392499010743 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 392499010744 G1 box; other site 392499010745 putative GEF interaction site [polypeptide binding]; other site 392499010746 GTP/Mg2+ binding site [chemical binding]; other site 392499010747 Switch I region; other site 392499010748 G2 box; other site 392499010749 G3 box; other site 392499010750 Switch II region; other site 392499010751 G4 box; other site 392499010752 G5 box; other site 392499010753 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 392499010754 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 392499010755 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 392499010756 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 392499010757 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 392499010758 DNA binding residues [nucleotide binding] 392499010759 dimerization interface [polypeptide binding]; other site 392499010760 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 392499010761 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 392499010762 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 392499010763 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 392499010764 putative ADP-binding pocket [chemical binding]; other site 392499010765 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 392499010766 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 392499010767 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 392499010768 active site 392499010769 phosphorylation site [posttranslational modification] 392499010770 intermolecular recognition site; other site 392499010771 dimerization interface [polypeptide binding]; other site 392499010772 CheB methylesterase; Region: CheB_methylest; pfam01339 392499010773 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 392499010774 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 392499010775 active site 392499010776 phosphorylation site [posttranslational modification] 392499010777 intermolecular recognition site; other site 392499010778 dimerization interface [polypeptide binding]; other site 392499010779 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 392499010780 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 392499010781 active site 392499010782 phosphorylation site [posttranslational modification] 392499010783 intermolecular recognition site; other site 392499010784 dimerization interface [polypeptide binding]; other site 392499010785 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 392499010786 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 392499010787 N-terminal plug; other site 392499010788 ligand-binding site [chemical binding]; other site 392499010789 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 392499010790 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 392499010791 Autotransporter beta-domain; Region: Autotransporter; cl17461 392499010792 Surface antigen; Region: Bac_surface_Ag; pfam01103 392499010793 haemagglutination activity domain; Region: Haemagg_act; smart00912 392499010794 CHAT domain; Region: CHAT; pfam12770 392499010795 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 392499010796 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 392499010797 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 392499010798 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 392499010799 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 392499010800 Ligand binding site [chemical binding]; other site 392499010801 Electron transfer flavoprotein domain; Region: ETF; pfam01012 392499010802 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 392499010803 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 392499010804 CoA-ligase; Region: Ligase_CoA; pfam00549 392499010805 Possible lysine decarboxylase; Region: Lysine_decarbox; pfam03641 392499010806 Lycopene cyclase protein; Region: Lycopene_cycl; pfam05834 392499010807 lycopene cyclase; Region: lycopene_cycl; TIGR01789 392499010808 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 392499010809 ThiC-associated domain; Region: ThiC-associated; pfam13667 392499010810 Thiamine biosynthesis protein ThiC [Coenzyme metabolism]; Region: ThiC; COG0422 392499010811 2'-5' RNA ligase [Translation, ribosomal structure and biogenesis]; Region: LigT; COG1514 392499010812 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 392499010813 Transposase; Region: DEDD_Tnp_IS110; pfam01548 392499010814 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 392499010815 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 392499010816 ligand binding site [chemical binding]; other site 392499010817 active site 392499010818 UGI interface [polypeptide binding]; other site 392499010819 catalytic site [active] 392499010820 Uncharacterized protein conserved in bacteria (DUF2336); Region: DUF2336; pfam10098 392499010821 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 392499010822 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 392499010823 ATP binding site [chemical binding]; other site 392499010824 Mg2+ binding site [ion binding]; other site 392499010825 G-X-G motif; other site 392499010826 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 392499010827 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 392499010828 dimer interface [polypeptide binding]; other site 392499010829 active site 392499010830 citrylCoA binding site [chemical binding]; other site 392499010831 NADH binding [chemical binding]; other site 392499010832 cationic pore residues; other site 392499010833 oxalacetate/citrate binding site [chemical binding]; other site 392499010834 coenzyme A binding site [chemical binding]; other site 392499010835 catalytic triad [active] 392499010836 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 392499010837 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 392499010838 active site 392499010839 HIGH motif; other site 392499010840 nucleotide binding site [chemical binding]; other site 392499010841 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 392499010842 active site 392499010843 KMSKS motif; other site 392499010844 Competence protein; Region: Competence; pfam03772 392499010845 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 392499010846 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 392499010847 LexA repressor; Validated; Region: PRK00215 392499010848 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 392499010849 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 392499010850 Catalytic site [active] 392499010851 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 392499010852 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 392499010853 dimer interface [polypeptide binding]; other site 392499010854 putative functional site; other site 392499010855 putative MPT binding site; other site 392499010856 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 392499010857 trimer interface [polypeptide binding]; other site 392499010858 dimer interface [polypeptide binding]; other site 392499010859 putative active site [active] 392499010860 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 392499010861 active site 392499010862 ribulose/triose binding site [chemical binding]; other site 392499010863 phosphate binding site [ion binding]; other site 392499010864 substrate (anthranilate) binding pocket [chemical binding]; other site 392499010865 product (indole) binding pocket [chemical binding]; other site 392499010866 Predicted membrane protein (DUF2306); Region: DUF2306; pfam10067 392499010867 LytTr DNA-binding domain; Region: LytTR; smart00850 392499010868 ChaP, an enzyme involved in the biosynthesis of the antitumor agent chartreusin (cha); and similar proteins; Region: ChaP_like; cd08351 392499010869 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 392499010870 metal binding site [ion binding]; metal-binding site 392499010871 Yip1 domain; Region: Yip1; pfam04893 392499010872 Outer membrane receptor for monomeric catechols [Inorganic ion transport and metabolism]; Region: Fiu; COG4774 392499010873 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 392499010874 N-terminal plug; other site 392499010875 ligand-binding site [chemical binding]; other site 392499010876 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 392499010877 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 392499010878 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 392499010879 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 392499010880 glutamine binding [chemical binding]; other site 392499010881 catalytic triad [active] 392499010882 Predicted acyl esterases [General function prediction only]; Region: COG2936 392499010883 X-Pro dipeptidyl-peptidase C-terminal non-catalytic domain; Region: PepX_C; smart00939 392499010884 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 392499010885 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 392499010886 putative substrate translocation pore; other site 392499010887 multidrug efflux system protein EmrA; Provisional; Region: PRK15136 392499010888 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 392499010889 HlyD family secretion protein; Region: HlyD_3; pfam13437 392499010890 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 392499010891 OsmC-like protein; Region: OsmC; cl00767 392499010892 Transcriptional regulator [Transcription]; Region: LysR; COG0583 392499010893 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 392499010894 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 392499010895 putative effector binding pocket; other site 392499010896 dimerization interface [polypeptide binding]; other site 392499010897 Adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG3392 392499010898 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; cl17344 392499010899 putative glutamate synthase (NADPH) small subunit; Provisional; Region: PRK12771 392499010900 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 392499010901 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 392499010902 4Fe-4S binding domain; Region: Fer4; pfam00037 392499010903 4Fe-4S binding domain; Region: Fer4; pfam00037 392499010904 2-oxoacid:acceptor oxidoreductase, alpha subunit; Region: OAFO_sf; TIGR03710 392499010905 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; pfam01558 392499010906 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 392499010907 dimer interface [polypeptide binding]; other site 392499010908 PYR/PP interface [polypeptide binding]; other site 392499010909 TPP binding site [chemical binding]; other site 392499010910 substrate binding site [chemical binding]; other site 392499010911 2-oxoglutarate ferredoxin oxidoreductase subunit beta; Validated; Region: PRK05778 392499010912 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 392499010913 TPP-binding site [chemical binding]; other site 392499010914 Pyruvate ferredoxin oxidoreductase beta subunit C terminal; Region: PFO_beta_C; pfam12367 392499010915 Citrate lyase beta subunit [Carbohydrate transport and metabolism]; Region: CitE; COG2301 392499010916 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 392499010917 Streptomyces aureofaciens putative aldehyde dehydrogenase AldA (AAD23400)-like; Region: ALDH_AldA-AAD23400; cd07106 392499010918 NAD(P) binding site [chemical binding]; other site 392499010919 catalytic residues [active] 392499010920 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 392499010921 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 392499010922 N-terminal plug; other site 392499010923 ligand-binding site [chemical binding]; other site 392499010924 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 392499010925 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 392499010926 active site 392499010927 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 392499010928 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 392499010929 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 392499010930 active site 392499010931 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 392499010932 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 392499010933 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 392499010934 Zn2+ binding site [ion binding]; other site 392499010935 Mg2+ binding site [ion binding]; other site 392499010936 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 392499010937 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 392499010938 active site 392499010939 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 392499010940 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 392499010941 active site 392499010942 amidase; Validated; Region: PRK06565 392499010943 Amidase; Region: Amidase; cl11426 392499010944 Histone deacetylases and histone-like deacetylases, classII; Region: HDAC_classII_1; cd09996 392499010945 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 392499010946 active site 392499010947 Zn binding site [ion binding]; other site 392499010948 EthD domain; Region: EthD; cl17553 392499010949 Methylamine dehydrogenase, L chain; Region: Me-amine-dh_L; cl03812 392499010950 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 392499010951 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 392499010952 Methylamine utilisation protein MauE; Region: MauE; pfam07291 392499010953 Methylamine dehydrogenase heavy chain (MADH); Region: Me-amine-dh_H; pfam06433 392499010954 Cytochrome c2 [Energy production and conversion]; Region: COG3474 392499010955 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 392499010956 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 392499010957 N-terminal plug; other site 392499010958 ligand-binding site [chemical binding]; other site 392499010959 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 392499010960 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 392499010961 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 392499010962 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 392499010963 putative DNA binding site [nucleotide binding]; other site 392499010964 putative Zn2+ binding site [ion binding]; other site 392499010965 AsnC family; Region: AsnC_trans_reg; pfam01037 392499010966 DNA polymerase III psi subunit; Region: DNA_III_psi; cl11436 392499010967 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 392499010968 putative catalytic residues [active] 392499010969 Clavaminic acid synthetase (CAS) -like; CAS is a trifunctional Fe(II)/ 2-oxoglutarate (2OG) oxygenase carrying out three reactions in the biosynthesis of clavulanic acid, an inhibitor of class A serine beta-lactamases. In general, Fe(II)-2OG oxygenases...; Region: CAS_like; cl00184 392499010970 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 392499010971 Activator of aromatic catabolism; Region: XylR_N; pfam06505 392499010972 The V4R (vinyl 4 reductase) domain is a predicted small molecular binding domain, that may bind to hydrocarbons; Region: V4R; smart00989 392499010973 Transcriptional regulators containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]; Region: PspF; COG1221 392499010974 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 392499010975 Walker A motif; other site 392499010976 ATP binding site [chemical binding]; other site 392499010977 Walker B motif; other site 392499010978 arginine finger; other site 392499010979 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 392499010980 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 392499010981 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 392499010982 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 392499010983 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 392499010984 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 392499010985 iron-sulfur cluster [ion binding]; other site 392499010986 [2Fe-2S] cluster binding site [ion binding]; other site 392499010987 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 392499010988 hydrophobic ligand binding site; other site 392499010989 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 392499010990 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 392499010991 FMN-binding pocket [chemical binding]; other site 392499010992 flavin binding motif; other site 392499010993 phosphate binding motif [ion binding]; other site 392499010994 beta-alpha-beta structure motif; other site 392499010995 NAD binding pocket [chemical binding]; other site 392499010996 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 392499010997 catalytic loop [active] 392499010998 iron binding site [ion binding]; other site 392499010999 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 392499011000 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 392499011001 iron-sulfur cluster [ion binding]; other site 392499011002 [2Fe-2S] cluster binding site [ion binding]; other site 392499011003 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 392499011004 hydrophobic ligand binding site; other site 392499011005 Hydroxypyruvate isomerase [Carbohydrate transport and metabolism]; Region: Hfi; COG3622 392499011006 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 392499011007 Transcriptional regulators [Transcription]; Region: MarR; COG1846 392499011008 MarR family; Region: MarR_2; pfam12802 392499011009 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 392499011010 Cytochrome P450; Region: p450; cl12078 392499011011 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 392499011012 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 392499011013 dihydroxy-acid dehydratase; Provisional; Region: PRK00911 392499011014 enoyl-CoA hydratase; Provisional; Region: PRK09245 392499011015 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 392499011016 substrate binding site [chemical binding]; other site 392499011017 oxyanion hole (OAH) forming residues; other site 392499011018 trimer interface [polypeptide binding]; other site 392499011019 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 392499011020 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 392499011021 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 392499011022 dimerization interface [polypeptide binding]; other site 392499011023 substrate binding pocket [chemical binding]; other site 392499011024 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 392499011025 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 392499011026 active site 392499011027 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 392499011028 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 392499011029 active site 392499011030 metal binding site [ion binding]; metal-binding site 392499011031 Coenzyme Q (ubiquinone) biosynthesis protein Coq4; Region: Coq4; cl02093 392499011032 SnoaL-like domain; Region: SnoaL_3; pfam13474 392499011033 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 392499011034 2-hydroxycyclohexanecarboxyl-CoA dehydrogenase; Region: benzo_BadH; TIGR03206 392499011035 classical (c) SDRs; Region: SDR_c; cd05233 392499011036 NAD(P) binding site [chemical binding]; other site 392499011037 active site 392499011038 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 392499011039 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 392499011040 NAD(P) binding site [chemical binding]; other site 392499011041 active site 392499011042 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 392499011043 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 392499011044 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 392499011045 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 392499011046 classical (c) SDRs; Region: SDR_c; cd05233 392499011047 NAD(P) binding site [chemical binding]; other site 392499011048 active site 392499011049 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 392499011050 sequence-specific DNA binding site [nucleotide binding]; other site 392499011051 salt bridge; other site 392499011052 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 392499011053 classical (c) SDRs; Region: SDR_c; cd05233 392499011054 NAD(P) binding site [chemical binding]; other site 392499011055 active site 392499011056 SnoaL-like domain; Region: SnoaL_4; pfam13577 392499011057 Sulfotransferase family; Region: Sulfotransfer_3; pfam13469 392499011058 classical (c) SDRs; Region: SDR_c; cd05233 392499011059 NAD(P) binding site [chemical binding]; other site 392499011060 active site 392499011061 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 392499011062 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 392499011063 NAD(P) binding site [chemical binding]; other site 392499011064 active site 392499011065 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 392499011066 classical (c) SDRs; Region: SDR_c; cd05233 392499011067 NAD(P) binding site [chemical binding]; other site 392499011068 active site 392499011069 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 392499011070 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 392499011071 active site 392499011072 FMN binding site [chemical binding]; other site 392499011073 substrate binding site [chemical binding]; other site 392499011074 putative catalytic residue [active] 392499011075 short chain dehydrogenase; Provisional; Region: PRK07890 392499011076 classical (c) SDRs; Region: SDR_c; cd05233 392499011077 NAD(P) binding site [chemical binding]; other site 392499011078 active site 392499011079 SnoaL-like domain; Region: SnoaL_4; pfam13577 392499011080 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 392499011081 NAD(P) binding site [chemical binding]; other site 392499011082 active site 392499011083 ketosteroid isomerase: Many biological reactions proceed by enzymatic cleavage of a C-H bond adjacent to carbonyl or a carboxyl group, leading to an enol or a enolate intermediate that is subsequently re-protonated at the same or an adjacent carbon; Region: ketosteroid_isomerase; cd00781 392499011084 dimer interface [polypeptide binding]; other site 392499011085 active site/substrate binding site [active] 392499011086 Coenzyme A transferase; Region: CoA_trans; cl17247 392499011087 Acyl CoA:acetate/3-ketoacid CoA transferase, alpha subunit [Lipid metabolism]; Region: AtoD; COG1788 392499011088 2,3-dihydroxybiphenyl 1,2-dioxygenase; Region: 23dbph12diox; TIGR03213 392499011089 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 392499011090 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 392499011091 active site 392499011092 Fe binding site [ion binding]; other site 392499011093 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 392499011094 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 392499011095 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 392499011096 NAD(P) binding site [chemical binding]; other site 392499011097 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 392499011098 classical (c) SDRs; Region: SDR_c; cd05233 392499011099 NAD(P) binding site [chemical binding]; other site 392499011100 active site 392499011101 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 392499011102 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 392499011103 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 392499011104 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 392499011105 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07656 392499011106 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 392499011107 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_2; cd05917 392499011108 acyl-activating enzyme (AAE) consensus motif; other site 392499011109 acyl-activating enzyme (AAE) consensus motif; other site 392499011110 putative AMP binding site [chemical binding]; other site 392499011111 putative active site [active] 392499011112 putative CoA binding site [chemical binding]; other site 392499011113 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 392499011114 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 392499011115 iron-sulfur cluster [ion binding]; other site 392499011116 [2Fe-2S] cluster binding site [ion binding]; other site 392499011117 Transcriptional regulator [Transcription]; Region: LysR; COG0583 392499011118 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 392499011119 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 392499011120 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 392499011121 uncharacterized peroxidase-related enzyme; Region: peroxid_rel; TIGR01926 392499011122 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 392499011123 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 392499011124 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 392499011125 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 392499011126 N-terminal plug; other site 392499011127 ligand-binding site [chemical binding]; other site 392499011128 hypothetical protein; Provisional; Region: PRK06194 392499011129 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 392499011130 NAD(P) binding site [chemical binding]; other site 392499011131 active site 392499011132 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 392499011133 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 392499011134 N-terminal plug; other site 392499011135 ligand-binding site [chemical binding]; other site 392499011136 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 392499011137 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 392499011138 long-chain-acyl-CoA synthetase; Validated; Region: PRK08279 392499011139 Fatty acid transport proteins (FATP) play dual roles as fatty acid transporters and its activation enzymes; Region: FATP_FACS; cd05940 392499011140 acyl-activating enzyme (AAE) consensus motif; other site 392499011141 putative AMP binding site [chemical binding]; other site 392499011142 putative active site [active] 392499011143 putative CoA binding site [chemical binding]; other site 392499011144 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 392499011145 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 392499011146 active site 392499011147 Metal-binding domain of MaoC dehydratase; Region: zf-MaoC; pfam13452 392499011148 DUF35 OB-fold domain; Region: DUF35; pfam01796 392499011149 pimeloyl-CoA dehydrogenase, small subunit; Region: pimD_small; TIGR03203 392499011150 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 392499011151 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 392499011152 active site 392499011153 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 392499011154 active site 2 [active] 392499011155 active site 1 [active] 392499011156 lipid-transfer protein; Provisional; Region: PRK07855 392499011157 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 392499011158 active site 392499011159 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 392499011160 Old yellow enzyme (OYE)-related FMN binding domain, group 5. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a reducing agent with oxygens, quinones, and alpha,beta-unsaturated aldehydes and ketones, and can act as...; Region: OYE_like_5_FMN; cd04747 392499011161 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 392499011162 putative active site [active] 392499011163 putative FMN binding site [chemical binding]; other site 392499011164 putative substrate binding site [chemical binding]; other site 392499011165 putative catalytic residue [active] 392499011166 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 392499011167 classical (c) SDRs; Region: SDR_c; cd05233 392499011168 NAD(P) binding site [chemical binding]; other site 392499011169 active site 392499011170 EthD domain; Region: EthD; pfam07110 392499011171 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 392499011172 SnoaL-like domain; Region: SnoaL_3; pfam13474 392499011173 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_4; cd07822 392499011174 putative hydrophobic ligand binding site [chemical binding]; other site 392499011175 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 392499011176 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 392499011177 SnoaL-like domain; Region: SnoaL_3; pfam13474 392499011178 EthD domain; Region: EthD; pfam07110 392499011179 helix_turn_helix ASNC type; Region: HTH_ASNC; smart00344 392499011180 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 392499011181 putative DNA binding site [nucleotide binding]; other site 392499011182 putative Zn2+ binding site [ion binding]; other site 392499011183 AsnC family; Region: AsnC_trans_reg; pfam01037 392499011184 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 392499011185 putative DNA binding site [nucleotide binding]; other site 392499011186 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 392499011187 putative Zn2+ binding site [ion binding]; other site 392499011188 AsnC family; Region: AsnC_trans_reg; pfam01037 392499011189 short chain dehydrogenase; Provisional; Region: PRK08303 392499011190 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 392499011191 NAD(P) binding site [chemical binding]; other site 392499011192 active site 392499011193 hypothetical protein; Validated; Region: PRK07121 392499011194 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 392499011195 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 392499011196 N-terminal plug; other site 392499011197 ligand-binding site [chemical binding]; other site 392499011198 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 392499011199 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 392499011200 active site 392499011201 2-hydroxy-6-oxo-6-phenylhexa-2,4-dienoate hydrolase; Region: biphenyl_bphD; TIGR03343 392499011202 hypothetical protein; Validated; Region: PRK07121 392499011203 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 392499011204 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 392499011205 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 392499011206 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 392499011207 Active Sites [active] 392499011208 bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Provisional; Region: PRK05506 392499011209 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 392499011210 CysD dimerization site [polypeptide binding]; other site 392499011211 G1 box; other site 392499011212 putative GEF interaction site [polypeptide binding]; other site 392499011213 GTP/Mg2+ binding site [chemical binding]; other site 392499011214 Switch I region; other site 392499011215 G2 box; other site 392499011216 G3 box; other site 392499011217 Switch II region; other site 392499011218 G4 box; other site 392499011219 G5 box; other site 392499011220 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 392499011221 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 392499011222 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 392499011223 ligand-binding site [chemical binding]; other site 392499011224 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 392499011225 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 392499011226 active site 392499011227 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 392499011228 N-acyl-D-aspartate/D-glutamate deacylase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3653 392499011229 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 392499011230 active site 392499011231 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 392499011232 Coenzyme Q (ubiquinone) biosynthesis protein Coq4; Region: Coq4; cl02093 392499011233 GST_N family, Class Zeta subfamily; GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic alkylating agents, including carcinogens; Region: GST_N_Zeta; cd03042 392499011234 maleylacetoacetate isomerase; Region: maiA; TIGR01262 392499011235 C-terminal domain interface [polypeptide binding]; other site 392499011236 GSH binding site (G-site) [chemical binding]; other site 392499011237 putative dimer interface [polypeptide binding]; other site 392499011238 C-terminal, alpha helical domain of Class Zeta Glutathione S-transferases; Region: GST_C_Zeta; cd03191 392499011239 dimer interface [polypeptide binding]; other site 392499011240 maleylacetoacetate (MAA) substrate binding site (H site) [chemical binding]; other site 392499011241 N-terminal domain interface [polypeptide binding]; other site 392499011242 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 392499011243 DNA methylase; Region: N6_N4_Mtase; pfam01555 392499011244 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 392499011245 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 392499011246 3-hydroxybutyrate dehydrogenase; Provisional; Region: PRK12429 392499011247 classical (c) SDRs; Region: SDR_c; cd05233 392499011248 NAD(P) binding site [chemical binding]; other site 392499011249 active site 392499011250 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 392499011251 DNA binding residues [nucleotide binding] 392499011252 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 392499011253 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 392499011254 3-ketosteroid-delta-1-dehydrogenase; Reviewed; Region: PRK07843 392499011255 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 392499011256 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 392499011257 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 392499011258 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 392499011259 FMN binding site [chemical binding]; other site 392499011260 active site 392499011261 substrate binding site [chemical binding]; other site 392499011262 catalytic residue [active] 392499011263 Stress responsive A/B Barrel Domain; Region: Dabb; smart00886 392499011264 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 392499011265 alcohol dehydrogenase and quinone reductase-like medium chain degydrogenases/reductases; Region: MDR_like_2; cd05289 392499011266 putative NAD(P) binding site [chemical binding]; other site 392499011267 2,3-dihydroxybenzoate-2,3-dehydrogenase; Validated; Region: PRK08220 392499011268 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 392499011269 NAD(P) binding site [chemical binding]; other site 392499011270 active site 392499011271 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 392499011272 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 392499011273 NAD(P) binding site [chemical binding]; other site 392499011274 active site 392499011275 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 392499011276 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 392499011277 Cytochrome P450; Region: p450; cl12078 392499011278 SnoaL-like domain; Region: SnoaL_4; pfam13577 392499011279 N-acyl-D-aspartate/D-glutamate deacylase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3653 392499011280 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 392499011281 active site 392499011282 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 392499011283 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 392499011284 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 392499011285 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 392499011286 S-adenosylmethionine binding site [chemical binding]; other site 392499011287 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 392499011288 S-adenosylmethionine synthetase; Validated; Region: PRK05250 392499011289 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 392499011290 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 392499011291 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 392499011292 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 392499011293 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 392499011294 putative active site [active] 392499011295 catalytic triad [active] 392499011296 putative dimer interface [polypeptide binding]; other site 392499011297 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 392499011298 oligomerisation interface [polypeptide binding]; other site 392499011299 mobile loop; other site 392499011300 roof hairpin; other site 392499011301 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 392499011302 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 392499011303 ring oligomerisation interface [polypeptide binding]; other site 392499011304 ATP/Mg binding site [chemical binding]; other site 392499011305 stacking interactions; other site 392499011306 hinge regions; other site 392499011307 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 392499011308 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 392499011309 Walker A/P-loop; other site 392499011310 ATP binding site [chemical binding]; other site 392499011311 Q-loop/lid; other site 392499011312 ABC transporter signature motif; other site 392499011313 Walker B; other site 392499011314 D-loop; other site 392499011315 H-loop/switch region; other site 392499011316 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 392499011317 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 392499011318 active site 392499011319 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 392499011320 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 392499011321 active site 392499011322 Cyclophilin type peptidyl-prolyl cis-trans isomerase/CLD; Region: Pro_isomerase; pfam00160 392499011323 active site 392499011324 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 392499011325 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 392499011326 catalytic residues [active] 392499011327 catalytic nucleophile [active] 392499011328 Recombinase; Region: Recombinase; pfam07508 392499011329 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 392499011330 PemK-like protein; Region: PemK; pfam02452 392499011331 Protein of unknown function (DUF3018); Region: DUF3018; pfam11455 392499011332 Protein of unknown function (DUF3363); Region: DUF3363; pfam11843 392499011333 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 392499011334 putative substrate translocation pore; other site 392499011335 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 392499011336 Integrase core domain; Region: rve; pfam00665 392499011337 transposase/IS protein; Provisional; Region: PRK09183 392499011338 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 392499011339 Walker A motif; other site 392499011340 ATP binding site [chemical binding]; other site 392499011341 Walker B motif; other site 392499011342 MarR family; Region: MarR_2; pfam12802 392499011343 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 392499011344 Cytochrome P450; Region: p450; cl12078 392499011345 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 392499011346 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 392499011347 FMN-binding pocket [chemical binding]; other site 392499011348 flavin binding motif; other site 392499011349 phosphate binding motif [ion binding]; other site 392499011350 beta-alpha-beta structure motif; other site 392499011351 NAD binding pocket [chemical binding]; other site 392499011352 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 392499011353 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 392499011354 catalytic loop [active] 392499011355 iron binding site [ion binding]; other site 392499011356 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 392499011357 Transcriptional regulator [Transcription]; Region: IclR; COG1414 392499011358 Bacterial transcriptional regulator; Region: IclR; pfam01614 392499011359 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 392499011360 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 392499011361 N-terminal plug; other site 392499011362 ligand-binding site [chemical binding]; other site 392499011363 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 392499011364 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 392499011365 iron-sulfur cluster [ion binding]; other site 392499011366 [2Fe-2S] cluster binding site [ion binding]; other site 392499011367 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 392499011368 hydrophobic ligand binding site; other site 392499011369 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 392499011370 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 392499011371 active site 392499011372 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 392499011373 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 392499011374 active site 392499011375 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 392499011376 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 392499011377 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_2; cd05917 392499011378 acyl-activating enzyme (AAE) consensus motif; other site 392499011379 putative AMP binding site [chemical binding]; other site 392499011380 putative active site [active] 392499011381 putative CoA binding site [chemical binding]; other site 392499011382 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 392499011383 CoA-transferase family III; Region: CoA_transf_3; pfam02515 392499011384 thiolase; Provisional; Region: PRK06158 392499011385 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 392499011386 active site 392499011387 Predicted nucleic-acid-binding protein containing a Zn-ribbon [General function prediction only]; Region: COG1545 392499011388 Rubredoxin-like zinc ribbon domain (DUF35_N); Region: DUF35_N; pfam12172 392499011389 DUF35 OB-fold domain; Region: DUF35; pfam01796 392499011390 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 392499011391 NAD(P) binding site [chemical binding]; other site 392499011392 active site 392499011393 enoyl-CoA hydratase; Region: PLN02864 392499011394 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 392499011395 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 392499011396 dimer interaction site [polypeptide binding]; other site 392499011397 substrate-binding tunnel; other site 392499011398 active site 392499011399 catalytic site [active] 392499011400 substrate binding site [chemical binding]; other site 392499011401 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 392499011402 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 392499011403 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 392499011404 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 392499011405 N-terminal plug; other site 392499011406 ligand-binding site [chemical binding]; other site 392499011407 N-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_N_like; cd08346 392499011408 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 392499011409 Zn binding site [ion binding]; other site 392499011410 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 392499011411 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 392499011412 iron-sulfur cluster [ion binding]; other site 392499011413 [2Fe-2S] cluster binding site [ion binding]; other site 392499011414 C-terminal catalytic domain of the oxygenase alpha subunit of dicamba O-demethylase and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_DMO-like; cd08878 392499011415 alpha subunit interface [polypeptide binding]; other site 392499011416 active site 392499011417 substrate binding site [chemical binding]; other site 392499011418 Fe binding site [ion binding]; other site 392499011419 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 392499011420 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 392499011421 iron-sulfur cluster [ion binding]; other site 392499011422 [2Fe-2S] cluster binding site [ion binding]; other site 392499011423 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 392499011424 hydrophobic ligand binding site; other site 392499011425 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 392499011426 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 392499011427 DNA binding residues [nucleotide binding] 392499011428 dimerization interface [polypeptide binding]; other site 392499011429 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 392499011430 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 392499011431 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 392499011432 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 392499011433 iron-sulfur cluster [ion binding]; other site 392499011434 [2Fe-2S] cluster binding site [ion binding]; other site 392499011435 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 392499011436 hydrophobic ligand binding site; other site 392499011437 Putative cyclase; Region: Cyclase; pfam04199 392499011438 Prokaryotic protein of unknown function (DUF849); Region: DUF849; pfam05853 392499011439 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 392499011440 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 392499011441 iron-sulfur cluster [ion binding]; other site 392499011442 [2Fe-2S] cluster binding site [ion binding]; other site 392499011443 C-terminal catalytic domain of the oxygenase alpha subunit of dicamba O-demethylase and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_DMO-like; cd08878 392499011444 alpha subunit interface [polypeptide binding]; other site 392499011445 active site 392499011446 substrate binding site [chemical binding]; other site 392499011447 Fe binding site [ion binding]; other site 392499011448 hypothetical protein; Provisional; Region: PRK06847 392499011449 hypothetical protein; Provisional; Region: PRK07236 392499011450 2,3-dihydroxybiphenyl 1,2-dioxygenase; Region: 23dbph12diox; TIGR03213 392499011451 C-terminal domain of Burkholderia sp. NF100 MhqB and similar proteins; MhqB is a type I extradiol dioxygenase involved in the catabolism of methylhydroquinone, an intermediate in the degradation of fenitrothion; Region: MhqB_like_C; cd08360 392499011452 putative active site [active] 392499011453 putative metal binding site [ion binding]; other site 392499011454 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 392499011455 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 392499011456 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 392499011457 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 392499011458 catalytic residues [active] 392499011459 catalytic nucleophile [active] 392499011460 Recombinase; Region: Recombinase; pfam07508 392499011461 Helix-turn-helix domain; Region: HTH_17; pfam12728 392499011462 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 392499011463 Transcriptional regulator [Transcription]; Region: LysR; COG0583 392499011464 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 392499011465 The C-terminal substrate binding domain of LysR-type transcriptional regulators that involved in the catabolism of nitroaromatic/naphthalene compounds and that of related regulators; contains the type 2 periplasmic binding fold; Region: PBP2_Nitroaromatics_like; cd08417 392499011466 substrate binding pocket [chemical binding]; other site 392499011467 dimerization interface [polypeptide binding]; other site 392499011468 Cupredoxin-like domain; Region: Cupredoxin_1; cl17234 392499011469 Domain of unknown function (DUF4142); Region: DUF4142; pfam13628 392499011470 RNA polymerase sigma factor; Provisional; Region: PRK11922 392499011471 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 392499011472 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 392499011473 DNA binding residues [nucleotide binding] 392499011474 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 392499011475 Mechanosensitive ion channel; Region: MS_channel; pfam00924 392499011476 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 392499011477 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 392499011478 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 392499011479 eRF1 domain 1; Region: eRF1_1; pfam03463 392499011480 Uncharacterized protein conserved in bacteria (DUF2171); Region: DUF2171; pfam09939 392499011481 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 392499011482 Patatin phospholipase; Region: DUF3734; pfam12536 392499011483 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 392499011484 3-hydroxybutyrate dehydrogenase; Region: PHB_DH; TIGR01963 392499011485 NAD(P) binding site [chemical binding]; other site 392499011486 active site 392499011487 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 392499011488 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like6; cd05664 392499011489 metal binding site [ion binding]; metal-binding site 392499011490 putative dimer interface [polypeptide binding]; other site 392499011491 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 392499011492 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 392499011493 active site 392499011494 phosphorylation site [posttranslational modification] 392499011495 intermolecular recognition site; other site 392499011496 dimerization interface [polypeptide binding]; other site 392499011497 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 392499011498 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 392499011499 non-specific DNA binding site [nucleotide binding]; other site 392499011500 salt bridge; other site 392499011501 sequence-specific DNA binding site [nucleotide binding]; other site 392499011502 Predicted transcriptional regulator [General function prediction only]; Region: COG3800 392499011503 Domain of unknown function (DUF955); Region: DUF955; pfam06114 392499011504 Predicted transcriptional regulator (DUF2083); Region: DUF2083; pfam09856 392499011505 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 392499011506 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 392499011507 active site 392499011508 catalytic tetrad [active] 392499011509 Mannose-1-phosphate guanylyltransferase [Cell envelope biogenesis, outer membrane]; Region: {ManC}; COG0836 392499011510 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 392499011511 Substrate binding site; other site 392499011512 Cupin domain; Region: Cupin_2; cl17218 392499011513 sugar transferase, PEP-CTERM system associated; Region: EpsB_2; TIGR03013 392499011514 Bacterial sugar transferase; Region: Bac_transf; pfam02397 392499011515 putative PEP-CTERM system histidine kinase; Region: PEP_his_kin; TIGR02916 392499011516 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 392499011517 ATP binding site [chemical binding]; other site 392499011518 Mg2+ binding site [ion binding]; other site 392499011519 G-X-G motif; other site 392499011520 PEP-CTERM-box response regulator transcription factor; Region: PEP_resp_reg; TIGR02915 392499011521 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 392499011522 active site 392499011523 phosphorylation site [posttranslational modification] 392499011524 intermolecular recognition site; other site 392499011525 dimerization interface [polypeptide binding]; other site 392499011526 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 392499011527 Walker A motif; other site 392499011528 ATP binding site [chemical binding]; other site 392499011529 Walker B motif; other site 392499011530 arginine finger; other site 392499011531 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 392499011532 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG2607 392499011533 Protein of unknown function (DUF815); Region: DUF815; pfam05673 392499011534 Walker A motif; other site 392499011535 ATP binding site [chemical binding]; other site 392499011536 Walker B motif; other site 392499011537 arginine finger; other site 392499011538 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 392499011539 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 392499011540 ATP binding site [chemical binding]; other site 392499011541 Mg2+ binding site [ion binding]; other site 392499011542 G-X-G motif; other site 392499011543 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 392499011544 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 392499011545 active site 392499011546 phosphorylation site [posttranslational modification] 392499011547 intermolecular recognition site; other site 392499011548 dimerization interface [polypeptide binding]; other site 392499011549 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 392499011550 DNA binding site [nucleotide binding] 392499011551 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 392499011552 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 392499011553 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 392499011554 Walker A/P-loop; other site 392499011555 ATP binding site [chemical binding]; other site 392499011556 Q-loop/lid; other site 392499011557 ABC transporter signature motif; other site 392499011558 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 392499011559 Walker B; other site 392499011560 D-loop; other site 392499011561 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 392499011562 chorismate mutase; Provisional; Region: PRK09239 392499011563 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 392499011564 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 392499011565 substrate binding pocket [chemical binding]; other site 392499011566 chain length determination region; other site 392499011567 substrate-Mg2+ binding site; other site 392499011568 catalytic residues [active] 392499011569 aspartate-rich region 1; other site 392499011570 active site lid residues [active] 392499011571 aspartate-rich region 2; other site 392499011572 ATP-dependent helicase HrpB; Region: DEAH_box_HrpB; TIGR01970 392499011573 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 392499011574 ATP binding site [chemical binding]; other site 392499011575 putative Mg++ binding site [ion binding]; other site 392499011576 helicase superfamily c-terminal domain; Region: HELICc; smart00490 392499011577 Helicase associated domain (HA2); Region: HA2; pfam04408 392499011578 ATP-dependent helicase C-terminal; Region: HrpB_C; pfam08482 392499011579 ETC complex I subunit conserved region; Region: ETC_C1_NDUFA4; pfam04800 392499011580 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 392499011581 ADP-ribose binding site [chemical binding]; other site 392499011582 dimer interface [polypeptide binding]; other site 392499011583 active site 392499011584 nudix motif; other site 392499011585 metal binding site [ion binding]; metal-binding site 392499011586 Repair protein; Region: Repair_PSII; cl01535 392499011587 Repair protein; Region: Repair_PSII; pfam04536 392499011588 LemA family; Region: LemA; pfam04011 392499011589 large-conductance mechanosensitive channel; Provisional; Region: mscL; PRK13952 392499011590 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 392499011591 Bacterial protein of unknown function (DUF885); Region: DUF885; pfam05960 392499011592 GSH-dependent disulfide bond oxidoreductase; Provisional; Region: PRK13972 392499011593 GST_N family, Ure2p-like subfamily; composed of the Saccharomyces cerevisiae Ure2p and related GSTs. Ure2p is a regulator for nitrogen catabolism in yeast. It represses the expression of several gene products involved in the use of poor nitrogen sources...; Region: GST_N_Ure2p_like; cd03048 392499011594 C-terminal domain interface [polypeptide binding]; other site 392499011595 GSH binding site (G-site) [chemical binding]; other site 392499011596 dimer interface [polypeptide binding]; other site 392499011597 C-terminal, alpha helical domain of Escherichia coli YfcG Glutathione S-transferases and related uncharacterized proteins; Region: GST_C_YfcG_like; cd10291 392499011598 N-terminal domain interface [polypeptide binding]; other site 392499011599 putative dimer interface [polypeptide binding]; other site 392499011600 active site 392499011601 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cl01053 392499011602 active site 392499011603 catalytic triad [active] 392499011604 oxyanion hole [active] 392499011605 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cl01053 392499011606 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cl01053 392499011607 oxyanion hole [active] 392499011608 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cl01053 392499011609 catalytic triad [active] 392499011610 Predicted membrane protein involved in D-alanine export [Cell envelope biogenesis, outer membrane]; Region: DltB; COG1696 392499011611 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 392499011612 putative deacylase active site [active] 392499011613 Cell Wall Hydrolase; Region: Hydrolase_2; pfam07486 392499011614 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 392499011615 Domain of unknown function DUF20; Region: UPF0118; pfam01594 392499011616 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 392499011617 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 392499011618 metal binding site [ion binding]; metal-binding site 392499011619 active site 392499011620 I-site; other site 392499011621 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 392499011622 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 392499011623 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 392499011624 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 392499011625 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 392499011626 RNA polymerase Rpb1, domain 5; Region: RNA_pol_Rpb1_5; pfam04998 392499011627 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 392499011628 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 392499011629 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 392499011630 DNA binding site [nucleotide binding] 392499011631 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 392499011632 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 392499011633 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 392499011634 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 392499011635 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 392499011636 RPB12 interaction site [polypeptide binding]; other site 392499011637 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 392499011638 RPB11 interaction site [polypeptide binding]; other site 392499011639 RPB12 interaction site [polypeptide binding]; other site 392499011640 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 392499011641 RPB3 interaction site [polypeptide binding]; other site 392499011642 RPB1 interaction site [polypeptide binding]; other site 392499011643 RPB11 interaction site [polypeptide binding]; other site 392499011644 RPB10 interaction site [polypeptide binding]; other site 392499011645 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 392499011646 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 392499011647 metal binding site [ion binding]; metal-binding site 392499011648 active site 392499011649 I-site; other site 392499011650 hypothetical protein; Provisional; Region: PRK06132 392499011651 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 392499011652 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 392499011653 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 392499011654 non-specific DNA binding site [nucleotide binding]; other site 392499011655 salt bridge; other site 392499011656 sequence-specific DNA binding site [nucleotide binding]; other site 392499011657 Predicted Zn peptidase [Amino acid transport and metabolism]; Region: COG2856 392499011658 FRG domain; Region: FRG; pfam08867 392499011659 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 392499011660 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 392499011661 TrkA-C domain; Region: TrkA_C; pfam02080 392499011662 TrkA-C domain; Region: TrkA_C; pfam02080 392499011663 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 392499011664 Permease SLC13 (solute carrier 13). The sodium/dicarboxylate cotransporter NaDC-1 has been shown to translocate Krebs cycle intermediates such as succinate, citrate, and alpha-ketoglutarate across plasma membranes rabbit, human, and rat kidney. It is...; Region: SLC13_permease; cd01115 392499011665 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 392499011666 core dimer interface [polypeptide binding]; other site 392499011667 peripheral dimer interface [polypeptide binding]; other site 392499011668 L10 interface [polypeptide binding]; other site 392499011669 L11 interface [polypeptide binding]; other site 392499011670 putative EF-Tu interaction site [polypeptide binding]; other site 392499011671 putative EF-G interaction site [polypeptide binding]; other site 392499011672 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 392499011673 23S rRNA interface [nucleotide binding]; other site 392499011674 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 392499011675 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 392499011676 acetyl-CoA synthetase; Provisional; Region: PRK00174 392499011677 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 392499011678 active site 392499011679 CoA binding site [chemical binding]; other site 392499011680 acyl-activating enzyme (AAE) consensus motif; other site 392499011681 AMP binding site [chemical binding]; other site 392499011682 acetate binding site [chemical binding]; other site 392499011683 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 392499011684 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 392499011685 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 392499011686 ABC transporter; Region: ABC_tran_2; pfam12848 392499011687 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 392499011688 KAP family P-loop domain; Region: KAP_NTPase; pfam07693 392499011689 Predicted P-loop ATPase [General function prediction only]; Region: COG4928 392499011690 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 392499011691 Integrase core domain; Region: rve; pfam00665 392499011692 transposase/IS protein; Provisional; Region: PRK09183 392499011693 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 392499011694 Walker A motif; other site 392499011695 ATP binding site [chemical binding]; other site 392499011696 Walker B motif; other site 392499011697 glucan biosynthesis protein G; Provisional; Region: mdoG; PRK13274 392499011698 glucan biosynthesis protein D; Provisional; Region: mdoD; PRK13273 392499011699 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 392499011700 Glucan_BSP_ModH catalyzes the elongation of beta-1,2 polyglucose chains of glucan; Region: Glucan_BSP_ModH; cd04191 392499011701 Ligand binding site; other site 392499011702 DXD motif; other site 392499011703 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 392499011704 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 392499011705 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 392499011706 This family is most closely related to the GT1 family of glycosyltransferases. mtfB (mannosyltransferase B) in E. coli has been shown to direct the growth of the O9-specific polysaccharide chain. It transfers two mannoses into the position 3 of the...; Region: GT1_mtfB_like; cd03809 392499011707 This family is most closely related to the GT1 family of glycosyltransferases. mtfB (mannosyltransferase B) in E. coli has been shown to direct the growth of the O9-specific polysaccharide chain. It transfers two mannoses into the position 3 of the...; Region: GT1_mtfB_like; cd03809 392499011708 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 392499011709 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 392499011710 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 392499011711 Walker A/P-loop; other site 392499011712 ATP binding site [chemical binding]; other site 392499011713 Q-loop/lid; other site 392499011714 ABC transporter signature motif; other site 392499011715 Walker B; other site 392499011716 D-loop; other site 392499011717 H-loop/switch region; other site 392499011718 Periplasmic protein involved in polysaccharide export, contains SLBB domain of b-grasp fold [Cell wall/membrane/envelope biogenesis]; Region: Wza; COG1596 392499011719 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 392499011720 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_3; cl17304 392499011721 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 392499011722 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 392499011723 Surface antigen; Region: Bac_surface_Ag; pfam01103 392499011724 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 392499011725 ParB-like nuclease domain; Region: ParB; smart00470 392499011726 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 392499011727 active site 392499011728 phosphorylation site [posttranslational modification] 392499011729 intermolecular recognition site; other site 392499011730 dimerization interface [polypeptide binding]; other site 392499011731 Flp pilus assembly protein, pilin Flp [Intracellular trafficking and secretion]; Region: Flp; COG3847 392499011732 Predicted membrane protein [Function unknown]; Region: COG4655 392499011733 Putative Tad-like Flp pilus-assembly; Region: Tad_C; pfam09977 392499011734 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 392499011735 Tetratricopeptide repeat; Region: TPR_16; pfam13432 392499011736 TPR motif; other site 392499011737 binding surface 392499011738 Flp pilus assembly protein TadC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: TadC; COG2064 392499011739 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 392499011740 Flp pilus assembly protein TadB [Intracellular trafficking and secretion]; Region: TadB; COG4965 392499011741 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 392499011742 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 392499011743 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 392499011744 ATP binding site [chemical binding]; other site 392499011745 Walker A motif; other site 392499011746 hexamer interface [polypeptide binding]; other site 392499011747 Walker B motif; other site 392499011748 Flp pilus assembly protein, ATPase CpaE [Intracellular trafficking and secretion]; Region: CpaE; COG4963 392499011749 Pilus formation protein N terminal region; Region: T2SS-T3SS_pil_N; pfam13629 392499011750 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 392499011751 Domains similar to fish antifreeze type III protein; Region: SAF; cl00555 392499011752 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 392499011753 AsnC family; Region: AsnC_trans_reg; pfam01037 392499011754 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 392499011755 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 392499011756 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 392499011757 dimerization interface [polypeptide binding]; other site 392499011758 2-hydroxymuconic semialdehyde dehydrogenase; Region: OH_muco_semi_DH; TIGR03216 392499011759 Human aldehyde dehydrogenase family 8 member A1-like; Region: ALDH_F8_HMSADH; cd07093 392499011760 NAD binding site [chemical binding]; other site 392499011761 catalytic residues [active] 392499011762 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 392499011763 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 392499011764 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 392499011765 homotrimer interaction site [polypeptide binding]; other site 392499011766 putative active site [active] 392499011767 3-hydroxyanthranilate 3,4-dioxygenase; Provisional; Region: PRK13264 392499011768 active site 392499011769 Amidohydrolase; Region: Amidohydro_2; pfam04909 392499011770 Biofilm formation and stress response factor; Region: BsmA; pfam10014 392499011771 FAD-dependent oxidoreductase; Provisional; Region: PRK08132 392499011772 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 392499011773 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 392499011774 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 392499011775 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 392499011776 Zn2+ binding site [ion binding]; other site 392499011777 Mg2+ binding site [ion binding]; other site 392499011778 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 392499011779 synthetase active site [active] 392499011780 NTP binding site [chemical binding]; other site 392499011781 metal binding site [ion binding]; metal-binding site 392499011782 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 392499011783 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 392499011784 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 392499011785 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 392499011786 S-adenosylmethionine binding site [chemical binding]; other site 392499011787 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 392499011788 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 392499011789 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 392499011790 dimerization interface [polypeptide binding]; other site 392499011791 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 392499011792 active site 392499011793 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 392499011794 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 392499011795 putative substrate translocation pore; other site 392499011796 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 392499011797 MgtE intracellular N domain; Region: MgtE_N; smart00924 392499011798 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 392499011799 Divalent cation transporter; Region: MgtE; pfam01769 392499011800 Protein of unknown function (DUF1489); Region: DUF1489; pfam07370 392499011801 Tetratricopeptide repeat; Region: TPR_12; pfam13424 392499011802 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 392499011803 binding surface 392499011804 TPR motif; other site 392499011805 Tetratricopeptide repeat; Region: TPR_12; pfam13424 392499011806 CHAT domain; Region: CHAT; pfam12770 392499011807 Protein of unknown function (DUF2807); Region: DUF2807; pfam10988 392499011808 Transcriptional regulators, similar to M. xanthus CarD [Transcription]; Region: COG1329 392499011809 Ferredoxin [Energy production and conversion]; Region: COG1146 392499011810 4Fe-4S binding domain; Region: Fer4; cl02805 392499011811 Domain of unknown function (DUF3470); Region: DUF3470; pfam11953 392499011812 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 392499011813 RNA binding surface [nucleotide binding]; other site 392499011814 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 392499011815 ATP binding site [chemical binding]; other site 392499011816 putative Mg++ binding site [ion binding]; other site 392499011817 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 392499011818 nucleotide binding region [chemical binding]; other site 392499011819 ATP-binding site [chemical binding]; other site 392499011820 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 392499011821 Peptidase family M23; Region: Peptidase_M23; pfam01551 392499011822 Bacterial protein of unknown function (DUF853); Region: DUF853; pfam05872 392499011823 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 392499011824 alpha-L-glutamate ligases, RimK family; Region: rimK_fam; TIGR00768 392499011825 Methyltransferase domain; Region: Methyltransf_23; pfam13489 392499011826 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 392499011827 S-adenosylmethionine binding site [chemical binding]; other site 392499011828 Domain of unknown function DUF87; Region: DUF87; pfam01935 392499011829 HerA helicase [Replication, recombination, and repair]; Region: COG0433 392499011830 TraM recognition site of TraD and TraG; Region: TraG-D_C; cl17375 392499011831 Putative transmembrane protein (Alph_Pro_TM); Region: Alph_Pro_TM; pfam09608 392499011832 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 392499011833 metallophosphoesterase, DNA ligase-associated; Region: P_estr_lig_assc; TIGR04123 392499011834 active site 392499011835 metal binding site [ion binding]; metal-binding site 392499011836 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 392499011837 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 392499011838 metal binding site [ion binding]; metal-binding site 392499011839 active site 392499011840 I-site; other site 392499011841 methionine sulfoxide reductase A; Provisional; Region: PRK13014 392499011842 aspartate aminotransferase; Provisional; Region: PRK05764 392499011843 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 392499011844 pyridoxal 5'-phosphate binding site [chemical binding]; other site 392499011845 homodimer interface [polypeptide binding]; other site 392499011846 catalytic residue [active] 392499011847 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 392499011848 MAPEG family; Region: MAPEG; cl09190 392499011849 50S ribosomal protein L32; Reviewed; Region: rpmF; PRK12286 392499011850 putative phosphate acyltransferase; Provisional; Region: PRK05331 392499011851 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 392499011852 Ketoacyl-acyl carrier protein synthase III (KASIII) initiates the elongation in type II fatty acid synthase systems. It is found in bacteria and plants. Elongation of fatty acids in the type II systems occurs by Claisen condensation of malonyl-acyl...; Region: KAS_III; cd00830 392499011853 dimer interface [polypeptide binding]; other site 392499011854 active site 392499011855 CoA binding pocket [chemical binding]; other site 392499011856 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 392499011857 IHF dimer interface [polypeptide binding]; other site 392499011858 IHF - DNA interface [nucleotide binding]; other site 392499011859 Helix-Turn-Helix DNA binding domain of putative MlrA-like transcription regulators; Region: HTH_MlrA-like_sg2; cd04765 392499011860 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 392499011861 DNA binding residues [nucleotide binding] 392499011862 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 392499011863 catalytic core [active] 392499011864 ferrichrome outer membrane transporter; Provisional; Region: PRK10044 392499011865 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 392499011866 N-terminal plug; other site 392499011867 ligand-binding site [chemical binding]; other site 392499011868 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 392499011869 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 392499011870 N-terminal plug; other site 392499011871 ligand-binding site [chemical binding]; other site 392499011872 PepSY-associated TM helix; Region: PepSY_TM_3; pfam13706 392499011873 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 392499011874 CRISPR/Cas system-associated DinG family helicase Csf4; Region: Csf4_U; cl17460 392499011875 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 392499011876 lysyl-tRNA synthetase; Reviewed; Region: lysK; PRK00750 392499011877 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 392499011878 active site 392499011879 nucleotide binding site [chemical binding]; other site 392499011880 HIGH motif; other site 392499011881 KMSKS motif; other site 392499011882 Bacterial protein of unknown function (DUF885); Region: DUF885; pfam05960 392499011883 Protein of unknown function (DUF1090); Region: DUF1090; pfam06476 392499011884 Domain of unknown function (DUF3315); Region: DUF3315; pfam11776 392499011885 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 392499011886 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 392499011887 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 392499011888 Anthranilate/para-aminobenzoate synthases component I [Amino acid transport and metabolism / Coenzyme metabolism]; Region: TrpE; COG0147 392499011889 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 392499011890 HprK/P, the bifunctional histidine-containing protein kinase/phosphatase, controls the phosphorylation state of the phosphocarrier protein HPr and regulates the utilization of carbon sources by gram-positive bacteria. It catalyzes both the ATP-dependent...; Region: HprK_C; cd01918 392499011891 active site 392499011892 PqqD family protein, HPr-rel-A system; Region: PqqD_rel_X; TIGR04353 392499011893 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 392499011894 PAS domain; Region: PAS_8; pfam13188 392499011895 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 392499011896 dimer interface [polypeptide binding]; other site 392499011897 phosphorylation site [posttranslational modification] 392499011898 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 392499011899 ATP binding site [chemical binding]; other site 392499011900 Mg2+ binding site [ion binding]; other site 392499011901 G-X-G motif; other site 392499011902 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 392499011903 PhoU domain; Region: PhoU; pfam01895 392499011904 PhoU domain; Region: PhoU; pfam01895 392499011905 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 392499011906 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 392499011907 active site 392499011908 phosphorylation site [posttranslational modification] 392499011909 intermolecular recognition site; other site 392499011910 dimerization interface [polypeptide binding]; other site 392499011911 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 392499011912 DNA binding site [nucleotide binding] 392499011913 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 392499011914 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 392499011915 N-terminal plug; other site 392499011916 ligand-binding site [chemical binding]; other site 392499011917 SnoaL-like domain; Region: SnoaL_3; pfam13474 392499011918 Zn-dependent dipeptidase, microsomal dipeptidase homolog [Amino acid transport and metabolism]; Region: COG2355 392499011919 renal dipeptidase (rDP), best studied in mammals and also called membrane or microsomal dipeptidase, is a membrane-bound glycoprotein hydrolyzing dipeptides and is involved in hydrolytic metabolism of penem and carbapenem beta-lactam antibiotics; Region: rDP_like; cd01301 392499011920 active site 392499011921 dimer interface [polypeptide binding]; other site 392499011922 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 392499011923 hydroxyglutarate oxidase; Provisional; Region: PRK11728 392499011924 Protein of unknown function (DUF2794); Region: DUF2794; pfam10984 392499011925 serine O-acetyltransferase; Region: cysE; TIGR01172 392499011926 Serine acetyltransferase (SAT): SAT catalyzes the CoA-dependent acetylation of the side chain hydroxyl group of L-serine to form O-acetylserine, as the first step of a two-step biosynthetic pathway in bacteria and plants leading to the formation of...; Region: LbH_SAT; cd03354 392499011927 trimer interface [polypeptide binding]; other site 392499011928 active site 392499011929 substrate binding site [chemical binding]; other site 392499011930 CoA binding site [chemical binding]; other site 392499011931 alkylhydroperoxidase, AhpD family; Region: ahpD; TIGR00777 392499011932 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 392499011933 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 392499011934 Peroxiredoxin (PRX) family, Typical 2-Cys PRX subfamily; PRXs are thiol-specific antioxidant (TSA) proteins, which confer a protective role in cells through its peroxidase activity by reducing hydrogen peroxide, peroxynitrite, and organic hydroperoxides; Region: PRX_Typ2cys; cd03015 392499011935 dimer interface [polypeptide binding]; other site 392499011936 decamer (pentamer of dimers) interface [polypeptide binding]; other site 392499011937 catalytic triad [active] 392499011938 peroxidatic and resolving cysteines [active] 392499011939 DNA-binding transcriptional regulator OxyR; Provisional; Region: PRK11151 392499011940 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 392499011941 The C-terminal substrate-binding domain of the LysR-type transcriptional regulator OxyR, a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_OxyR; cd08411 392499011942 dimerization interface [polypeptide binding]; other site 392499011943 Calcineurin-like phosphoesterase superfamily domain; Region: Metallophos_2; pfam12850 392499011944 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 392499011945 active site 392499011946 metal binding site [ion binding]; metal-binding site 392499011947 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5343 392499011948 Anti-sigma-K factor rskA; Region: RskA; pfam10099 392499011949 RNA polymerase sigma factor; Provisional; Region: PRK12514 392499011950 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 392499011951 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 392499011952 DNA binding residues [nucleotide binding] 392499011953 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 392499011954 MoaE homodimer interface [polypeptide binding]; other site 392499011955 MoaD interaction [polypeptide binding]; other site 392499011956 active site residues [active] 392499011957 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 392499011958 MoaE interaction surface [polypeptide binding]; other site 392499011959 MoeB interaction surface [polypeptide binding]; other site 392499011960 thiocarboxylated glycine; other site 392499011961 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 392499011962 lysophospholipid transporter LplT; Provisional; Region: PRK11195 392499011963 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 392499011964 active site 392499011965 DNA polymerase IV; Validated; Region: PRK02406 392499011966 DNA binding site [nucleotide binding] 392499011967 Predicted dithiol-disulfide isomerase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FrnE; COG2761 392499011968 DsbA family, FrnE subfamily; FrnE is a DsbA-like protein containing a CXXC motif. It is presumed to be a thiol oxidoreductase involved in polyketide biosynthesis, specifically in the production of the aromatic antibiotics frenolicin and nanaomycins; Region: DsbA_FrnE; cd03024 392499011969 catalytic residues [active] 392499011970 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 392499011971 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 392499011972 FMN binding site [chemical binding]; other site 392499011973 substrate binding site [chemical binding]; other site 392499011974 putative catalytic residue [active] 392499011975 enoyl-CoA hydratase; Provisional; Region: PRK08140 392499011976 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 392499011977 substrate binding site [chemical binding]; other site 392499011978 oxyanion hole (OAH) forming residues; other site 392499011979 trimer interface [polypeptide binding]; other site 392499011980 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK08217 392499011981 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 392499011982 NAD(P) binding site [chemical binding]; other site 392499011983 active site 392499011984 acetyl-CoA acetyltransferase; Provisional; Region: PRK06954 392499011985 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 392499011986 dimer interface [polypeptide binding]; other site 392499011987 active site 392499011988 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 392499011989 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 392499011990 active site 392499011991 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 392499011992 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 392499011993 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 392499011994 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_9; cd04666 392499011995 nudix motif; other site 392499011996 Phosphate transport regulator (distant homolog of PhoU) [Inorganic ion transport and metabolism]; Region: COG1392 392499011997 trehalose-6-phosphate phosphatase; Provisional; Region: PRK10187; cl17105 392499011998 Trehalose-phosphatase; Region: Trehalose_PPase; pfam02358 392499011999 Glucoamylase and related glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: SGA1; COG3387 392499012000 Glycosyl hydrolases family 15; Region: Glyco_hydro_15; pfam00723 392499012001 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 392499012002 alpha,alpha-trehalose-phosphate synthase [UDP-forming]; Region: trehalose_OtsA; TIGR02400 392499012003 active site 392499012004 homotetramer interface [polypeptide binding]; other site 392499012005 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 392499012006 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 392499012007 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 392499012008 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 392499012009 Walker A motif; other site 392499012010 ATP binding site [chemical binding]; other site 392499012011 Walker B motif; other site 392499012012 arginine finger; other site 392499012013 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 392499012014 Protein of unknown function (DUF3251); Region: DUF3251; pfam11622 392499012015 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399 392499012016 Ribonuclease P; Region: Ribonuclease_P; pfam00825 392499012017 Haemolytic domain; Region: Haemolytic; pfam01809 392499012018 membrane protein insertase; Provisional; Region: PRK01318 392499012019 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 392499012020 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 392499012021 G1 box; other site 392499012022 GTP/Mg2+ binding site [chemical binding]; other site 392499012023 Switch I region; other site 392499012024 G2 box; other site 392499012025 G3 box; other site 392499012026 Switch II region; other site 392499012027 G4 box; other site 392499012028 G5 box; other site 392499012029 GST_N family, unknown subfamily 1; composed of uncharacterized proteins, predominantly from bacteria, with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with...; Region: GST_N_1; cd03043 392499012030 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 392499012031 putative C-terminal domain interface [polypeptide binding]; other site 392499012032 putative GSH binding site (G-site) [chemical binding]; other site 392499012033 putative dimer interface [polypeptide binding]; other site 392499012034 C-terminal, alpha helical domain of an unknown subfamily 3 of Glutathione S-transferases; Region: GST_C_3; cd03194 392499012035 putative N-terminal domain interface [polypeptide binding]; other site 392499012036 putative dimer interface [polypeptide binding]; other site 392499012037 putative substrate binding pocket (H-site) [chemical binding]; other site 392499012038 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 392499012039 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 392499012040 metal binding site [ion binding]; metal-binding site 392499012041 dimer interface [polypeptide binding]; other site 392499012042 Transcriptional regulator [Transcription]; Region: IclR; COG1414 392499012043 IclR helix-turn-helix domain; Region: HTH_IclR; pfam09339 392499012044 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 392499012045 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 392499012046 DNA binding residues [nucleotide binding] 392499012047 dimerization interface [polypeptide binding]; other site 392499012048 short chain dehydrogenase; Provisional; Region: PRK07856 392499012049 classical (c) SDRs; Region: SDR_c; cd05233 392499012050 NAD(P) binding site [chemical binding]; other site 392499012051 active site 392499012052 Rubredoxin-like zinc ribbon domain (DUF35_N); Region: DUF35_N; pfam12172 392499012053 DUF35 OB-fold domain; Region: DUF35; pfam01796 392499012054 lipid-transfer protein; Provisional; Region: PRK06059 392499012055 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 392499012056 active site 392499012057 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 392499012058 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 392499012059 FMN binding site [chemical binding]; other site 392499012060 substrate binding site [chemical binding]; other site 392499012061 putative catalytic residue [active] 392499012062 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 392499012063 substrate binding site [chemical binding]; other site 392499012064 oxyanion hole (OAH) forming residues; other site 392499012065 trimer interface [polypeptide binding]; other site 392499012066 pimeloyl-CoA dehydrogenase, large subunit; Region: pimC_large; TIGR03204 392499012067 Putative acyl-CoA dehydrogenases similar to fadE6, fadE17, and fadE26; Region: ACAD_fadE6_17_26; cd01152 392499012068 FAD binding site [chemical binding]; other site 392499012069 substrate binding site [chemical binding]; other site 392499012070 catalytic base [active] 392499012071 pimeloyl-CoA dehydrogenase, small subunit; Region: pimD_small; TIGR03203 392499012072 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 392499012073 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 392499012074 active site 392499012075 acetyl-CoA acetyltransferase; Provisional; Region: PRK07801 392499012076 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 392499012077 dimer interface [polypeptide binding]; other site 392499012078 active site 392499012079 short chain dehydrogenase; Provisional; Region: PRK07791 392499012080 (3R)-hydroxyacyl-CoA dehydrogenase-like, classical(c)-like SDRs; Region: hydroxyacyl-CoA-like_DH_SDR_c-like; cd05353 392499012081 homodimer interface [polypeptide binding]; other site 392499012082 NAD binding site [chemical binding]; other site 392499012083 active site 392499012084 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 392499012085 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 392499012086 Acyl-CoA dehydrogenase, C-terminal domain; Region: Acyl-CoA_dh_1; pfam00441 392499012087 pimeloyl-CoA dehydrogenase, large subunit; Region: pimC_large; TIGR03204 392499012088 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 392499012089 active site 392499012090 short chain dehydrogenase; Provisional; Region: PRK07831 392499012091 classical (c) SDRs; Region: SDR_c; cd05233 392499012092 NAD(P) binding site [chemical binding]; other site 392499012093 active site 392499012094 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 392499012095 putative active site [active] 392499012096 putative catalytic site [active] 392499012097 acetyl-CoA acetyltransferase; Provisional; Region: PRK07108 392499012098 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 392499012099 dimer interface [polypeptide binding]; other site 392499012100 active site 392499012101 Major Facilitator Superfamily; Region: MFS_1; pfam07690 392499012102 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 392499012103 putative substrate translocation pore; other site 392499012104 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 392499012105 classical (c) SDRs; Region: SDR_c; cd05233 392499012106 NAD(P) binding site [chemical binding]; other site 392499012107 active site 392499012108 short chain dehydrogenase; Provisional; Region: PRK07890 392499012109 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 392499012110 NAD(P) binding site [chemical binding]; other site 392499012111 active site 392499012112 Transcriptional regulator [Transcription]; Region: LysR; COG0583 392499012113 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 392499012114 The C-terminal substrate binding domain of LysR-type transcriptional regulator PnbR, which is involved in regulating the pnb genes encoding enzymes for 4-nitrobenzoate catabolism, contains the type 2 periplasmic binding fold; Region: PBP2_PnbR; cd08469 392499012115 putative substrate binding pocket [chemical binding]; other site 392499012116 putative dimerization interface [polypeptide binding]; other site 392499012117 Protein of unknown function (DUF1214); Region: DUF1214; cl08447 392499012118 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 392499012119 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 392499012120 active site 392499012121 metal binding site [ion binding]; metal-binding site 392499012122 Amidohydrolase; Region: Amidohydro_2; pfam04909 392499012123 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 392499012124 Major Facilitator Superfamily; Region: MFS_1; pfam07690 392499012125 putative substrate translocation pore; other site 392499012126 Isochorismatase family; Region: Isochorismatase; pfam00857 392499012127 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 392499012128 catalytic triad [active] 392499012129 conserved cis-peptide bond; other site 392499012130 N-methylhydantoinase B/acetone carboxylase, alpha subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuB; COG0146 392499012131 Hydantoinase B/oxoprolinase; Region: Hydantoinase_B; pfam02538 392499012132 N-methylhydantoinase A/acetone carboxylase, beta subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuA; COG0145 392499012133 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 392499012134 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; pfam01968 392499012135 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 392499012136 CoA-transferase family III; Region: CoA_transf_3; pfam02515 392499012137 lipid-transfer protein; Provisional; Region: PRK07855 392499012138 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 392499012139 active site 392499012140 Rubredoxin-like zinc ribbon domain (DUF35_N); Region: DUF35_N; pfam12172 392499012141 DUF35 OB-fold domain; Region: DUF35; pfam01796 392499012142 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 392499012143 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 392499012144 N-terminal plug; other site 392499012145 ligand-binding site [chemical binding]; other site 392499012146 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 392499012147 short chain dehydrogenase; Provisional; Region: PRK07890 392499012148 classical (c) SDRs; Region: SDR_c; cd05233 392499012149 NAD(P) binding site [chemical binding]; other site 392499012150 active site 392499012151 putative 3-hydroxyphenylpropionic transporter MhpT; Provisional; Region: PRK11551 392499012152 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 392499012153 putative substrate translocation pore; other site 392499012154 Domain of unknown function DUF87; Region: DUF87; pfam01935 392499012155 HerA helicase [Replication, recombination, and repair]; Region: COG0433 392499012156 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 392499012157 GST_N family, Omega-like subfamily; composed of uncharacterized proteins with similarity to class Omega GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of...; Region: GST_N_Omega_like; cd03060 392499012158 putative GSH binding site (G-site) [chemical binding]; other site 392499012159 active site cysteine [active] 392499012160 putative C-terminal domain interface [polypeptide binding]; other site 392499012161 putative dimer interface [polypeptide binding]; other site 392499012162 C-terminal, alpha helical domain of an unknown subfamily 5 of Glutathione S-transferases; Region: GST_C_5; cd03196 392499012163 putative N-terminal domain interface [polypeptide binding]; other site 392499012164 putative dimer interface [polypeptide binding]; other site 392499012165 putative substrate binding pocket (H-site) [chemical binding]; other site 392499012166 Predicted sulfurtransferase [General function prediction only]; Region: COG1054 392499012167 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 392499012168 active site residue [active] 392499012169 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 392499012170 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 392499012171 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 392499012172 putative catalytic site [active] 392499012173 putative metal binding site [ion binding]; other site 392499012174 putative phosphate binding site [ion binding]; other site 392499012175 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 392499012176 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 392499012177 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 392499012178 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 392499012179 Ubiquinone biosynthesis hydroxylase, UbiH/UbiF/VisC/COQ6 family; Region: Ubi-OHases; TIGR01988 392499012180 Uncharacterized conserved protein [Function unknown]; Region: COG2835 392499012181 Uncharacterized protein, similar to the N-terminal domain of Lon protease [General function prediction only]; Region: COG2802 392499012182 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]; Region: COG3118 392499012183 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 392499012184 Protein of unknown function (DUF2958); Region: DUF2958; pfam11171 392499012185 Peptidase S8 family domain in Subtilisin-like proteins; Region: Peptidases_S8_Subtilisin_like_2; cd04847 392499012186 active site 392499012187 catalytic triad [active] 392499012188 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 392499012189 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 392499012190 Walker A motif; other site 392499012191 ATP binding site [chemical binding]; other site 392499012192 Walker B motif; other site 392499012193 arginine finger; other site 392499012194 PRTRC system ParB family protein; Region: PRTRC_parB; TIGR03734 392499012195 Protein of unknown function (Hypoth_ymh); Region: Hypoth_Ymh; pfam09509 392499012196 Protein of unknown function (DUF736); Region: DUF736; pfam05284 392499012197 Domain of unknown function (DUF932); Region: DUF932; pfam06067 392499012198 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 392499012199 non-specific DNA binding site [nucleotide binding]; other site 392499012200 salt bridge; other site 392499012201 sequence-specific DNA binding site [nucleotide binding]; other site 392499012202 Uncharacterized conserved protein (DUF2285); Region: DUF2285; pfam10074 392499012203 Helix-turn-helix domain; Region: HTH_17; pfam12728 392499012204 Replication initiator protein A; Region: RPA; pfam10134 392499012205 Protein of unknown function (DUF2840); Region: DUF2840; pfam11000 392499012206 Signal peptidase, peptidase S26; Region: Peptidase_S26; pfam10502 392499012207 conjugal transfer pilin processing protease TraF; Provisional; Region: PRK13838 392499012208 Protein of unknown function (DUF736); Region: DUF736; pfam05284 392499012209 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 392499012210 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 392499012211 N-acetyl-D-glucosamine binding site [chemical binding]; other site 392499012212 catalytic residue [active] 392499012213 Type IV secretory pathway, VirD2 components (relaxase) [Intracellular trafficking and secretion]; Region: VirD2; COG3843 392499012214 Protein of unknown function (DUF3363); Region: DUF3363; pfam11843 392499012215 conjugal transfer coupling protein TraG; Provisional; Region: PRK13876 392499012216 The TraG/TraD/VirD4 family are bacterial conjugation proteins involved in type IV secretion. These proteins aid the transfer of DNA from the plasmid into the host bacterial chromosome. They contain an ATP binding domain. VirD4 is involved in DNA transfer...; Region: TraG_VirD4; cd01126 392499012217 Walker A motif; other site 392499012218 ATP binding site [chemical binding]; other site 392499012219 Walker B motif; other site 392499012220 Predicted transcriptional regulator [Transcription]; Region: COG3905 392499012221 P-type conjugative transfer ATPase TrbB; Region: TrbB_P; TIGR02782 392499012222 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 392499012223 Walker A motif; other site 392499012224 ATP binding site [chemical binding]; other site 392499012225 Walker B motif; other site 392499012226 Type IV secretory pathway, VirB2 components (pilins) [Intracellular trafficking and secretion]; Region: VirB2; COG3838 392499012227 Type IV secretory pathway, VirB3-like protein; Region: VirB3; cl01501 392499012228 conjugal transfer ATPase TrbE; Provisional; Region: PRK13873 392499012229 CagE, TrbE, VirB family, component of type IV transporter system; Region: CagE_TrbE_VirB; pfam03135 392499012230 TraM recognition site of TraD and TraG; Region: TraG-D_C; cl17375 392499012231 conjugal transfer protein TrbJ; Provisional; Region: PRK13874 392499012232 conjugal transfer protein TrbL; Provisional; Region: PRK13875 392499012233 TrbL/VirB6 plasmid conjugal transfer protein; Region: TrbL; cl01503 392499012234 conjugal transfer protein TrbF; Provisional; Region: PRK13872 392499012235 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 392499012236 VirB7 interaction site; other site 392499012237 Bacterial conjugation TrbI-like protein; Region: TrbI; pfam03743 392499012238 Protein of unknown function (DUF2274); Region: DUF2274; pfam10038 392499012239 Transcriptional regulator [Transcription]; Region: LysR; COG0583 392499012240 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 392499012241 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 392499012242 dimerization interface [polypeptide binding]; other site 392499012243 substrate binding pocket [chemical binding]; other site 392499012244 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 392499012245 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 392499012246 putative efflux pump membrane fusion protein; Provisional; Region: PRK03598 392499012247 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 392499012248 HlyD family secretion protein; Region: HlyD_3; pfam13437 392499012249 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 392499012250 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 392499012251 Walker A/P-loop; other site 392499012252 ATP binding site [chemical binding]; other site 392499012253 Q-loop/lid; other site 392499012254 ABC transporter signature motif; other site 392499012255 Walker B; other site 392499012256 D-loop; other site 392499012257 H-loop/switch region; other site 392499012258 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 392499012259 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 392499012260 Walker A/P-loop; other site 392499012261 ATP binding site [chemical binding]; other site 392499012262 Q-loop/lid; other site 392499012263 ABC transporter signature motif; other site 392499012264 Walker B; other site 392499012265 D-loop; other site 392499012266 H-loop/switch region; other site 392499012267 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 392499012268 ABC-2 family transporter protein; Region: ABC2_membrane_2; pfam12679 392499012269 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 392499012270 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 392499012271 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 392499012272 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 392499012273 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 392499012274 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 392499012275 HlyD family secretion protein; Region: HlyD_3; pfam13437 392499012276 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 392499012277 ATP binding site [chemical binding]; other site 392499012278 Mg2+ binding site [ion binding]; other site 392499012279 G-X-G motif; other site 392499012280 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 392499012281 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 392499012282 active site 392499012283 phosphorylation site [posttranslational modification] 392499012284 intermolecular recognition site; other site 392499012285 dimerization interface [polypeptide binding]; other site 392499012286 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 392499012287 DNA binding site [nucleotide binding] 392499012288 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cl00859 392499012289 Nodulin-21 and CCC1-related protein family; Region: Nodulin-21_like_1; cd02432 392499012290 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 392499012291 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 392499012292 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 392499012293 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 392499012294 active site residue [active] 392499012295 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 392499012296 HlyD family secretion protein; Region: HlyD_3; pfam13437 392499012297 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 392499012298 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 392499012299 dimerization interface [polypeptide binding]; other site 392499012300 putative DNA binding site [nucleotide binding]; other site 392499012301 putative Zn2+ binding site [ion binding]; other site 392499012302 Protein of unknown function (DUF3365); Region: DUF3365; pfam11845 392499012303 Uncharacterized family of ferritin-like proteins found in archaea and bacteria; Region: Ferritin_like_AB2; cd01048 392499012304 diiron binding motif [ion binding]; other site 392499012305 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 392499012306 Clade 3 of the heme-binding enzyme catalase; Region: catalase_clade_3; cd08156 392499012307 tetramer interface [polypeptide binding]; other site 392499012308 heme binding pocket [chemical binding]; other site 392499012309 NADPH binding site [chemical binding]; other site 392499012310 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 392499012311 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 392499012312 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 392499012313 dimerization interface [polypeptide binding]; other site 392499012314 DPS ferroxidase diiron center [ion binding]; other site 392499012315 ion pore; other site 392499012316 periplasmic protein thiol:disulfide oxidoreductases, DsbE subfamily; Region: dsbE; TIGR00385 392499012317 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 392499012318 catalytic residues [active] 392499012319 Membrane bound YbgT-like protein; Region: YbgT_YccB; pfam08173 392499012320 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 392499012321 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 392499012322 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 392499012323 cytochrome d terminal oxidase subunit 1; Provisional; Region: PRK15097 392499012324 thiol reductant ABC exporter, CydD subunit; Region: CydD; TIGR02857 392499012325 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 392499012326 Walker A/P-loop; other site 392499012327 ATP binding site [chemical binding]; other site 392499012328 Q-loop/lid; other site 392499012329 ABC transporter signature motif; other site 392499012330 Walker B; other site 392499012331 D-loop; other site 392499012332 H-loop/switch region; other site 392499012333 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 392499012334 cobalt transport protein ATP-binding subunit; Region: cbiO; TIGR01166 392499012335 Walker A/P-loop; other site 392499012336 ATP binding site [chemical binding]; other site 392499012337 Q-loop/lid; other site 392499012338 ABC transporter signature motif; other site 392499012339 Walker B; other site 392499012340 D-loop; other site 392499012341 H-loop/switch region; other site 392499012342 CLC voltage-gated chloride channel. The ClC chloride channels catalyse the selective flow of Cl- ions across cell membranes, thereby regulating electrical excitation in skeletal muscle and the flow of salt and water across epithelial barriers. This...; Region: Voltage_gated_ClC; cd00400 392499012343 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 392499012344 Cl- selectivity filter; other site 392499012345 Cl- binding residues [ion binding]; other site 392499012346 pore gating glutamate residue; other site 392499012347 dimer interface [polypeptide binding]; other site 392499012348 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 392499012349 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 392499012350 dimerization interface [polypeptide binding]; other site 392499012351 putative DNA binding site [nucleotide binding]; other site 392499012352 putative Zn2+ binding site [ion binding]; other site 392499012353 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 392499012354 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 392499012355 thioredoxin 2; Provisional; Region: PRK10996 392499012356 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 392499012357 catalytic residues [active] 392499012358 peroxiredoxin; Provisional; Region: PRK13189 392499012359 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 392499012360 dimer interface [polypeptide binding]; other site 392499012361 decamer (pentamer of dimers) interface [polypeptide binding]; other site 392499012362 catalytic triad [active] 392499012363 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 392499012364 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 392499012365 Methyltransferase domain; Region: Methyltransf_31; pfam13847 392499012366 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 392499012367 S-adenosylmethionine binding site [chemical binding]; other site 392499012368 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 392499012369 TonB family C-terminal domain; Region: tonB_Cterm; TIGR01352 392499012370 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 392499012371 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 392499012372 N-terminal plug; other site 392499012373 ligand-binding site [chemical binding]; other site 392499012374 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 392499012375 active site 392499012376 DNA binding site [nucleotide binding] 392499012377 Int/Topo IB signature motif; other site 392499012378 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 392499012379 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 392499012380 NAD(P) binding site [chemical binding]; other site 392499012381 catalytic residues [active] 392499012382 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 392499012383 SnoaL-like domain; Region: SnoaL_2; pfam12680 392499012384 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 392499012385 Transcriptional regulator [Transcription]; Region: LysR; COG0583 392499012386 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 392499012387 dimerization interface [polypeptide binding]; other site 392499012388 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 392499012389 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 392499012390 N-terminal plug; other site 392499012391 ligand-binding site [chemical binding]; other site 392499012392 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 392499012393 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 392499012394 active site 392499012395 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 392499012396 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 392499012397 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 392499012398 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 392499012399 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 392499012400 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 392499012401 homotrimer interaction site [polypeptide binding]; other site 392499012402 putative active site [active] 392499012403 ornithine cyclodeaminase; Validated; Region: PRK06199 392499012404 Predicted ornithine cyclodeaminase, mu-crystallin homolog [Amino acid transport and metabolism]; Region: COG2423 392499012405 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 392499012406 Cytochrome c; Region: Cytochrom_C; cl11414 392499012407 Cytochrome c; Region: Cytochrom_C; cl11414 392499012408 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 392499012409 FAD binding domain; Region: FAD_binding_4; pfam01565 392499012410 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 392499012411 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 392499012412 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 392499012413 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 392499012414 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 392499012415 active site 392499012416 SnoaL-like domain; Region: SnoaL_4; pfam13577 392499012417 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 392499012418 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 392499012419 NAD(P) binding site [chemical binding]; other site 392499012420 active site 392499012421 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 392499012422 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 392499012423 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 392499012424 acyl-activating enzyme (AAE) consensus motif; other site 392499012425 acyl-activating enzyme (AAE) consensus motif; other site 392499012426 active site 392499012427 AMP binding site [chemical binding]; other site 392499012428 CoA binding site [chemical binding]; other site 392499012429 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II-like protein; Provisional; Region: PRK14019 392499012430 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 392499012431 GTP cyclohydrolase II; Region: GTP_cyclohydro2; pfam00925 392499012432 dimerization interface [polypeptide binding]; other site 392499012433 active site 392499012434 Isopenicillin N synthase and related dioxygenases [General function prediction only]; Region: PcbC; COG3491 392499012435 non-haem dioxygenase in morphine synthesis N-terminal; Region: DIOX_N; pfam14226 392499012436 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; pfam03171 392499012437 Carboxypeptidase C (cathepsin A) [Amino acid transport and metabolism]; Region: COG2939 392499012438 Serine carboxypeptidase; Region: Peptidase_S10; cl08270 392499012439 7-cyano-7-deazaguanine reductase; Provisional; Region: PRK13258 392499012440 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 392499012441 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 392499012442 active site residue [active] 392499012443 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 392499012444 active site residue [active] 392499012445 cystathionine beta-lyase; Provisional; Region: PRK09028 392499012446 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 392499012447 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 392499012448 catalytic residue [active] 392499012449 Bacterial protein of unknown function (Gcw_chp); Region: Gcw_chp; cl09901 392499012450 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 392499012451 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 392499012452 Walker A/P-loop; other site 392499012453 ATP binding site [chemical binding]; other site 392499012454 Q-loop/lid; other site 392499012455 ABC transporter signature motif; other site 392499012456 Walker B; other site 392499012457 D-loop; other site 392499012458 H-loop/switch region; other site 392499012459 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 392499012460 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 392499012461 Walker A/P-loop; other site 392499012462 ATP binding site [chemical binding]; other site 392499012463 Q-loop/lid; other site 392499012464 ABC transporter signature motif; other site 392499012465 Walker B; other site 392499012466 D-loop; other site 392499012467 H-loop/switch region; other site 392499012468 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 392499012469 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 392499012470 dimer interface [polypeptide binding]; other site 392499012471 conserved gate region; other site 392499012472 ABC-ATPase subunit interface; other site 392499012473 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 392499012474 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 392499012475 dimer interface [polypeptide binding]; other site 392499012476 conserved gate region; other site 392499012477 putative PBP binding loops; other site 392499012478 ABC-ATPase subunit interface; other site 392499012479 Protein of unknown function (DUF3035); Region: DUF3035; pfam11233 392499012480 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 392499012481 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 392499012482 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 392499012483 active site 392499012484 HIGH motif; other site 392499012485 nucleotide binding site [chemical binding]; other site 392499012486 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 392499012487 active site 392499012488 KMSKS motif; other site 392499012489 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 392499012490 tRNA binding surface [nucleotide binding]; other site 392499012491 anticodon binding site; other site 392499012492 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 392499012493 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 392499012494 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 392499012495 active site 392499012496 Riboflavin kinase; Region: Flavokinase; smart00904 392499012497 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 392499012498 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 392499012499 folate binding site [chemical binding]; other site 392499012500 NADP+ binding site [chemical binding]; other site 392499012501 Thymidylate synthase; Region: Thymidylat_synt; pfam00303 392499012502 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 392499012503 dimerization interface [polypeptide binding]; other site 392499012504 active site 392499012505 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 392499012506 putative catalytic site [active] 392499012507 putative phosphate binding site [ion binding]; other site 392499012508 active site 392499012509 metal binding site A [ion binding]; metal-binding site 392499012510 DNA binding site [nucleotide binding] 392499012511 putative AP binding site [nucleotide binding]; other site 392499012512 putative metal binding site B [ion binding]; other site 392499012513 GTP cyclohydrolase; Provisional; Region: PRK08815 392499012514 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 392499012515 dimerization interface [polypeptide binding]; other site 392499012516 active site 392499012517 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3786 392499012518 Helix-Turn-Helix DNA binding domain of the regulatory protein GnyR; Region: HTH_GnyR; cd04776 392499012519 DNA binding residues [nucleotide binding] 392499012520 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 392499012521 putative dimer interface [polypeptide binding]; other site 392499012522 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK05605 392499012523 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 392499012524 acyl-activating enzyme (AAE) consensus motif; other site 392499012525 putative AMP binding site [chemical binding]; other site 392499012526 putative active site [active] 392499012527 putative CoA binding site [chemical binding]; other site 392499012528 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; cl17479 392499012529 Uncharacterized protein conserved in bacteria (DUF2147); Region: DUF2147; pfam09917 392499012530 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 392499012531 acetyl-CoA acetyltransferases; Region: AcCoA-C-Actrans; TIGR01930 392499012532 dimer interface [polypeptide binding]; other site 392499012533 active site 392499012534 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism]; Region: FadB; COG1250 392499012535 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 392499012536 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 392499012537 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 392499012538 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 392499012539 substrate binding site [chemical binding]; other site 392499012540 oxyanion hole (OAH) forming residues; other site 392499012541 trimer interface [polypeptide binding]; other site 392499012542 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 392499012543 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 392499012544 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 392499012545 active site 392499012546 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 392499012547 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 392499012548 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 392499012549 ATP binding site [chemical binding]; other site 392499012550 Mg++ binding site [ion binding]; other site 392499012551 motif III; other site 392499012552 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 392499012553 nucleotide binding region [chemical binding]; other site 392499012554 ATP-binding site [chemical binding]; other site 392499012555 RNA recognition motif in the DbpA subfamily of prokaryotic DEAD-box rRNA helicases; Region: RRM_DbpA; cd12252 392499012556 RNA binding site [nucleotide binding]; other site 392499012557 Acyltransferase family; Region: Acyl_transf_3; pfam01757 392499012558 Predicted flavoproteins [General function prediction only]; Region: COG2081 392499012559 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 392499012560 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 392499012561 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 392499012562 G1 box; other site 392499012563 putative GEF interaction site [polypeptide binding]; other site 392499012564 GTP/Mg2+ binding site [chemical binding]; other site 392499012565 Switch I region; other site 392499012566 G2 box; other site 392499012567 G3 box; other site 392499012568 Switch II region; other site 392499012569 G4 box; other site 392499012570 G5 box; other site 392499012571 RF3_II: this subfamily represents the domain II of bacterial Release Factor 3 (RF3). Termination of protein synthesis by the ribosome requires two release factor (RF) classes. The class II RF3 is a GTPase that removes class I RFs (RF1 or RF2) from the...; Region: RF3_II; cd03689 392499012572 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 392499012573 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 392499012574 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 392499012575 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 392499012576 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 392499012577 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 392499012578 Peptidase family M23; Region: Peptidase_M23; pfam01551 392499012579 Lysophospholipase L1-like subgroup of SGNH-hydrolases. The best characterized member in this family is TesA, an E. coli periplasmic protein with thioesterase, esterase, arylesterase, protease and lysophospholipase activity; Region: Lysophospholipase_L1_like; cd01822 392499012580 active site 392499012581 catalytic triad [active] 392499012582 oxyanion hole [active] 392499012583 switch loop; other site 392499012584 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 392499012585 anti sigma factor interaction site; other site 392499012586 regulatory phosphorylation site [posttranslational modification]; other site 392499012587 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 392499012588 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK05389 392499012589 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 392499012590 RNA binding site [nucleotide binding]; other site 392499012591 active site 392499012592 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 392499012593 16S/18S rRNA binding site [nucleotide binding]; other site 392499012594 S13e-L30e interaction site [polypeptide binding]; other site 392499012595 25S rRNA binding site [nucleotide binding]; other site 392499012596 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 392499012597 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 392499012598 RNase E interface [polypeptide binding]; other site 392499012599 trimer interface [polypeptide binding]; other site 392499012600 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 392499012601 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 392499012602 RNase E interface [polypeptide binding]; other site 392499012603 trimer interface [polypeptide binding]; other site 392499012604 active site 392499012605 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 392499012606 putative nucleic acid binding region [nucleotide binding]; other site 392499012607 G-X-X-G motif; other site 392499012608 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 392499012609 RNA binding site [nucleotide binding]; other site 392499012610 domain interface; other site 392499012611 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 392499012612 Histidine kinase; Region: HisKA_2; pfam07568 392499012613 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 392499012614 ATP binding site [chemical binding]; other site 392499012615 Mg2+ binding site [ion binding]; other site 392499012616 G-X-G motif; other site 392499012617 thymidine kinase; Provisional; Region: PRK04296 392499012618 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 392499012619 Bacterial translation initiation factor IF-2 associated region; Region: IF2_assoc; pfam08364 392499012620 translation initiation factor IF-2; Region: IF-2; TIGR00487 392499012621 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 392499012622 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 392499012623 G1 box; other site 392499012624 putative GEF interaction site [polypeptide binding]; other site 392499012625 GTP/Mg2+ binding site [chemical binding]; other site 392499012626 Switch I region; other site 392499012627 G2 box; other site 392499012628 G3 box; other site 392499012629 Switch II region; other site 392499012630 G4 box; other site 392499012631 G5 box; other site 392499012632 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 392499012633 Translation-initiation factor 2; Region: IF-2; pfam11987 392499012634 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 392499012635 hypothetical protein; Provisional; Region: PRK09190 392499012636 Protein of unknown function (DUF448); Region: DUF448; pfam04296 392499012637 putative RNA binding cleft [nucleotide binding]; other site 392499012638 Uncharacterized protein, 4-oxalocrotonate tautomerase homolog [General function prediction only]; Region: COG1942 392499012639 active site 1 [active] 392499012640 dimer interface [polypeptide binding]; other site 392499012641 hexamer interface [polypeptide binding]; other site 392499012642 active site 2 [active] 392499012643 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 392499012644 NusA N-terminal domain; Region: NusA_N; pfam08529 392499012645 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 392499012646 RNA binding site [nucleotide binding]; other site 392499012647 homodimer interface [polypeptide binding]; other site 392499012648 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 392499012649 G-X-X-G motif; other site 392499012650 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 392499012651 G-X-X-G motif; other site 392499012652 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 392499012653 hypothetical protein; Provisional; Region: PRK14636 392499012654 Sm and related proteins; Region: Sm_like; cl00259 392499012655 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 392499012656 putative oligomer interface [polypeptide binding]; other site 392499012657 putative RNA binding site [nucleotide binding]; other site 392499012658 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl17364 392499012659 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 392499012660 dimer interface [polypeptide binding]; other site 392499012661 putative CheW interface [polypeptide binding]; other site 392499012662 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 392499012663 KBL_like; this family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to serine palmitoyltransferase (SPT), 5-aminolevulinate synthase (ALAS); Region: KBL_like; cd06454 392499012664 substrate-cofactor binding pocket; other site 392499012665 pyridoxal 5'-phosphate binding site [chemical binding]; other site 392499012666 catalytic residue [active] 392499012667 glutamate racemase; Provisional; Region: PRK00865 392499012668 Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]; Region: Smf; COG0758 392499012669 DNA protecting protein DprA; Region: dprA; TIGR00732 392499012670 DNA topoisomerase I subunit omega; Validated; Region: PRK07561 392499012671 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 392499012672 active site 392499012673 interdomain interaction site; other site 392499012674 putative metal-binding site [ion binding]; other site 392499012675 nucleotide binding site [chemical binding]; other site 392499012676 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 392499012677 domain I; other site 392499012678 DNA binding groove [nucleotide binding] 392499012679 phosphate binding site [ion binding]; other site 392499012680 domain II; other site 392499012681 domain III; other site 392499012682 nucleotide binding site [chemical binding]; other site 392499012683 catalytic site [active] 392499012684 domain IV; other site 392499012685 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 392499012686 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 392499012687 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 392499012688 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 392499012689 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 392499012690 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 392499012691 active site 392499012692 HIGH motif; other site 392499012693 dimer interface [polypeptide binding]; other site 392499012694 KMSKS motif; other site 392499012695 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 392499012696 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 392499012697 Preprotein translocase subunit SecB; Region: SecB; pfam02556 392499012698 SecA binding site; other site 392499012699 Preprotein binding site; other site 392499012700 Tim44-like domain; Region: Tim44; pfam04280 392499012701 Membrane-bound lytic murein transglycosylase [Cell envelope biogenesis, outer membrane]; Region: MltA; COG2821 392499012702 MltA specific insert domain; Region: MltA; smart00925 392499012703 3D domain; Region: 3D; pfam06725 392499012704 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2840 392499012705 Smr domain; Region: Smr; pfam01713 392499012706 Cation efflux family; Region: Cation_efflux; cl00316 392499012707 Peptidase S8 family domain, uncharacterized subfamily 4; Region: Peptidases_S8_4; cd05561 392499012708 active site 392499012709 catalytic triad [active] 392499012710 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 392499012711 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 392499012712 DNA binding residues [nucleotide binding] 392499012713 Predicted transmembrane transcriptional regulator (anti-sigma factor) [Transcription]; Region: COG5662 392499012714 malate synthase G; Provisional; Region: PRK02999 392499012715 active site 392499012716 EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to...; Region: EFh; cd00051 392499012717 EF-hand domain pair; Region: EF_hand_5; pfam13499 392499012718 Ca2+ binding site [ion binding]; other site 392499012719 SPARC_EC; extracellular Ca2+ binding domain (containing 2 EF-hand motifs) of SPARC and related proteins (QR1, SC1/hevin, testican and tsc-36/FRP). SPARC (BM-40) is a multifunctional glycoprotein, a matricellular protein, that functions to regulate...; Region: SPARC_EC; cd00252 392499012720 EF-hand Ca2+ binding loops [ion binding]; other site 392499012721 FS-domain interface [polypeptide binding]; other site 392499012722 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 392499012723 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 392499012724 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 392499012725 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 392499012726 HlyD family secretion protein; Region: HlyD_3; pfam13437 392499012727 Predicted acetyltransferase [General function prediction only]; Region: COG3153 392499012728 peptide chain release factor 2; Validated; Region: prfB; PRK00578 392499012729 This domain is found in peptide chain release factors; Region: PCRF; smart00937 392499012730 RF-1 domain; Region: RF-1; pfam00472 392499012731 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 392499012732 Transglycosylase; Region: Transgly; pfam00912 392499012733 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 392499012734 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 392499012735 AMIN domain; Region: AMIN; pfam11741 392499012736 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 392499012737 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 392499012738 active site 392499012739 metal binding site [ion binding]; metal-binding site 392499012740 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 392499012741 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 392499012742 Ribonuclease E/G family; Region: RNase_E_G; pfam10150 392499012743 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]; Region: COG4783 392499012744 Peptidase family M48; Region: Peptidase_M48; cl12018 392499012745 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 392499012746 TPR motif; other site 392499012747 binding surface 392499012748 Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: DsbG; COG1651 392499012749 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 392499012750 Domain of unknown function (DUF4112); Region: DUF4112; pfam13430 392499012751 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 392499012752 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 392499012753 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 392499012754 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 392499012755 peptide binding site [polypeptide binding]; other site 392499012756 Bacterial protein of unknown function (DUF885); Region: DUF885; pfam05960 392499012757 Protein of unknown function, DUF481; Region: DUF481; pfam04338 392499012758 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 392499012759 putative substrate translocation pore; other site 392499012760 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 392499012761 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 392499012762 N-terminal plug; other site 392499012763 ligand-binding site [chemical binding]; other site 392499012764 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 392499012765 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 392499012766 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 392499012767 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 392499012768 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 392499012769 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 392499012770 dimer interface [polypeptide binding]; other site 392499012771 phosphorylation site [posttranslational modification] 392499012772 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 392499012773 ATP binding site [chemical binding]; other site 392499012774 G-X-G motif; other site 392499012775 Response regulator receiver domain; Region: Response_reg; pfam00072 392499012776 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 392499012777 active site 392499012778 phosphorylation site [posttranslational modification] 392499012779 intermolecular recognition site; other site 392499012780 dimerization interface [polypeptide binding]; other site 392499012781 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 392499012782 Domain of unknown function (DUF4008); Region: DUF4008; pfam13186 392499012783 Radical SAM superfamily; Region: Radical_SAM; pfam04055 392499012784 fumarylacetoacetase; Region: fum_ac_acetase; TIGR01266 392499012785 Domain of unknown function (DUF1969); Region: DUF1969; pfam09298 392499012786 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 392499012787 homogentisate 1,2-dioxygenase; Provisional; Region: PRK05341 392499012788 4-hydroxyphenylpyruvate dioxygenase and related hemolysins [Amino acid transport and metabolism / General function prediction only]; Region: COG3185 392499012789 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 392499012790 dimer interface [polypeptide binding]; other site 392499012791 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 392499012792 active site 392499012793 Fe binding site [ion binding]; other site 392499012794 Transcriptional regulators [Transcription]; Region: MarR; COG1846 392499012795 MarR family; Region: MarR_2; pfam12802 392499012796 Domain of unknown function (DUF3315); Region: DUF3315; pfam11776 392499012797 4-hydroxybenzoyl-CoA reductase, gamma subunit; Region: 4hydroxCoAred; TIGR03193 392499012798 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 392499012799 catalytic loop [active] 392499012800 iron binding site [ion binding]; other site 392499012801 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 392499012802 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 392499012803 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 392499012804 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 392499012805 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 392499012806 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 392499012807 Catalytic site [active] 392499012808 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 392499012809 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 392499012810 Pyridoxine 5'-phosphate (PNP) synthase domain; pyridoxal 5'-phosphate is the active form of vitamin B6 that acts as an essential, ubiquitous coenzyme in amino acid metabolism. In bacteria, formation of pyridoxine 5'-phosphate is a step in...; Region: PNPsynthase; cd00003 392499012811 active site 392499012812 hydrophilic channel; other site 392499012813 dimerization interface [polypeptide binding]; other site 392499012814 catalytic residues [active] 392499012815 active site lid [active] 392499012816 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 392499012817 active site 392499012818 cytochrome c oxidase, subunit II; Region: CoxB; TIGR02866 392499012819 Cytochrome C oxidase subunit II, transmembrane domain; Region: COX2_TM; pfam02790 392499012820 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 392499012821 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 392499012822 Cytochrome C oxidase subunit I. Cytochrome c oxidase (CcO), the terminal oxidase in the respiratory chains of eukaryotes and most bacteria, is a multi-chain transmembrane protein located in the inner membrane of mitochondria and the cell membrane of...; Region: Cyt_c_Oxidase_I; cd01663 392499012823 Subunit I/III interface [polypeptide binding]; other site 392499012824 D-pathway; other site 392499012825 Subunit I/VIIc interface [polypeptide binding]; other site 392499012826 Subunit I/IV interface [polypeptide binding]; other site 392499012827 Subunit I/II interface [polypeptide binding]; other site 392499012828 Low-spin heme (heme a) binding site [chemical binding]; other site 392499012829 Subunit I/VIIa interface [polypeptide binding]; other site 392499012830 Subunit I/VIa interface [polypeptide binding]; other site 392499012831 Dimer interface; other site 392499012832 Putative water exit pathway; other site 392499012833 Binuclear center (heme a3/CuB) [ion binding]; other site 392499012834 K-pathway; other site 392499012835 Subunit I/Vb interface [polypeptide binding]; other site 392499012836 Putative proton exit pathway; other site 392499012837 Subunit I/VIb interface; other site 392499012838 Subunit I/VIc interface [polypeptide binding]; other site 392499012839 Electron transfer pathway; other site 392499012840 Subunit I/VIIIb interface [polypeptide binding]; other site 392499012841 Subunit I/VIIb interface [polypeptide binding]; other site 392499012842 protoheme IX farnesyltransferase; Provisional; Region: PRK04375 392499012843 UbiA prenyltransferase family; Region: UbiA; pfam01040 392499012844 Cytochrome c oxidase assembly protein CtaG/Cox11; Region: CtaG_Cox11; pfam04442 392499012845 Cytochrome c oxidase subunit III. Cytochrome c oxidase (CcO), the terminal oxidase in the respiratory chains of eukaryotes and most bacteria, is a multi-chain transmembrane protein located in the inner membrane of mitochondria and the cell membrane of...; Region: Cyt_c_Oxidase_III; cd01665 392499012846 Subunit III/VIIa interface [polypeptide binding]; other site 392499012847 Phospholipid binding site [chemical binding]; other site 392499012848 Subunit I/III interface [polypeptide binding]; other site 392499012849 Subunit III/VIb interface [polypeptide binding]; other site 392499012850 Subunit III/VIa interface; other site 392499012851 Subunit III/Vb interface [polypeptide binding]; other site 392499012852 Protein of unknown function (DUF983); Region: DUF983; cl02211 392499012853 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 392499012854 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 392499012855 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cl01629 392499012856 TPP-binding site [chemical binding]; other site 392499012857 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 392499012858 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 392499012859 PYR/PP interface [polypeptide binding]; other site 392499012860 dimer interface [polypeptide binding]; other site 392499012861 TPP binding site [chemical binding]; other site 392499012862 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 392499012863 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 392499012864 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 392499012865 short chain dehydrogenase; Provisional; Region: PRK08265 392499012866 classical (c) SDRs; Region: SDR_c; cd05233 392499012867 NAD(P) binding site [chemical binding]; other site 392499012868 active site 392499012869 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 392499012870 Helix-turn-helix domain; Region: HTH_18; pfam12833 392499012871 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 392499012872 Plasmid stability protein [General function prediction only]; Region: StbC; COG4691 392499012873 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 392499012874 oligomeric interface; other site 392499012875 putative active site [active] 392499012876 homodimer interface [polypeptide binding]; other site 392499012877 Hemimethylated DNA-binding protein YccV like; Region: YccV-like; pfam08755 392499012878 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 392499012879 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 392499012880 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 392499012881 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 392499012882 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 392499012883 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 392499012884 GTPase CgtA; Reviewed; Region: obgE; PRK12299 392499012885 GTP1/OBG; Region: GTP1_OBG; pfam01018 392499012886 Obg GTPase; Region: Obg; cd01898 392499012887 G1 box; other site 392499012888 GTP/Mg2+ binding site [chemical binding]; other site 392499012889 Switch I region; other site 392499012890 G2 box; other site 392499012891 G3 box; other site 392499012892 Switch II region; other site 392499012893 G4 box; other site 392499012894 G5 box; other site 392499012895 gamma-glutamyl kinase; Provisional; Region: PRK05429 392499012896 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 392499012897 nucleotide binding site [chemical binding]; other site 392499012898 homotetrameric interface [polypeptide binding]; other site 392499012899 putative phosphate binding site [ion binding]; other site 392499012900 putative allosteric binding site; other site 392499012901 PUA domain; Region: PUA; pfam01472 392499012902 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 392499012903 NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, subunit 9, 39 kDa, (NDUFA9) -like, atypical (a) SDRs; Region: NDUFA9_like_SDR_a; cd05271 392499012904 putative NAD(P) binding site [chemical binding]; other site 392499012905 active site 392499012906 Acyl carrier protein [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcpP; COG0236 392499012907 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 392499012908 KBL_like; this family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to serine palmitoyltransferase (SPT), 5-aminolevulinate synthase (ALAS); Region: KBL_like; cd06454 392499012909 substrate-cofactor binding pocket; other site 392499012910 pyridoxal 5'-phosphate binding site [chemical binding]; other site 392499012911 catalytic residue [active] 392499012912 CHASE3 domain; Region: CHASE3; pfam05227 392499012913 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 392499012914 ATP binding site [chemical binding]; other site 392499012915 Mg2+ binding site [ion binding]; other site 392499012916 G-X-G motif; other site 392499012917 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 392499012918 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 392499012919 active site 392499012920 phosphorylation site [posttranslational modification] 392499012921 intermolecular recognition site; other site 392499012922 dimerization interface [polypeptide binding]; other site 392499012923 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 392499012924 Uncharacterized protein conserved in bacteria (DUF2141); Region: DUF2141; pfam09912 392499012925 Predicted permeases [General function prediction only]; Region: COG0795 392499012926 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 392499012927 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 392499012928 Predicted permeases [General function prediction only]; Region: COG0795 392499012929 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; cl01132 392499012930 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 392499012931 Protein of unknown function (DUF1244); Region: DUF1244; cl01385 392499012932 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 392499012933 putative catalytic site [active] 392499012934 putative phosphate binding site [ion binding]; other site 392499012935 active site 392499012936 metal binding site A [ion binding]; metal-binding site 392499012937 DNA binding site [nucleotide binding] 392499012938 putative AP binding site [nucleotide binding]; other site 392499012939 putative metal binding site B [ion binding]; other site 392499012940 Iron-sulfur cluster assembly accessory protein; Region: TIGR00049 392499012941 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 392499012942 Peptidase family M23; Region: Peptidase_M23; pfam01551 392499012943 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 392499012944 dinuclear metal binding motif [ion binding]; other site 392499012945 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 392499012946 Histone deacetylase class IV also known as histone deacetylase 11; Region: HDAC_classIV; cd09993 392499012947 putative active site [active] 392499012948 Zn binding site [ion binding]; other site 392499012949 acetyl esterase; Provisional; Region: PRK10162 392499012950 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 392499012951 Diadenosine tetraphosphate (Ap4A) hydrolase is a member of the Nudix hydrolase superfamily. Members of this family are well represented in a variety of prokaryotic and eukaryotic organisms. Phylogenetic analysis reveals two distinct subgroups where plant...; Region: Ap4A_hydrolase_plant_like; cd03671 392499012952 putative active site [active] 392499012953 Ap4A binding site [chemical binding]; other site 392499012954 nudix motif; other site 392499012955 putative metal binding site [ion binding]; other site 392499012956 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 392499012957 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 392499012958 N-terminal plug; other site 392499012959 ligand-binding site [chemical binding]; other site 392499012960 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 392499012961 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 392499012962 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 392499012963 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 392499012964 catalytic triad [active] 392499012965 Glutamine synthetase adenylyltransferase [Posttranslational modification, protein turnover, chaperones / Signal transduction mechanisms]; Region: GlnE; COG1391 392499012966 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Reviewed; Region: PRK11072 392499012967 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 392499012968 metal binding triad; other site 392499012969 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 392499012970 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 392499012971 metal binding triad; other site 392499012972 RNA polymerase sigma factor; Provisional; Region: PRK12547 392499012973 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 392499012974 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 392499012975 two-component response regulator; Provisional; Region: PRK09191 392499012976 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 392499012977 active site 392499012978 phosphorylation site [posttranslational modification] 392499012979 intermolecular recognition site; other site 392499012980 dimerization interface [polypeptide binding]; other site 392499012981 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 392499012982 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 392499012983 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 392499012984 Histidine kinase; Region: HisKA_2; pfam07568 392499012985 Predicted small secreted protein [Function unknown]; Region: COG5510 392499012986 Sec-independent protein secretion pathway component TatC [Intracellular trafficking and secretion]; Region: TatC; COG0805 392499012987 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 392499012988 twin arginine translocase protein A; Provisional; Region: tatA; PRK00720 392499012989 Putative transcriptional regulators (Ypuh-like); Region: DUF387; pfam04079 392499012990 Rec8/ScpA/Scc1-like protein (kleisin family) [Replication, recombination, and repair]; Region: scpA; COG1354 392499012991 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 392499012992 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 392499012993 Sporulation related domain; Region: SPOR; pfam05036 392499012994 arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611 392499012995 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 392499012996 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 392499012997 active site 392499012998 HIGH motif; other site 392499012999 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 392499013000 KMSK motif region; other site 392499013001 tRNA binding surface [nucleotide binding]; other site 392499013002 DALR anticodon binding domain; Region: DALR_1; smart00836 392499013003 anticodon binding site; other site 392499013004 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 392499013005 Peptidase family M28; Region: Peptidase_M28; pfam04389 392499013006 metal binding site [ion binding]; metal-binding site 392499013007 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01286 392499013008 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 392499013009 Zn2+ binding site [ion binding]; other site 392499013010 Mg2+ binding site [ion binding]; other site 392499013011 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 392499013012 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 392499013013 TPR motif; other site 392499013014 binding surface 392499013015 Sporulation related domain; Region: SPOR; pfam05036 392499013016 Cell division GTPase [Cell division and chromosome partitioning]; Region: FtsZ; COG0206 392499013017 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 392499013018 nucleotide binding site [chemical binding]; other site 392499013019 SulA interaction site; other site 392499013020 Cell division ATPase FtsA [Cell division and chromosome partitioning]; Region: ftsA; COG0849 392499013021 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 392499013022 nucleotide binding site [chemical binding]; other site 392499013023 SHS2 domain inserted in FTSA; Region: SHS2_FTSA; pfam02491 392499013024 Cell division protein FtsA; Region: FtsA; pfam14450 392499013025 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 392499013026 Cell division protein FtsQ; Region: FtsQ; pfam03799 392499013027 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 392499013028 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 392499013029 ATP-grasp domain; Region: ATP-grasp_4; cl17255 392499013030 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13905 392499013031 FAD binding domain; Region: FAD_binding_4; pfam01565 392499013032 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 392499013033 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 392499013034 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 392499013035 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 392499013036 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 392499013037 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 392499013038 active site 392499013039 homodimer interface [polypeptide binding]; other site 392499013040 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 392499013041 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK01390 392499013042 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 392499013043 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 392499013044 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 392499013045 Phospho-N-acetylmuramoyl-pentapeptide-transferase (mraY) is an enzyme responsible for the formation of the first lipid intermediate in the synthesis of bacterial cell wall peptidoglycan. It catalyzes the formation of...; Region: GT_MraY; cd06852 392499013046 Mg++ binding site [ion binding]; other site 392499013047 putative catalytic motif [active] 392499013048 putative substrate binding site [chemical binding]; other site 392499013049 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 392499013050 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 392499013051 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 392499013052 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 392499013053 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 392499013054 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 392499013055 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 392499013056 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 392499013057 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 392499013058 Cell division protein FtsL; Region: FtsL; cl11433 392499013059 MraW methylase family; Region: Methyltransf_5; cl17771 392499013060 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 392499013061 cell division protein MraZ; Reviewed; Region: PRK00326 392499013062 MraZ protein; Region: MraZ; pfam02381 392499013063 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 392499013064 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 392499013065 dimer interface [polypeptide binding]; other site 392499013066 pyridoxal 5'-phosphate binding site [chemical binding]; other site 392499013067 catalytic residue [active] 392499013068 MUG-like Uracil-DNA glycosylase enzyme family; Region: UDG_MUG_like; cd10032 392499013069 putative active site [active] 392499013070 This CD, composed mainly of bacterial single-domain proteins, includes the Thermus thermophilus (Tt) YbaK-like protein, a homolog of the trans-acting Escherichia coli YbaK Cys-tRNA(Pro) deacylase and the Agrobacterium tumefaciens ProX Ala-tRNA(Pro)...; Region: ProX_deacylase; cd04333 392499013071 putative deacylase active site [active] 392499013072 polycystic kidney disease I (PKD) domain; similar to other cell-surface modules, with an IG-like fold; domain probably functions as a ligand binding site in protein-protein or protein-carbohydrate interactions; a single instance of the repeat is...; Region: PKD; cl17457 392499013073 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; cl17312 392499013074 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 392499013075 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 392499013076 active site 392499013077 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 392499013078 KpsF-like protein. KpsF is an arabinose-5-phosphate isomerase which contains SIS (Sugar ISomerase) domains. SIS domains are found in many phosphosugar isomerases and phosphosugar binding proteins. KpsF catalyzes the reversible reaction of ribulose...; Region: SIS_Kpsf; cd05014 392499013079 putative active site [active] 392499013080 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with KpsF/GutQ domains in the API [A5P (D-arabinose 5-phosphate) isomerase] protein. These APIs catalyze the conversion of the pentose pathway...; Region: CBS_pair_KpsF_GutQ_assoc; cd04604 392499013081 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 392499013082 phosphoprotein phosphatases of the metallophosphatase superfamily, metallophosphatase domain; Region: MPP_PPP_family; cd00144 392499013083 active site 392499013084 metal binding site [ion binding]; metal-binding site 392499013085 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 392499013086 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 392499013087 metal binding site [ion binding]; metal-binding site 392499013088 active site 392499013089 I-site; other site 392499013090 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 392499013091 PilZ domain; Region: PilZ; pfam07238 392499013092 Domain of unknown function, appears to be related to a diverse group of endonucleases; Region: Endonuclease_DUF559; cd01038 392499013093 putative active site [active] 392499013094 phosphoribosylformylglycinamidine synthase II; Provisional; Region: PRK01213 392499013095 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 392499013096 dimerization interface [polypeptide binding]; other site 392499013097 ATP binding site [chemical binding]; other site 392499013098 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 392499013099 dimerization interface [polypeptide binding]; other site 392499013100 ATP binding site [chemical binding]; other site 392499013101 RNA polymerase sigma factor; Provisional; Region: PRK12511 392499013102 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 392499013103 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 392499013104 DNA binding residues [nucleotide binding] 392499013105 Predicted transmembrane transcriptional regulator (anti-sigma factor) [Transcription]; Region: COG5662 392499013106 Putative zinc-finger; Region: zf-HC2; pfam13490 392499013107 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 392499013108 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_3; cl17304 392499013109 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 392499013110 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 392499013111 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 392499013112 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 392499013113 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 392499013114 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 392499013115 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 392499013116 catalytic loop [active] 392499013117 iron binding site [ion binding]; other site 392499013118 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 392499013119 putative exonuclease, DNA ligase-associated; Region: Xnuc_lig_assoc; TIGR04122 392499013120 ATP-dependent DNA ligase; Validated; Region: PRK09247 392499013121 Adenylation domain of proteins similar to ATP-dependent polynucleotide ligases; Region: Adenylation_DNA_ligase_like; cl12015 392499013122 active site 392499013123 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 392499013124 DNA binding site [nucleotide binding] 392499013125 Ku-homolog [Replication, recombination, and repair]; Region: COG1273 392499013126 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 392499013127 putative DNA binding site [nucleotide binding]; other site 392499013128 putative homodimer interface [polypeptide binding]; other site 392499013129 ATP-dependent DNA ligase; Reviewed; Region: ligD; PRK05972 392499013130 DNA ligase D, 3'-phosphoesterase domain; Region: LigD_PE_dom; TIGR02777 392499013131 Adenylation domain of Mycobacterium tuberculosis LigD and LigC-like ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_LigD_LigC; cd07906 392499013132 active site 392499013133 DNA binding site [nucleotide binding] 392499013134 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 392499013135 DNA binding site [nucleotide binding] 392499013136 PaeLigD_Pol_like: Polymerase (Pol) domain of bacterial LigD proteins similar to Pseudomonas aeruginosa (Pae) LigD. The LigD Pol domain belongs to the archaeal/eukaryal primase (AEP) superfamily. In prokaryotes, LigD along with Ku is required for...; Region: PaeLigD_Pol_like; cd04862 392499013137 nucleotide binding site [chemical binding]; other site 392499013138 Antibiotic biosynthesis monooxygenase; Region: ABM; pfam03992 392499013139 Rrf2 family protein; Region: rrf2_super; TIGR00738 392499013140 Transcriptional regulator; Region: Rrf2; pfam02082 392499013141 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 392499013142 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 392499013143 NAD(P) binding domain of leucine dehydrogenase, phenylalanine dehydrogenase, and valine dehydrogenase; Region: NAD_bind_Leu_Phe_Val_DH; cd01075 392499013144 NAD binding site [chemical binding]; other site 392499013145 Phe binding site; other site 392499013146 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 392499013147 EamA-like transporter family; Region: EamA; pfam00892 392499013148 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 392499013149 CcmE; Region: CcmE; pfam03100 392499013150 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: CcmF; COG1138 392499013151 TlpA-like family, DsbE (also known as CcmG and CycY) subfamily; DsbE is a membrane-anchored, periplasmic TRX-like reductase containing a CXXC motif that specifically donates reducing equivalents to apocytochrome c via CcmH, another cytochrome c...; Region: TlpA_like_DsbE; cd03010 392499013152 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 392499013153 catalytic residues [active] 392499013154 central insert; other site 392499013155 Cytochrome C biogenesis protein; Region: CcmH; pfam03918 392499013156 Protein of unknown function (DUF2905); Region: DUF2905; pfam11146 392499013157 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: COG4235 392499013158 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 392499013159 TPR motif; other site 392499013160 binding surface 392499013161 GSCFA family; Region: GSCFA; pfam08885 392499013162 Methyltransferase domain; Region: Methyltransf_23; pfam13489 392499013163 Methyltransferase domain; Region: Methyltransf_11; pfam08241 392499013164 Putative papain-like cysteine peptidase (DUF1796); Region: DUF1796; pfam08795 392499013165 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3551 392499013166 Lipopolysaccharide biosynthesis protein [Cell envelope biogenesis, outer membrane]; Region: RgpF; COG3754 392499013167 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 392499013168 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 392499013169 active site 392499013170 Peptidase family M23; Region: Peptidase_M23; pfam01551 392499013171 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 392499013172 This family is most closely related to the GT1 family of glycosyltransferases. ExpC in Rhizobium meliloti has been shown to be involved in the biosynthesis of galactoglucan (exopolysaccharide II); Region: GT1_ExpC_like; cd03818 392499013173 putative ADP-binding pocket [chemical binding]; other site 392499013174 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 392499013175 Sulfotransferase domain; Region: Sulfotransfer_1; pfam00685 392499013176 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 392499013177 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 392499013178 HlyD family secretion protein; Region: HlyD_3; pfam13437 392499013179 ABC-type protease/lipase transport system, ATPase and permease components [General function prediction only]; Region: ArpD; COG4618 392499013180 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 392499013181 ATP-binding cassette domain of PrtD, subfamily C; Region: ABCC_Protease_Secretion; cd03246 392499013182 Walker A/P-loop; other site 392499013183 ATP binding site [chemical binding]; other site 392499013184 Q-loop/lid; other site 392499013185 ABC transporter signature motif; other site 392499013186 Walker B; other site 392499013187 D-loop; other site 392499013188 H-loop/switch region; other site 392499013189 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 392499013190 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 392499013191 TPR motif; other site 392499013192 binding surface 392499013193 TPR repeat; Region: TPR_11; pfam13414 392499013194 Rhamnan synthesis protein F; Region: RgpF; pfam05045 392499013195 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 392499013196 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 392499013197 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 392499013198 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 392499013199 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 392499013200 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 392499013201 active site 392499013202 Methyltransferase domain; Region: Methyltransf_23; pfam13489 392499013203 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 392499013204 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 392499013205 Methyltransferase domain; Region: Methyltransf_31; pfam13847 392499013206 S-adenosylmethionine binding site [chemical binding]; other site 392499013207 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 392499013208 Methyltransferase domain; Region: Methyltransf_23; pfam13489 392499013209 polysaccharide export inner-membrane protein, BexC/CtrB/KpsE family; Region: BexC_CtrB_KpsE; TIGR01010 392499013210 ABC-2 type transporter; Region: ABC2_membrane; cl17235 392499013211 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 392499013212 This family is most closely related to the GT1 family of glycosyltransferases. mtfB (mannosyltransferase B) in E. coli has been shown to direct the growth of the O9-specific polysaccharide chain. It transfers two mannoses into the position 3 of the...; Region: GT1_mtfB_like; cd03809 392499013213 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 392499013214 This family is most closely related to the GT1 family of glycosyltransferases. mtfB (mannosyltransferase B) in E. coli has been shown to direct the growth of the O9-specific polysaccharide chain. It transfers two mannoses into the position 3 of the...; Region: GT1_mtfB_like; cd03809 392499013215 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 392499013216 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: dTDP_sugar_isom; pfam00908 392499013217 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 392499013218 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 392499013219 NAD binding site [chemical binding]; other site 392499013220 substrate binding site [chemical binding]; other site 392499013221 homodimer interface [polypeptide binding]; other site 392499013222 active site 392499013223 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 392499013224 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 392499013225 NADP binding site [chemical binding]; other site 392499013226 active site 392499013227 putative substrate binding site [chemical binding]; other site 392499013228 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 392499013229 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 392499013230 substrate binding site; other site 392499013231 tetramer interface; other site 392499013232 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 392499013233 ligand binding site [chemical binding]; other site 392499013234 flexible hinge region; other site 392499013235 rod shape-determining protein MreB; Provisional; Region: PRK13927 392499013236 MreB and similar proteins; Region: MreB_like; cd10225 392499013237 nucleotide binding site [chemical binding]; other site 392499013238 Mg binding site [ion binding]; other site 392499013239 putative protofilament interaction site [polypeptide binding]; other site 392499013240 RodZ interaction site [polypeptide binding]; other site 392499013241 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 392499013242 Sel1-like repeats; Region: SEL1; smart00671 392499013243 Sel1-like repeats; Region: SEL1; smart00671 392499013244 Outer membrane receptor for monomeric catechols [Inorganic ion transport and metabolism]; Region: Fiu; COG4774 392499013245 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 392499013246 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 392499013247 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 392499013248 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 392499013249 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 392499013250 acyl-CoA synthetase; Validated; Region: PRK06145 392499013251 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 392499013252 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 392499013253 acyl-activating enzyme (AAE) consensus motif; other site 392499013254 acyl-activating enzyme (AAE) consensus motif; other site 392499013255 AMP binding site [chemical binding]; other site 392499013256 active site 392499013257 CoA binding site [chemical binding]; other site 392499013258 pyridoxal-dependent decarboxylase, exosortase A system-associated; Region: dCO2ase_PEP1; TIGR03099 392499013259 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Btrk Decarboxylase; Region: PLPDE_III_Btrk_like; cd06839 392499013260 dimer interface [polypeptide binding]; other site 392499013261 active site 392499013262 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 392499013263 catalytic residues [active] 392499013264 substrate binding site [chemical binding]; other site 392499013265 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 392499013266 putative polysaccharide export protein, PEP-CTERM sytem-associated; Region: pepcterm_export; TIGR03027 392499013267 SLBB domain; Region: SLBB; pfam10531 392499013268 polysaccharide chain length determinant protein, PEP-CTERM locus subfamily; Region: pepcterm_ChnLen; TIGR03007 392499013269 exopolysaccharide/PEP-CTERM locus tyrosine autokinase; Region: pepcterm_TyrKin; TIGR03018 392499013270 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 392499013271 uncharacterized protein, PEP-CTERM system associated; Region: pepcterm_hypo_1; TIGR03016 392499013272 putative secretion ATPase, PEP-CTERM locus subfamily; Region: pepcterm_ATPase; TIGR03015 392499013273 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 392499013274 Walker A motif; other site 392499013275 ATP binding site [chemical binding]; other site 392499013276 Walker B motif; other site 392499013277 arginine finger; other site 392499013278 Putative catalytic domain of uncharacterized prokaryotic polysaccharide deacetylases similar to bacterial PuuE allantoinases and Helicobacter pylori peptidoglycan deacetylase (HpPgdA); Region: CE4_PuuE_HpPgdA_like_2; cd10941 392499013279 polysaccharide deacetylase family protein, PEP-CTERM locus subfamily; Region: pepcterm_polyde; TIGR03006 392499013280 putative active site [active] 392499013281 putative catalytic site [active] 392499013282 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; cl17497 392499013283 sugar transferase, PEP-CTERM/EpsH1 system associated; Region: stp1; TIGR03087 392499013284 Glycosyl transferases group 1; Region: Glyco_trans_1_4; pfam13692 392499013285 exosortase A system-associated amidotransferase 1; Region: eps_aminotran_1; TIGR03108 392499013286 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 392499013287 active site 392499013288 dimer interface [polypeptide binding]; other site 392499013289 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 392499013290 Ligand Binding Site [chemical binding]; other site 392499013291 Molecular Tunnel; other site 392499013292 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 392499013293 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 392499013294 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 392499013295 dimerization interface 3.5A [polypeptide binding]; other site 392499013296 active site 392499013297 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 392499013298 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 392499013299 putative active site [active] 392499013300 substrate binding site [chemical binding]; other site 392499013301 putative cosubstrate binding site; other site 392499013302 catalytic site [active] 392499013303 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 392499013304 substrate binding site [chemical binding]; other site 392499013305 recombination protein RecR; Reviewed; Region: recR; PRK00076 392499013306 RecR protein; Region: RecR; pfam02132 392499013307 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 392499013308 putative active site [active] 392499013309 putative metal-binding site [ion binding]; other site 392499013310 tetramer interface [polypeptide binding]; other site 392499013311 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 392499013312 active site 392499013313 catalytic residues [active] 392499013314 metal binding site [ion binding]; metal-binding site 392499013315 Fe(II)-dependent oxygenase superfamily protein; Provisional; Region: PRK05467 392499013316 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 392499013317 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 392499013318 ribonuclease R; Region: RNase_R; TIGR02063 392499013319 RNB domain; Region: RNB; pfam00773 392499013320 S1_RNase_R: RNase R C-terminal S1 domain. RNase R is a processive 3' to 5' exoribonuclease, which is a homolog of RNase II. RNase R degrades RNA with secondary structure having a 3' overhang of at least 7 nucleotides. RNase R and PNPase...; Region: S1_RNase_R; cd04471 392499013321 RNA binding site [nucleotide binding]; other site 392499013322 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 392499013323 trimer interface [polypeptide binding]; other site 392499013324 active site 392499013325 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 392499013326 active site 392499013327 catalytic motif [active] 392499013328 Zn binding site [ion binding]; other site 392499013329 Uncharacterized protein family (UPF0262); Region: UPF0262; pfam06793 392499013330 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 392499013331 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 392499013332 HlyD family secretion protein; Region: HlyD_3; pfam13437 392499013333 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 392499013334 MarR family; Region: MarR_2; pfam12802 392499013335 replicative DNA helicase; Provisional; Region: PRK09165 392499013336 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 392499013337 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 392499013338 Walker A motif; other site 392499013339 ATP binding site [chemical binding]; other site 392499013340 Walker B motif; other site 392499013341 DNA binding loops [nucleotide binding] 392499013342 3'-phosphoadenosine 5'-phosphosulfate sulfotransferase (PAPS reductase)/FAD synthetase and related enzymes [Amino acid transport and metabolism / Coenzyme metabolism]; Region: CysH; COG0175 392499013343 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 392499013344 Active Sites [active] 392499013345 Bacterial protein of unknown function (DUF934); Region: DUF934; pfam06073 392499013346 Sulfite reductase, beta subunit (hemoprotein) [Inorganic ion transport and metabolism]; Region: CysI; COG0155 392499013347 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 392499013348 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 392499013349 Protein of unknown function (DUF2849); Region: DUF2849; pfam11011 392499013350 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 392499013351 active site 392499013352 SAM binding site [chemical binding]; other site 392499013353 homodimer interface [polypeptide binding]; other site 392499013354 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in a group of uncharacterized proteins from bacteria and archaea; Region: NTP-PPase_u4; cd11541 392499013355 putative metal binding site [ion binding]; other site 392499013356 Uncharacterized subfamily of Uracil-DNA glycosylases; Region: UDG_like_3; cd10035 392499013357 putative uracil binding site [chemical binding]; other site 392499013358 putative active site [active] 392499013359 thymidylate synthase, methanogen type; Region: thy_syn_methano; TIGR03283 392499013360 C1 Peptidase family (MEROPS database nomenclature), also referred to as the papain family; composed of two subfamilies of cysteine peptidases (CPs), C1A (papain) and C1B (bleomycin hydrolase). Papain-like enzymes are mostly endopeptidases with some...; Region: Peptidase_C1; cd02619 392499013361 active site 392499013362 Domain of unknown function (DUF955); Region: DUF955; pfam06114 392499013363 Chagasin family peptidase inhibitor I42; Region: Inhibitor_I42; pfam09394 392499013364 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 392499013365 non-specific DNA binding site [nucleotide binding]; other site 392499013366 sequence-specific DNA binding site [nucleotide binding]; other site 392499013367 salt bridge; other site 392499013368 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 392499013369 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 392499013370 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 392499013371 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 392499013372 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 392499013373 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 392499013374 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 392499013375 catalytic residues [active] 392499013376 dimer interface [polypeptide binding]; other site 392499013377 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 392499013378 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 392499013379 putative Zn2+ binding site [ion binding]; other site 392499013380 putative DNA binding site [nucleotide binding]; other site 392499013381 branched-chain amino acid aminotransferase; Validated; Region: PRK07544 392499013382 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 392499013383 homodimer interface [polypeptide binding]; other site 392499013384 substrate-cofactor binding pocket; other site 392499013385 pyridoxal 5'-phosphate binding site [chemical binding]; other site 392499013386 catalytic residue [active] 392499013387 Predicted permeases [General function prediction only]; Region: RarD; COG2962 392499013388 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 392499013389 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 392499013390 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 392499013391 active site 392499013392 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 392499013393 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 392499013394 DNA binding residues [nucleotide binding] 392499013395 N-methylhydantoinase A/acetone carboxylase, beta subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuA; COG0145 392499013396 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 392499013397 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; pfam01968 392499013398 Protein of unknown function (DUF917); Region: DUF917; pfam06032 392499013399 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 392499013400 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 392499013401 N-terminal plug; other site 392499013402 ligand-binding site [chemical binding]; other site 392499013403 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 392499013404 Major Facilitator Superfamily; Region: MFS_1; pfam07690 392499013405 putative substrate translocation pore; other site 392499013406 Predicted permeases [General function prediction only]; Region: COG0730 392499013407 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 392499013408 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 392499013409 N-terminal plug; other site 392499013410 ligand-binding site [chemical binding]; other site 392499013411 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 392499013412 active site 392499013413 dimer interface [polypeptide binding]; other site 392499013414 patatin-related protein; Region: TIGR03607 392499013415 Patatin-like phospholipase; Region: Patatin; pfam01734 392499013416 Protein of unknown function (DUF3376); Region: DUF3376; pfam11856 392499013417 DNA repair protein RadA; Provisional; Region: PRK11823 392499013418 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 392499013419 Walker A motif; other site 392499013420 ATP binding site [chemical binding]; other site 392499013421 Walker B motif; other site 392499013422 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 392499013423 Colicin V production protein; Region: Colicin_V; pfam02674 392499013424 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 392499013425 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 392499013426 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_9; cd07245 392499013427 dimer interface [polypeptide binding]; other site 392499013428 putative metal binding site [ion binding]; other site 392499013429 DNA repair photolyase [DNA replication, recombination, and repair]; Region: SplB; COG1533 392499013430 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 392499013431 FeS/SAM binding site; other site 392499013432 Hemerythrin HHE cation binding domain; Region: Hemerythrin; pfam01814 392499013433 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 392499013434 MPT binding site; other site 392499013435 trimer interface [polypeptide binding]; other site 392499013436 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 392499013437 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 392499013438 N-acetyl-D-glucosamine binding site [chemical binding]; other site 392499013439 catalytic residue [active] 392499013440 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 392499013441 active site 392499013442 Fe-S cluster binding site [ion binding]; other site 392499013443 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 392499013444 hydroxyglutarate oxidase; Provisional; Region: PRK11728 392499013445 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 392499013446 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 392499013447 Uncharacterized conserved protein [Function unknown]; Region: COG2128 392499013448 RNA polymerase sigma-70 factor, TIGR02957 family; Region: SigX4 392499013449 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 392499013450 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 392499013451 DNA binding residues [nucleotide binding] 392499013452 PqqD family protein, HPr-rel-A system; Region: PqqD_rel_X; TIGR04353 392499013453 HprK-related kinase A; Region: HprK_rel_A; TIGR04352 392499013454 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: PRK14608 392499013455 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 392499013456 TPR repeat; Region: TPR_11; pfam13414 392499013457 binding surface 392499013458 TPR motif; other site 392499013459 TPR repeat; Region: TPR_11; pfam13414 392499013460 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 392499013461 active site 392499013462 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 392499013463 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 392499013464 rRNA binding site [nucleotide binding]; other site 392499013465 predicted 30S ribosome binding site; other site 392499013466 Maf-like protein; Region: Maf; pfam02545 392499013467 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 392499013468 active site 392499013469 dimer interface [polypeptide binding]; other site 392499013470 Domain of unknown function (DUF329); Region: DUF329; cl01144 392499013471 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 392499013472 global nitrogen regulator NtcA, cyanobacterial; Region: NtcA_cyano; TIGR03697 392499013473 ligand binding site [chemical binding]; other site 392499013474 flexible hinge region; other site 392499013475 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 392499013476 putative switch regulator; other site 392499013477 non-specific DNA interactions [nucleotide binding]; other site 392499013478 DNA binding site [nucleotide binding] 392499013479 sequence specific DNA binding site [nucleotide binding]; other site 392499013480 putative cAMP binding site [chemical binding]; other site 392499013481 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 392499013482 lipid-transfer protein; Provisional; Region: PRK08256 392499013483 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 392499013484 active site 392499013485 glutathionine S-transferase; Provisional; Region: PRK10542 392499013486 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 392499013487 C-terminal, alpha helical domain of Class Beta Glutathione S-transferases; Region: GST_C_Beta; cd03188 392499013488 dimer interface [polypeptide binding]; other site 392499013489 substrate binding pocket (H-site) [chemical binding]; other site 392499013490 N-terminal domain interface [polypeptide binding]; other site 392499013491 acyl-CoA synthetase; Validated; Region: PRK06188 392499013492 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 392499013493 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 392499013494 acyl-activating enzyme (AAE) consensus motif; other site 392499013495 putative AMP binding site [chemical binding]; other site 392499013496 putative active site [active] 392499013497 putative CoA binding site [chemical binding]; other site 392499013498 The single-domain 2,3-dihydroxybiphenyl 1,2-dioxygenases (BphC, EC 1.13.11.39) from Rhodococcus globerulus P6, BphC2-RGP6 and BphC3-RGP6, and similar proteins; Region: BphC2-C3-RGP6_C_like; cd08348 392499013499 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 392499013500 putative active site [active] 392499013501 putative metal binding site [ion binding]; other site 392499013502 MarR family; Region: MarR_2; pfam12802 392499013503 hypothetical protein; Provisional; Region: PRK06126 392499013504 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 392499013505 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 392499013506 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 392499013507 N-terminal plug; other site 392499013508 ligand-binding site [chemical binding]; other site 392499013509 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 392499013510 Transcriptional regulator [Transcription]; Region: IclR; COG1414 392499013511 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 392499013512 Bacterial transcriptional regulator; Region: IclR; pfam01614 392499013513 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 392499013514 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 392499013515 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 392499013516 N-terminal plug; other site 392499013517 ligand-binding site [chemical binding]; other site 392499013518 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 392499013519 Cytochrome c; Region: Cytochrom_C; cl11414 392499013520 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 392499013521 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 392499013522 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 392499013523 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 392499013524 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 392499013525 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07008 392499013526 Fatty acyl-CoA synthetases similar to LC-FACS from Thermus thermophiles; Region: ttLC_FACS_AlkK_like; cd12119 392499013527 dimer interface [polypeptide binding]; other site 392499013528 acyl-activating enzyme (AAE) consensus motif; other site 392499013529 putative active site [active] 392499013530 AMP binding site [chemical binding]; other site 392499013531 putative CoA binding site [chemical binding]; other site 392499013532 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 392499013533 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 392499013534 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 392499013535 catalytic residue [active] 392499013536 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 392499013537 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 392499013538 tetrameric interface [polypeptide binding]; other site 392499013539 NAD binding site [chemical binding]; other site 392499013540 catalytic residues [active] 392499013541 Alanine racemase [Cell envelope biogenesis, outer membrane]; Region: Alr; COG0787 392499013542 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 392499013543 active site 392499013544 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 392499013545 dimer interface [polypeptide binding]; other site 392499013546 substrate binding site [chemical binding]; other site 392499013547 catalytic residues [active] 392499013548 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 392499013549 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 392499013550 N-terminal plug; other site 392499013551 ligand-binding site [chemical binding]; other site 392499013552 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 392499013553 putative substrate translocation pore; other site 392499013554 Transcriptional regulators [Transcription]; Region: PurR; COG1609 392499013555 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 392499013556 DNA binding site [nucleotide binding] 392499013557 domain linker motif; other site 392499013558 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_5; cd06281 392499013559 putative dimerization interface [polypeptide binding]; other site 392499013560 putative ligand binding site [chemical binding]; other site 392499013561 N-methylhydantoinase A/acetone carboxylase, beta subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuA; COG0145 392499013562 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 392499013563 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; pfam01968 392499013564 N-methylhydantoinase B/acetone carboxylase, alpha subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuB; COG0146 392499013565 Hydantoinase B/oxoprolinase; Region: Hydantoinase_B; pfam02538 392499013566 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 392499013567 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 392499013568 N-terminal plug; other site 392499013569 ligand-binding site [chemical binding]; other site 392499013570 Isochorismatase family; Region: Isochorismatase; pfam00857 392499013571 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 392499013572 catalytic triad [active] 392499013573 conserved cis-peptide bond; other site 392499013574 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 392499013575 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 392499013576 short chain dehydrogenase; Provisional; Region: PRK08219 392499013577 NAD(P) binding domain of amino acid dehydrogenase-like proteins; Region: NAD_bind_amino_acid_DH; cl17226 392499013578 NAD(P) binding pocket [chemical binding]; other site 392499013579 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 392499013580 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 392499013581 [2Fe-2S] cluster binding site [ion binding]; other site 392499013582 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_1; cd08885 392499013583 putative alpha subunit interface [polypeptide binding]; other site 392499013584 putative active site [active] 392499013585 putative substrate binding site [chemical binding]; other site 392499013586 Fe binding site [ion binding]; other site 392499013587 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 392499013588 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 392499013589 N-terminal plug; other site 392499013590 ligand-binding site [chemical binding]; other site 392499013591 Ketosteroid isomerase homolog [Function unknown]; Region: COG4319 392499013592 SnoaL-like domain; Region: SnoaL_2; pfam12680 392499013593 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 392499013594 Flavin containing amine oxidoreductase; Region: Amino_oxidase; pfam01593 392499013595 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 392499013596 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 392499013597 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 392499013598 succinic semialdehyde dehydrogenase; Region: PLN02278 392499013599 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 392499013600 tetramerization interface [polypeptide binding]; other site 392499013601 NAD(P) binding site [chemical binding]; other site 392499013602 catalytic residues [active] 392499013603 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 392499013604 NmrA-like family; Region: NmrA; pfam05368 392499013605 NAD(P) binding site [chemical binding]; other site 392499013606 active site 392499013607 PQQ-dependent dehydrogenase, methanol/ethanol family; Region: PQQ_enz_alc_DH; TIGR03075 392499013608 PQQ_like domain of the quinohemoprotein alcohol dehydrogenase (type II); Region: PQQ_ADH_II; cd10279 392499013609 Trp docking motif [polypeptide binding]; other site 392499013610 cytochrome domain interface [polypeptide binding]; other site 392499013611 active site 392499013612 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 392499013613 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 392499013614 FAD binding domain; Region: FAD_binding_4; pfam01565 392499013615 Berberine and berberine like; Region: BBE; pfam08031 392499013616 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 392499013617 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 392499013618 N-terminal domain interface [polypeptide binding]; other site 392499013619 GSH-dependent disulfide bond oxidoreductase; Provisional; Region: PRK13972 392499013620 GST_N family, Ure2p-like subfamily; composed of the Saccharomyces cerevisiae Ure2p and related GSTs. Ure2p is a regulator for nitrogen catabolism in yeast. It represses the expression of several gene products involved in the use of poor nitrogen sources...; Region: GST_N_Ure2p_like; cd03048 392499013621 C-terminal domain interface [polypeptide binding]; other site 392499013622 GSH binding site (G-site) [chemical binding]; other site 392499013623 dimer interface [polypeptide binding]; other site 392499013624 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 392499013625 N-terminal domain interface [polypeptide binding]; other site 392499013626 dimer interface [polypeptide binding]; other site 392499013627 substrate binding pocket (H-site) [chemical binding]; other site 392499013628 Acyl CoA:acetate/3-ketoacid CoA transferase, alpha subunit [Lipid metabolism]; Region: AtoD; COG1788 392499013629 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 392499013630 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 392499013631 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 392499013632 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 392499013633 dimerization interface [polypeptide binding]; other site 392499013634 4-aminobutyrate aminotransferase; Provisional; Region: PRK07495 392499013635 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 392499013636 inhibitor-cofactor binding pocket; inhibition site 392499013637 pyridoxal 5'-phosphate binding site [chemical binding]; other site 392499013638 catalytic residue [active] 392499013639 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 392499013640 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 392499013641 Bacterial transcriptional repressor; Region: TetR_C_6; pfam13977 392499013642 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 392499013643 Amidase; Region: Amidase; cl11426 392499013644 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 392499013645 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 392499013646 Bacterial transcriptional repressor; Region: TetR; pfam13972 392499013647 Major Facilitator Superfamily; Region: MFS_1; pfam07690 392499013648 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 392499013649 putative substrate translocation pore; other site 392499013650 aspartate aminotransferase; Provisional; Region: PRK05764 392499013651 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 392499013652 pyridoxal 5'-phosphate binding site [chemical binding]; other site 392499013653 homodimer interface [polypeptide binding]; other site 392499013654 catalytic residue [active] 392499013655 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 392499013656 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 392499013657 N-terminal plug; other site 392499013658 ligand-binding site [chemical binding]; other site 392499013659 benzoate 1,2-dioxygenase, large subunit; Region: benzo_1_2_benA; TIGR03229 392499013660 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 392499013661 iron-sulfur cluster [ion binding]; other site 392499013662 [2Fe-2S] cluster binding site [ion binding]; other site 392499013663 C-terminal catalytic domain of the oxygenase alpha subunit of Pseudomonas resinovorans strain CA10 anthranilate 1,2-dioxygenase and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_AntDO-like; cd08879 392499013664 putative alpha subunit interface [polypeptide binding]; other site 392499013665 putative active site [active] 392499013666 putative substrate binding site [chemical binding]; other site 392499013667 Fe binding site [ion binding]; other site 392499013668 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 392499013669 Helix-turn-helix domain; Region: HTH_18; pfam12833 392499013670 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 392499013671 Predicted amidohydrolase [General function prediction only]; Region: COG0388 392499013672 Nitrilases, cyanide hydratase (CH)s, and similar proteins (class 1 nitrilases); Region: nitrilases_CHs; cd07564 392499013673 putative active site [active] 392499013674 catalytic triad [active] 392499013675 putative dimer interface [polypeptide binding]; other site 392499013676 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 392499013677 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 392499013678 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 392499013679 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 392499013680 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 392499013681 FMN binding site [chemical binding]; other site 392499013682 substrate binding site [chemical binding]; other site 392499013683 putative catalytic residue [active] 392499013684 acyl-CoA synthetase; Validated; Region: PRK08316 392499013685 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 392499013686 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 392499013687 acyl-activating enzyme (AAE) consensus motif; other site 392499013688 putative AMP binding site [chemical binding]; other site 392499013689 putative active site [active] 392499013690 acyl-activating enzyme (AAE) consensus motif; other site 392499013691 putative CoA binding site [chemical binding]; other site 392499013692 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 392499013693 2,3-dihydroxybiphenyl 1,2-dioxygenase; Region: 23dbph12diox; TIGR03213 392499013694 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 392499013695 active site 392499013696 Fe binding site [ion binding]; other site 392499013697 2-hydroxy-6-oxo-6-phenylhexa-2,4-dienoate hydrolase; Region: biphenyl_bphD; TIGR03343 392499013698 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 392499013699 catalytic site [active] 392499013700 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 392499013701 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 392499013702 active site 392499013703 SnoaL-like domain; Region: SnoaL_4; pfam13577 392499013704 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 392499013705 Amidase; Region: Amidase; cl11426 392499013706 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 392499013707 iron-sulfur cluster [ion binding]; other site 392499013708 [2Fe-2S] cluster binding site [ion binding]; other site 392499013709 C-terminal catalytic domain of the oxygenase alpha subunit of Pseudomonas resinovorans strain CA10 anthranilate 1,2-dioxygenase and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_AntDO-like; cd08879 392499013710 putative alpha subunit interface [polypeptide binding]; other site 392499013711 putative active site [active] 392499013712 putative substrate binding site [chemical binding]; other site 392499013713 Fe binding site [ion binding]; other site 392499013714 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 392499013715 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 392499013716 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 392499013717 NAD(P) binding site [chemical binding]; other site 392499013718 active site 392499013719 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 392499013720 Helix-turn-helix domain; Region: HTH_18; pfam12833 392499013721 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 392499013722 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 392499013723 pyridoxal 5'-phosphate binding site [chemical binding]; other site 392499013724 homodimer interface [polypeptide binding]; other site 392499013725 catalytic residue [active] 392499013726 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 392499013727 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 392499013728 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 392499013729 active site 392499013730 Protein of unknown function (DUF917); Region: DUF917; pfam06032 392499013731 N-methylhydantoinase A/acetone carboxylase, beta subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuA; COG0145 392499013732 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 392499013733 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; pfam01968 392499013734 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 392499013735 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 392499013736 N-terminal plug; other site 392499013737 ligand-binding site [chemical binding]; other site 392499013738 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 392499013739 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 392499013740 molybdopterin cofactor binding site; other site 392499013741 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; cd02775 392499013742 AAA domain; Region: AAA_22; pfam13401 392499013743 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 392499013744 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 392499013745 DNA binding residues [nucleotide binding] 392499013746 dimerization interface [polypeptide binding]; other site 392499013747 aldolase II superfamily protein; Provisional; Region: PRK07044 392499013748 intersubunit interface [polypeptide binding]; other site 392499013749 active site 392499013750 Zn2+ binding site [ion binding]; other site 392499013751 Hydroxy(phenyl)pyruvate Reductase, D-isomer-specific 2-hydroxyacid-related dehydrogenase; Region: HPPR; cd12156 392499013752 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 392499013753 putative ligand binding site [chemical binding]; other site 392499013754 NAD binding site [chemical binding]; other site 392499013755 catalytic site [active] 392499013756 Prostaglandin dehydrogenases; Region: PGDH; cd05288 392499013757 Putative NADP-dependent oxidoreductases [General function prediction only]; Region: COG2130 392499013758 NAD(P) binding site [chemical binding]; other site 392499013759 substrate binding site [chemical binding]; other site 392499013760 dimer interface [polypeptide binding]; other site 392499013761 Transcriptional regulator [Transcription]; Region: LysR; COG0583 392499013762 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 392499013763 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 392499013764 dimerization interface [polypeptide binding]; other site 392499013765 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 392499013766 SBF-like CPA transporter family (DUF4137); Region: DUF4137; pfam13593 392499013767 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 392499013768 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 392499013769 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 392499013770 N-terminal plug; other site 392499013771 ligand-binding site [chemical binding]; other site 392499013772 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 392499013773 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 392499013774 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 392499013775 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 392499013776 active site 392499013777 Uncharacterized conserved protein [Function unknown]; Region: COG3791 392499013778 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 392499013779 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 392499013780 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 392499013781 dimerization interface [polypeptide binding]; other site 392499013782 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 392499013783 4-aminobutyrate aminotransferase; Provisional; Region: PRK07495 392499013784 inhibitor-cofactor binding pocket; inhibition site 392499013785 pyridoxal 5'-phosphate binding site [chemical binding]; other site 392499013786 catalytic residue [active] 392499013787 succinic semialdehyde dehydrogenase; Region: PLN02278 392499013788 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 392499013789 tetramerization interface [polypeptide binding]; other site 392499013790 NAD(P) binding site [chemical binding]; other site 392499013791 catalytic residues [active] 392499013792 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 392499013793 homotrimer interaction site [polypeptide binding]; other site 392499013794 putative active site [active] 392499013795 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 392499013796 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 392499013797 N-terminal plug; other site 392499013798 ligand-binding site [chemical binding]; other site 392499013799 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 392499013800 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 392499013801 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 392499013802 pyrimidine utilization protein A; Region: RutA; TIGR03612 392499013803 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 392499013804 Domain of unknown function (DUF1993); Region: DUF1993; pfam09351 392499013805 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 392499013806 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 392499013807 Glycerol uptake facilitator and related permeases (Major Intrinsic Protein Family) [Carbohydrate transport and metabolism]; Region: GlpF; COG0580 392499013808 amphipathic channel; other site 392499013809 Asn-Pro-Ala signature motifs; other site 392499013810 glycerol kinase; Provisional; Region: glpK; PRK00047 392499013811 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 392499013812 nucleotide binding site [chemical binding]; other site 392499013813 glycerol-3-phosphate dehydrogenase; Reviewed; Region: glpD; PRK12266 392499013814 Putative lumazine-binding; Region: Lumazine_bd_2; pfam12893 392499013815 Carboxylesterase type B [Lipid metabolism]; Region: PnbA; COG2272 392499013816 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 392499013817 substrate binding pocket [chemical binding]; other site 392499013818 catalytic triad [active] 392499013819 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 392499013820 N-methylhydantoinase B/acetone carboxylase, alpha subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuB; COG0146 392499013821 Hydantoinase B/oxoprolinase; Region: Hydantoinase_B; pfam02538 392499013822 N-methylhydantoinase A/acetone carboxylase, beta subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuA; COG0145 392499013823 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 392499013824 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; pfam01968 392499013825 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 392499013826 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 392499013827 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 392499013828 classical (c) SDRs; Region: SDR_c; cd05233 392499013829 NAD(P) binding site [chemical binding]; other site 392499013830 active site 392499013831 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 392499013832 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 392499013833 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 392499013834 FMN-dependent dehydrogenase; Region: FMN_dh; pfam01070 392499013835 phosphate binding site [ion binding]; other site 392499013836 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 392499013837 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 392499013838 N-terminal plug; other site 392499013839 ligand-binding site [chemical binding]; other site 392499013840 putative CoA-transferase; Provisional; Region: PRK11430 392499013841 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 392499013842 RNA binding site [nucleotide binding]; other site 392499013843 CoA-transferase family III; Region: CoA_transf_3; pfam02515 392499013844 Glutaryl-CoA dehydrogenase; Region: GCD; cd01151 392499013845 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 392499013846 FAD binding site [chemical binding]; other site 392499013847 substrate binding pocket [chemical binding]; other site 392499013848 catalytic base [active] 392499013849 Transcriptional regulator [Transcription]; Region: LysR; COG0583 392499013850 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 392499013851 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 392499013852 substrate binding pocket [chemical binding]; other site 392499013853 dimerization interface [polypeptide binding]; other site 392499013854 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 392499013855 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 392499013856 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 392499013857 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 392499013858 ChrR Cupin-like domain; Region: Cupin_7; pfam12973 392499013859 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 392499013860 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 392499013861 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 392499013862 DNA binding residues [nucleotide binding] 392499013863 dimerization interface [polypeptide binding]; other site 392499013864 probable oxidoreductase, LLM family; Region: LLM_2I7G; TIGR03858 392499013865 Luciferase-like monooxygenase; Region: Bac_luciferase; pfam00296 392499013866 GMC oxidoreductase; Region: GMC_oxred_N; pfam00732 392499013867 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 392499013868 benzoate transport; Region: 2A0115; TIGR00895 392499013869 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 392499013870 putative substrate translocation pore; other site 392499013871 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 392499013872 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 392499013873 classical (c) SDRs; Region: SDR_c; cd05233 392499013874 NAD(P) binding site [chemical binding]; other site 392499013875 active site 392499013876 Class II Aldolase and Adducin head (N-terminal) domain. Aldolases are ubiquitous enzymes catalyzing central steps of carbohydrate metabolism. Based on enzymatic mechanisms, this superfamily has been divided into two distinct classes (Class I and II); Region: Aldolase_II; cl00214 392499013877 intersubunit interface [polypeptide binding]; other site 392499013878 active site 392499013879 Zn2+ binding site [ion binding]; other site 392499013880 Domain of unknown function (DUF2437); Region: DUF2437; pfam10370 392499013881 4-hydroxyphenylacetate degradation bifunctional isomerase/decarboxylase, C-terminal subunit; Region: HpaG-C-term; TIGR02303 392499013882 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 392499013883 FMN-dependent dehydrogenase; Region: FMN_dh; pfam01070 392499013884 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 392499013885 phosphate binding site [ion binding]; other site 392499013886 Antibiotic biosynthesis monooxygenase; Region: ABM; pfam03992 392499013887 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 392499013888 GST_N family, Saccharomyces cerevisiae GTT2-like subfamily; composed of predominantly uncharacterized proteins with similarity to the S. cerevisiae GST protein, GTT2. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing...; Region: GST_N_GTT2_like; cd03051 392499013889 putative C-terminal domain interface [polypeptide binding]; other site 392499013890 putative GSH binding site (G-site) [chemical binding]; other site 392499013891 putative dimer interface [polypeptide binding]; other site 392499013892 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 392499013893 N-terminal domain interface [polypeptide binding]; other site 392499013894 Family of homologous FMN-dependent alpha-hydroxyacid oxidizing enzymes. This family occurs in both prokaryotes and eukaryotes. Members of this family include flavocytochrome b2 (FCB2), glycolate oxidase (GOX), lactate monooxygenase (LMO), mandelate...; Region: alpha_hydroxyacid_oxid_FMN; cd02809 392499013895 FMN-dependent dehydrogenase; Region: FMN_dh; pfam01070 392499013896 active site 392499013897 substrate binding site [chemical binding]; other site 392499013898 FMN binding site [chemical binding]; other site 392499013899 putative catalytic residues [active] 392499013900 Isopenicillin N synthase and related dioxygenases [General function prediction only]; Region: PcbC; COG3491 392499013901 non-haem dioxygenase in morphine synthesis N-terminal; Region: DIOX_N; pfam14226 392499013902 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; pfam03171 392499013903 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 392499013904 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 392499013905 N-terminal plug; other site 392499013906 ligand-binding site [chemical binding]; other site 392499013907 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 392499013908 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 392499013909 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 392499013910 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 392499013911 PQQ-like domain; Region: PQQ_2; pfam13360 392499013912 Trp docking motif [polypeptide binding]; other site 392499013913 active site 392499013914 PQQ-like domain; Region: PQQ_2; pfam13360 392499013915 Alkyl sulfatase and related hydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2015 392499013916 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 392499013917 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 392499013918 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 392499013919 N-terminal plug; other site 392499013920 ligand-binding site [chemical binding]; other site 392499013921 Gentisate 1,2-dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3435 392499013922 Acetoacetate decarboxylase (ADC); Region: ADC; pfam06314 392499013923 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 392499013924 active site 392499013925 dimethyl sulfone monooxygenase SfnG; Region: LLM_DMSO2_sfnG; TIGR04021 392499013926 dimer interface [polypeptide binding]; other site 392499013927 non-prolyl cis peptide bond; other site 392499013928 insertion regions; other site 392499013929 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 392499013930 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 392499013931 Predicted ornithine cyclodeaminase, mu-crystallin homolog [Amino acid transport and metabolism]; Region: COG2423 392499013932 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 392499013933 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 392499013934 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 392499013935 Transcriptional regulator [Transcription]; Region: LysR; COG0583 392499013936 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 392499013937 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 392499013938 putative effector binding pocket; other site 392499013939 dimerization interface [polypeptide binding]; other site 392499013940 Carboxylesterase type B [Lipid metabolism]; Region: PnbA; COG2272 392499013941 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 392499013942 substrate binding pocket [chemical binding]; other site 392499013943 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 392499013944 catalytic triad [active] 392499013945 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 392499013946 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 392499013947 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 392499013948 active site 392499013949 non-prolyl cis peptide bond; other site 392499013950 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 392499013951 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 392499013952 iron-sulfur cluster [ion binding]; other site 392499013953 [2Fe-2S] cluster binding site [ion binding]; other site 392499013954 C-terminal catalytic domain of the oxygenase alpha subunit of dicamba O-demethylase and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_DMO-like; cd08878 392499013955 alpha subunit interface [polypeptide binding]; other site 392499013956 active site 392499013957 substrate binding site [chemical binding]; other site 392499013958 Fe binding site [ion binding]; other site 392499013959 HpcH/HpaI aldolase/citrate lyase family; Region: HpcH_HpaI; cl17231 392499013960 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 392499013961 Luciferase-like monooxygenase; Region: Bac_luciferase; pfam00296 392499013962 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 392499013963 active site 392499013964 dimer interface [polypeptide binding]; other site 392499013965 non-prolyl cis peptide bond; other site 392499013966 insertion regions; other site 392499013967 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 392499013968 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 392499013969 iron-sulfur cluster [ion binding]; other site 392499013970 [2Fe-2S] cluster binding site [ion binding]; other site 392499013971 C-terminal catalytic domain of the oxygenase alpha subunit of dicamba O-demethylase and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_DMO-like; cd08878 392499013972 alpha subunit interface [polypeptide binding]; other site 392499013973 active site 392499013974 substrate binding site [chemical binding]; other site 392499013975 Fe binding site [ion binding]; other site 392499013976 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 392499013977 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 392499013978 N-terminal plug; other site 392499013979 ligand-binding site [chemical binding]; other site 392499013980 Isochorismatase family; Region: Isochorismatase; pfam00857 392499013981 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 392499013982 catalytic triad [active] 392499013983 conserved cis-peptide bond; other site 392499013984 Transcriptional regulator [Transcription]; Region: LysR; COG0583 392499013985 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 392499013986 The C-terminal substrate binding domain of LysR-type transcriptional regulators that involved in the catabolism of nitroaromatic/naphthalene compounds and that of related regulators; contains the type 2 periplasmic binding fold; Region: PBP2_Nitroaromatics_like; cd08417 392499013987 substrate binding pocket [chemical binding]; other site 392499013988 dimerization interface [polypeptide binding]; other site 392499013989 choline dehydrogenase; Validated; Region: PRK02106 392499013990 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 392499013991 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 392499013992 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 392499013993 iron-sulfur cluster [ion binding]; other site 392499013994 [2Fe-2S] cluster binding site [ion binding]; other site 392499013995 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 392499013996 hydrophobic ligand binding site; other site 392499013997 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 392499013998 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 392499013999 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 392499014000 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 392499014001 iron-sulfur cluster [ion binding]; other site 392499014002 [2Fe-2S] cluster binding site [ion binding]; other site 392499014003 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 392499014004 beta subunit interface [polypeptide binding]; other site 392499014005 alpha subunit interface [polypeptide binding]; other site 392499014006 active site 392499014007 substrate binding site [chemical binding]; other site 392499014008 Fe binding site [ion binding]; other site 392499014009 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 392499014010 inter-subunit interface; other site 392499014011 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 392499014012 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 392499014013 N-terminal plug; other site 392499014014 ligand-binding site [chemical binding]; other site 392499014015 Transcriptional regulators [Transcription]; Region: GntR; COG1802 392499014016 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 392499014017 DNA-binding site [nucleotide binding]; DNA binding site 392499014018 FCD domain; Region: FCD; pfam07729 392499014019 Malonate/sodium symporter MadM subunit; Region: MadM; cl04274 392499014020 Malonate transporter MadL subunit; Region: MadL; cl04273 392499014021 malonate decarboxylase, alpha subunit; Region: mdcA; TIGR01110 392499014022 malonate decarboxylase subunit delta; Provisional; Region: PRK02103 392499014023 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189 392499014024 malonate decarboxylase, gamma subunit; Region: malonate_gamma; TIGR03134 392499014025 phosphoribosyl-dephospho-CoA transferase; Provisional; Region: PRK01293; cl07913 392499014026 Phosphoribosyl-dephospho-CoA transferase MdcG; Region: MdcG; pfam10620 392499014027 triphosphoribosyl-dephospho-CoA synthase MdcB; Region: malonate_mdcB; TIGR03132 392499014028 Acyl transferase domain; Region: Acyl_transf_1; cl08282 392499014029 Transcriptional regulators [Transcription]; Region: GntR; COG1802 392499014030 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 392499014031 DNA-binding site [nucleotide binding]; DNA binding site 392499014032 FCD domain; Region: FCD; pfam07729 392499014033 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 392499014034 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 392499014035 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 392499014036 active site 392499014037 MarR family; Region: MarR_2; cl17246 392499014038 Transcriptional regulators [Transcription]; Region: MarR; COG1846 392499014039 Rieske non-heme iron oxygenase (RO) family, Phthalate 4,5-dioxygenase (PhDO)-like subfamily, N-terminal Rieske domain of the oxygenase alpha subunit; composed of the oxygenase alpha subunits of PhDO and similar proteins including 3-chlorobenzoate 3; Region: Rieske_RO_Alpha_PhDO_like; cd03479 392499014040 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 392499014041 C-terminal catalytic domain of the oxygenase alpha subunit of dicamba O-demethylase and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_DMO-like; cd08878 392499014042 alpha subunit interface [polypeptide binding]; other site 392499014043 active site 392499014044 substrate binding site [chemical binding]; other site 392499014045 Fe binding site [ion binding]; other site 392499014046 Rhodococcus ruber 6-oxolauric acid dehydrogenase-like; Region: ALDH_CddD_SSP0762; cd07138 392499014047 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 392499014048 NAD binding site [chemical binding]; other site 392499014049 catalytic residues [active] 392499014050 histidinol-phosphate aminotransferase; Validated; Region: PRK02731 392499014051 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 392499014052 pyridoxal 5'-phosphate binding site [chemical binding]; other site 392499014053 homodimer interface [polypeptide binding]; other site 392499014054 catalytic residue [active] 392499014055 hypothetical protein; Provisional; Region: PRK08266 392499014056 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 392499014057 PYR/PP interface [polypeptide binding]; other site 392499014058 dimer interface [polypeptide binding]; other site 392499014059 TPP binding site [chemical binding]; other site 392499014060 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 392499014061 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 392499014062 TPP-binding site [chemical binding]; other site 392499014063 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 392499014064 Major Facilitator Superfamily; Region: MFS_1; pfam07690 392499014065 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 392499014066 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 392499014067 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 392499014068 N-terminal plug; other site 392499014069 ligand-binding site [chemical binding]; other site 392499014070 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like2; cd05667 392499014071 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 392499014072 metal binding site [ion binding]; metal-binding site 392499014073 putative dimer interface [polypeptide binding]; other site 392499014074 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 392499014075 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 392499014076 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 392499014077 active site 392499014078 5-carboxymethyl-2-hydroxymuconate semialdehyde dehydrogenase; Region: HpaE; TIGR02299 392499014079 Human aldehyde dehydrogenase family 8 member A1-like; Region: ALDH_F8_HMSADH; cd07093 392499014080 NAD binding site [chemical binding]; other site 392499014081 catalytic residues [active] 392499014082 succinic semialdehyde dehydrogenase; Region: PLN02278 392499014083 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 392499014084 tetramerization interface [polypeptide binding]; other site 392499014085 NAD(P) binding site [chemical binding]; other site 392499014086 catalytic residues [active] 392499014087 MarR family; Region: MarR_2; cl17246 392499014088 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 392499014089 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 392499014090 4-hydroxyphenylacetate degradation bifunctional isomerase/decarboxylase, C-terminal subunit; Region: HpaG-C-term; TIGR02303 392499014091 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 392499014092 Subunit A of Class III extradiol dioxygenases; Region: Extradiol_Dioxygenase_3A_like; cd07321 392499014093 dimer interface [polypeptide binding]; other site 392499014094 tetramer interface [polypeptide binding]; other site 392499014095 Subunit B of the Class III Extradiol dioxygenase, Protocatechuate 4,5-dioxygenase, and simlar enzymes; Region: PCA_45_Doxase_B_like; cd07359 392499014096 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 392499014097 active site 392499014098 Fe(II) binding site [ion binding]; other site 392499014099 dimer interface [polypeptide binding]; other site 392499014100 tetramer interface [polypeptide binding]; other site 392499014101 5-carboxymethyl-2-hydroxymuconate isomerase (CHMI) is a trimeric enzyme catalyzing the isomerization of the unsaturated ketone 5-(carboxymethyl)-2-hydroxymuconate to 5-(carboxymethyl)-2-oxo-3-hexene-1,6-dionate. This is one step in the...; Region: CHMI; cd00580 392499014102 trimer interface [polypeptide binding]; other site 392499014103 putative substrate binding pocket [chemical binding]; other site 392499014104 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 392499014105 2,4-dihydroxyhept-2-ene-1,7-dioic acid aldolase [Carbohydrate transport and metabolism]; Region: HpcH; COG3836 392499014106 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 392499014107 MarR family; Region: MarR; pfam01047 392499014108 MarR family; Region: MarR_2; cl17246 392499014109 acetylornithine deacetylase; Provisional; Region: PRK07522 392499014110 M20 Peptidase acetylornithine deacetylase; Region: M20_ArgE; cd03894 392499014111 metal binding site [ion binding]; metal-binding site 392499014112 putative dimer interface [polypeptide binding]; other site 392499014113 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 392499014114 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 392499014115 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 392499014116 Carboxypeptidase C (cathepsin A) [Amino acid transport and metabolism]; Region: COG2939 392499014117 Serine carboxypeptidase; Region: Peptidase_S10; cl08270 392499014118 LysR family transcriptional regulator; Provisional; Region: PRK14997 392499014119 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 392499014120 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_4; cd08473 392499014121 putative effector binding pocket; other site 392499014122 putative dimerization interface [polypeptide binding]; other site 392499014123 Pirin-related protein [General function prediction only]; Region: COG1741 392499014124 Pirin; Region: Pirin; pfam02678 392499014125 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 392499014126 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 392499014127 phosphonate utilization associated transcriptional regulator; Region: phnR_burk; TIGR03338 392499014128 DNA-binding site [nucleotide binding]; DNA binding site 392499014129 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 392499014130 Hydroxy(phenyl)pyruvate Reductase, D-isomer-specific 2-hydroxyacid-related dehydrogenase; Region: HPPR; cd12156 392499014131 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 392499014132 putative ligand binding site [chemical binding]; other site 392499014133 NAD binding site [chemical binding]; other site 392499014134 catalytic site [active] 392499014135 short chain dehydrogenase; Provisional; Region: PRK12829 392499014136 classical (c) SDRs; Region: SDR_c; cd05233 392499014137 NAD(P) binding site [chemical binding]; other site 392499014138 active site 392499014139 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 392499014140 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 392499014141 tetramer interface [polypeptide binding]; other site 392499014142 active site 392499014143 Mg2+/Mn2+ binding site [ion binding]; other site 392499014144 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 392499014145 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 392499014146 substrate binding site [chemical binding]; other site 392499014147 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 392499014148 isopropylmalate isomerase large subunit; Provisional; Region: PRK12466 392499014149 substrate binding site [chemical binding]; other site 392499014150 ligand binding site [chemical binding]; other site 392499014151 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 392499014152 classical (c) SDRs; Region: SDR_c; cd05233 392499014153 NAD(P) binding site [chemical binding]; other site 392499014154 active site 392499014155 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 392499014156 Major Facilitator Superfamily; Region: MFS_1; pfam07690 392499014157 putative substrate translocation pore; other site 392499014158 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 392499014159 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 392499014160 N-terminal plug; other site 392499014161 ligand-binding site [chemical binding]; other site 392499014162 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 392499014163 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 392499014164 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 392499014165 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 392499014166 N-terminal plug; other site 392499014167 ligand-binding site [chemical binding]; other site 392499014168 Domain of unknown function (DUF336); Region: DUF336; cl01249 392499014169 Luciferase-like monooxygenase; Region: Bac_luciferase; pfam00296 392499014170 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 392499014171 active site 392499014172 dimer interface [polypeptide binding]; other site 392499014173 non-prolyl cis peptide bond; other site 392499014174 insertion regions; other site 392499014175 short chain dehydrogenase; Provisional; Region: PRK06500 392499014176 classical (c) SDRs; Region: SDR_c; cd05233 392499014177 NAD(P) binding site [chemical binding]; other site 392499014178 active site 392499014179 beta-ketoadipyl CoA thiolase; Validated; Region: PRK09050 392499014180 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 392499014181 dimer interface [polypeptide binding]; other site 392499014182 active site 392499014183 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 392499014184 3-oxoacid CoA-transferase, A subunit; Region: pcaI_scoA_fam; TIGR02429 392499014185 beta-ketoadipate pathway transcriptional regulators, PcaR/PcaU/PobR family; Region: pcaR_pcaU; TIGR02431 392499014186 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 392499014187 Bacterial transcriptional regulator; Region: IclR; pfam01614 392499014188 Protein of unknown function (DUF466); Region: DUF466; pfam04328 392499014189 carbon starvation protein A; Provisional; Region: PRK15015 392499014190 Carbon starvation protein CstA; Region: CstA; pfam02554 392499014191 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 392499014192 Response regulator receiver domain; Region: Response_reg; pfam00072 392499014193 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 392499014194 active site 392499014195 phosphorylation site [posttranslational modification] 392499014196 intermolecular recognition site; other site 392499014197 dimerization interface [polypeptide binding]; other site 392499014198 5-oxoprolinase; Region: PLN02666 392499014199 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 392499014200 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; pfam01968 392499014201 N-methylhydantoinase B/acetone carboxylase, alpha subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuB; COG0146 392499014202 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 392499014203 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 392499014204 DNA-binding site [nucleotide binding]; DNA binding site 392499014205 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 392499014206 pyridoxal 5'-phosphate binding site [chemical binding]; other site 392499014207 homodimer interface [polypeptide binding]; other site 392499014208 catalytic residue [active] 392499014209 Prokaryotic cytochrome b561; Region: Ni_hydr_CYTB; pfam01292 392499014210 Cytochrome b(N-terminal)/b6/petB; Region: Cytochrom_B_N; pfam00033 392499014211 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 392499014212 Moco binding site; other site 392499014213 Sulfite oxidase and related enzymes [General function prediction only]; Region: COG2041 392499014214 metal coordination site [ion binding]; other site 392499014215 DNA-binding transcriptional activator FeaR; Provisional; Region: PRK09685 392499014216 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 392499014217 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 392499014218 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 392499014219 N-terminal plug; other site 392499014220 ligand-binding site [chemical binding]; other site 392499014221 Histone deacetylases and histone-like deacetylases, classII; Region: HDAC_classII_1; cd09996 392499014222 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 392499014223 active site 392499014224 Zn binding site [ion binding]; other site 392499014225 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 392499014226 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 392499014227 N-terminal plug; other site 392499014228 ligand-binding site [chemical binding]; other site 392499014229 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 392499014230 classical (c) SDRs; Region: SDR_c; cd05233 392499014231 NAD(P) binding site [chemical binding]; other site 392499014232 active site 392499014233 ethanolamine permease; Region: 2A0305; TIGR00908 392499014234 4-aminobutyrate aminotransferase and related aminotransferases [Amino acid transport and metabolism]; Region: GabT; COG0160 392499014235 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 392499014236 inhibitor-cofactor binding pocket; inhibition site 392499014237 pyridoxal 5'-phosphate binding site [chemical binding]; other site 392499014238 catalytic residue [active] 392499014239 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 392499014240 Phosphotransferase enzyme family; Region: APH; pfam01636 392499014241 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 392499014242 substrate binding site [chemical binding]; other site 392499014243 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 392499014244 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 392499014245 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 392499014246 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 392499014247 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 392499014248 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 392499014249 N-terminal plug; other site 392499014250 ligand-binding site [chemical binding]; other site 392499014251 Autoinducer binding domain; Region: Autoind_bind; pfam03472 392499014252 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 392499014253 DNA binding residues [nucleotide binding] 392499014254 dimerization interface [polypeptide binding]; other site 392499014255 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 392499014256 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 392499014257 Bacterial transcriptional repressor; Region: TetR_C_6; pfam13977 392499014258 Methylamine dehydrogenase heavy chain (MADH); Region: Me-amine-dh_H; pfam06433 392499014259 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 392499014260 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 392499014261 Methylamine dehydrogenase, L chain; Region: Me-amine-dh_L; cl03812 392499014262 Cytochrome c; Region: Cytochrom_C; pfam00034 392499014263 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 392499014264 Streptomyces aureofaciens putative aldehyde dehydrogenase AldA (AAD23400)-like; Region: ALDH_AldA-AAD23400; cd07106 392499014265 NAD(P) binding site [chemical binding]; other site 392499014266 catalytic residues [active] 392499014267 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 392499014268 Medium-chain acyl-CoA synthetase (MACS or ACSM); Region: MACS_like; cd05972 392499014269 active site 392499014270 acyl-activating enzyme (AAE) consensus motif; other site 392499014271 putative CoA binding site [chemical binding]; other site 392499014272 AMP binding site [chemical binding]; other site 392499014273 AMP-binding domain protein; Validated; Region: PRK08315 392499014274 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 392499014275 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_2; cd05917 392499014276 acyl-activating enzyme (AAE) consensus motif; other site 392499014277 putative AMP binding site [chemical binding]; other site 392499014278 putative active site [active] 392499014279 putative CoA binding site [chemical binding]; other site 392499014280 PEP-CTERM motif; Region: VPEP; pfam07589 392499014281 Protein of unknown function, DUF486; Region: DUF486; cl01236 392499014282 Protease HslV and the ATPase/chaperone HslU are part of an ATP-dependent proteolytic system that is the prokaryotic homolog of the proteasome. HslV is a dimer of hexamers (a dodecamer) that forms a central proteolytic chamber with active sites on the...; Region: protease_HslV; cd01913 392499014283 active site 392499014284 HslU subunit interaction site [polypeptide binding]; other site 392499014285 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 392499014286 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 392499014287 Walker A motif; other site 392499014288 ATP binding site [chemical binding]; other site 392499014289 AAA domain (Cdc48 subfamily); Region: AAA_2; pfam07724 392499014290 Walker B motif; other site 392499014291 arginine finger; other site 392499014292 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 392499014293 Arsenate Reductase (ArsC) family, Yffb subfamily; Yffb is an uncharacterized bacterial protein encoded by the yffb gene, related to the thioredoxin-fold arsenic reductases, ArsC. The structure of Yffb and the conservation of the catalytic cysteine...; Region: ArsC_Yffb; cd03035 392499014294 ArsC family; Region: ArsC; pfam03960 392499014295 putative catalytic residues [active] 392499014296 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 392499014297 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 392499014298 metal binding site [ion binding]; metal-binding site 392499014299 active site 392499014300 I-site; other site 392499014301 phosphoribosylglycinamide formyltransferase 2; Region: purT; TIGR01142 392499014302 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 392499014303 ATP-grasp domain; Region: ATP-grasp; pfam02222 392499014304 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 392499014305 homotrimer interaction site [polypeptide binding]; other site 392499014306 putative active site [active] 392499014307 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 392499014308 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 392499014309 active site 392499014310 catalytic tetrad [active] 392499014311 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 392499014312 Protein of unknown function (DUF3237); Region: DUF3237; cl07905 392499014313 Uncharacterized conserved protein [Function unknown]; Region: COG2128 392499014314 SnoaL-like domain; Region: SnoaL_4; pfam13577 392499014315 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 392499014316 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 392499014317 Bacterial protein of unknown function (DUF885); Region: DUF885; pfam05960 392499014318 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 392499014319 Amidase; Region: Amidase; cl11426 392499014320 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 392499014321 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 392499014322 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 392499014323 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 392499014324 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 392499014325 active site 392499014326 phosphorylation site [posttranslational modification] 392499014327 intermolecular recognition site; other site 392499014328 Predicted integral membrane protein (DUF2282); Region: DUF2282; cl02366 392499014329 hypothetical protein; Provisional; Region: PRK05409 392499014330 Uncharacterized protein conserved in bacteria (DUF2063); Region: DUF2063; pfam09836 392499014331 Protein of unknown function (DUF808); Region: DUF808; cl01002 392499014332 Ion channel; Region: Ion_trans_2; pfam07885 392499014333 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 392499014334 TrkA-N domain; Region: TrkA_N; pfam02254 392499014335 Uncharacterized protein conserved in bacteria (DUF2093); Region: DUF2093; pfam09866 392499014336 Uncharacterized FAD-dependent dehydrogenases [General function prediction only]; Region: COG2509 392499014337 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 392499014338 L,D-transpeptidase catalytic domain; Region: YkuD_2; pfam13645 392499014339 Uncharacterized conserved protein [Function unknown]; Region: COG3025 392499014340 Uncharacterized subgroup of the CYTH-like superfamily having an associated CHAD domain; Region: CYTH-like_Pase_CHAD; cd07756 392499014341 putative active site [active] 392499014342 putative metal binding residues [ion binding]; other site 392499014343 signature motif; other site 392499014344 putative triphosphate binding site [ion binding]; other site 392499014345 CHAD domain; Region: CHAD; pfam05235 392499014346 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 392499014347 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 392499014348 A family including aminopeptidase P, aminopeptidase M, and prolidase. Also known as metallopeptidase family M24. This family of enzymes is able to cleave amido-, imido- and amidino-containing bonds. Members exibit relatively narrow substrate specificity...; Region: APP_MetAP; cl00279 392499014349 active site 392499014350 proline iminopeptidase, Neisseria-type subfamily; Region: pro_imino_pep_1; TIGR01249 392499014351 amino acid transporter; Region: 2A0306; TIGR00909 392499014352 C-terminus of AA_permease; Region: AA_permease_C; pfam13906 392499014353 PilZ domain; Region: PilZ; pfam07238 392499014354 Transmembrane secretion effector; Region: MFS_3; pfam05977 392499014355 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 392499014356 putative substrate translocation pore; other site 392499014357 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 392499014358 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 392499014359 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 392499014360 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 392499014361 Walker A/P-loop; other site 392499014362 ATP binding site [chemical binding]; other site 392499014363 Q-loop/lid; other site 392499014364 ABC transporter signature motif; other site 392499014365 Walker B; other site 392499014366 D-loop; other site 392499014367 H-loop/switch region; other site 392499014368 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 392499014369 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 392499014370 dimer interface [polypeptide binding]; other site 392499014371 conserved gate region; other site 392499014372 putative PBP binding loops; other site 392499014373 ABC-ATPase subunit interface; other site 392499014374 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 392499014375 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 392499014376 N-terminal domain of molybdenum-binding protein [General function prediction only]; Region: ModE; COG2005 392499014377 serine O-acetyltransferase; Region: cysE; TIGR01172 392499014378 Serine acetyltransferase (SAT): SAT catalyzes the CoA-dependent acetylation of the side chain hydroxyl group of L-serine to form O-acetylserine, as the first step of a two-step biosynthetic pathway in bacteria and plants leading to the formation of...; Region: LbH_SAT; cd03354 392499014379 trimer interface [polypeptide binding]; other site 392499014380 active site 392499014381 substrate binding site [chemical binding]; other site 392499014382 CoA binding site [chemical binding]; other site 392499014383 Serine hydrolase; Region: Ser_hydrolase; pfam06821 392499014384 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 392499014385 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 392499014386 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 392499014387 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 392499014388 Protein of unknown function (DUF3617); Region: DUF3617; pfam12276 392499014389 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cl00080 392499014390 dimer interface [polypeptide binding]; other site 392499014391 phosphorylation site [posttranslational modification] 392499014392 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 392499014393 ATP binding site [chemical binding]; other site 392499014394 Mg2+ binding site [ion binding]; other site 392499014395 G-X-G motif; other site 392499014396 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 392499014397 active site 392499014398 phosphorylation site [posttranslational modification] 392499014399 intermolecular recognition site; other site 392499014400 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 392499014401 nudix motif; other site 392499014402 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 392499014403 PAS domain; Region: PAS_9; pfam13426 392499014404 putative active site [active] 392499014405 heme pocket [chemical binding]; other site 392499014406 PAS domain S-box; Region: sensory_box; TIGR00229 392499014407 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 392499014408 putative active site [active] 392499014409 heme pocket [chemical binding]; other site 392499014410 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 392499014411 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 392499014412 dimer interface [polypeptide binding]; other site 392499014413 phosphorylation site [posttranslational modification] 392499014414 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 392499014415 ATP binding site [chemical binding]; other site 392499014416 G-X-G motif; other site 392499014417 Response regulator receiver domain; Region: Response_reg; pfam00072 392499014418 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 392499014419 active site 392499014420 phosphorylation site [posttranslational modification] 392499014421 intermolecular recognition site; other site 392499014422 dimerization interface [polypeptide binding]; other site 392499014423 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG5610 392499014424 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 392499014425 cell wall biosynthesis protein ScdA; Provisional; Region: PRK13276 392499014426 Bacteriophage terminase large (ATPase) subunit and inactivated derivatives [General function prediction only]; Region: COG5565 392499014427 Terminase-like family; Region: Terminase_6; pfam03237 392499014428 Protein of unknown function (DUF4237); Region: DUF4237; pfam14021 392499014429 P22 coat protein - gene protein 5; Region: P22_CoatProtein; pfam11651 392499014430 Domain of unknown function (DUF955); Region: DUF955; cl01076 392499014431 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 392499014432 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 392499014433 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 392499014434 Chaperone of endosialidase; Region: Peptidase_S74; pfam13884 392499014435 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 392499014436 amidase catalytic site [active] 392499014437 Zn binding residues [ion binding]; other site 392499014438 substrate binding site [chemical binding]; other site 392499014439 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 392499014440 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 392499014441 RNA binding surface [nucleotide binding]; other site 392499014442 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 392499014443 S-adenosylmethionine binding site [chemical binding]; other site 392499014444 TspO/MBR family; Region: TspO_MBR; pfam03073 392499014445 Membrane fusogenic activity; Region: BMFP; pfam04380 392499014446 Putative bacterial sensory transduction regulator; Region: YbjN; cl15834 392499014447 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 392499014448 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 392499014449 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 392499014450 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 392499014451 Probable Catalytic site; other site 392499014452 metal-binding site 392499014453 adenylosuccinate lyase; Provisional; Region: PRK07492 392499014454 Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360 392499014455 tetramer interface [polypeptide binding]; other site 392499014456 active site 392499014457 hypothetical protein; Reviewed; Region: PRK00024 392499014458 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 392499014459 MPN+ (JAMM) motif; other site 392499014460 Zinc-binding site [ion binding]; other site 392499014461 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 392499014462 KpsF-like protein. KpsF is an arabinose-5-phosphate isomerase which contains SIS (Sugar ISomerase) domains. SIS domains are found in many phosphosugar isomerases and phosphosugar binding proteins. KpsF catalyzes the reversible reaction of ribulose...; Region: SIS_Kpsf; cd05014 392499014463 putative active site [active] 392499014464 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with KpsF/GutQ domains in the API [A5P (D-arabinose 5-phosphate) isomerase] protein. These APIs catalyze the conversion of the pentose pathway...; Region: CBS_pair_KpsF_GutQ_assoc; cd04604 392499014465 Dicarboxylate transport; Region: DctA-YdbH; pfam11739 392499014466 YnbE-like lipoprotein; Region: Lipoprotein_19; pfam13617 392499014467 Protein of unknown function (DUF1318); Region: DUF1318; pfam07027 392499014468 Putative F0F1-ATPase subunit (ATPase_gene1); Region: ATPase_gene1; pfam09527 392499014469 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 392499014470 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 392499014471 ATP synthase subunit C; Region: ATP-synt_C; cl00466 392499014472 Plant ATP synthase F0; Region: YMF19; pfam02326 392499014473 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4312 392499014474 Transcriptional regulators [Transcription]; Region: MarR; COG1846 392499014475 MarR family; Region: MarR_2; pfam12802 392499014476 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 392499014477 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 392499014478 GIY-YIG motif/motif A; other site 392499014479 active site 392499014480 catalytic site [active] 392499014481 putative DNA binding site [nucleotide binding]; other site 392499014482 metal binding site [ion binding]; metal-binding site 392499014483 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 392499014484 Putative catalytic domain of uncharacterized bacterial proteins from the carbohydrate esterase 4 superfamily; Region: CE4_u9; cd10933 392499014485 putative active site [active] 392499014486 putative catalytic site [active] 392499014487 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 392499014488 Recombination protein O N terminal; Region: RecO_N; pfam11967 392499014489 Recombination protein O C terminal; Region: RecO_C; pfam02565 392499014490 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 392499014491 tartrate dehydrogenase; Region: TTC; TIGR02089 392499014492 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 392499014493 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 392499014494 active site 392499014495 phosphorylation site [posttranslational modification] 392499014496 intermolecular recognition site; other site 392499014497 dimerization interface [polypeptide binding]; other site 392499014498 LytTr DNA-binding domain; Region: LytTR; smart00850 392499014499 Histidine kinase; Region: His_kinase; pfam06580 392499014500 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 392499014501 ATP binding site [chemical binding]; other site 392499014502 Mg2+ binding site [ion binding]; other site 392499014503 G-X-G motif; other site 392499014504 Alpha-Mannosidase Binding Domain of Atg19/34; Region: ABD; cl15429 392499014505 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 392499014506 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 392499014507 S-adenosylmethionine binding site [chemical binding]; other site 392499014508 Replication protein A, class 2b aminoacyl-tRNA synthetases, and related proteins with oligonucleotide/oligosaccharide (OB) fold; Region: RPA_2b-aaRSs_OBF_like; cl09930 392499014509 generic binding surface II; other site 392499014510 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 392499014511 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 392499014512 S-adenosylmethionine binding site [chemical binding]; other site 392499014513 aspartate kinase; Reviewed; Region: PRK06635 392499014514 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 392499014515 putative nucleotide binding site [chemical binding]; other site 392499014516 putative catalytic residues [active] 392499014517 putative Mg ion binding site [ion binding]; other site 392499014518 putative aspartate binding site [chemical binding]; other site 392499014519 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 392499014520 putative allosteric regulatory site; other site 392499014521 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 392499014522 putative allosteric regulatory residue; other site 392499014523 putative enoyl-[acyl-carrier-protein] reductase II; Region: enACPred_II; TIGR03151 392499014524 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 392499014525 FMN binding site [chemical binding]; other site 392499014526 substrate binding site [chemical binding]; other site 392499014527 putative catalytic residue [active] 392499014528 Signal transduction protein containing GAF and PtsI domains [Signal transduction mechanisms]; Region: PtsP; COG3605 392499014529 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 392499014530 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 392499014531 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 392499014532 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 392499014533 Helix-turn-helix domain; Region: HTH_25; pfam13413 392499014534 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 392499014535 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 392499014536 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 392499014537 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 392499014538 Ligand Binding Site [chemical binding]; other site 392499014539 FtsH Extracellular; Region: FtsH_ext; pfam06480 392499014540 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 392499014541 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 392499014542 Walker A motif; other site 392499014543 ATP binding site [chemical binding]; other site 392499014544 Walker B motif; other site 392499014545 arginine finger; other site 392499014546 Peptidase family M41; Region: Peptidase_M41; pfam01434 392499014547 Transcriptional regulators [Transcription]; Region: MarR; COG1846 392499014548 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 392499014549 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 392499014550 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 392499014551 HlyD family secretion protein; Region: HlyD_3; pfam13437 392499014552 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 392499014553 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 392499014554 putative substrate translocation pore; other site 392499014555 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 392499014556 Putative glycosyl/glycerophosphate transferases involved in teichoic acid biosynthesis TagF/TagB/EpsJ/RodC [Cell envelope biogenesis, outer membrane]; Region: TagB; COG1887 392499014557 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 392499014558 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 392499014559 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 392499014560 active site 392499014561 phosphorylation site [posttranslational modification] 392499014562 intermolecular recognition site; other site 392499014563 dimerization interface [polypeptide binding]; other site 392499014564 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 392499014565 DNA binding site [nucleotide binding] 392499014566 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 392499014567 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 392499014568 dimerization interface [polypeptide binding]; other site 392499014569 His Kinase A (phospho-acceptor) domain; Region: HisKA; pfam00512 392499014570 dimer interface [polypeptide binding]; other site 392499014571 phosphorylation site [posttranslational modification] 392499014572 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 392499014573 ATP binding site [chemical binding]; other site 392499014574 Mg2+ binding site [ion binding]; other site 392499014575 G-X-G motif; other site 392499014576 choline dehydrogenase; Validated; Region: PRK02106 392499014577 lycopene cyclase; Region: lycopene_cycl; TIGR01789 392499014578 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 392499014579 Methyltransferase domain; Region: Methyltransf_23; pfam13489 392499014580 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 392499014581 S-adenosylmethionine binding site [chemical binding]; other site 392499014582 Uncharacterized conserved protein [Function unknown]; Region: LemA; COG1704 392499014583 Predicted membrane protein (DUF2207); Region: DUF2207; pfam09972 392499014584 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 392499014585 ExoA is involved in the biosynthesis of succinoglycan; Region: Succinoglycan_BP_ExoA; cd02525 392499014586 Ligand binding site; other site 392499014587 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 392499014588 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 392499014589 Glycosyl transferase family 2; Region: Glycos_transf_2; pfam00535 392499014590 active site 392499014591 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 392499014592 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_tuaB_like; cd13127 392499014593 Uncharacterized protein involved in exopolysaccharide biosynthesis [Cell envelope biogenesis, outer membrane]; Region: GumC; COG3206 392499014594 Chain length determinant protein; Region: Wzz; pfam02706 392499014595 capsular exopolysaccharide family; Region: eps_fam; TIGR01007 392499014596 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 392499014597 Uncharacterized protein conserved in bacteria (DUF2320); Region: DUF2320; pfam10082 392499014598 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 392499014599 O-Antigen ligase; Region: Wzy_C; pfam04932 392499014600 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 392499014601 putative polysaccharide export protein, PEP-CTERM sytem-associated; Region: pepcterm_export; TIGR03027 392499014602 SLBB domain; Region: SLBB; pfam10531 392499014603 exopolysaccharide biosynthesis polyprenyl glycosylphosphotransferase; Region: EPS_sugtrans; TIGR03025 392499014604 Bacterial sugar transferase; Region: Bac_transf; pfam02397 392499014605 Laminarinase, member of the glycosyl hydrolase family 16; Region: GH16_laminarinase_like; cd08023 392499014606 active site 392499014607 catalytic residues [active] 392499014608 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 392499014609 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 392499014610 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 392499014611 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 392499014612 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 392499014613 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 392499014614 active site 392499014615 Glycosyl transferases group 1; Region: Glyco_trans_1_4; pfam13692 392499014616 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 392499014617 active site 392499014618 metal binding site [ion binding]; metal-binding site 392499014619 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 392499014620 extended (e) SDRs; Region: SDR_e; cd08946 392499014621 NAD(P) binding site [chemical binding]; other site 392499014622 active site 392499014623 substrate binding site [chemical binding]; other site 392499014624 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 392499014625 G1P_cytidylyltransferase catalyzes the production of CDP-D-Glucose; Region: G1P_cytidylyltransferase; cd02524 392499014626 substrate binding site; other site 392499014627 Predicted homoserine dehydrogenase [Amino acid transport and metabolism]; Region: COG4091 392499014628 SAF domain of putative dehydrogenases or oxidoreductases; Region: SAF_DH_OX_like; cd11616 392499014629 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: dTDP_sugar_isom; pfam00908 392499014630 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 392499014631 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_b; cd04185 392499014632 Probable Catalytic site; other site 392499014633 hydroxyglutarate oxidase; Provisional; Region: PRK11728 392499014634 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 392499014635 active site 392499014636 Uncharacterized conserved protein [Function unknown]; Region: COG5663 392499014637 Coenzyme PQQ synthesis protein D (PqqD); Region: PqqD; cl05126 392499014638 Asparagine synthase (glutamine-hydrolyzing) [Amino acid transport and metabolism]; Region: AsnB; COG0367 392499014639 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 392499014640 active site 392499014641 dimer interface [polypeptide binding]; other site 392499014642 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 392499014643 Ligand Binding Site [chemical binding]; other site 392499014644 Molecular Tunnel; other site 392499014645 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 392499014646 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 392499014647 Walker A/P-loop; other site 392499014648 ATP binding site [chemical binding]; other site 392499014649 Q-loop/lid; other site 392499014650 ABC transporter signature motif; other site 392499014651 Walker B; other site 392499014652 D-loop; other site 392499014653 H-loop/switch region; other site 392499014654 Laminarinase, member of the glycosyl hydrolase family 16; Region: GH16_laminarinase_like; cd08023 392499014655 active site 392499014656 catalytic residues [active] 392499014657 RTX toxins and related Ca2+-binding proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2931 392499014658 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 392499014659 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 392499014660 glutaminase active site [active] 392499014661 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 392499014662 dimer interface [polypeptide binding]; other site 392499014663 active site 392499014664 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 392499014665 dimer interface [polypeptide binding]; other site 392499014666 active site 392499014667 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK14353 392499014668 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 392499014669 Substrate binding site; other site 392499014670 Mg++ binding site; other site 392499014671 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 392499014672 active site 392499014673 substrate binding site [chemical binding]; other site 392499014674 CoA binding site [chemical binding]; other site 392499014675 2-phosphoglycolate phosphatase, prokaryotic; Region: PGP_bact; TIGR01449 392499014676 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 392499014677 motif II; other site 392499014678 Methyltransferase domain; Region: Methyltransf_23; pfam13489 392499014679 Methyltransferase domain; Region: Methyltransf_12; pfam08242 392499014680 Methyltransferase domain; Region: Methyltransf_23; pfam13489 392499014681 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 392499014682 S-adenosylmethionine binding site [chemical binding]; other site 392499014683 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 392499014684 Helix-turn-helix domain; Region: HTH_18; pfam12833 392499014685 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 392499014686 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 392499014687 S-adenosylmethionine binding site [chemical binding]; other site 392499014688 Cytochrome P450; Region: p450; cl12078 392499014689 Protein required for attachment to host cells; Region: Host_attach; cl02398 392499014690 DNA gyrase subunit A; Validated; Region: PRK05560 392499014691 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 392499014692 CAP-like domain; other site 392499014693 active site 392499014694 primary dimer interface [polypeptide binding]; other site 392499014695 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 392499014696 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 392499014697 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 392499014698 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 392499014699 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 392499014700 Protein of unknown function (DUF328); Region: DUF328; pfam03883 392499014701 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 392499014702 TPR motif; other site 392499014703 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 392499014704 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 392499014705 putative DNA binding site [nucleotide binding]; other site 392499014706 putative Zn2+ binding site [ion binding]; other site 392499014707 AsnC family; Region: AsnC_trans_reg; pfam01037 392499014708 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 392499014709 dimer interface [polypeptide binding]; other site 392499014710 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 392499014711 phosphorylation site [posttranslational modification] 392499014712 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 392499014713 Predicted flavoprotein [General function prediction only]; Region: COG0431 392499014714 Pirin-related protein [General function prediction only]; Region: COG1741 392499014715 Pirin; Region: Pirin; pfam02678 392499014716 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 392499014717 Predicted acetyltransferase [General function prediction only]; Region: COG2388 392499014718 Isochorismatase family; Region: Isochorismatase; pfam00857 392499014719 YcaC related amidohydrolases; E.coli YcaC is an homooctameric hydrolase with unknown specificity. Despite its weak sequence similarity, it is structurally related to other amidohydrolases and shares conserved active site residues with them; Region: YcaC_related; cd01012 392499014720 catalytic triad [active] 392499014721 dimer interface [polypeptide binding]; other site 392499014722 conserved cis-peptide bond; other site 392499014723 dimethylhistidine N-methyltransferase; Region: egtD_ergothio; TIGR03438 392499014724 Uncharacterized conserved protein (DUF2260); Region: DUF2260; pfam10017 392499014725 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 392499014726 RNA/DNA hybrid binding site [nucleotide binding]; other site 392499014727 active site 392499014728 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 392499014729 DNA methylase; Region: N6_N4_Mtase; pfam01555 392499014730 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 392499014731 dihydropteroate synthase; Region: DHPS; TIGR01496 392499014732 substrate binding pocket [chemical binding]; other site 392499014733 dimer interface [polypeptide binding]; other site 392499014734 inhibitor binding site; inhibition site 392499014735 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 392499014736 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 392499014737 Mg2+ binding site [ion binding]; other site 392499014738 G-X-G motif; other site 392499014739 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 392499014740 anchoring element; other site 392499014741 dimer interface [polypeptide binding]; other site 392499014742 ATP binding site [chemical binding]; other site 392499014743 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 392499014744 active site 392499014745 metal binding site [ion binding]; metal-binding site 392499014746 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 392499014747 Peptidase inhibitor I78 family; Region: Inhibitor_I78; pfam11720 392499014748 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 392499014749 GcrA cell cycle regulator; Region: GcrA; cl11564 392499014750 ABC-2 type transporter; Region: ABC2_membrane; cl17235 392499014751 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 392499014752 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 392499014753 D-glycerate dehydrogenase/hydroxypyruvate reductase (GDH); Region: GDH; cd05301 392499014754 dimerization interface [polypeptide binding]; other site 392499014755 ligand binding site [chemical binding]; other site 392499014756 NADP binding site [chemical binding]; other site 392499014757 catalytic site [active] 392499014758 Bacterial SH3 domain; Region: SH3_4; pfam06347 392499014759 Bacterial SH3 domain; Region: SH3_4; pfam06347 392499014760 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 392499014761 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 392499014762 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 392499014763 dimer interface [polypeptide binding]; other site 392499014764 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 392499014765 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 392499014766 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 392499014767 Putative 2OG-Fe(II) oxygenase; Region: 2OG-FeII_Oxy_5; cl17879 392499014768 Tricorn protease; serine protease family S41; Region: Peptidase_S41_TRI; cd07562 392499014769 Domain interface; other site 392499014770 Active site tetrad [active] 392499014771 Peptide binding site; other site 392499014772 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 392499014773 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 392499014774 23S rRNA interface [nucleotide binding]; other site 392499014775 L3 interface [polypeptide binding]; other site 392499014776 Cytochrome oxidase assembly protein; Region: COX15-CtaA; cl15852 392499014777 Uncharacterized protein required for cytochrome oxidase assembly [Posttranslational modification, protein turnover, chaperones]; Region: CtaA; COG1612 392499014778 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 392499014779 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 392499014780 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 392499014781 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 392499014782 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 392499014783 ferrochelatase; Reviewed; Region: hemH; PRK00035 392499014784 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 392499014785 C-terminal domain interface [polypeptide binding]; other site 392499014786 active site 392499014787 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 392499014788 active site 392499014789 N-terminal domain interface [polypeptide binding]; other site 392499014790 acetoacetyl-CoA reductase; Region: AcAcCoA_reduct; TIGR01829 392499014791 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 392499014792 NAD(P) binding site [chemical binding]; other site 392499014793 homotetramer interface [polypeptide binding]; other site 392499014794 homodimer interface [polypeptide binding]; other site 392499014795 active site 392499014796 Ribbon-helix-helix domain; Region: RHH_4; pfam13467 392499014797 CAAX protease self-immunity; Region: Abi; pfam02517 392499014798 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_5; cd07238 392499014799 dimer interface [polypeptide binding]; other site 392499014800 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 392499014801 Ferredoxin reductase (FNR), an FAD and NAD(P) binding protein, was intially identified as a chloroplast reductase activity, catalyzing the electron transfer from reduced iron-sulfur protein ferredoxin to NADP+ as the final step in the electron transport...; Region: FNR_like; cl06868 392499014802 FAD binding pocket [chemical binding]; other site 392499014803 conserved FAD binding motif [chemical binding]; other site 392499014804 phosphate binding motif [ion binding]; other site 392499014805 beta-alpha-beta structure motif; other site 392499014806 NAD binding pocket [chemical binding]; other site 392499014807 Bacterial NAD-glutamate dehydrogenase; Region: Bac_GDH; pfam05088 392499014808 Glutamate/Leucine/Phenylalanine/Valine dehydrogenase; Region: ELFV_dehydrog; smart00839 392499014809 Rubredoxin-like zinc ribbon domain (DUF35_N); Region: DUF35_N; pfam12172 392499014810 DUF35 OB-fold domain; Region: DUF35; pfam01796 392499014811 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 392499014812 lipid-transfer protein; Provisional; Region: PRK07855 392499014813 active site 392499014814 crotonobetaine/carnitine-CoA ligase; Provisional; Region: PRK06155 392499014815 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 392499014816 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_DitJ_like; cd05934 392499014817 acyl-activating enzyme (AAE) consensus motif; other site 392499014818 putative AMP binding site [chemical binding]; other site 392499014819 putative active site [active] 392499014820 putative CoA binding site [chemical binding]; other site 392499014821 L-Ala-D/L-Glu epimerase catalyzes the epimerization of L-Ala-D/L-Glu and other dipeptides. The genomic context and the substrate specificity of characterized members of this family from E.coli and B.subtilis indicates a possible role in the metabolism of...; Region: L-Ala-DL-Glu_epimerase; cd03319 392499014822 L-Ala-D/L-Glu epimerase; Provisional; Region: PRK15129 392499014823 active site 392499014824 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 392499014825 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 392499014826 non-specific DNA binding site [nucleotide binding]; other site 392499014827 salt bridge; other site 392499014828 sequence-specific DNA binding site [nucleotide binding]; other site 392499014829 Cupin domain; Region: Cupin_2; pfam07883 392499014830 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 392499014831 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 392499014832 N-terminal plug; other site 392499014833 ligand-binding site [chemical binding]; other site 392499014834 Beta-lactamase; Region: Beta-lactamase; pfam00144 392499014835 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 392499014836 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 392499014837 putative substrate translocation pore; other site 392499014838 Nitric oxide reductase large subunit [Inorganic ion transport and metabolism]; Region: NorB; COG3256 392499014839 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 392499014840 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 392499014841 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 392499014842 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 392499014843 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 392499014844 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 392499014845 N-terminal plug; other site 392499014846 ligand-binding site [chemical binding]; other site 392499014847 Ketosteroid isomerase homolog [Function unknown]; Region: COG4319 392499014848 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 392499014849 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 392499014850 [2Fe-2S] cluster binding site [ion binding]; other site 392499014851 C-terminal catalytic domain of GbcA (glycine betaine catabolism A) from Pseudomonas aeruginosa PAO1 and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_GbcA-like; cd08884 392499014852 putative alpha subunit interface [polypeptide binding]; other site 392499014853 putative active site [active] 392499014854 putative substrate binding site [chemical binding]; other site 392499014855 Fe binding site [ion binding]; other site 392499014856 Ketosteroid isomerase-related protein [General function prediction only]; Region: COG3631 392499014857 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 392499014858 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 392499014859 Bacterial transcriptional repressor; Region: TetR_C_6; pfam13977 392499014860 Tyrosine phosphatase family; Region: Y_phosphatase3; pfam13350 392499014861 Tyrosine phosphatase family C-terminal region; Region: Y_phosphatase3C; pfam13348 392499014862 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 392499014863 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 392499014864 N-terminal plug; other site 392499014865 ligand-binding site [chemical binding]; other site 392499014866 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 392499014867 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 392499014868 active site 392499014869 phosphorylation site [posttranslational modification] 392499014870 intermolecular recognition site; other site 392499014871 dimerization interface [polypeptide binding]; other site 392499014872 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 392499014873 dimer interface [polypeptide binding]; other site 392499014874 putative CheW interface [polypeptide binding]; other site 392499014875 HutD; Region: HutD; pfam05962 392499014876 urocanate hydratase; Provisional; Region: PRK05414 392499014877 N-formylglutamate amidohydrolase; Region: FGase; cl01522 392499014878 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 392499014879 active sites [active] 392499014880 tetramer interface [polypeptide binding]; other site 392499014881 imidazolonepropionase; Validated; Region: PRK09356 392499014882 Imidazolonepropionase/imidazolone-5-propionate hydrolase (Imidazolone-5PH) catalyzes the third step in the histidine degradation pathway, the hydrolysis of (S)-3-(5-oxo-4,5-dihydro-3H-imidazol-4-yl)propanoate to N-formimidoyl-L-glutamate. In bacteria; Region: Imidazolone-5PH; cd01296 392499014883 active site 392499014884 N-formimino-L-glutamate deiminase; Validated; Region: PRK09229 392499014885 Metallo-dependent hydrolases, subgroup D is part of the superfamily of metallo-dependent hydrolases, a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the...; Region: Met_dep_hydrolase_E; cd01313 392499014886 active site 392499014887 histidine utilization repressor, proteobacterial; Region: his_ut_repres; TIGR02018 392499014888 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 392499014889 DNA-binding site [nucleotide binding]; DNA binding site 392499014890 UTRA domain; Region: UTRA; pfam07702 392499014891 Predicted metalloprotease [General function prediction only]; Region: COG2321 392499014892 Putative neutral zinc metallopeptidase; Region: Zn_peptidase; pfam04228 392499014893 L-lactate dehydrogenase; Provisional; Region: lldD; PRK11197 392499014894 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 392499014895 phosphate binding site [ion binding]; other site 392499014896 Nitroreductase-like family 2. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes, nitrofurans and...; Region: Nitroreductase_2; cd02138 392499014897 putative FMN binding site [chemical binding]; other site 392499014898 Bacterial protein of unknown function (DUF885); Region: DUF885; pfam05960 392499014899 N-formylglutamate amidohydrolase; Region: FGase; cl01522 392499014900 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 392499014901 DNA-binding site [nucleotide binding]; DNA binding site 392499014902 RNA-binding motif; other site 392499014903 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 392499014904 rRNA binding site [nucleotide binding]; other site 392499014905 predicted 30S ribosome binding site; other site 392499014906 Etoposide-induced protein 2.4 (EI24); Region: EI24; pfam07264 392499014907 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 392499014908 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 392499014909 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 392499014910 dimerization interface [polypeptide binding]; other site 392499014911 substrate binding pocket [chemical binding]; other site 392499014912 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 392499014913 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 392499014914 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 392499014915 HlyD family secretion protein; Region: HlyD_3; pfam13437 392499014916 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 392499014917 Peptidase family M48; Region: Peptidase_M48; cl12018 392499014918 Tetratricopeptide repeat; Region: TPR_9; pfam13371 392499014919 dihydroxy-acid dehydratase; Provisional; Region: PRK12448 392499014920 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 392499014921 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 392499014922 The C-terminal substrate binding domain of LysR-type transcriptional regulator, IlvR, involved in the biosynthesis of isoleucine, leucine and valine; contains type 2 periplasmic binding fold; Region: PBP2_IlvR; cd08453 392499014923 putative dimerization interface [polypeptide binding]; other site 392499014924 putative substrate binding pocket [chemical binding]; other site 392499014925 Uncharacterized conserved protein [Function unknown]; Region: COG0062 392499014926 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 392499014927 putative substrate binding site [chemical binding]; other site 392499014928 putative ATP binding site [chemical binding]; other site 392499014929 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 392499014930 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 392499014931 S-adenosylmethionine binding site [chemical binding]; other site 392499014932 MAPEG family; Region: MAPEG; pfam01124 392499014933 Sensors of blue-light using FAD; Region: BLUF; pfam04940 392499014934 deoxyhypusine synthase-like protein; Provisional; Region: PRK02492 392499014935 deoxyhypusine synthase; Region: dhys; TIGR00321 392499014936 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 392499014937 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 392499014938 catalytic residue [active] 392499014939 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 392499014940 Bacterial members of the UDP-N-Acetylglucosamine (GlcNAc) 2-Epimerase family are known to catalyze the reversible interconversion of UDP-GlcNAc and UDP-N-acetylmannosamine (UDP-ManNAc). The enzyme serves to produce an activated form of ManNAc residues; Region: GT1_UDP-GlcNAc_2-Epimerase; cd03786 392499014941 active site 392499014942 UDP-N-acetylglucosamine 2-epimerase; Region: Epimerase_2; pfam02350 392499014943 homodimer interface [polypeptide binding]; other site 392499014944 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 392499014945 PIN domain of the VapC-like UPF0110 protein Mb0640 and homologs; Region: PIN_UPF0110; cd09871 392499014946 putative active site [active] 392499014947 Acyltransferase family; Region: Acyl_transf_3; pfam01757 392499014948 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 392499014949 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 392499014950 Fumarate hydratase (Fumerase); Region: Fumerase; pfam05681 392499014951 Fumarase C-terminus; Region: Fumerase_C; pfam05683 392499014952 GIY-YIG domain of uncharacterized hypothetical protein found in bacteria; Region: GIY-YIG_unchar_3; cd10448 392499014953 GIY-YIG motif/motif A; other site 392499014954 putative active site [active] 392499014955 putative metal binding site [ion binding]; other site 392499014956 NRDE protein; Region: NRDE; cl01315 392499014957 alpha-ketoglutarate transporter; Provisional; Region: PRK10406 392499014958 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 392499014959 putative substrate translocation pore; other site 392499014960 N-acetyltransferase; Region: Acetyltransf_2; pfam00797 392499014961 excinuclease ABC subunit B; Provisional; Region: PRK05298 392499014962 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 392499014963 ATP binding site [chemical binding]; other site 392499014964 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 392499014965 nucleotide binding region [chemical binding]; other site 392499014966 ATP-binding site [chemical binding]; other site 392499014967 Ultra-violet resistance protein B; Region: UvrB; pfam12344 392499014968 UvrB/uvrC motif; Region: UVR; pfam02151 392499014969 Protein of unknown function (DUF1810); Region: DUF1810; pfam08837 392499014970 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 392499014971 Putative amidotransferase; Region: DUF4066; pfam13278 392499014972 conserved cys residue [active] 392499014973 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 392499014974 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 392499014975 GDP-binding site [chemical binding]; other site 392499014976 ACT binding site; other site 392499014977 IMP binding site; other site 392499014978 Histidyl-tRNA synthetase; Region: tRNA-synt_His; pfam13393 392499014979 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 392499014980 dimer interface [polypeptide binding]; other site 392499014981 motif 1; other site 392499014982 active site 392499014983 motif 2; other site 392499014984 motif 3; other site 392499014985 GIY-YIG domain of uncharacterized hypothetical protein found in bacteria; Region: GIY-YIG_unchar_3; cd10448 392499014986 GIY-YIG motif/motif A; other site 392499014987 putative active site [active] 392499014988 putative metal binding site [ion binding]; other site 392499014989 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK13581 392499014990 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_4; cd12173 392499014991 ligand binding site [chemical binding]; other site 392499014992 NAD binding site [chemical binding]; other site 392499014993 dimerization interface [polypeptide binding]; other site 392499014994 catalytic site [active] 392499014995 C-terminal ACT (regulatory) domain of D-3-phosphoglycerate dehydrogenase (3PGDH); Region: ACT_3PGDH-xct; cd04902 392499014996 putative L-serine binding site [chemical binding]; other site 392499014997 Aspartate aminotransferase (AAT) superfamily (fold type I) of pyridoxal phosphate (PLP)-dependent enzymes. PLP combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the...; Region: AAT_I; cd01494 392499014998 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 392499014999 catalytic residue [active] 392499015000 Cytochrome c2 [Energy production and conversion]; Region: COG3474 392499015001 prephenate dehydratase; Provisional; Region: PRK11899 392499015002 Prephenate dehydratase; Region: PDT; pfam00800 392499015003 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 392499015004 putative L-Phe binding site [chemical binding]; other site 392499015005 NTP pyrophosphohydrolases containing a Zn-finger, probably nucleic-acid-binding [DNA replication, recombination, and repair]; Region: NPY1; COG2816 392499015006 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 392499015007 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 392499015008 putative NADH binding site [chemical binding]; other site 392499015009 putative active site [active] 392499015010 nudix motif; other site 392499015011 putative metal binding site [ion binding]; other site 392499015012 A/G-specific DNA glycosylase [DNA replication, recombination, and repair]; Region: MutY; COG1194 392499015013 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 392499015014 minor groove reading motif; other site 392499015015 helix-hairpin-helix signature motif; other site 392499015016 substrate binding pocket [chemical binding]; other site 392499015017 active site 392499015018 DNA glycosylase (MutY in bacteria and hMYH in humans) is responsible for repairing misread A*oxoG residues to C*G by removing the inappropriately paired adenine base from the DNA backbone. It belongs to the Nudix hydrolase superfamily and is important...; Region: DNA_Glycosylase_C; cd03431 392499015019 DNA binding and oxoG recognition site [nucleotide binding] 392499015020 Protein of unknown function (DUF721); Region: DUF721; cl02324 392499015021 Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: DsbG; COG1651 392499015022 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 392499015023 catalytic residues [active] 392499015024 Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: DsbG; COG1651 392499015025 Thioredoxin; Region: Thioredoxin_4; pfam13462 392499015026 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 392499015027 AAA domain; Region: AAA_23; pfam13476 392499015028 Walker A/P-loop; other site 392499015029 ATP binding site [chemical binding]; other site 392499015030 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 392499015031 ABC transporter signature motif; other site 392499015032 Walker B; other site 392499015033 D-loop; other site 392499015034 H-loop/switch region; other site 392499015035 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cl01053 392499015036 active site 392499015037 catalytic triad [active] 392499015038 oxyanion hole [active] 392499015039 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 392499015040 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 392499015041 N-terminal plug; other site 392499015042 ligand-binding site [chemical binding]; other site 392499015043 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 392499015044 ArsC family; Region: ArsC; pfam03960 392499015045 catalytic residues [active] 392499015046 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 392499015047 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 392499015048 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 392499015049 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 392499015050 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 392499015051 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 392499015052 carboxyltransferase (CT) interaction site; other site 392499015053 biotinylation site [posttranslational modification]; other site 392499015054 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 392499015055 Dehydroquinase class II; Region: DHquinase_II; pfam01220 392499015056 active site 392499015057 trimer interface [polypeptide binding]; other site 392499015058 dimer interface [polypeptide binding]; other site 392499015059 bifunctional sulfur carrier protein/thiazole synthase protein; Provisional; Region: PRK11840 392499015060 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 392499015061 thiS-thiF/thiG interaction site; other site 392499015062 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 392499015063 ThiS interaction site; other site 392499015064 putative active site [active] 392499015065 tetramer interface [polypeptide binding]; other site 392499015066 GAF domain; Region: GAF; pfam01590 392499015067 GAF domain; Region: GAF_2; pfam13185 392499015068 PAS domain S-box; Region: sensory_box; TIGR00229 392499015069 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 392499015070 putative active site [active] 392499015071 heme pocket [chemical binding]; other site 392499015072 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 392499015073 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 392499015074 metal binding site [ion binding]; metal-binding site 392499015075 active site 392499015076 I-site; other site 392499015077 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG3837 392499015078 Antibiotic biosynthesis monooxygenase; Region: ABM; pfam03992 392499015079 HAD superfamily, subfamily IIIB (Acid phosphatase); Region: Acid_phosphat_B; cl17236 392499015080 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 392499015081 Beta-lactamase; Region: Beta-lactamase; pfam00144 392499015082 isopropylmalate isomerase large subunit; Validated; Region: PRK05478 392499015083 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 392499015084 substrate binding site [chemical binding]; other site 392499015085 ligand binding site [chemical binding]; other site 392499015086 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 392499015087 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 392499015088 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 392499015089 hypothetical protein; Provisional; Region: PRK14812 392499015090 substrate binding site [chemical binding]; other site 392499015091 Domain of unknown function (DUF1476); Region: DUF1476; pfam07345 392499015092 Stress-induced morphogen (activity unknown) [Signal transduction mechanisms]; Region: BolA; COG0271 392499015093 Glutaredoxin (GRX) family, PKC-interacting cousin of TRX (PICOT)-like subfamily; composed of PICOT and GRX-PICOT-like proteins. The non-PICOT members of this family contain only the GRX-like domain, whereas PICOT contains an N-terminal TRX-like domain...; Region: GRX_PICOT_like; cd03028 392499015094 putative GSH binding site [chemical binding]; other site 392499015095 catalytic residues [active] 392499015096 glycerophosphodiester phosphodiesterase; Provisional; Region: glpQ; PRK11143 392499015097 Glycerophosphodiester phosphodiesterase domain of Streptomycin coelicolor (GlpQ1) and similar proteins; Region: GDPD_ScGlpQ1_like; cd08602 392499015098 putative active site [active] 392499015099 catalytic site [active] 392499015100 putative metal binding site [ion binding]; other site 392499015101 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 392499015102 quinolinate synthetase; Provisional; Region: PRK09375 392499015103 Nicotinate-nucleotide pyrophosphorylase [Coenzyme metabolism]; Region: NadC; COG0157 392499015104 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 392499015105 dimerization interface [polypeptide binding]; other site 392499015106 active site 392499015107 Ribonuclease T2 (RNase T2) is a widespread family of secreted RNases found in every organism examined thus far. This family includes RNase Rh, RNase MC1, RNase LE, and self-incompatibility RNases (S-RNases). Plant T2 RNases are expressed during leaf...; Region: RNase_T2_prok; cd01062 392499015108 B1 nucleotide binding pocket [chemical binding]; other site 392499015109 B2 nucleotide binding pocket [chemical binding]; other site 392499015110 CAS motifs; other site 392499015111 active site 392499015112 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 392499015113 FtsJ-like methyltransferase; Region: FtsJ; pfam01728 392499015114 exopolyphosphatase; Region: exo_poly_only; TIGR03706 392499015115 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 392499015116 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 392499015117 putative active site [active] 392499015118 heme pocket [chemical binding]; other site 392499015119 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 392499015120 dimerization interface [polypeptide binding]; other site 392499015121 DNA binding residues [nucleotide binding] 392499015122 Response regulator receiver domain; Region: Response_reg; pfam00072 392499015123 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 392499015124 active site 392499015125 phosphorylation site [posttranslational modification] 392499015126 intermolecular recognition site; other site 392499015127 dimerization interface [polypeptide binding]; other site 392499015128 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 392499015129 Glutathione S-transferase (GST) family, N-terminal domain; a large, diverse group of cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic...; Region: GST_N_family; cd00570 392499015130 C-terminal domain interface [polypeptide binding]; other site 392499015131 GSH binding site (G-site) [chemical binding]; other site 392499015132 dimer interface [polypeptide binding]; other site 392499015133 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cd00299 392499015134 N-terminal domain interface [polypeptide binding]; other site 392499015135 dimer interface [polypeptide binding]; other site 392499015136 substrate binding pocket (H-site) [chemical binding]; other site 392499015137 Acetylornithine deacetylase/Succinyl-diaminopimelate desuccinylase and related deacylases [Amino acid transport and metabolism]; Region: ArgE; COG0624 392499015138 M20 Peptidase Glutamate carboxypeptidase, a periplasmic enzyme; Region: M20_CPDG2; cd03885 392499015139 metal binding site [ion binding]; metal-binding site 392499015140 dimer interface [polypeptide binding]; other site 392499015141 helicase 45; Provisional; Region: PTZ00424 392499015142 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 392499015143 ATP binding site [chemical binding]; other site 392499015144 Mg++ binding site [ion binding]; other site 392499015145 motif III; other site 392499015146 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 392499015147 nucleotide binding region [chemical binding]; other site 392499015148 ATP-binding site [chemical binding]; other site 392499015149 hypothetical protein; Provisional; Region: PRK08912 392499015150 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 392499015151 pyridoxal 5'-phosphate binding site [chemical binding]; other site 392499015152 homodimer interface [polypeptide binding]; other site 392499015153 catalytic residue [active] 392499015154 CHASE3 domain; Region: CHASE3; pfam05227 392499015155 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 392499015156 dimer interface [polypeptide binding]; other site 392499015157 phosphorylation site [posttranslational modification] 392499015158 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 392499015159 ATP binding site [chemical binding]; other site 392499015160 Mg2+ binding site [ion binding]; other site 392499015161 G-X-G motif; other site 392499015162 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 392499015163 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 392499015164 active site 392499015165 phosphorylation site [posttranslational modification] 392499015166 intermolecular recognition site; other site 392499015167 dimerization interface [polypeptide binding]; other site 392499015168 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 392499015169 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 392499015170 nucleotide binding pocket [chemical binding]; other site 392499015171 K-X-D-G motif; other site 392499015172 catalytic site [active] 392499015173 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 392499015174 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 392499015175 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 392499015176 Dimer interface [polypeptide binding]; other site 392499015177 nitrobindin heme-binding domain; Region: nitrobindin; cd07828 392499015178 heme-binding site [chemical binding]; other site 392499015179 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 392499015180 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 392499015181 Walker A/P-loop; other site 392499015182 ATP binding site [chemical binding]; other site 392499015183 Q-loop/lid; other site 392499015184 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 392499015185 ABC transporter signature motif; other site 392499015186 Walker B; other site 392499015187 D-loop; other site 392499015188 H-loop/switch region; other site 392499015189 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 392499015190 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 392499015191 substrate binding pocket [chemical binding]; other site 392499015192 homoserine dehydrogenase; Provisional; Region: PRK06349 392499015193 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 392499015194 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 392499015195 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 392499015196 Bacterial fructose-1,6-bisphosphatase, glpX-encoded; Region: FBPase_glpX; pfam03320 392499015197 putative active site [active] 392499015198 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 392499015199 DHH family; Region: DHH; pfam01368 392499015200 CobQ/CobB/MinD/ParA nucleotide binding domain; Region: CbiA; pfam01656 392499015201 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 392499015202 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 392499015203 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 392499015204 catalytic triad [active] 392499015205 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 392499015206 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 392499015207 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 392499015208 DNA binding residues [nucleotide binding] 392499015209 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 392499015210 FecR protein; Region: FecR; pfam04773 392499015211 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 392499015212 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 392499015213 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 392499015214 Putative glycosyl/glycerophosphate transferases involved in teichoic acid biosynthesis TagF/TagB/EpsJ/RodC [Cell envelope biogenesis, outer membrane]; Region: TagB; COG1887 392499015215 Predicted transmembrane sensor domain [Signal transduction mechanisms]; Region: COG4252 392499015216 CHASE2 domain; Region: CHASE2; pfam05226 392499015217 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 392499015218 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 392499015219 ATP binding site [chemical binding]; other site 392499015220 Mg2+ binding site [ion binding]; other site 392499015221 G-X-G motif; other site 392499015222 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 392499015223 FecR protein; Region: FecR; pfam04773 392499015224 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 392499015225 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 392499015226 active site 392499015227 phosphorylation site [posttranslational modification] 392499015228 intermolecular recognition site; other site 392499015229 dimerization interface [polypeptide binding]; other site 392499015230 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 392499015231 DNA binding site [nucleotide binding] 392499015232 Protein of unknown function (DUF445); Region: DUF445; pfam04286 392499015233 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 392499015234 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 392499015235 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 392499015236 HlyD family secretion protein; Region: HlyD_3; pfam13437 392499015237 Protein of unknown function (DUF541); Region: SIMPL; pfam04402 392499015238 Protein of unknown function (DUF1153); Region: DUF1153; pfam06627 392499015239 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 392499015240 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 392499015241 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 392499015242 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 392499015243 Cation efflux family; Region: Cation_efflux; cl00316 392499015244 pyridoxamine 5'-phosphate oxidase; Provisional; Region: PRK05679 392499015245 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 392499015246 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 392499015247 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 392499015248 DNA-binding site [nucleotide binding]; DNA binding site 392499015249 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 392499015250 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 392499015251 pyridoxal 5'-phosphate binding site [chemical binding]; other site 392499015252 homodimer interface [polypeptide binding]; other site 392499015253 catalytic residue [active] 392499015254 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 392499015255 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 392499015256 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 392499015257 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 392499015258 Putative amidoligase enzyme (DUF2126); Region: DUF2126; pfam09899 392499015259 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4196 392499015260 A circularly permuted ATPgrasp; Region: CP_ATPgrasp_1; cl17448 392499015261 A predicted alpha-helical domain with a conserved ER motif; Region: Alpha-E; pfam04168 392499015262 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2307 392499015263 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 392499015264 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 392499015265 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 392499015266 Domain of unknown function (DUF4104); Region: DUF4104; pfam13372 392499015267 Predicted unusual protein kinase [General function prediction only]; Region: AarF; COG0661 392499015268 ABC1 family; Region: ABC1; cl17513 392499015269 Uncharacterized protein conserved in bacteria (DUF2248); Region: DUF2248; pfam10005 392499015270 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 392499015271 HSP70 interaction site [polypeptide binding]; other site 392499015272 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 392499015273 substrate binding site [polypeptide binding]; other site 392499015274 dimer interface [polypeptide binding]; other site 392499015275 Virulence factor BrkB; Region: Virul_fac_BrkB; pfam03631 392499015276 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK08159 392499015277 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 392499015278 NAD binding site [chemical binding]; other site 392499015279 homotetramer interface [polypeptide binding]; other site 392499015280 homodimer interface [polypeptide binding]; other site 392499015281 substrate binding site [chemical binding]; other site 392499015282 active site 392499015283 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 392499015284 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 392499015285 Tetramer interface [polypeptide binding]; other site 392499015286 active site 392499015287 FMN-binding site [chemical binding]; other site 392499015288 Acylphosphatase; Region: Acylphosphatase; pfam00708 392499015289 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 392499015290 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; pfam02578 392499015291 Protein of unknown function (DUF1134); Region: DUF1134; pfam06577 392499015292 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 392499015293 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 392499015294 active site 392499015295 MarR family; Region: MarR_2; cl17246 392499015296 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 392499015297 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 392499015298 Na2 binding site [ion binding]; other site 392499015299 putative substrate binding site 1 [chemical binding]; other site 392499015300 Na binding site 1 [ion binding]; other site 392499015301 putative substrate binding site 2 [chemical binding]; other site 392499015302 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 392499015303 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 392499015304 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 392499015305 catalytic residue [active] 392499015306 Iron-binding zinc finger CDGSH type; Region: zf-CDGSH; pfam09360 392499015307 Iron-binding zinc finger CDGSH type; Region: zf-CDGSH; pfam09360 392499015308 Cupin domain; Region: Cupin_2; pfam07883 392499015309 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 392499015310 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 392499015311 active site 392499015312 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 392499015313 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 392499015314 N-terminal plug; other site 392499015315 ligand-binding site [chemical binding]; other site 392499015316 Predicted protease with the C-terminal PDZ domain [General function prediction only]; Region: COG3975 392499015317 M61 glycyl aminopeptidase; Region: Peptidase_M61; pfam05299 392499015318 protein binding site [polypeptide binding]; other site 392499015319 PDZ domain (Also known as DHR or GLGF); Region: PDZ; pfam00595 392499015320 Glutamate synthase domain 2 [Amino acid transport and metabolism]; Region: GltB; COG0069 392499015321 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 392499015322 active site 392499015323 FMN binding site [chemical binding]; other site 392499015324 substrate binding site [chemical binding]; other site 392499015325 3Fe-4S cluster binding site [ion binding]; other site 392499015326 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 392499015327 homooctamer interface [polypeptide binding]; other site 392499015328 active site 392499015329 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional; Region: PRK05222 392499015330 CIMS - Cobalamine-independent methonine synthase, or MetE, N-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_N_terminal_like; cd03312 392499015331 THF binding site; other site 392499015332 CIMS - Cobalamine-independent methonine synthase, or MetE, C-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_C_terminal_like; cd03311 392499015333 substrate binding site [chemical binding]; other site 392499015334 THF binding site; other site 392499015335 zinc-binding site [ion binding]; other site 392499015336 2-methylisocitrate dehydratase, Fe/S-dependent; Region: 2met_isocit_dHY; TIGR02333 392499015337 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 392499015338 substrate binding site [chemical binding]; other site 392499015339 ligand binding site [chemical binding]; other site 392499015340 Aconitase swivel domain. Aconitase (aconitate hydratase) catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle. This is the aconitase swivel domain, which undergoes swivelling conformational change in the enzyme...; Region: Aconitase_swivel; cl00215 392499015341 substrate binding site [chemical binding]; other site 392499015342 probable AcnD-accessory protein PrpF; Region: prpF; TIGR02334 392499015343 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 392499015344 Subgroup of Escherichia coli (Ec) 2-methylcitrate synthase (2MCS)_like. 2MCS catalyzes the condensation of propionyl-coenzyme A (PrCoA) and oxalacetate (OAA) to form 2-methylcitrate and coenzyme A (CoA) during propionate metabolism. Citrate synthase (CS)...; Region: Ec2MCS_like_1; cd06117 392499015345 dimer interface [polypeptide binding]; other site 392499015346 active site 392499015347 citrylCoA binding site [chemical binding]; other site 392499015348 oxalacetate/citrate binding site [chemical binding]; other site 392499015349 coenzyme A binding site [chemical binding]; other site 392499015350 catalytic triad [active] 392499015351 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 392499015352 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 392499015353 tetramer interface [polypeptide binding]; other site 392499015354 active site 392499015355 Mg2+/Mn2+ binding site [ion binding]; other site 392499015356 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 392499015357 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 392499015358 sequence-specific DNA binding site [nucleotide binding]; other site 392499015359 salt bridge; other site 392499015360 Predicted transcriptional regulator [General function prediction only]; Region: COG3800 392499015361 Domain of unknown function (DUF955); Region: DUF955; pfam06114 392499015362 Predicted transcriptional regulator (DUF2083); Region: DUF2083; pfam09856 392499015363 Predicted integral membrane protein [Function unknown]; Region: COG0392 392499015364 Uncharacterized conserved protein [Function unknown]; Region: COG2898 392499015365 Uncharacterized conserved protein (DUF2156); Region: DUF2156; pfam09924 392499015366 Uncharacterized protein conserved in bacteria (DUF2147); Region: DUF2147; pfam09917 392499015367 Predicted membrane protein [Function unknown]; Region: COG4420 392499015368 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 392499015369 protein binding site [polypeptide binding]; other site 392499015370 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 392499015371 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 392499015372 active site 392499015373 phosphorylation site [posttranslational modification] 392499015374 intermolecular recognition site; other site 392499015375 dimerization interface [polypeptide binding]; other site 392499015376 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 392499015377 DNA binding site [nucleotide binding] 392499015378 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 392499015379 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 392499015380 Mg2+ binding site [ion binding]; other site 392499015381 G-X-G motif; other site 392499015382 Bacterial virulence protein (VirJ); Region: VirJ; pfam06057 392499015383 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 392499015384 Bacterial virulence protein (VirJ); Region: VirJ; pfam06057 392499015385 Bacterial virulence protein (VirJ); Region: VirJ; pfam06057 392499015386 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 392499015387 Helix-turn-helix domain; Region: HTH_18; pfam12833 392499015388 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 392499015389 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 392499015390 Major Facilitator Superfamily; Region: MFS_1; pfam07690 392499015391 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 392499015392 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 392499015393 NAD(P) binding site [chemical binding]; other site 392499015394 catalytic residues [active] 392499015395 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 392499015396 FAD binding domain; Region: FAD_binding_4; pfam01565 392499015397 Ketosteroid isomerase-related protein [General function prediction only]; Region: COG3631 392499015398 Cytochrome c; Region: Cytochrom_C; cl11414 392499015399 Cytochrome c; Region: Cytochrom_C; cl11414 392499015400 choline dehydrogenase; Validated; Region: PRK02106 392499015401 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 392499015402 phosphoprotein phosphatases of the metallophosphatase superfamily, metallophosphatase domain; Region: MPP_PPP_family; cd00144 392499015403 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 392499015404 active site 392499015405 metal binding site [ion binding]; metal-binding site 392499015406 exopolysaccharide biosynthesis polyprenyl glycosylphosphotransferase; Region: EPS_sugtrans; TIGR03025 392499015407 Bacterial sugar transferase; Region: Bac_transf; pfam02397 392499015408 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 392499015409 putative polysaccharide export protein, PEP-CTERM sytem-associated; Region: pepcterm_export; TIGR03027 392499015410 SLBB domain; Region: SLBB; pfam10531 392499015411 Uncharacterized protein involved in exopolysaccharide biosynthesis [Cell envelope biogenesis, outer membrane]; Region: GumC; COG3206 392499015412 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 392499015413 capsular exopolysaccharide family; Region: eps_fam; TIGR01007 392499015414 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 392499015415 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 392499015416 Mechanosensitive ion channel; Region: MS_channel; pfam00924 392499015417 O-Antigen ligase; Region: Wzy_C; cl04850 392499015418 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 392499015419 PEP-CTERM/exosortase A-associated glycosyltransferase, Daro_2409 family; Region: stp3; TIGR04063 392499015420 This family is most closely related to the GT1 family of glycosyltransferases. wbuB in E. coli is involved in the biosynthesis of the O26 O-antigen. It has been proposed to function as an N-acetyl-L-fucosamine (L-FucNAc) transferase; Region: GT1_wbuB_like; cd03794 392499015421 Predicted transcriptional regulator [Transcription]; Region: COG2932 392499015422 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 392499015423 Catalytic site [active] 392499015424 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 392499015425 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 392499015426 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 392499015427 Surface antigen; Region: Bac_surface_Ag; pfam01103 392499015428 Family of unknown function (DUF490); Region: DUF490; pfam04357 392499015429 Predicted membrane protein [Function unknown]; Region: COG2259 392499015430 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 392499015431 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 392499015432 putative substrate translocation pore; other site 392499015433 glutamine synthetase; Provisional; Region: glnA; PRK09469 392499015434 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 392499015435 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 392499015436 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 392499015437 Nitrogen regulatory protein P-II; Region: P-II; smart00938 392499015438 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 392499015439 active site 392499015440 competence damage-inducible protein A; Provisional; Region: PRK01215 392499015441 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 392499015442 putative MPT binding site; other site 392499015443 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 392499015444 Major Facilitator Superfamily; Region: MFS_1; pfam07690 392499015445 putative substrate translocation pore; other site 392499015446 Predicted membrane protein (DUF2177); Region: DUF2177; pfam09945 392499015447 Uncharacterized conserved protein [Function unknown]; Region: COG3791 392499015448 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 392499015449 CLC voltage-gated chloride channel. The ClC chloride channels catalyse the selective flow of Cl- ions across cell membranes, thereby regulating electrical excitation in skeletal muscle and the flow of salt and water across epithelial barriers. This...; Region: Voltage_gated_ClC; cd00400 392499015450 Cl- selectivity filter; other site 392499015451 Cl- binding residues [ion binding]; other site 392499015452 pore gating glutamate residue; other site 392499015453 dimer interface [polypeptide binding]; other site 392499015454 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 392499015455 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 392499015456 Taurine catabolism dioxygenase TauD, TfdA family; Region: TauD; pfam02668 392499015457 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 392499015458 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 392499015459 S-adenosylmethionine binding site [chemical binding]; other site 392499015460 Protein of unknown function (DUF1295); Region: DUF1295; cl17837 392499015461 Predicted NAD/FAD-binding protein [General function prediction only]; Region: COG2907 392499015462 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 392499015463 Protein of unknown function (DUF1365); Region: DUF1365; pfam07103 392499015464 transcription elongation factor regulatory protein; Validated; Region: PRK06342 392499015465 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 392499015466 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 392499015467 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 392499015468 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 392499015469 Walker A/P-loop; other site 392499015470 ATP binding site [chemical binding]; other site 392499015471 Q-loop/lid; other site 392499015472 ABC transporter signature motif; other site 392499015473 Walker B; other site 392499015474 D-loop; other site 392499015475 H-loop/switch region; other site 392499015476 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 392499015477 Bacterial protein of unknown function (DUF899); Region: DUF899; pfam05988 392499015478 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 392499015479 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 392499015480 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl17244 392499015481 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 392499015482 active site 392499015483 metal binding site [ion binding]; metal-binding site 392499015484 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 392499015485 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 392499015486 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 392499015487 active site 392499015488 phosphorylation site [posttranslational modification] 392499015489 intermolecular recognition site; other site 392499015490 dimerization interface [polypeptide binding]; other site 392499015491 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 392499015492 DNA binding site [nucleotide binding] 392499015493 Glycosyl transferase family 2; Region: Glyco_tranf_2_4; pfam13704 392499015494 TraB family; Region: TraB; pfam01963 392499015495 Class II Glycyl-tRNA synthetase (GlyRS) alpha subunit core catalytic domain. GlyRS functions as a homodimer in eukaryotes, archaea and some bacteria and as a heterotetramer in the remainder of prokaryotes and in arabidopsis. It is responsible for the...; Region: GlyRS_alpha_core; cd00733 392499015496 dimer interface [polypeptide binding]; other site 392499015497 motif 1; other site 392499015498 active site 392499015499 motif 2; other site 392499015500 motif 3; other site 392499015501 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 392499015502 pyruvate phosphate dikinase; Provisional; Region: PRK09279 392499015503 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 392499015504 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 392499015505 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 392499015506 Predicted membrane protein [Function unknown]; Region: COG2311 392499015507 Protein of unknown function (DUF418); Region: DUF418; pfam04235 392499015508 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 392499015509 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 392499015510 iron-sulfur cluster [ion binding]; other site 392499015511 [2Fe-2S] cluster binding site [ion binding]; other site 392499015512 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 392499015513 hydrophobic ligand binding site; other site 392499015514 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 392499015515 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 392499015516 DNA binding residues [nucleotide binding] 392499015517 dimerization interface [polypeptide binding]; other site 392499015518 Uncharacterized conserved protein [Function unknown]; Region: COG3743 392499015519 Flp pilus assembly protein TadC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: TadC; COG2064 392499015520 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 392499015521 Flp pilus assembly protein TadB [Intracellular trafficking and secretion]; Region: TadB; COG4965 392499015522 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 392499015523 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cl17736 392499015524 active site 392499015525 dimerization interface [polypeptide binding]; other site 392499015526 Flp pilus assembly protein, ATPase CpaE [Intracellular trafficking and secretion]; Region: CpaE; COG4963 392499015527 Pilus biogenesis CpaD protein (pilus_cpaD); Region: Pilus_CpaD; pfam09476 392499015528 Type IV pili component [Cell motility and secretion]; Region: COG5461 392499015529 Pilus formation protein N terminal region; Region: T2SS-T3SS_pil_N; pfam13629 392499015530 BON domain; Region: BON; pfam04972 392499015531 pilus (MSHA type) biogenesis protein MshL; Region: pilus_MshL; TIGR02519 392499015532 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 392499015533 Flp pilus assembly protein CpaB [Intracellular trafficking and secretion]; Region: CpaB; COG3745 392499015534 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 392499015535 Flp pilus assembly protein, protease CpaA [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: CpaA; COG4960 392499015536 FAD dependent oxidoreductase; Region: DAO; pfam01266 392499015537 hydroxyglutarate oxidase; Provisional; Region: PRK11728 392499015538 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 392499015539 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 392499015540 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 392499015541 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 392499015542 S-adenosylmethionine binding site [chemical binding]; other site 392499015543 Predicted nuclease of the RNAse H fold, HicB family [General function prediction only]; Region: COG1598 392499015544 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 392499015545 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 392499015546 ATP binding site [chemical binding]; other site 392499015547 substrate interface [chemical binding]; other site 392499015548 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 392499015549 trimer interface [polypeptide binding]; other site 392499015550 active site 392499015551 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 392499015552 Flavoprotein; Region: Flavoprotein; pfam02441 392499015553 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 392499015554 PemK-like protein; Region: PemK; pfam02452 392499015555 Regulators of stationary/sporulation gene expression [Transcription]; Region: AbrB; COG2002 392499015556 SpoVT / AbrB like domain; Region: SpoVT_AbrB; smart00966 392499015557 ABC1 family; Region: ABC1; cl17513 392499015558 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 392499015559 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 392499015560 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 392499015561 S-adenosylmethionine binding site [chemical binding]; other site 392499015562 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 392499015563 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 392499015564 DNA binding site [nucleotide binding] 392499015565 catalytic residue [active] 392499015566 H2TH interface [polypeptide binding]; other site 392499015567 putative catalytic residues [active] 392499015568 turnover-facilitating residue; other site 392499015569 intercalation triad [nucleotide binding]; other site 392499015570 8OG recognition residue [nucleotide binding]; other site 392499015571 putative reading head residues; other site 392499015572 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 392499015573 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 392499015574 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239